Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 15 of 332
Found at i:4390572 original size:9 final size:10
Alignment explanation
Indices: 4390558--4390606 Score: 55
Period size: 11 Copynumber: 4.7 Consensus size: 10
4390548 TATATTAGTG
4390558 TATATTTTT-
1 TATATTTTTA
4390567 TATATTTTTA
1 TATATTTTTA
*
4390577 TATATATATGTA
1 TATAT-T-TTTA
4390589 TATATTTTTAA
1 TATATTTTT-A
4390600 TATATTT
1 TATATTT
4390607 ATGTAGCATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 9 0.26
10 7 0.21
11 10 0.29
12 8 0.24
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TATATTTTTA
Found at i:4390581 original size:31 final size:31
Alignment explanation
Indices: 4390546--4390608 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
4390536 TCATGATTAC
*
4390546 TATATAT-TAGTGTATAT-TTTTT-ATATTTT
1 TATATATATA-TGTATATATTTTTAATATATT
4390575 TATATATATATGTATATATTTTTAATATATT
1 TATATATATATGTATATATTTTTAATATATT
4390606 TAT
1 TAT
4390609 GTAGCATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 14 0.47
30 7 0.23
31 9 0.30
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (31 bp):
TATATATATATGTATATATTTTTAATATATT
Found at i:4390597 original size:23 final size:22
Alignment explanation
Indices: 4390567--4390611 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
4390557 GTATATTTTT
*
4390567 TATATTTTTATATATATATGTA
1 TATATTTTAATATATATATGTA
*
4390589 TATATTTTTAATATATTTATGTA
1 TATA-TTTTAATATATATATGTA
4390612 GCATTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (22 bp):
TATATTTTAATATATATATGTA
Found at i:4390695 original size:30 final size:30
Alignment explanation
Indices: 4390640--4390714 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
4390630 TTTATCCCTA
*
4390640 ATAT-TTATGTATTATGTAAATA-TTTTAAT
1 ATATATTATGTA-TATCTAAATATTTTTAAT
* **
4390669 ATTATATTATGTATATCTATATATTTTTCGT
1 A-TATATTATGTATATCTAAATATTTTTAAT
4390700 ATATATTATGTATAT
1 ATATATTATGTATAT
4390715 ATGTTTTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.03
30 25 0.64
31 13 0.33
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.56
Consensus pattern (30 bp):
ATATATTATGTATATCTAAATATTTTTAAT
Found at i:4390727 original size:24 final size:25
Alignment explanation
Indices: 4390686--4390741 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
4390676 TATGTATATC
*
4390686 TATATATTTTTCGTATATAT-TATG-
1 TATATATTTTTCGAATAT-TGTATGT
4390710 TATATATGTTTTC-AATATTGTATGT
1 TATATAT-TTTTCGAATATTGTATGT
4390735 TATATAT
1 TATATAT
4390742 ATTATTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 1 0.04
24 15 0.54
25 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (25 bp):
TATATATTTTTCGAATATTGTATGT
Found at i:4390822 original size:19 final size:19
Alignment explanation
Indices: 4390798--4390834 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4390788 CTATTTTATA
*
4390798 TATATTTCTAATATCATTG
1 TATATTTCTAACATCATTG
4390817 TATATTTCTAACATCATT
1 TATATTTCTAACATCATT
4390835 ATTATTTATA
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:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
TATATTTCTAACATCATTG
Found at i:4391236 original size:37 final size:35
Alignment explanation
Indices: 4391171--4391240 Score: 81
Period size: 37 Copynumber: 1.9 Consensus size: 35
4391161 TTATATATAG
4391171 TATTATTTTCATACATTATCATATTTATTATTATACC
1 TATTATTTTCATA-ATTATCATATTTATT-TTATACC
4391208 TATTATTTTCACT-ATTATCACT-TATTATTTTAT
1 TATTATTTTCA-TAATTATCA-TAT-TTATTTTAT
4391241 TTTAAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
36 12 0.40
37 17 0.57
38 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (35 bp):
TATTATTTTCATAATTATCATATTTATTTTATACC
Found at i:4391377 original size:25 final size:24
Alignment explanation
Indices: 4391349--4391404 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
4391339 GTTATATTTT
*
4391349 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
4391374 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
4391397 CACTATTA
1 CACTATTA
4391405 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:4403490 original size:74 final size:73
Alignment explanation
Indices: 4403301--4403955 Score: 619
Period size: 74 Copynumber: 8.6 Consensus size: 73
4403291 TTTATTTCTG
* * * *
4403301 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTTC
4403366 AATCTATT
66 AATCTATT
4403374 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTAGTTTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTA-TTTT
*
4403439 -AAT-TTTT
65 CAATCTATT
* * * *
4403446 GTTCATCAAAAAAATCAACTC-TATTGCAAGAGGTGAGTTAAACCTCAGGTCACATG-TCAAGGT
1 -TT--TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGG--ACACGCT-GAGGT
* **
4403509 ATTTACAATTTCCGTT
60 ATTTTCAA--TCTATT
* * * * *
4403525 TTTCAATTTATGTTTTTCAAAAATCCATTCATATTGCTAGAGGTGAATTGAGCCTCAGGATCACA
1 TTTC-A---A--------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGA-CAC-
*
4403590 TGCCGAGGTATTTTCAAT-TAATGTT
52 -GCTGAGGTATTTTCAATCT-A--TT
* * * *
4403615 TTTTAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATT-TT
*
4403680 -AAT-TTTT
65 CAATCTATT
* * * *
4403687 GTTTC--AAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
1 -TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTT
4403750 CAATCTATTT
65 CAATCTA-TT
* * * *
4403760 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTGTTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTTC
4403825 AATCTATTT
66 AATCTA-TT
*
4403834 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTAGGACACGCTGAGGTAGTTTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTA-TTTT
*
4403899 -AATTTCTGTT
65 CAA--TCTATT
**
4403909 CATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGG
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGG
4403956 TCACATGTCG
Statistics
Matches: 490, Mismatches: 51, Indels: 80
0.79 0.08 0.13
Matches are distributed among these distances:
70 2 0.00
71 54 0.11
72 10 0.02
73 66 0.13
74 153 0.31
75 84 0.17
76 18 0.04
77 4 0.01
78 39 0.08
79 2 0.00
80 1 0.00
86 1 0.00
87 1 0.00
88 13 0.03
89 25 0.05
90 17 0.03
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (73 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTATTTTC
AATCTATT
Found at i:4403953 original size:149 final size:146
Alignment explanation
Indices: 4403303--4403953 Score: 675
Period size: 149 Copynumber: 4.3 Consensus size: 146
4403293 TATTTCTGTT
*
4403303 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
4403368 TCTA-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGG
66 TCTATTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGG
*
4403432 TAGTTTTAATTTTTGTTCA
129 TA-TTTTAATTTATGTTCA
* * * * * **
4403451 TCAAAAAAATCAACTC-TATTGCAAGAGGTGAGTTAAACCTCAGGTCACATGTCAAGGTATTTAC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACGTTGAGG----T--
* * * * * *
4403515 AATTTCCGTTTTTCAATTTATGTTTTTCAAAAATCCATTCATATTGCTAGAGGTGAATTGAGCCT
58 -A-------TTTTCAATCTAT-TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCT
* * **
4403580 CAGGATCACATGCCGAGGTATTTTCAATTAATGTTTT
114 CAGGA-CAC--GCTGAGGTATTTT-AATTTATGTTCA
* * ** *
4403617 TTAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTT-A
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATT-TTCA
* * * *
4403681 AT-T-TTTGTTTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG
65 ATCTATTT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGG
* **
4403744 TATTTTCAATCTAT-TTTT
129 TATTTT-AATTTATGTTCA
*
4403762 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTGTTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
*
4403827 TCTATTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTAGGACACGCTGAGG
66 TCTATTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGG
*
4403892 TAGTTTTAATTTCTGTTCA
129 TA-TTTTAATTTATGTTCA
*
4403911 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
4403954 GGTCACATGT
Statistics
Matches: 416, Mismatches: 55, Indels: 63
0.78 0.10 0.12
Matches are distributed among these distances:
144 2 0.00
145 61 0.15
146 22 0.05
147 26 0.06
148 75 0.18
149 97 0.23
150 1 0.00
151 5 0.01
152 2 0.00
153 1 0.00
156 1 0.00
158 1 0.00
161 1 0.00
163 47 0.11
164 3 0.01
165 17 0.04
166 30 0.07
167 24 0.06
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (146 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
TCTATTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAGGTA
TTTTAATTTATGTTCA
Found at i:4404218 original size:71 final size:72
Alignment explanation
Indices: 4404073--4404209 Score: 179
Period size: 71 Copynumber: 1.9 Consensus size: 72
4404063 TTCAATTAAT
** ** *
4404073 GTTTTTTAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGC
1 GTTTTTTAATTTATGC-TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
4404138 ACACTGAG
65 ACACTGAG
* *
4404146 GTTTTGTTAATTTTTG-TTTC-AAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
1 GTTTT-TTAATTTATGCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
4404209 A
65 A
4404210 TGTTGAGGTA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
71 38 0.68
72 4 0.07
73 5 0.09
74 9 0.16
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.34
Consensus pattern (72 bp):
GTTTTTTAATTTATGCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
CACTGAG
Found at i:4404226 original size:461 final size:448
Alignment explanation
Indices: 4403301--4404223 Score: 1443
Period size: 461 Copynumber: 2.0 Consensus size: 448
4403291 TTTATTTCTG
*
4403301 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
4403366 AATCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAG
66 AATCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAG
*
4403431 GTAGTTTTAATTTTTGTTCATCAAAAAAATCAACTCTATTGCAAGAGGTGAGTTAAACCTCAGGT
131 GTAGTTTTAATTTCTGTTCATCAAAAAAATCAACTCTATTGCAAGAGGTGAGTTAAACCTCAGGT
* * *
4403496 CACATGTCAAGGTATTTACAATTTCCGTTTTTCAATTTATGTTTTTCAAAAATCCATTCATATTG
196 CACATGTCAAGGTATATACAATTTCCATTTTTCAATTTATGTTTTTCAAAAATCAATTCATATTG
4403561 CTAGAGGTGAATTGAGCCTCAGGATCACATGCCGAGGTATTTTCAATTAATGTTTTTTAAAAAAA
261 CTAGAGGTGAATTGAGCCTCAGGATCACATGCCGAGGTATTTTCAATTAATGTTTTTTAAAAAAA
* *
4403626 TTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTTAATTTTTGTTT
326 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTATTGTTAATTTTTGTTT
**
4403691 CAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATCT
391 CAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG---------T-T
4403756 ATTT
446 A-TT
*
4403760 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTGTTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
4403825 AATCTATTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTAGGACACGCTGA
66 AATCTA-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGA
* *
4403890 GGTAGTTTTAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAG
130 GGTAGTTTTAATTTCTGTTCATCAAAAAAATCAACTC-TATTGCAAGAGGTGAGTTAAACCTCAG
*
4403955 GTCACATGTCGAGGTATATACAATTTCCATTTTTCAATTTATGTTTTTCAAAAATCAATTCATAT
194 GTCACATGTCAAGGTATATACAATTTCCATTTTTCAATTTATGTTTTTCAAAAATCAATTCATAT
*
4404020 TGCTAGAGGTGAATTGAGCCTCAGGATCACATGCTGAGGTATTTTCAATTAATGTTTTTTAATTT
259 TGCTAGAGGTGAATTGAGCCTCAGGATCACATGCCGAGGTATTTTCAATTAATG---TTT--TTT
* *
4404085 ATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGTTT
319 A--------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTAT
*
4404150 TGTTAATTTTTGTTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTTG
376 TGTTAATTTTTGTTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTG
4404215 AGG-TATT
441 AGGTTATT
4404222 TT
1 TT
4404224 CAATTTCTGT
Statistics
Matches: 431, Mismatches: 18, Indels: 27
0.91 0.04 0.06
Matches are distributed among these distances:
459 69 0.16
460 93 0.22
461 139 0.32
462 4 0.01
463 2 0.00
464 3 0.01
466 4 0.01
474 117 0.27
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34
Consensus pattern (448 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
AATCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGACACGCTGAG
GTAGTTTTAATTTCTGTTCATCAAAAAAATCAACTCTATTGCAAGAGGTGAGTTAAACCTCAGGT
CACATGTCAAGGTATATACAATTTCCATTTTTCAATTTATGTTTTTCAAAAATCAATTCATATTG
CTAGAGGTGAATTGAGCCTCAGGATCACATGCCGAGGTATTTTCAATTAATGTTTTTTAAAAAAA
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAGGTATTGTTAATTTTTGTTT
CAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTTATT
Found at i:4404229 original size:71 final size:72
Alignment explanation
Indices: 4404090--4404234 Score: 168
Period size: 71 Copynumber: 2.0 Consensus size: 72
4404080 AATTTATGCT
** ** * *
4404090 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGTTTTGTTA
1 TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTTTTGTCA
*
4404155 ATTTTTG
66 ATTTCTG
* ***
4404162 TTTC-AAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGTATTT-TC
1 TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGT-TTTGTC
4404225 AATTTCTG
65 AATTTCTG
4404233 TT
1 TT
4404235 CAATTTATGT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
71 54 0.89
72 7 0.11
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (72 bp):
TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTTTTGTCA
ATTTCTG
Found at i:4404289 original size:155 final size:160
Alignment explanation
Indices: 4404000--4404300 Score: 432
Period size: 155 Copynumber: 1.9 Consensus size: 160
4403990 AATTTATGTT
* * **
4404000 TTTCAAAAATCAATTCATATTGCTAGAGGTGAATTGAGCCTCAGGATCACATGCTGAGGTATTTT
1 TTTCAAAAATCAACTCATATTGCGAGAAATGAATTGAGCCTCA-GATCACATGCTGAGGTATTTT
* * *
4404065 CAATTAATGTTTTTTAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
65 CAATT-ATGCTGTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
4404130 CTCGGGGCACACTGAGGTTTTGTTAATTTTTG
129 CTCGGGGCACACTGAGGTTTTGTTAATTTTTG
* * * *
4404162 TTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACATGTTGAGGTATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAAATGAATTGAGCCTCAGATCACATGCTGAGGTATTTTC
* *
4404225 AATT-T-CTGTTCAATTTATGTTTTTC-AAAAATCCACTCATATTGCGAGAGGTGAGTTGAGCCT
66 AATTATGCTGTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
4404287 CGGGGCACACTGAG
131 CGGGGCACACTGAG
4404301 ATATTTTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
155 50 0.40
156 16 0.13
157 1 0.01
159 21 0.17
160 1 0.01
162 37 0.29
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (160 bp):
TTTCAAAAATCAACTCATATTGCGAGAAATGAATTGAGCCTCAGATCACATGCTGAGGTATTTTC
AATTATGCTGTTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CGGGGCACACTGAGGTTTTGTTAATTTTTG
Found at i:4404374 original size:335 final size:325
Alignment explanation
Indices: 4403759--4404463 Score: 789
Period size: 335 Copynumber: 2.1 Consensus size: 325
4403749 TCAATCTATT
**
4403759 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTGTTTT
1 TTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTGTTTT
** * *
4403824 CAATCTATTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTAGGACACGCTG
65 CAATCTATTTTTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGCTG
4403889 AGGTAGTTTTAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA
129 AGGTAGTTTTAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA
* * * ** * *
4403954 GGTCACATGTCGAGGTATATACAATTTCCATTTTTCAATTTATGTTTTTCAAAAATCAATTCATA
194 GGGCACATCTCGAGATATATACAATTAACATTTTTCAATTTATGCTTTTCAAAAATCAACTCATA
* * * ** *
4404019 TTGCTAGAGGTGAATTGAGCCTCAGGATCACATGCTGAGGTATTTTCAATTAA-TGTTTTTTAAT
259 TTACGAGAGGTGAATTGAGCCTC-GGATCACATGCCGAGGTATTTTCAA--AACTGTTTTGCAAA
4404083 TTATG
321 TTATG
** *
4404088 CTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACACTGAGGT-TTTG
1 -TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTGTTT-
* * * * *
4404152 TTAAT-T-TTTGTTTC-AAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTT
64 TCAATCTATTT-TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGCT
* * *
4404214 GAGGTA-TTTTCAATTTCTGTTCAATTTATGTTTTTCAAAAATCCACTCATATTGCGAGAGGTGA
128 GAGGTAGTTTT-AATTTCTGTTC-A-TCA-------AAAAAATCAACTCATATTGCGAGAGGTGA
* * * * *
4404278 GTTGAGCCTCGGGGCACA-CT-GAGATATTTTCAATTAATATTTTTCTAAATTTATGCTTTTCAA
183 GTTGAACCTCAGGGCACATCTCGAGATATATACAATTAACATTTTTC--AATTTATGCTTTTCAA
* * *
4404341 AAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTTAAAATC
246 AAATCAACTCATATTACGAGAGGTGAATTGAGCCTCGGATCACATGCCGAGGTATTTTCAAAA-C
*
4404406 TGTTTTGCAAATTCTG
310 TGTTTTGCAAATTATG
* *
4404422 TTTTC-AAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCT
1 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
4404464 TTGCTCACGT
Statistics
Matches: 318, Mismatches: 41, Indels: 30
0.82 0.11 0.08
Matches are distributed among these distances:
325 4 0.01
326 57 0.18
327 4 0.01
328 10 0.03
329 53 0.17
330 5 0.02
332 37 0.12
333 24 0.08
334 35 0.11
335 89 0.28
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (325 bp):
TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTGTTTTC
AATCTATTTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGCTGAG
GTAGTTTTAATTTCTGTTCATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGG
GCACATCTCGAGATATATACAATTAACATTTTTCAATTTATGCTTTTCAAAAATCAACTCATATT
ACGAGAGGTGAATTGAGCCTCGGATCACATGCCGAGGTATTTTCAAAACTGTTTTGCAAATTATG
Found at i:4404449 original size:88 final size:87
Alignment explanation
Indices: 4404162--4404463 Score: 321
Period size: 89 Copynumber: 3.5 Consensus size: 87
4404152 TTAATTTTTG
* * ** *
4404162 TTTCAAAACTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACATGTTGAGGTATTTTCA
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACATGCTGAGGTATTTTCA
** * *
4404226 ATTTCTG--TTCAATTTATGTT
66 AAATCTGTTTTCAAATTATGCT
* * *
4404246 TTTCAAAAATCCACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACA--CTGAGATATTTTC
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACATGCTGAGGTATTTTC
*
4404309 AATTAATAT-TTTTCTAAATTTATGCT
65 AA--AATCTGTTTTC-AAA-TTATGCT
* * * *
4404335 TTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTT
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGG-CACATGCTGAGGTATTTTC
*
4404400 AAAATCTGTTTTGCAAATTCTG-T
65 AAAATCTGTTTT-CAAATTATGCT
*
4404423 TTTCAAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCT
1 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
4404464 TTGCTCACGT
Statistics
Matches: 182, Mismatches: 23, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
84 51 0.28
85 1 0.01
86 5 0.03
87 3 0.02
88 44 0.24
89 58 0.32
90 7 0.04
91 13 0.07
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (87 bp):
TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACATGCTGAGGTATTTTCA
AAATCTGTTTTCAAATTATGCT
Found at i:4406194 original size:6 final size:6
Alignment explanation
Indices: 4406163--4406192 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
4406153 TATATATAAT
*
4406163 TGTATA TGTATA TGTATA TGTATA AGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA
4406193 AGGACGGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (6 bp):
TGTATA
Found at i:4414755 original size:29 final size:33
Alignment explanation
Indices: 4414704--4414768 Score: 93
Period size: 30 Copynumber: 2.1 Consensus size: 33
4414694 AATAAAAGGT
4414704 AAAATTACACTTTAACTCCTTTAAAAA-TATAA
1 AAAATTACACTTTAACTCCTTTAAAAATTATAA
*
4414736 AAAATTA-A-TTTAAC-CTTTTAAAAATTATAA
1 AAAATTACACTTTAACTCCTTTAAAAATTATAA
4414766 AAA
1 AAA
4414769 TATAGTCTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 9 0.29
30 14 0.45
31 1 0.03
32 7 0.23
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (33 bp):
AAAATTACACTTTAACTCCTTTAAAAATTATAA
Found at i:4416038 original size:15 final size:15
Alignment explanation
Indices: 4416020--4416048 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4416010 AAGTCTCGAC
4416020 TAGAAGTGCATTATT
1 TAGAAGTGCATTATT
4416035 TAGAAGTGCATTAT
1 TAGAAGTGCATTAT
4416049 CACATTCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (15 bp):
TAGAAGTGCATTATT
Found at i:4418378 original size:2 final size:2
Alignment explanation
Indices: 4418371--4418414 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4418361 TGAACACCAT
4418371 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4418413 TC
1 TC
4418415 CCCTAAATCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4428256 original size:47 final size:49
Alignment explanation
Indices: 4428059--4428298 Score: 134
Period size: 49 Copynumber: 5.0 Consensus size: 49
4428049 AATCTATAAG
* * * * * *
4428059 TAATAAAGTGACTCTGCTTCCAGATGCATGGGGAGAGGCTTACGAAA-A
1 TAATAAAATGACTCTACTCCCAAATGCATGGGGGGAGGCTTAAGAAAGA
* * * * ** ** *
4428107 GTAATAAAGTTACCCTGCT-CCAAGACACATGAAGGGAGGCTTACGAAAAGA
1 -TAATAAAATGACTCTACTCCCAA-ATGCATGGGGGGAGGCTTAAG-AAAGA
* * * * *
4428158 -AATAAAATGGCCCTACT-CTAGATGCATGGGGGGAGGCTTAAGGAAGA
1 TAATAAAATGACTCTACTCCCAAATGCATGGGGGGAGGCTTAAGAAAGA
* * * *
4428205 TAATAAAATGACT-T-CTCCCAAATGCTTGGGGGGAGGTTTATGAAAGG
1 TAATAAAATGACTCTACTCCCAAATGCATGGGGGGAGGCTTAAGAAAGA
* * * * *
4428252 TAATAAGATTACTCTACTCCCAAACGCAT-GAGAGAGGCTTACAGAAA
1 TAATAAAATGACTCTACTCCCAAATGCATGGGGGGAGGCTTA-AGAAA
4428299 AGATGGTGGT
Statistics
Matches: 146, Mismatches: 37, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
46 2 0.01
47 39 0.27
48 39 0.27
49 62 0.42
50 3 0.02
51 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (49 bp):
TAATAAAATGACTCTACTCCCAAATGCATGGGGGGAGGCTTAAGAAAGA
Found at i:4428578 original size:21 final size:22
Alignment explanation
Indices: 4428552--4428596 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
4428542 TATGTGAGGC
4428552 ATGTAGAA-CTATAGGTATGAT
1 ATGTAGAATCTATAGGTATGAT
* *
4428573 ATGTAGAATTTATAGTTATGAT
1 ATGTAGAATCTATAGGTATGAT
4428595 AT
1 AT
4428597 AAAGATAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.40
Consensus pattern (22 bp):
ATGTAGAATCTATAGGTATGAT
Found at i:4428626 original size:12 final size:12
Alignment explanation
Indices: 4428609--4428633 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4428599 AGATAAACAG
4428609 TGGATGTGAATA
1 TGGATGTGAATA
4428621 TGGATGTGAATA
1 TGGATGTGAATA
4428633 T
1 T
4428634 CCTAGAAGTC
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:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (12 bp):
TGGATGTGAATA
Found at i:4442814 original size:21 final size:22
Alignment explanation
Indices: 4442772--4442814 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4442762 TAAACGAATT
* *
4442772 ACAATATTATTTAACTACATAA
1 ACAATATAATTTAACTAAATAA
4442794 ACAATATAATTT-ACTAAATAA
1 ACAATATAATTTAACTAAATAA
4442815 TTACATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
ACAATATAATTTAACTAAATAA
Found at i:4442842 original size:21 final size:21
Alignment explanation
Indices: 4442818--4442859 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4442808 TAAATAATTA
4442818 CATGTAAAGAACTATTTTAGG
1 CATGTAAAGAACTATTTTAGG
4442839 CATGTAAAGAACTATTTTAGG
1 CATGTAAAGAACTATTTTAGG
4442860 TATGCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
CATGTAAAGAACTATTTTAGG
Found at i:4445771 original size:36 final size:36
Alignment explanation
Indices: 4445731--4445804 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
4445721 AATTAAAGCA
4445731 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
1 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
4445767 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
1 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
4445803 TT
1 TT
4445805 ACTTATAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.54, C:0.16, G:0.08, T:0.22
Consensus pattern (36 bp):
TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
Found at i:4446425 original size:52 final size:53
Alignment explanation
Indices: 4446302--4446427 Score: 143
Period size: 52 Copynumber: 2.4 Consensus size: 53
4446292 ATATATATCT
* * **
4446302 ATATATATATGTA-TAATATAATATATGCATGGCTTAAATGAAGCTAAATGGA
1 ATATATATATGCATTAATATAATATATGCATGACTTAAATGAAGCTAAATACA
4446354 ATATATCATAATGCATTAATAT-ATATATGCGCATGACTTAAATGAAGC-AAA-ACA
1 ATATAT-AT-ATGCATTAATATAATATAT--GCATGACTTAAATGAAGCTAAATACA
*
4446408 TTATATATATGCATTAATAT
1 ATATATATATGCATTAATAT
4446428 TAAATGAAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
52 18 0.28
53 4 0.06
54 16 0.25
55 9 0.14
56 17 0.27
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (53 bp):
ATATATATATGCATTAATATAATATATGCATGACTTAAATGAAGCTAAATACA
Found at i:4446431 original size:36 final size:36
Alignment explanation
Indices: 4446391--4446463 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
4446381 TGCGCATGAC
* *
4446391 TTAAATGAAGCAAAACATTATATATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
*
4446427 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
4446463 T
1 T
4446464 ATATATGCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTATACATATGCATTAATA
Found at i:4446596 original size:43 final size:41
Alignment explanation
Indices: 4446506--4446641 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 41
4446496 CTAATTATGA
** **
4446506 TATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGG
1 TATATATATGC-ATTATGCATGACTTAAATGAAGCAAAACAG
* *
4446548 AATATATATGCATTATGCGCATGACTTAAATGAAGCAAAACAT
1 TATATATATGCATTAT--GCATGACTTAAATGAAGCAAAACAG
*
4446591 TATATATATGCATTA---AT-A-TTAAATGAAGCTAAACAG
1 TATATATATGCATTATGCATGACTTAAATGAAGCAAAACAG
*
4446627 TATACATATGCATTA
1 TATATATATGCATTA
4446642 ATATATATAT
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
36 30 0.37
37 1 0.01
38 2 0.02
41 5 0.06
42 10 0.12
43 34 0.41
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.33
Consensus pattern (41 bp):
TATATATATGCATTATGCATGACTTAAATGAAGCAAAACAG
Found at i:4446613 original size:36 final size:36
Alignment explanation
Indices: 4446573--4446645 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
4446563 TGCGCATGAC
* *
4446573 TTAAATGAAGCAAAACATTATATATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
*
4446609 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
4446645 T
1 T
4446646 ATATATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTATACATATGCATTAATA
Found at i:4446708 original size:45 final size:45
Alignment explanation
Indices: 4446647--4446737 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
4446637 CATTAATATA
* ** *
4446647 TATATATATGCTTGACTTAAATGAAGTTAAACCTGCTAATAATGG
1 TATATATATGCATGACTTAAATGAAACTAAACCTACTAATAATGG
*
4446692 TATATATATGCATGACTTAAATGAAACTAAACCTATTAATAATGG
1 TATATATATGCATGACTTAAATGAAACTAAACCTACTAATAATGG
4446737 T
1 T
4446738 TAATTTAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (45 bp):
TATATATATGCATGACTTAAATGAAACTAAACCTACTAATAATGG
Found at i:4447256 original size:21 final size:21
Alignment explanation
Indices: 4447205--4447264 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
4447195 ACAACTGACG
4447205 TTGGTTGTGGCTTGTGGAACC
1 TTGGTTGTGGCTTGTGGAACC
*
4447226 TTGTTTGTGGCTTGTGGAA-C
1 TTGGTTGTGGCTTGTGGAACC
*
4447246 TGTGGTCGTGGCCTTGTGG
1 T-TGGTTGTGG-CTTGTGG
4447265 GACAAAGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.06
21 25 0.74
22 7 0.21
ACGTcount: A:0.07, C:0.13, G:0.40, T:0.40
Consensus pattern (21 bp):
TTGGTTGTGGCTTGTGGAACC
Found at i:4449724 original size:40 final size:40
Alignment explanation
Indices: 4449640--4449769 Score: 163
Period size: 41 Copynumber: 3.2 Consensus size: 40
4449630 GCGTTTGAAA
* *
4449640 CAAAACG-CGCTAAAAACTGAGCAATAGTGGCGTTTTTATC
1 CAAAACGCCGCTAAAAACTGAGAAATAGTGGCGTTTTT-TT
4449680 CAAAACGCCGCTAAAAACTGAGAAATAGTGGCGTTTTTTT
1 CAAAACGCCGCTAAAAACTGAGAAATAGTGGCGTTTTTTT
* * * * *
4449720 CAAAATGCCGCAAAAAACTGAGATATAGTGGCACTTTTGTT
1 CAAAACGCCGCTAAAAACTGAGAAATAGTGGC-GTTTTTTT
*
4449761 CCAAACGCC
1 CAAAACGCC
4449770 ACAAAAGGTT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
40 37 0.47
41 42 0.53
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (40 bp):
CAAAACGCCGCTAAAAACTGAGAAATAGTGGCGTTTTTTT
Found at i:4450383 original size:29 final size:30
Alignment explanation
Indices: 4450331--4450387 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4450321 AAAATATGAA
* *
4450331 GCCTAGCCCTTAAATCATAAACCCATGACT
1 GCCTAACCCCTAAATCATAAACCCATGACT
4450361 GCCTAACCCCTAAATCAT-AACCCATGA
1 GCCTAACCCCTAAATCATAAACCCATGA
4450388 TCTAAACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.35, C:0.35, G:0.09, T:0.21
Consensus pattern (30 bp):
GCCTAACCCCTAAATCATAAACCCATGACT
Found at i:4450587 original size:15 final size:15
Alignment explanation
Indices: 4450564--4450599 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
4450554 CCTTTATACG
4450564 TAAAATTATAAACCC
1 TAAAATTATAAACCC
*
4450579 TAAATTTATAAACCC
1 TAAAATTATAAACCC
4450594 TTAAAA
1 -TAAAA
4450600 CAAATTTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAATTATAAACCC
Found at i:4451711 original size:20 final size:20
Alignment explanation
Indices: 4451665--4451716 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
4451655 CCCCATCCAA
*
4451665 ATTTCCCCAAATCCCTAACT
1 ATTTCCCCAAATCCCTAAAT
*
4451685 A-TTCCCCTAATCCCTAAAT
1 ATTTCCCCAAATCCCTAAAT
4451704 ATTTCCCCAAATC
1 ATTTCCCCAAATC
4451717 AAAATCGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (20 bp):
ATTTCCCCAAATCCCTAAAT
Found at i:4451758 original size:19 final size:19
Alignment explanation
Indices: 4451734--4451771 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4451724 AAATATCCTT
4451734 CTGCCGTTGAAGACTCCGA
1 CTGCCGTTGAAGACTCCGA
4451753 CTGCCGTTGAAGACTCCGA
1 CTGCCGTTGAAGACTCCGA
4451772 GTGGACGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (19 bp):
CTGCCGTTGAAGACTCCGA
Found at i:4453285 original size:14 final size:13
Alignment explanation
Indices: 4453262--4453291 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
4453252 ATTACTATAA
4453262 TAATTATATGAAG
1 TAATTATATGAAG
4453275 TAATATATATGAAG
1 TAAT-TATATGAAG
4453289 TAA
1 TAA
4453292 AATTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:4454309 original size:23 final size:23
Alignment explanation
Indices: 4454279--4454328 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
4454269 AACATTAATC
4454279 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
4454302 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
4454325 AAAT
1 AAAT
4454329 AAACTTGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
AAATGTATGAATTGCAGCCCTTT
Found at i:4454874 original size:241 final size:241
Alignment explanation
Indices: 4454451--4454904 Score: 890
Period size: 241 Copynumber: 1.9 Consensus size: 241
4454441 ATGAATTAAT
4454451 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
4454516 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
4454581 CTGTAAGATGTAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
4454646 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
4454692 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
4454757 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
4454822 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
4454887 AAAAAGACTTGGAAAAAG
196 AAAAAGACTTGAAAAAAG
4454905 CATTTATCAT
Statistics
Matches: 211, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
241 211 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:4454956 original size:9 final size:9
Alignment explanation
Indices: 4454944--4455015 Score: 72
Period size: 9 Copynumber: 7.7 Consensus size: 9
4454934 TTTACATAAC
4454944 AACTTACAT
1 AACTTACAT
* * *
4454953 AACTCATAA
1 AACTTACAT
4454962 AACTTACAT
1 AACTTACAT
*
4454971 AATTTACAT
1 AACTTACAT
*
4454980 AACTCACAT
1 AACTTACAT
4454989 AACTTACAT
1 AACTTACAT
4454998 AACAACTTACAT
1 ---AACTTACAT
4455010 AACTTA
1 AACTTA
4455016 ACTAATACAT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
9 41 0.82
12 9 0.18
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:4454980 original size:39 final size:39
Alignment explanation
Indices: 4454926--4455011 Score: 115
Period size: 39 Copynumber: 2.2 Consensus size: 39
4454916 TAGTTTAAAG
*
4454926 TTACATAATTTACATAACAACTTACATAAC-T-CATAA-AAC
1 TTACATAATTTACAT---AACTCACATAACTTACATAACAAC
4454965 TTACATAATTTACATAACTCACATAACTTACATAACAAC
1 TTACATAATTTACATAACTCACATAACTTACATAACAAC
4455004 TTACATAA
1 TTACATAA
4455012 CTTAACTAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
36 11 0.26
37 1 0.02
38 5 0.12
39 26 0.60
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (39 bp):
TTACATAATTTACATAACTCACATAACTTACATAACAAC
Found at i:4454981 original size:27 final size:27
Alignment explanation
Indices: 4454947--4454999 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
4454937 ACATAACAAC
*
4454947 TTACATAACTCATAAAACTTACATAAT
1 TTACATAACTCACAAAACTTACATAAT
*
4454974 TTACATAACTCACATAACTTACATAA
1 TTACATAACTCACAAAACTTACATAA
4455000 CAACTTACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (27 bp):
TTACATAACTCACAAAACTTACATAAT
Found at i:4459426 original size:21 final size:21
Alignment explanation
Indices: 4459386--4459427 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4459376 TCAACTTAGA
* * *
4459386 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAACAACGAGGGAG
4459407 GCGGAGGCAACAACGAGGGAG
1 GCGGAGGCAACAACGAGGGAG
4459428 TCAGAGCAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.52, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAACAACGAGGGAG
Found at i:4459813 original size:43 final size:43
Alignment explanation
Indices: 4459726--4459972 Score: 261
Period size: 43 Copynumber: 5.7 Consensus size: 43
4459716 ACTGGGCAAA
* *
4459726 TTAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAGGTCCCTG-TCT
1 TTAGCGGCGTTTTTTTA-AAAAGCGCCGCTAAAAGT-CATGATCT
* * *
4459769 TTAGTGGCGCTTTCTATAAAAA-CGCCGCTAAAAGTCATGATCT
1 TTAGCGGCG-TTTTTTTAAAAAGCGCCGCTAAAAGTCATGATCT
* * * *
4459812 TTAGCAGCG-TTTTTTAAAAAGCGCTGCTAAAAGTCTTGGTCT
1 TTAGCGGCGTTTTTTTAAAAAGCGCCGCTAAAAGTCATGATCT
* *
4459854 TTAGCAGCGTTTTTTTAAAAAAGCGCCGCTAAAAGTCCT-AGTCT
1 TTAGCGGCGTTTTTTT-AAAAAGCGCCGCTAAAAGTCATGA-TCT
* *
4459898 TTAGCGGCATTTTTTTAAAAAGCGCCGCTAAAGGTCATGATCT
1 TTAGCGGCGTTTTTTTAAAAAGCGCCGCTAAAAGTCATGATCT
* * *
4459941 TTAGCTGCGTTTTTTCAAACAAGCGCTGCTAA
1 TTAGCGGCGTTTTTTTAAA-AAGCGCCGCTAA
4459973 TTTTAGCGGC
Statistics
Matches: 172, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
41 9 0.05
42 30 0.17
43 75 0.44
44 53 0.31
45 5 0.03
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTTAAAAAGCGCCGCTAAAAGTCATGATCT
Found at i:4459955 original size:129 final size:130
Alignment explanation
Indices: 4459726--4459972 Score: 358
Period size: 129 Copynumber: 1.9 Consensus size: 130
4459716 ACTGGGCAAA
* * * * *
4459726 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCCTGTCTTTAGTGGCGCTTTCTATAAAAA
1 TTAGCAGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCCTGTCTTTAGCGGCGATTTCTATAAAAA
4459791 CGCCGCTAAAAGTCATGATCTTTAGCAGCGTTTTTT-AAA-AAGCGCTGCTAAAAGTCTTGGTCT
66 CGCCGCTAAAAGTCATGATCTTTAGCAGCGTTTTTTCAAACAAGCGCTGCTAAAAGTCTTGGTCT
* *
4459854 TTAGCAGCGTTTTTTTAAAAAAGCGCCGCTAAAAGT-CCTAGTCTTTAGCGGC-ATTTTTTTAAA
1 TTAGCAGCG-TTTTTTAAAAAAGCGCCGCTAAAAGTCCCT-GTCTTTAGCGGCGATTTCTATAAA
* *
4459917 AAGCGCCGCTAAAGGTCATGATCTTTAGCTGCGTTTTTTCAAACAAGCGCTGCTAA
64 AA-CGCCGCTAAAAGTCATGATCTTTAGCAGCGTTTTTTCAAACAAGCGCTGCTAA
4459973 TTTTAGCGGC
Statistics
Matches: 105, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
128 21 0.20
129 69 0.66
130 3 0.03
131 12 0.11
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (130 bp):
TTAGCAGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCCTGTCTTTAGCGGCGATTTCTATAAAAA
CGCCGCTAAAAGTCATGATCTTTAGCAGCGTTTTTTCAAACAAGCGCTGCTAAAAGTCTTGGTCT
Found at i:4460807 original size:23 final size:23
Alignment explanation
Indices: 4460762--4460831 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
4460752 CCTTCGGGCA
* * *
4460762 TAGTACTTTTGTTATTAGTACTT
1 TAGTACTTCTGTTATTGGCACTT
*
4460785 TAGTACTTCTGTTACTGGCACTT
1 TAGTACTTCTGTTATTGGCACTT
*
4460808 CT-GTGCTTCTGTTATTGGCACTT
1 -TAGTACTTCTGTTATTGGCACTT
4460831 T
1 T
4460832 GGTGCGATAC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 1 0.03
23 38 0.95
24 1 0.03
ACGTcount: A:0.16, C:0.17, G:0.17, T:0.50
Consensus pattern (23 bp):
TAGTACTTCTGTTATTGGCACTT
Found at i:4462727 original size:26 final size:27
Alignment explanation
Indices: 4462698--4462748 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
4462688 ATGTTGTAAT
4462698 ATATAATATTA-AAAAATAAAAGAAGA
1 ATATAATATTATAAAAATAAAAGAAGA
* *
4462724 ATATTATATTATAAAATTAAAAGAA
1 ATATAATATTATAAAAATAAAAGAA
4462749 AGGATTGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (27 bp):
ATATAATATTATAAAAATAAAAGAAGA
Found at i:4463272 original size:5 final size:5
Alignment explanation
Indices: 4463262--4463287 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4463252 AAATATGGGG
4463262 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
4463288 GGTAAAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:4463846 original size:27 final size:28
Alignment explanation
Indices: 4463808--4463863 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
4463798 AATATATTTT
4463808 TTAACTTTTAAAAATAAAAAATA-AAAA
1 TTAACTTTTAAAAATAAAAAATAGAAAA
*
4463835 TTAA-TTTCTAAAAATGAAAAATAGAAAA
1 TTAACTTT-TAAAAATAAAAAATAGAAAA
4463863 T
1 T
4463864 ATTTTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 3 0.12
27 18 0.69
28 5 0.19
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (28 bp):
TTAACTTTTAAAAATAAAAAATAGAAAA
Found at i:4467492 original size:26 final size:26
Alignment explanation
Indices: 4467455--4467512 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
4467445 TGATACAAAT
4467455 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
4467481 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
4467507 TGATAA
1 TGATAA
4467513 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:4468679 original size:21 final size:22
Alignment explanation
Indices: 4468637--4468679 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4468627 TAAACGAATT
* *
4468637 ACAATATTATTTAACTACATAA
1 ACAATATAATTTAACTAAATAA
4468659 ACAATATAATTT-ACTAAATAA
1 ACAATATAATTTAACTAAATAA
4468680 TTACATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
ACAATATAATTTAACTAAATAA
Found at i:4468707 original size:21 final size:21
Alignment explanation
Indices: 4468683--4468724 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4468673 TAAATAATTA
4468683 CATGTAAAGAACTATTTTAGG
1 CATGTAAAGAACTATTTTAGG
4468704 CATGTAAAGAACTATTTTAGG
1 CATGTAAAGAACTATTTTAGG
4468725 TATGCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
CATGTAAAGAACTATTTTAGG
Found at i:4471633 original size:36 final size:36
Alignment explanation
Indices: 4471593--4471666 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
4471583 AATTAAAGCG
4471593 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
1 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
4471629 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
1 TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
4471665 TT
1 TT
4471667 ATAAAATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.54, C:0.16, G:0.08, T:0.22
Consensus pattern (36 bp):
TTCAAAATTAACTCAAAACAAAAACAATGGAGTAAC
Found at i:4472736 original size:11 final size:11
Alignment explanation
Indices: 4472722--4472766 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
4472712 AGATAAATAT
4472722 TATTTTATTAA
1 TATTTTATTAA
*
4472733 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
4472746 TATTTTATTAT
1 TATTTTATTAA
4472757 TATTTTATTA
1 TATTTTATTA
4472767 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:4475016 original size:46 final size:46
Alignment explanation
Indices: 4474949--4475069 Score: 172
Period size: 46 Copynumber: 2.6 Consensus size: 46
4474939 AACCTGTGTG
**
4474949 TAAGACCATGGTTGAAAGATACCATGGCAATGTGACATGAAAA-GAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAA
*
4474995 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* * *
4475041 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
4475070 TCACGTCAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 5 0.07
46 63 0.93
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
Found at i:4475802 original size:36 final size:36
Alignment explanation
Indices: 4475762--4475835 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
4475752 ATGCGCATGA
* * *
4475762 ATTAAATGAAGCAAAACATTATATATATGCATTAAT
1 ATTAAATGAAGCAAAACAGTATACAAATGCATTAAT
*
4475798 ATTAAATGAAGCTAAACAGTATACAAATGCATTAAT
1 ATTAAATGAAGCAAAACAGTATACAAATGCATTAAT
4475834 AT
1 AT
4475836 ATATATGCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.31
Consensus pattern (36 bp):
ATTAAATGAAGCAAAACAGTATACAAATGCATTAAT
Found at i:4475938 original size:141 final size:142
Alignment explanation
Indices: 4475756--4476062 Score: 458
Period size: 141 Copynumber: 2.1 Consensus size: 142
4475746 ATATATATGC
*
4475756 GCATGAATTAAATGAAGCAAAACATTATATATATGCATTAATATTAAATGAAGCTAAACAGTATA
1 GCATGACTTAAATGAAGCAAAACATTATATATATGCATTAATATTAAATGAAGCTAAACAGTATA
*
4475821 CAAATGC-AT-T-AATATATATATGCTTGGCTTAACTCAAGCTAAACCTGCTAATTATGATATAT
66 CAAATGCAATATAAATATATATATGCTTGGCTTAACTCAAGCTAAACCTACTAATTATG--ATAT
4475883 ATATATGCAATTAT
129 ATATATGCAATTAT
*
4475897 GCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAATGAAGCTAAACAGTATA
1 GCATGACTTAAATGAAGCAAAACATTATATATATGCATTAATATTAAATGAAGCTAAACAGTATA
* *
4475962 CATATGCATTAATATATATAAATATATATATGCTTGGCTTAACTCAAGCTAAATCTACTAATTAT
66 CAAATGC------A-ATATAAATATATATATGCTTGGCTTAACTCAAGCTAAACCTACTAATTAT
*
4476027 GGTATATATATGCAATTAT
124 GATATATATATGCAATTAT
4476046 GCATGACTTAAATGAAG
1 GCATGACTTAAATGAAG
4476063 TTAAATGGAA
Statistics
Matches: 150, Mismatches: 6, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
141 69 0.46
149 36 0.24
150 1 0.01
151 44 0.29
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (142 bp):
GCATGACTTAAATGAAGCAAAACATTATATATATGCATTAATATTAAATGAAGCTAAACAGTATA
CAAATGCAATATAAATATATATATGCTTGGCTTAACTCAAGCTAAACCTACTAATTATGATATAT
ATATGCAATTAT
Found at i:4475946 original size:36 final size:36
Alignment explanation
Indices: 4475904--4475976 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
4475894 TATGCATGAC
* * *
4475904 TTAAATGAAGCAAAACATTATATATATGCCTTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
*
4475940 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
4475976 T
1 T
4475977 ATATAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.33
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTATACATATGCATTAATA
Found at i:4476058 original size:43 final size:42
Alignment explanation
Indices: 4476025--4476128 Score: 111
Period size: 43 Copynumber: 2.5 Consensus size: 42
4476015 TCTACTAATT
* * *
4476025 ATGGTATATATATGCAATTAT-GCATGACTTAAATGAAGTTAA
1 ATGGAATATATATGC-ATTATCGCATGACTTAAATCAAGCTAA
* *
4476067 ATGGAATATATATGCATTATGCGCATGACTTAAATAAAGCAAA
1 ATGGAATATATATGCATTAT-CGCATGACTTAAATCAAGCTAA
***
4476110 ATATTATATATATGCATTA
1 ATGGAATATATATGCATTA
4476129 ATATTAAATG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 5 0.09
42 14 0.26
43 34 0.64
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (42 bp):
ATGGAATATATATGCATTATCGCATGACTTAAATCAAGCTAA
Found at i:4476136 original size:36 final size:36
Alignment explanation
Indices: 4476096--4476168 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
4476086 TGCGCATGAC
* * *
4476096 TTAAATAAAGCAAAATATTATATATATGCATTAATA
1 TTAAATAAAGCAAAACAGTATACATATGCATTAATA
* *
4476132 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATAAAGCAAAACAGTATACATATGCATTAATA
4476168 T
1 T
4476169 ATATATGCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.34
Consensus pattern (36 bp):
TTAAATAAAGCAAAACAGTATACATATGCATTAATA
Found at i:4476301 original size:43 final size:41
Alignment explanation
Indices: 4476210--4476346 Score: 122
Period size: 43 Copynumber: 3.4 Consensus size: 41
4476200 GCTAATTATG
* ** **
4476210 GTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATG
1 GTATATATATGC-ATTATGCATGACTTAAATAAAGCAAAACA
*
4476252 GAATATATATGCATTATGCGCATGACTTAAATAAAGCAAAACA
1 GTATATATATGCATTAT--GCATGACTTAAATAAAGCAAAACA
* * *
4476295 TTATATATATGCATTA---AT-A-TTAAATGAAGCTAAACA
1 GTATATATATGCATTATGCATGACTTAAATAAAGCAAAACA
*
4476331 GTATACATATGCATTA
1 GTATATATATGCATTA
4476347 ATATATATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
36 29 0.36
37 1 0.01
38 2 0.02
41 5 0.06
42 11 0.14
43 33 0.41
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (41 bp):
GTATATATATGCATTATGCATGACTTAAATAAAGCAAAACA
Found at i:4476318 original size:36 final size:36
Alignment explanation
Indices: 4476278--4476350 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
4476268 TGCGCATGAC
* *
4476278 TTAAATAAAGCAAAACATTATATATATGCATTAATA
1 TTAAATAAAGCAAAACAGTATACATATGCATTAATA
* *
4476314 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATAAAGCAAAACAGTATACATATGCATTAATA
4476350 T
1 T
4476351 ATATATATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (36 bp):
TTAAATAAAGCAAAACAGTATACATATGCATTAATA
Found at i:4476393 original size:184 final size:184
Alignment explanation
Indices: 4475881--4476592 Score: 1162
Period size: 182 Copynumber: 3.8 Consensus size: 184
4475871 ATTATGATAT
* *
4475881 ATATATATGCAATTAT--GCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAA
1 ATATATATGC-ATTATGCGCATGACTTAAATAAAGCAAAACATTATATATATGCATTAATATTAA
4475944 ATGAAGCTAAACAGTATACATATGCATTAATATATATAAATATATATATGCTTGGCTTAACTCAA
65 ATGAAGCTAAACAGTATACATATGC----AT-TA-AT--ATATATATATGCTTGGCTTAACTCAA
* *
4476009 GCTAAATCTACTAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGA
122 GCTAAACCTGCTAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGA
*
4476072 ATATATATGCATTATGCGCATGACTTAAATAAAGCAAAATATTATATATATGCATTAATATTAAA
1 ATATATATGCATTATGCGCATGACTTAAATAAAGCAAAACATTATATATATGCATTAATATTAAA
*
4476137 TGAAGCTAAACAGTATACATATGCATT-A-ATATATATATGCTTGGGTTAACTCAAGCTAAACCT
66 TGAAGCTAAACAGTATACATATGCATTAATATATATATATGCTTGGCTTAACTCAAGCTAAACCT
4476200 GCTAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGA
131 GCTAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGA
4476254 ATATATATGCATTATGCGCATGACTTAAATAAAGCAAAACATTATATATATGCATTAATATTAAA
1 ATATATATGCATTATGCGCATGACTTAAATAAAGCAAAACATTATATATATGCATTAATATTAAA
4476319 TGAAGCTAAACAGTATACATATGCATTAATATATATATATGCTTGGCTTAACTCAAGCTAAACCT
66 TGAAGCTAAACAGTATACATATGCATTAATATATATATATGCTTGGCTTAACTCAAGCTAAACCT
*
4476384 GCAAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGA
131 GCTAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGA
*
4476438 ATATATATGCATTATGCGCATGACTTAAATGAAGCAAAACATTATATATATATGCATTAATATTA
1 ATATATATGCATTATGCGCATGACTTAAATAAAGCAAAACA-T-TATATATATGCATTAATATTA
* * * * * *
4476503 AATGAAGCTAAATAGTATACATATGCATTAATATATATATATGCTTGACCTAAATGAAGTTAAAC
64 AATGAAGCTAAACAGTATACATATGCATTAATATATATATATGCTTGGCTTAACTCAAGCTAAAC
*
4476568 CTGCTAATAATGGTATATATATGCA
129 CTGCTAATTATGGTATATATATGCA
4476593 TGACTTAAAT
Statistics
Matches: 497, Mismatches: 18, Indels: 17
0.93 0.03 0.03
Matches are distributed among these distances:
182 177 0.36
183 1 0.00
184 127 0.26
185 2 0.00
186 103 0.21
187 1 0.00
188 2 0.00
190 5 0.01
191 10 0.02
192 69 0.14
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (184 bp):
ATATATATGCATTATGCGCATGACTTAAATAAAGCAAAACATTATATATATGCATTAATATTAAA
TGAAGCTAAACAGTATACATATGCATTAATATATATATATGCTTGGCTTAACTCAAGCTAAACCT
GCTAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGA
Found at i:4476437 original size:366 final size:373
Alignment explanation
Indices: 4475881--4476592 Score: 1172
Period size: 366 Copynumber: 1.9 Consensus size: 373
4475871 ATTATGATAT
* *
4475881 ATATATATGCAATTATGCATGACTTAAATGAAGCAAAACATTATATATATGCCTTAATATTAAAT
1 ATATATATGCAATTATGCATGACTTAAATAAAGCAAAACATTATATATATGCATTAATATTAAAT
4475946 GAAGCTAAACAGTATACATATGCATTAATATATATAAATATATATATGCTTGGCTTAACTCAAGC
66 GAAGCTAAACAGTATACATATGC---AATATATAT-AATATATATATGCTTGGCTTAACTCAAGC
* *
4476011 TAAATCTACTAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGAATAT
127 TAAACCTACAAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGAATAT
*
4476076 ATATGCATTATGCGCATGACTTAAATAAAGCAAAATA-T-TATATATATGCATTAATATTAAATG
192 ATATGCATTATGCGCATGACTTAAATAAAGCAAAACATTATATATATATGCATTAATATTAAATG
*** *
4476139 AAGCTAAACAGTATACATATGCATT-A-ATATATATATGCTTGGGTTAACTCAAGCTAAACCTGC
257 AAGCTAAACAGTATACATATGCATTAATATATATATATGCTTGACCTAAATCAAGCTAAACCTGC
*
4476202 TAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGA
322 TAATAATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGA
4476254 ATATATATGC-ATTATGCGCATGACTTAAATAAAGCAAAACATTATATATATGCATTAATATTAA
1 ATATATATGCAATTAT--GCATGACTTAAATAAAGCAAAACATTATATATATGCATTAATATTAA
4476318 ATGAAGCTAAACAGTATACATATGC-AT-TA-AT-ATATATATATGCTTGGCTTAACTCAAGCTA
64 ATGAAGCTAAACAGTATACATATGCAATATATATAATATATATATGCTTGGCTTAACTCAAGCTA
*
4476379 AACCTGCAAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGAATATAT
129 AACCTACAAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGAATATAT
*
4476444 ATGCATTATGCGCATGACTTAAATGAAGCAAAACATTATATATATATGCATTAATATTAAATGAA
194 ATGCATTATGCGCATGACTTAAATAAAGCAAAACATTATATATATATGCATTAATATTAAATGAA
* * *
4476509 GCTAAATAGTATACATATGCATTAATATATATATATGCTTGACCTAAATGAAGTTAAACCTGCTA
259 GCTAAACAGTATACATATGCATTAATATATATATATGCTTGACCTAAATCAAGCTAAACCTGCTA
4476574 ATAATGGTATATATATGCA
324 ATAATGGTATATATATGCA
4476593 TGACTTAAAT
Statistics
Matches: 318, Mismatches: 15, Indels: 15
0.91 0.04 0.04
Matches are distributed among these distances:
366 125 0.39
367 1 0.00
368 51 0.16
369 3 0.01
370 53 0.17
372 5 0.02
373 10 0.03
374 70 0.22
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (373 bp):
ATATATATGCAATTATGCATGACTTAAATAAAGCAAAACATTATATATATGCATTAATATTAAAT
GAAGCTAAACAGTATACATATGCAATATATATAATATATATATGCTTGGCTTAACTCAAGCTAAA
CCTACAAATTATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGAATATATAT
GCATTATGCGCATGACTTAAATAAAGCAAAACATTATATATATATGCATTAATATTAAATGAAGC
TAAACAGTATACATATGCATTAATATATATATATGCTTGACCTAAATCAAGCTAAACCTGCTAAT
AATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATGGA
Found at i:4476465 original size:43 final size:42
Alignment explanation
Indices: 4476391--4476471 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 42
4476381 CCTGCAAATT
*
4476391 ATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAA
1 ATGGAATATATATGCAATTATGCATGACTTAAATGAAGTTAA
4476433 ATGGAATATATATGC-ATTATGCGCATGACTTAAATGAAG
1 ATGGAATATATATGCAATTAT--GCATGACTTAAATGAAG
4476472 CAAAACATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
41 5 0.14
42 14 0.39
43 17 0.47
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.33
Consensus pattern (42 bp):
ATGGAATATATATGCAATTATGCATGACTTAAATGAAGTTAA
Found at i:4476485 original size:43 final size:42
Alignment explanation
Indices: 4476394--4476488 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 42
4476384 GCAAATTATG
** **
4476394 GTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATG
1 GTATATATATGCAATTATGCATGACTTAAATGAAGCAAAACA
*
4476436 GAATATATATGC-ATTATGCGCATGACTTAAATGAAGCAAAACA
1 GTATATATATGCAATTAT--GCATGACTTAAATGAAGCAAAACA
*
4476479 TTATATATAT
1 GTATATATAT
4476489 ATGCATTAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 5 0.11
42 11 0.25
43 28 0.64
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (42 bp):
GTATATATATGCAATTATGCATGACTTAAATGAAGCAAAACA
Found at i:4476504 original size:38 final size:36
Alignment explanation
Indices: 4476462--4476536 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
4476452 TGCGCATGAC
*
4476462 TTAAATGAAGCAAAACATTA-TATATATATGCATTAATA
1 TTAAATGAAGC-AAA-A-TAGTATACATATGCATTAATA
*
4476500 TTAAATGAAGCTAAATAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAATAGTATACATATGCATTAATA
4476536 T
1 T
4476537 ATATATATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 2 0.06
36 19 0.56
37 2 0.06
38 11 0.32
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.35
Consensus pattern (36 bp):
TTAAATGAAGCAAAATAGTATACATATGCATTAATA
Found at i:4476590 original size:45 final size:45
Alignment explanation
Indices: 4476536--4476626 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
4476526 TGCATTAATA
* **
4476536 TATATATATGCTTGACCTAAATGAAGTTAAACCTGCTAATAATGG
1 TATATATATGCATGACCTAAATGAAACTAAACCTGCTAATAATGG
*
4476581 TATATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGG
1 TATATATATGCATGACCTAAATGAAACTAAACCTGCTAATAATGG
4476626 T
1 T
4476627 TAATTTAACT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (45 bp):
TATATATATGCATGACCTAAATGAAACTAAACCTGCTAATAATGG
Found at i:4476726 original size:16 final size:16
Alignment explanation
Indices: 4476705--4476736 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4476695 ACAAGACAGG
*
4476705 CAGAAACATGGAAACT
1 CAGAAACATAGAAACT
4476721 CAGAAACATAGAAACT
1 CAGAAACATAGAAACT
4476737 TTGATTAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.19, G:0.16, T:0.12
Consensus pattern (16 bp):
CAGAAACATAGAAACT
Found at i:4477147 original size:21 final size:21
Alignment explanation
Indices: 4477095--4477135 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
4477085 ACAACTGACA
4477095 TTGGTTGTGGCTTGTGGAACC
1 TTGGTTGTGGCTTGTGGAACC
*
4477116 TTGTTTGTGGCTTGTGGAAC
1 TTGGTTGTGGCTTGTGGAAC
4477136 TGTGGTCGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.12, G:0.37, T:0.41
Consensus pattern (21 bp):
TTGGTTGTGGCTTGTGGAACC
Found at i:4477298 original size:35 final size:36
Alignment explanation
Indices: 4477252--4477322 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
4477242 TAAAGAAGAA
4477252 AGGAAAAATTGGGGGA-GAGGTGGGAATTTGGAACG
1 AGGAAAAATTGGGGGAGGAGGTGGGAATTTGGAACG
*
4477287 AGGAAAAATTGGGGGAGGGGGTGGGAATTTGGAACG
1 AGGAAAAATTGGGGGAGGAGGTGGGAATTTGGAACG
4477323 GCAGAAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 16 0.47
36 18 0.53
ACGTcount: A:0.32, C:0.03, G:0.48, T:0.17
Consensus pattern (36 bp):
AGGAAAAATTGGGGGAGGAGGTGGGAATTTGGAACG
Found at i:4477669 original size:29 final size:29
Alignment explanation
Indices: 4477615--4477670 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
4477605 ACCATTTTTT
* * *
4477615 ATATTAATTTTTTTGTTTTTTTAAATAAA
1 ATATTAATTATTTTATTTTTTAAAATAAA
4477644 ATATT-ATTATTTTATTTTATTAAAATA
1 ATATTAATTATTTTATTTT-TTAAAATA
4477671 TTTAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATATTAATTATTTTATTTTTTAAAATAAA
Found at i:4477986 original size:14 final size:14
Alignment explanation
Indices: 4477961--4478006 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
4477951 AGCACCCACC
4477961 AGAAGAAAGAAAGAA
1 AGAAG-AAGAAAGAA
*
4477976 AGGAGAAGAAA-AGA
1 AGAAGAAGAAAGA-A
4477990 AGAAGAAG-AAGAA
1 AGAAGAAGAAAGAA
4478003 AGAA
1 AGAA
4478007 AAAAAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 8 0.30
14 15 0.56
15 4 0.15
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (14 bp):
AGAAGAAGAAAGAA
Found at i:4478552 original size:109 final size:107
Alignment explanation
Indices: 4478427--4478711 Score: 318
Period size: 105 Copynumber: 2.7 Consensus size: 107
4478417 TTATAGTTAT
* * *
4478427 TTATTTTGTTAATAATTTATGGGATTAGGT-TACAATTTGTTAGTGTTTAGTGGTTTAGGGTTTT
1 TTATTTTGTTAATAATTTAT--GATTAGGTATATAAATTGTTAGTGTTTAGT-GTTTAGTGTTTT
* **
4478491 GTGATTTTTTTAGTAATGCAAATTTT-T-TTAAAAATAATTTTATAG
63 GTGATTTTTTTAATAATG--AATTTTGTAAAAAAAATAATTTTATAG
* *
4478536 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGT-TAT-GTGTTTT-T
1 TTATTTTGTTAATAATTTATGATTAGG-TATATAAATTGTTAGTGTTTAGTGTTTAGTGTTTTGT
*
4478598 GA-TTTTTTAATAATGTATTTTGTAAAAAAAAATAATTTTATAG
65 GATTTTTTTAATAATGAATTTTGT-AAAAAAAATAATTTTATAG
* * * *
4478641 TTATTTTGTTATTAATCTATGATTACGTTATATAAATTGTTAGAGTTTA--GTTTAGTGTTTTGT
1 TTATTTTGTTAATAATTTATGATTA-GGTATATAAATTGTTAGTGTTTAGTGTTTAGTGTTTTGT
4478704 GATTTTTT
65 GATTTTTT
4478712 AATGTAATTT
Statistics
Matches: 152, Mismatches: 14, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
102 5 0.03
103 1 0.01
104 14 0.09
105 69 0.45
106 10 0.07
107 14 0.09
108 1 0.01
109 38 0.25
ACGTcount: A:0.28, C:0.01, G:0.16, T:0.54
Consensus pattern (107 bp):
TTATTTTGTTAATAATTTATGATTAGGTATATAAATTGTTAGTGTTTAGTGTTTAGTGTTTTGTG
ATTTTTTTAATAATGAATTTTGTAAAAAAAATAATTTTATAG
Found at i:4478650 original size:105 final size:106
Alignment explanation
Indices: 4478520--4478714 Score: 331
Period size: 105 Copynumber: 1.8 Consensus size: 106
4478510 AAATTTTTTT
* * *
4478520 AAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTA
1 AAAAATAATTTTATAGTTATTTTGTTAGTAATCTATGATTACGTTATATAAATTGTTAGAGTTTA
4478585 G-TTATGTGTTTT-TGATTTTTTAATAATGTATTTTGTAAAA
66 GTTTA-GTGTTTTGTGATTTTTTAATAATGTATTTTGTAAAA
*
4478625 AAAAATAATTTTATAGTTATTTTGTTATTAATCTATGATTACGTTATATAAATTGTTAGAGTTTA
1 AAAAATAATTTTATAGTTATTTTGTTAGTAATCTATGATTACGTTATATAAATTGTTAGAGTTTA
4478690 GTTTAGTGTTTTGTGATTTTTTAAT
66 GTTTAGTGTTTTGTGATTTTTTAAT
4478715 GTAATTTTTA
Statistics
Matches: 84, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
105 69 0.82
106 15 0.18
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (106 bp):
AAAAATAATTTTATAGTTATTTTGTTAGTAATCTATGATTACGTTATATAAATTGTTAGAGTTTA
GTTTAGTGTTTTGTGATTTTTTAATAATGTATTTTGTAAAA
Found at i:4478740 original size:15 final size:16
Alignment explanation
Indices: 4478711--4478742 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
4478701 TGTGATTTTT
4478711 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
4478727 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
4478742 T
1 T
4478743 TATTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:4478880 original size:15 final size:15
Alignment explanation
Indices: 4478857--4478886 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4478847 TTCAATTTCT
*
4478857 ATTTTTATTTTTTTA
1 ATTTGTATTTTTTTA
4478872 ATTTGTATTTTTTTA
1 ATTTGTATTTTTTTA
4478887 TGTTTAGATA
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:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
ATTTGTATTTTTTTA
Found at i:4478892 original size:21 final size:22
Alignment explanation
Indices: 4478842--4478892 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
4478832 ACTAATGAGG
4478842 TATGTTTCAATTTCTATTTTTAT
1 TATGTTT-AATTTCTATTTTTAT
* *
4478865 T-TTTTTAATTTGTATTTTT-T
1 TATGTTTAATTTCTATTTTTAT
4478885 TATGTTTA
1 TATGTTTA
4478893 GATAGTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 2 0.08
21 17 0.71
22 4 0.17
23 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.71
Consensus pattern (22 bp):
TATGTTTAATTTCTATTTTTAT
Found at i:4483310 original size:16 final size:16
Alignment explanation
Indices: 4483289--4483357 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
4483279 TTTGGTTCGC
4483289 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4483305 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4483321 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
4483338 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4483354 TGTA
1 TGTA
4483358 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:4483335 original size:33 final size:32
Alignment explanation
Indices: 4483289--4483357 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
4483279 TTTGGTTCGC
4483289 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
4483321 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
4483354 TGTA
1 TGTA
4483358 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:4483422 original size:44 final size:45
Alignment explanation
Indices: 4483338--4483428 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 45
4483328 GGATTAGAGG
* * *
4483338 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
*
4483383 TGTAATGGAATAGAGGCGTAATAG-TAATCTTA-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATC-CACTGTTTGGTTGAA
4483427 TG
1 TG
4483429 GAATAGAGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
44 19 0.46
45 22 0.54
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:4483610 original size:16 final size:16
Alignment explanation
Indices: 4483573--4483627 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
4483563 TTAATCATAT
*
4483573 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
4483589 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
4483604 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
4483622 -TAAAAT
1 TTAAAAT
4483628 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:4483620 original size:18 final size:18
Alignment explanation
Indices: 4483579--4483627 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
4483569 ATATTTAAAC
4483579 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
4483597 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
4483613 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
4483628 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:4483746 original size:67 final size:67
Alignment explanation
Indices: 4483675--4483887 Score: 168
Period size: 67 Copynumber: 3.1 Consensus size: 67
4483665 ATTGTTAATG
*
4483675 TTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAAT
4483740 TA
66 TA
* * * * * * ***
4483742 TTATTAAATATATTTTAATTAAAATATATAATT-T-AATAA-AATTCTTATAAT--TAGCAGAAA
1 TTATT---TAAATTTTAA-TAAGAT-TATTATTATCAATAATAAATATTTTAATCATA-TTTAAA
** * *
4483802 TTTGTTATTG
60 --CATAATTA
* *
4483812 TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAAT
4483877 TA
66 TA
4483879 TTA-TTAAAT
1 TTATTTAAAT
4483888 ACATTATAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 27
0.65 0.18 0.17
Matches are distributed among these distances:
65 5 0.05
66 12 0.12
67 28 0.27
68 11 0.11
69 12 0.12
70 24 0.23
71 6 0.06
72 6 0.06
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (67 bp):
TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATATTTAAACATAAT
TA
Found at i:4483764 original size:156 final size:156
Alignment explanation
Indices: 4483480--4483807 Score: 611
Period size: 156 Copynumber: 2.1 Consensus size: 156
4483470 TAGAATACCC
* * *
4483480 TTAGCATAAAATTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
4483545 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
4483610 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
4483636 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
*
4483701 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
4483766 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
4483792 TTAGCAGAAATTTGTT
1 TTAGCAGAAAATTGTT
4483808 ATTGTTATTT
Statistics
Matches: 167, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 167 1.00
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:4483770 original size:18 final size:17
Alignment explanation
Indices: 4483749--4483783 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4483739 TTATTATTAA
*
4483749 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4483767 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4483784 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4483774 original size:137 final size:137
Alignment explanation
Indices: 4483485--4483921 Score: 298
Period size: 156 Copynumber: 3.1 Consensus size: 137
4483475 TACCCTTAGC
4483485 ATAAAATTATT-TTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTAT
1 ATAAAATTATTATTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTAT
*
4483549 CAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATATA
66 CAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATA
4483614 TAATTTA
131 TAATTTA
* * * * * * *
4483621 ATAAAATTCTTATAATTAGCAGAAAATTG-TT-TTGGTAAATGATTATTGTTAATGTTATTTAA-
1 ATAAAA---TTATTATT-G--GTAAA-TGATTATT-GTTATTG-TTATT-TAAATTTTA-ATAAG
* * * * ** *
4483683 ATT-TTA--ATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTA
55 ATTATTATTATCAG-TAATAAATAT-TTTAAT-CATA---T--T--T----AAACATAATTATTA
4483745 TTAAATATATTTTAATTAAAATATATAATTTA
106 TTAAATATATTTTAATTAAAATATATAATTTA
* *** * * *
4483777 ATAAAATTCTTATAATTAGCA-GA-AATTTGTTATTGTTATTTAAATTTTAATAAGATTATTAAT
1 ATAAAATTATTATTGGTA-AATGATTA-TTGTTATTGTTATTTAAATTTTAATAAGATTATTATT
* * * * ****
4483840 ATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATACATTATAATTTTGGTA
64 ATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATA
4483905 TATAATTTA
129 TATAATTTA
4483914 ATAAAATT
1 ATAAAATT
4483922 CTTAATAATT
Statistics
Matches: 224, Mismatches: 43, Indels: 67
0.67 0.13 0.20
Matches are distributed among these distances:
136 6 0.03
137 48 0.21
139 4 0.02
140 2 0.01
141 2 0.01
142 6 0.03
143 19 0.08
144 14 0.06
145 14 0.06
146 3 0.01
147 3 0.01
148 14 0.06
149 13 0.06
150 13 0.06
151 6 0.03
152 1 0.00
153 5 0.02
156 51 0.23
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (137 bp):
ATAAAATTATTATTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTAT
CAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATA
TAATTTA
Found at i:4483922 original size:137 final size:138
Alignment explanation
Indices: 4483666--4483931 Score: 435
Period size: 137 Copynumber: 1.9 Consensus size: 138
4483656 TAAATGATTA
* * *
4483666 TTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
* *
4483731 AAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTT-ATAATTA
66 AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
4483795 GCAGAAAT
131 GCAGAAAT
*
4483803 TTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
****
4483868 AAACATAATTATTATTAAATACATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT
66 AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
4483932 CATATTCTTA
Statistics
Matches: 118, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
137 112 0.95
138 6 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (138 bp):
TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
GCAGAAAT
Found at i:4483965 original size:137 final size:135
Alignment explanation
Indices: 4483687--4483965 Score: 330
Period size: 137 Copynumber: 2.0 Consensus size: 135
4483677 ATTTAAATTT
* * *
4483687 TAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
* * * *
4483752 TATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAGCAGAAATTTGTTATTGTTATT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTA-CA-AAATTTCTTATTGTTACT
* ***
4483817 TAAATTT
129 CAAAGCA
4483824 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
**** *
4483889 CATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT-C-ATA-TTCTTATATGAATTT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTT-ATAATTACAAAATTTCTTAT-TG---TT
4483951 ACTCAAAGCA
126 ACTCAAAGCA
4483961 TAATA
1 TAATA
4483966 TATGATACTA
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
133 6 0.05
134 4 0.03
136 1 0.01
137 104 0.86
138 6 0.05
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (135 bp):
TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTACAAAATTTCTTATTGTTACTCA
AAGCA
Found at i:4487411 original size:8 final size:9
Alignment explanation
Indices: 4487391--4487425 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
4487381 ATATTACAAC
4487391 AAAAATTTA
1 AAAAATTTA
4487400 AAAAATTTA
1 AAAAATTTA
4487409 AAAAATTT-
1 AAAAATTTA
4487417 AAAAATTTA
1 AAAAATTTA
4487426 GAAGAGTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAAATTTA
Found at i:4487414 original size:18 final size:17
Alignment explanation
Indices: 4487391--4487425 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
4487381 ATATTACAAC
4487391 AAAAATTTAAAAAATTTA
1 AAAAATTT-AAAAATTTA
4487409 AAAAATTTAAAAATTTA
1 AAAAATTTAAAAATTTA
4487426 GAAGAGTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAATTTAAAAATTTA
Found at i:4494271 original size:27 final size:27
Alignment explanation
Indices: 4494228--4494290 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
4494218 CATATTTTTA
4494228 ATTTT-TAAAAATAAAAAAT-GAAAATT
1 ATTTTCTAAAAATAAAAAATAGAAAA-T
*
4494254 ATTTTCTAAAAATGAAAAATAGAAAAT
1 ATTTTCTAAAAATAAAAAATAGAAAAT
4494281 ATTTTC-AAAA
1 ATTTTCTAAAA
4494291 GTCAAAAGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
26 9 0.26
27 20 0.59
28 5 0.15
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (27 bp):
ATTTTCTAAAAATAAAAAATAGAAAAT
Found at i:4496692 original size:46 final size:46
Alignment explanation
Indices: 4496625--4496718 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
4496615 CAAAAAGTAC
4496625 TTAAACCATGAGGTAAAGAATGTTGAGATTCACCTAACTTCTTTAA
1 TTAAACCATGAGGTAAAGAATGTTGAGATTCACCTAACTTCTTTAA
4496671 TTAAACCATGAGGTAAAGAATGTTGAGATTCACCTAACTTCTTTAA
1 TTAAACCATGAGGTAAAGAATGTTGAGATTCACCTAACTTCTTTAA
4496717 TT
1 TT
4496719 CCCACCTTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (46 bp):
TTAAACCATGAGGTAAAGAATGTTGAGATTCACCTAACTTCTTTAA
Found at i:4504029 original size:94 final size:96
Alignment explanation
Indices: 4503912--4504141 Score: 274
Period size: 94 Copynumber: 2.4 Consensus size: 96
4503902 AATTTAAATG
* *
4503912 AAATGAGAAAAAAAAAATTTAAATGAAATGAGAAAAAAATTAAATTTAAATTAAAAT-AAAGATA
1 AAATGAGAAAAAAAAAATATAAATGAAATGAGAAAAAAATTAAA-TTAAAATAAAATGAAAGATA
* *
4503976 ATTTAAATAAAATGAG-GAAAATATTAAATTT
65 AATTAAATAAAATGAGAAAAAATATTAAATTT
* * *
4504007 AAATG-GAAAAAAATAATATAAATGAAATGAGAAAAAAATTAAATTAAAATGAAATGAGAGATAA
1 AAATGAGAAAAAAAAAATATAAATGAAATGAGAAAAAAATTAAATTAAAATAAAATGAAAGATAA
* *
4504071 ATTAAATGAAATGAGAAAAAAATTTTAAATTT
66 ATTAAATAAAATGAG-AAAAAATATTAAATTT
*
4504103 AAATGA-AATGAGAAAAAAAT-TAAATTTAAATG-GAAAAAA
1 AAATGAGAA--A-AAAAAAATATAAA-TGAAATGAGAAAAAA
4504142 TAATATAAAT
Statistics
Matches: 116, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
93 10 0.09
94 56 0.48
95 5 0.04
96 20 0.17
98 12 0.10
99 13 0.11
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.25
Consensus pattern (96 bp):
AAATGAGAAAAAAAAAATATAAATGAAATGAGAAAAAAATTAAATTAAAATAAAATGAAAGATAA
ATTAAATAAAATGAGAAAAAATATTAAATTT
Found at i:4504106 original size:34 final size:30
Alignment explanation
Indices: 4504067--4504127 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
4504057 GAAATGAGAG
4504067 ATAAATTAAATGAAATGAGAAAAAAATT--
1 ATAAATTAAATGAAATGAGAAAAAAATTAA
*
4504095 TTAAATTTAAATGAAATGAGAAAAAAATTAA
1 ATAAA-TTAAATGAAATGAGAAAAAAATTAA
4504126 AT
1 AT
4504128 TTAAATGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 4 0.14
29 23 0.82
31 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (30 bp):
ATAAATTAAATGAAATGAGAAAAAAATTAA
Found at i:4504110 original size:29 final size:27
Alignment explanation
Indices: 4504007--4504134 Score: 148
Period size: 27 Copynumber: 5.0 Consensus size: 27
4503997 TATTAAATTT
*
4504007 AAATG-GAAAAAAA-T-AATATAAATG
1 AAATGAGAAAAAAATTAAATTTAAATG
*
4504031 AAATGAGAAAAAAATTAAATTAAAATG
1 AAATGAGAAAAAAATTAAATTTAAATG
*
4504058 AAATGAG----AGA-TAAA-TTAAATG
1 AAATGAGAAAAAAATTAAATTTAAATG
4504079 AAATGAGAAAAAAATTTTAAATTTAAATG
1 AAATGAGAAAAAAA--TTAAATTTAAATG
4504108 AAATGAGAAAAAAATTAAATTTAAATG
1 AAATGAGAAAAAAATTAAATTTAAATG
4504135 GAAAAAATAA
Statistics
Matches: 88, Mismatches: 5, Indels: 19
0.79 0.04 0.17
Matches are distributed among these distances:
21 13 0.15
22 4 0.05
23 2 0.02
24 5 0.06
25 10 0.11
26 1 0.01
27 28 0.32
28 4 0.05
29 21 0.24
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (27 bp):
AAATGAGAAAAAAATTAAATTTAAATG
Found at i:4504119 original size:77 final size:74
Alignment explanation
Indices: 4503920--4504167 Score: 211
Period size: 77 Copynumber: 3.4 Consensus size: 74
4503910 TGAAATGAGA
* * * * * *
4503920 AAAAAAAAATTTAAATGAAATGAGAAAAAAA--TTAAATTTAAATTAAAAT-A-AAGATAATTTA
1 AAAAAATAATATAAATAAAATGAGAAAAAAATTTTAAATTTAAA-TGAAATGAGAA-AAAAATTA
4503981 AA-TAAAAT-G
64 AATTAAAATGG
* * *
4503990 AGGAAAAT-AT-TAAATTTAAATG-GAAAAAAA---T-AATATAAATGAAATGAGAAAAAAATTA
1 A-AAAAATAATATAAA-TAAAATGAGAAAAAAATTTTAAATTTAAATGAAATGAGAAAAAAATTA
4504048 AATTAAAAT-G
64 AATTAAAATGG
*
4504058 AAATGAGAGATAA-ATTAAATGAAATGAGAAAAAAATTTTAAATTTAAATGAAATGAGAAAAAAA
1 AAA--A-A-ATAATA-TAAATAAAATGAGAAAAAAATTTTAAATTTAAATGAAATGAGAAAAAAA
*
4504122 TTAAATTTAAATGG
61 TTAAATTAAAATGG
4504136 AAAAAATAATATAAATAAAATGAGAAAAAAAT
1 AAAAAATAATATAAATAAAATGAGAAAAAAAT
4504168 AAATTAAAAT
Statistics
Matches: 147, Mismatches: 12, Indels: 34
0.76 0.06 0.18
Matches are distributed among these distances:
66 5 0.03
67 17 0.12
68 11 0.07
69 13 0.09
70 10 0.07
71 6 0.04
72 7 0.05
73 12 0.08
74 24 0.16
75 2 0.01
76 2 0.01
77 34 0.23
78 4 0.03
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.25
Consensus pattern (74 bp):
AAAAAATAATATAAATAAAATGAGAAAAAAATTTTAAATTTAAATGAAATGAGAAAAAAATTAAA
TTAAAATGG
Found at i:4504140 original size:48 final size:48
Alignment explanation
Indices: 4503869--4504274 Score: 277
Period size: 48 Copynumber: 8.4 Consensus size: 48
4503859 AAATTAATAT
*
4503869 GAAAAAAATGTAAATTAAAATG-GAAAGAAAGAT-AATTTAAATGAAATGA
1 GAAAAAAAT-TAAA-TAAAATGAGAAA-AAAAATAAATTTAAATGAAATGA
* * *
4503918 GAAAAAAAAAATTTAAATGAAATGAGAAAAAAATTAAATTTAAATTAAAAT-A
1 G---AAAAAAA-TTAAATAAAATGAGAAAAAAAATAAATTTAAA-TGAAATGA
* * * * * *
4503970 -AAGATAATTTAAATAAAATGAGGAAAATATTAAATTTAAATGGAA--A
1 GAA-AAAAATTAAATAAAATGAGAAAAAAAATAAATTTAAATGAAATGA
* * * *
4504016 -AAAATAATATAAATGAAATGAGAAAAAAATTAAATTAAAATGAAATGA
1 GAAAAAAAT-TAAATAAAATGAGAAAAAAAATAAATTTAAATGAAATGA
* * * *
4504064 GAGATAAATTAAATGAAATGAGAAAAAAATTTTAAATTTAAATGAAATGA
1 GAAAAAAATTAAATAAAATGAGAAAAAAA--ATAAATTTAAATGAAATGA
* * *
4504114 GAAAAAAATTAAATTTAAATG-G--AAAAAAT-AATATAAATAAAATGA
1 GAAAAAAATTAAA-TAAAATGAGAAAAAAAATAAATTTAAATGAAATGA
* * * *
4504159 GAAAAAAA-TAAATTAAAATGGGAAGATAGATAAA-TTAAATGAAATGA
1 GAAAAAAATTAAA-TAAAATGAGAAAAAAAATAAATTTAAATGAAATGA
* *
4504206 GGAAAAAAATTAAATTTAAATG-GAAAAAATAT-AATTTAAATGAAATG-
1 -GAAAAAAATTAAA-TAAAATGAGAAAAAAAATAAATTTAAATGAAATGA
*
4504253 GAAATGAAAATGAAATGAAAAT
1 GAAA--AAAATTAAAT-AAAAT
4504275 TGAAATGAAA
Statistics
Matches: 291, Mismatches: 41, Indels: 51
0.76 0.11 0.13
Matches are distributed among these distances:
44 11 0.04
45 26 0.09
46 39 0.13
47 21 0.07
48 98 0.34
49 20 0.07
50 30 0.10
51 16 0.05
52 24 0.08
53 6 0.02
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.25
Consensus pattern (48 bp):
GAAAAAAATTAAATAAAATGAGAAAAAAAATAAATTTAAATGAAATGA
Found at i:4504157 original size:50 final size:50
Alignment explanation
Indices: 4504038--4504256 Score: 200
Period size: 50 Copynumber: 4.6 Consensus size: 50
4504028 ATGAAATGAG
* * *
4504038 AAAAA-AAT-TAAATTAAAATGAAATGAGAGATAAATTAAA-TGAAATGAGA
1 AAAAATAATATAAATT-AAATGAAATGAGAAAAAAATTAAATTTAAATG-GA
* *
4504087 AAAAA-ATTTTAAATTTAAATGAAATGAGAAAAAAATTAAATTTAAATGGA
1 AAAAATAATATAAA-TTAAATGAAATGAGAAAAAAATTAAATTTAAATGGA
*
4504137 AAAAATAATATAAA-T--A--AAATGAGAAAAAAA-TAAATTAAAATGG-
1 AAAAATAATATAAATTAAATGAAATGAGAAAAAAATTAAATTTAAATGGA
* * *
4504180 GAAGAT-AGATAAATTAAATGAAATGAGGAAAAAAATTAAATTTAAATGG-
1 AAAAATAATATAAATTAAATGAAATGA-GAAAAAAATTAAATTTAAATGGA
*
4504229 -AAAA-AATATAATTTAAATGAAATG-GAAA
1 AAAAATAATATAAATTAAATGAAATGAGAAA
4504257 TGAAAATGAA
Statistics
Matches: 144, Mismatches: 14, Indels: 27
0.78 0.08 0.15
Matches are distributed among these distances:
42 6 0.04
43 5 0.03
44 12 0.08
45 15 0.10
46 4 0.03
47 7 0.05
48 28 0.19
49 20 0.14
50 33 0.23
51 14 0.10
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.25
Consensus pattern (50 bp):
AAAAATAATATAAATTAAATGAAATGAGAAAAAAATTAAATTTAAATGGA
Found at i:4504196 original size:121 final size:120
Alignment explanation
Indices: 4503869--4504227 Score: 460
Period size: 121 Copynumber: 3.0 Consensus size: 120
4503859 AAATTAATAT
* * *
4503869 GAAAAAAATGTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAAA-AAATTTA
1 GAAAAAAAT-TAAATTTAAATGGAAA-AAA-ATAATATAAATGAAATGAGAAAAAAATAAATTAA
* * * * *
4503933 AATGAAATGAGAAAAAAATTAAATTTAAATTA-AAATAAAGA-T-AATTTAAATAAAATGA
63 AATGAAATGAGAGATAAATTAAA-TGAAATGAGAAA-AAA-ATTAAATTTAAATGAAATGA
* *
4503991 GGAAAATATTAAATTTAAATGGAAAAAAATAATATAAATGAAATGAGAAAAAAATTAAATTAAAA
1 GAAAAAAATTAAATTTAAATGGAAAAAAATAATATAAATGAAATGAGAAAAAAA-TAAATTAAAA
4504056 TGAAATGAGAGATAAATTAAATGAAATGAGAAAAAAATTTTAAATTTAAATGAAATGA
65 TGAAATGAGAGATAAATTAAATGAAATGAGAAAAAAA--TTAAATTTAAATGAAATGA
*
4504114 GAAAAAAATTAAATTTAAATGG-AAAAAATAATATAAATAAAATGAGAAAAAAATAAATTAAAAT
1 GAAAAAAATTAAATTTAAATGGAAAAAAATAATATAAATGAAATGAGAAAAAAATAAATTAAAAT
* *
4504178 GGGAA-GATAGATAAATTAAATGAAATGAGGAAAAAAATTAAATTTAAATG
66 -GAAATGAGAGATAAATTAAATGAAATGA-GAAAAAAATTAAATTTAAATG
4504228 GAAAAAATAT
Statistics
Matches: 213, Mismatches: 15, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
119 26 0.12
120 25 0.12
121 78 0.37
122 49 0.23
123 35 0.16
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.25
Consensus pattern (120 bp):
GAAAAAAATTAAATTTAAATGGAAAAAAATAATATAAATGAAATGAGAAAAAAATAAATTAAAAT
GAAATGAGAGATAAATTAAATGAAATGAGAAAAAAATTAAATTTAAATGAAATGA
Found at i:4504257 original size:11 final size:10
Alignment explanation
Indices: 4504243--4504316 Score: 85
Period size: 11 Copynumber: 6.8 Consensus size: 10
4504233 AATATAATTT
4504243 AAATGAAATGG
1 AAATGAAAT-G
4504254 AAATGAAAATG
1 AAATG-AAATG
4504265 AAATGAAAATTG
1 AAATG-AAA-TG
4504277 AAATGAAATG
1 AAATGAAATG
*
4504287 AAATAGAATTG
1 AAAT-GAAATG
4504298 AAATTGAAATG
1 AAA-TGAAATG
4504309 AAATGAAA
1 AAATGAAA
4504317 AAAAAAGGTG
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
10 11 0.19
11 34 0.60
12 12 0.21
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (10 bp):
AAATGAAATG
Found at i:4504261 original size:5 final size:5
Alignment explanation
Indices: 4504243--4504316 Score: 85
Period size: 5 Copynumber: 13.6 Consensus size: 5
4504233 AATATAATTT
4504243 AAATG AAATGG AAATG AAAATG AAATG AAAATTG AAATG AAATG AAATAG
1 AAATG AAAT-G AAATG -AAATG AAATG -AAA-TG AAATG AAATG AAAT-G
*
4504293 AATTG AAATTG AAATG AAATG AAA
1 AAATG AAA-TG AAATG AAATG AAA
4504317 AAAAAAGGTG
Statistics
Matches: 61, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
5 34 0.56
6 25 0.41
7 2 0.03
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (5 bp):
AAATG
Found at i:4504265 original size:17 final size:16
Alignment explanation
Indices: 4504243--4504316 Score: 87
Period size: 17 Copynumber: 4.5 Consensus size: 16
4504233 AATATAATTT
4504243 AAATGAAATGGAAATG
1 AAATGAAATGGAAATG
*
4504259 AAAATGAAATGAAAATTG
1 -AAATGAAATGGAAA-TG
4504277 AAATGAAAT-GAAATAG
1 AAATGAAATGGAAAT-G
* *
4504293 AATTGAAATTGAAATG
1 AAATGAAATGGAAATG
4504309 AAATGAAA
1 AAATGAAA
4504317 AAAAAAGGTG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
15 1 0.02
16 20 0.40
17 27 0.54
18 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (16 bp):
AAATGAAATGGAAATG
Found at i:4504549 original size:11 final size:11
Alignment explanation
Indices: 4504535--4504568 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
4504525 AAATTGACAA
4504535 AAAATTTAAAT
1 AAAATTTAAAT
*
4504546 AAAATATAAA-
1 AAAATTTAAAT
4504556 AAAATTTAAAT
1 AAAATTTAAAT
4504567 AA
1 AA
4504569 CCCTGATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAATTTAAAT
Found at i:4504713 original size:5 final size:5
Alignment explanation
Indices: 4504714--4504770 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
4504704 TAAATGAAAT
* * *
4504714 ATGAA TATGAA ATGAA ATGTAA TTTATA ATGAA TATGAA ACGAA ATGAA
1 ATGAA -ATGAA ATGAA ATG-AA ATGA-A ATGAA -ATGAA ATGAA ATGAA
4504763 ATGAA ATG
1 ATGAA ATG
4504771 GTGATTATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
5 26 0.62
6 16 0.38
ACGTcount: A:0.53, C:0.02, G:0.18, T:0.28
Consensus pattern (5 bp):
ATGAA
Found at i:4504713 original size:17 final size:16
Alignment explanation
Indices: 4504665--4504746 Score: 55
Period size: 17 Copynumber: 5.1 Consensus size: 16
4504655 TGTTAGAAAA
4504665 AAAT-AAATTTAAATG
1 AAATAAAATTTAAATG
*
4504680 AAA-AAAA-TT-AATA
1 AAATAAAATTTAAATG
4504693 AAATAAAATGTTAAATG
1 AAATAAAAT-TTAAATG
* *
4504710 AAATATGAATATGAAATG
1 AAATA-AAAT-TTAAATG
**
4504728 AAATGTAATTTATAATG
1 AAATAAAATTTA-AATG
4504745 AA
1 AA
4504747 TATGAAACGA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
13 6 0.12
14 6 0.12
15 6 0.12
16 4 0.08
17 17 0.33
18 13 0.25
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (16 bp):
AAATAAAATTTAAATG
Found at i:4504720 original size:28 final size:27
Alignment explanation
Indices: 4504664--4504720 Score: 62
Period size: 28 Copynumber: 2.0 Consensus size: 27
4504654 ATGTTAGAAA
*
4504664 AAAATAAATTTAAATGAAAAAAATTAAT
1 AAAATAAATTTAAATG-AAAAAATGAAT
*
4504692 AAAATAAAATGTTAAATG-AAATATGAAT
1 AAAAT-AAAT-TTAAATGAAAAAATGAAT
4504720 A
1 A
4504721 TGAAATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 14 0.56
29 4 0.16
30 7 0.28
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (27 bp):
AAAATAAATTTAAATGAAAAAATGAAT
Found at i:4504811 original size:27 final size:26
Alignment explanation
Indices: 4504780--4504861 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 26
4504770 GGTGATTATG
4504780 AAATTGAATAAAAGTTTAAATGAAAAT
1 AAATTGAATAAAA-TTTAAATGAAAAT
4504807 AAATT--AT-AAATTTAAATGAAAA-
1 AAATTGAATAAAATTTAAATGAAAAT
*
4504829 AAA-TGAAATAAAAAATTGAAATGATAAAT
1 AAATTG-AAT--AAAATTTAAATGA-AAAT
4504858 AAAT
1 AAAT
4504862 AAATTAAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 15
0.74 0.02 0.25
Matches are distributed among these distances:
21 1 0.02
22 3 0.07
23 12 0.27
24 5 0.11
25 2 0.04
27 16 0.36
28 3 0.07
29 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (26 bp):
AAATTGAATAAAATTTAAATGAAAAT
Found at i:4504841 original size:13 final size:14
Alignment explanation
Indices: 4504820--4504870 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 14
4504810 TTATAAATTT
4504820 AAATGAAAAAAATG
1 AAATGAAAAAAATG
*
4504834 AAAT-AAAAAATTG
1 AAATGAAAAAAATG
4504847 AAATGATAAATAAAT-
1 AAATGA-AAA-AAATG
*
4504862 AAATTAAAA
1 AAATGAAAA
4504871 TGGAAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 12 0.39
14 8 0.26
15 8 0.26
16 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.22
Consensus pattern (14 bp):
AAATGAAAAAAATG
Found at i:4504859 original size:20 final size:21
Alignment explanation
Indices: 4504834--4504892 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
4504824 GAAAAAAATG
*
4504834 AAATAAA-AAATTGAAATGAT
1 AAATAAATAAATTAAAATGAT
4504854 AAATAAATAAATTAAAATGGA-
1 AAATAAATAAATTAAAAT-GAT
*
4504875 AAAT--ATAAATTTAAATGA
1 AAATAAATAAATTAAAATGA
4504893 ATTGAAATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 2 0.06
19 11 0.31
20 7 0.20
21 13 0.37
22 2 0.06
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.27
Consensus pattern (21 bp):
AAATAAATAAATTAAAATGAT
Found at i:4504870 original size:27 final size:27
Alignment explanation
Indices: 4504803--4504884 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 27
4504793 GTTTAAATGA
*
4504803 AAATAAATTATAAATTTAAATGA-AAA-
1 AAATAAATTA-AAATTGAAATGATAAAT
*
4504829 AAATGAAATAAAAAATTGAAATGATAAAT
1 AAAT-AAAT-TAAAATTGAAATGATAAAT
*
4504858 AAATAAATTAAAATGGAAAAT-ATAAAT
1 AAATAAATTAAAATTG-AAATGATAAAT
4504885 TTAAATGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
26 4 0.09
27 27 0.57
28 12 0.26
29 4 0.09
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (27 bp):
AAATAAATTAAAATTGAAATGATAAAT
Found at i:4504889 original size:29 final size:27
Alignment explanation
Indices: 4504857--4504918 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
4504847 AAATGATAAA
4504857 TAAATAAATTAAAATGGAAAATATAAATT
1 TAAATAAATTAAAAT-GAAAAT-TAAATT
* * *
4504886 TAAATGAATTGAAATGTAAATTAAATT
1 TAAATAAATTAAAATGAAAATTAAATT
4504913 TGAAAT
1 T-AAAT
4504919 TCAAATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 7 0.24
28 9 0.31
29 13 0.45
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (27 bp):
TAAATAAATTAAAATGAAAATTAAATT
Found at i:4504924 original size:18 final size:19
Alignment explanation
Indices: 4504894--4504930 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
4504884 TTTAAATGAA
4504894 TTGAAATGTAAAT-TAAAT
1 TTGAAATGTAAATATAAAT
4504912 TTGAAAT-TCAAATATAAAT
1 TTGAAATGT-AAATATAAAT
4504931 AAAAAAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.06
18 11 0.65
19 5 0.29
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (19 bp):
TTGAAATGTAAATATAAAT
Found at i:4505428 original size:16 final size:16
Alignment explanation
Indices: 4505407--4505440 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4505397 TTACCCAATT
4505407 TTTTTAAATACTAGTA
1 TTTTTAAATACTAGTA
* *
4505423 TTTTTATATTCTAGTA
1 TTTTTAAATACTAGTA
4505439 TT
1 TT
4505441 ATACGATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (16 bp):
TTTTTAAATACTAGTA
Found at i:4511189 original size:13 final size:13
Alignment explanation
Indices: 4511171--4511197 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4511161 TGCAAGGAAG
4511171 TCCATTTAAAATA
1 TCCATTTAAAATA
4511184 TCCATTTAAAATA
1 TCCATTTAAAATA
4511197 T
1 T
4511198 AAGCCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (13 bp):
TCCATTTAAAATA
Found at i:4514776 original size:206 final size:205
Alignment explanation
Indices: 4514244--4514745 Score: 869
Period size: 206 Copynumber: 2.4 Consensus size: 205
4514234 TTGCTTCTTT
* * *
4514244 GATTTGTTCTCTGACAATACAGAGATAACAAATCATCTTAGATTTGCTTCAGTATAAACACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGA
*
4514309 AAGCCAAATCAGCTACGTCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAATCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCAC-AAGATGCCAAATCATCTTGGAT
* *
4514374 CTTGCTTCAGTCTAATCGTTTGAAGGTCAGATCTGCTATGTATCTGCTCTCTATTGAAGTAGAGA
130 CTTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTAGAGA
4514439 TGCCAGACTTC
195 TGCCAGACTTC
*
4514450 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGA
*
4514515 AATCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAA-GATGCCAAATCATCTTGGAT
* * * *
4514580 CTTGCTTCAGTCTAATTGTCTGAAGGTCAGATCTGCTGTGTATCTGCTCTCCATTTAAGTGGAGA
130 CTTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTAGAGA
4514645 TGCCAGACTTC
195 TGCCAGACTTC
*
4514656 GATTTGTTCTATGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGA
4514721 AAGCCAAATCAGCTATGTCTTCGAT
66 AAGCCAAATCAGCTATGTCTTCGAT
4514746 CTGCTCTCTG
Statistics
Matches: 280, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
205 2 0.01
206 278 0.99
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (205 bp):
GATTTGTTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATTGTAAACACGTGA
AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGATGCCAAATCATCTTGGATC
TTGCTTCAGTCTAATCGTCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTAGAGAT
GCCAGACTTC
Found at i:4520111 original size:27 final size:26
Alignment explanation
Indices: 4520094--4520161 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
4520084 ATATTAAGTC
*
4520094 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGATATAT-ATCAACT
*
4520121 CGCACACTTAGTGATATATAATCAAACT
1 CGCACACTCAGTGATATAT-ATC-AACT
*
4520149 CGCACACTTAGTG
1 CGCACACTCAGTG
4520162 CTGTACAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (26 bp):
CGCACACTCAGTGATATATATCAACT
Found at i:4520157 original size:28 final size:28
Alignment explanation
Indices: 4520094--4520191 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
4520084 ATATTAAGTC
*
4520094 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
4520121 CGCACACTTAGTGATATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
4520149 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
4520178 CGCACACTTAGTGC
1 CGCACACTTAGTGC
4520192 CAATCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.34
28 22 0.35
29 19 0.31
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:4520655 original size:12 final size:12
Alignment explanation
Indices: 4520638--4520663 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4520628 TGGGCATACT
4520638 TATGTATATATA
1 TATGTATATATA
4520650 TATGTATATATA
1 TATGTATATATA
4520662 TA
1 TA
4520664 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Done.