Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 99 of 198
Found at i:31765812 original size:3 final size:3
Alignment explanation
Indices: 31765804--31765830 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
31765794 TGATAAAGAA
31765804 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
31765831 GAAAAGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:31766049 original size:23 final size:22
Alignment explanation
Indices: 31766009--31766052 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
31765999 AAATTATAAA
*
31766009 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
31766031 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
31766053 TGTGAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:31766488 original size:15 final size:16
Alignment explanation
Indices: 31766470--31766502 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
31766460 AAATGTAAAA
31766470 AAATTTGAAAAT-AAT
1 AAATTTGAAAATGAAT
31766485 AAATTTGAAAATGAAT
1 AAATTTGAAAATGAAT
31766501 AA
1 AA
31766503 TAAGGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (16 bp):
AAATTTGAAAATGAAT
Found at i:31766792 original size:22 final size:21
Alignment explanation
Indices: 31766757--31766814 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
31766747 AAACGGTATC
* * *
31766757 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCAAAGAT
31766778 TACAAAATCATATCTTCAAAGAT
1 TAC-AAATCATATC-TCAAAGAT
* *
31766801 TGCATATCATATCT
1 TACAAATCATATCT
31766815 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCAAAGAT
Found at i:31768954 original size:27 final size:27
Alignment explanation
Indices: 31768923--31769046 Score: 126
Period size: 27 Copynumber: 4.7 Consensus size: 27
31768913 AACACGTCAA
* *
31768923 GAAAGAAAAGCCTTTATGGCGTAACAT
1 GAAAGAAAAGCCTTTGTGGCATAACAT
* * * *
31768950 GAAAGAAGAGCTTTTGCGGTATAACAT
1 GAAAGAAAAGCCTTTGTGGCATAACAT
*
31768977 GAAAGAAAAGCTTTTGTGGCATAACAT
1 GAAAGAAAAGCCTTTGTGGCATAACAT
* * *
31769004 GAAAG-AAAGCCTTCGCGGCATAATAT
1 GAAAGAAAAGCCTTTGTGGCATAACAT
* *
31769030 AAAAGAATA-CCTTTGTG
1 GAAAGAAAAGCCTTTGTG
31769047 AAAAAATCTT
Statistics
Matches: 79, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
26 27 0.34
27 52 0.66
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.24
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGCATAACAT
Found at i:31768984 original size:54 final size:53
Alignment explanation
Indices: 31768923--31769036 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 53
31768913 AACACGTCAA
* * * *
31768923 GAAAGAAAAGCCTTTATGGCGTAACATGAAAGAAGAGCTTTTGCGGTATAACAT
1 GAAAGAAAAGCCTTTATGGCATAACATGAAAGAA-AGCCTTCGCGGCATAACAT
* * *
31768977 GAAAGAAAAGCTTTTGTGGCATAACATGAAAGAAAGCCTTCGCGGCATAATAT
1 GAAAGAAAAGCCTTTATGGCATAACATGAAAGAAAGCCTTCGCGGCATAACAT
*
31769030 AAAAGAA
1 GAAAGAA
31769037 TACCTTTGTG
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 21 0.40
54 31 0.60
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (53 bp):
GAAAGAAAAGCCTTTATGGCATAACATGAAAGAAAGCCTTCGCGGCATAACAT
Found at i:31771266 original size:25 final size:25
Alignment explanation
Indices: 31771237--31771287 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
31771227 CATTTTTAAC
* *
31771237 TTTAGTTT-AATGTATTTCAGTTTGT
1 TTTAGTTTCAAT-TAGTTAAGTTTGT
31771262 TTTAGTTTCAATTAGTTAAGTTTGT
1 TTTAGTTTCAATTAGTTAAGTTTGT
31771287 T
1 T
31771288 CCTTTTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.22, C:0.04, G:0.16, T:0.59
Consensus pattern (25 bp):
TTTAGTTTCAATTAGTTAAGTTTGT
Found at i:31774884 original size:15 final size:15
Alignment explanation
Indices: 31774864--31774894 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31774854 GGCTAAGGTT
31774864 ATTGGGCTTAGGCTA
1 ATTGGGCTTAGGCTA
*
31774879 ATTGGGTTTAGGCTA
1 ATTGGGCTTAGGCTA
31774894 A
1 A
31774895 GGCTAATTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.10, G:0.32, T:0.35
Consensus pattern (15 bp):
ATTGGGCTTAGGCTA
Found at i:31774897 original size:21 final size:21
Alignment explanation
Indices: 31774868--31774910 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
31774858 AAGGTTATTG
*
31774868 GGCTTAGGCTAATTGGGTTTA
1 GGCTAAGGCTAATTGGGTTTA
31774889 GGCTAAGGCTAATTGGGTTTA
1 GGCTAAGGCTAATTGGGTTTA
31774910 G
1 G
31774911 TGTTTGGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.09, G:0.35, T:0.35
Consensus pattern (21 bp):
GGCTAAGGCTAATTGGGTTTA
Found at i:31775209 original size:16 final size:16
Alignment explanation
Indices: 31775174--31775216 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
31775164 GATATGAATA
*
31775174 ATTTTTATTTGTGTTC
1 ATTTTTATTTATGTTC
* *
31775190 ATTTTTATTTATTTTT
1 ATTTTTATTTATGTTC
31775206 ATTTTATATTT
1 ATTTT-TATTT
31775217 TTGATTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (16 bp):
ATTTTTATTTATGTTC
Found at i:31775234 original size:15 final size:15
Alignment explanation
Indices: 31775214--31775247 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
31775204 TTATTTTATA
31775214 TTTTTGATTAT-TTTG
1 TTTTTGATT-TGTTTG
31775229 TTTTTGATTTGTTTG
1 TTTTTGATTTGTTTG
31775244 TTTT
1 TTTT
31775248 GTTTTCTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.06
15 17 0.94
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (15 bp):
TTTTTGATTTGTTTG
Found at i:31789387 original size:27 final size:25
Alignment explanation
Indices: 31789306--31789372 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 25
31789296 GAGTATGAAA
31789306 TAATTTTT-TTTTAAATTTATTATT
1 TAATTTTTATTTTAAATTTATTATT
31789330 TAATCCTATTTTATTTTAAATTTATTATT
1 TAA---T-TTTTATTTTAAATTTATTATT
31789359 TAATTTTTATTTTA
1 TAATTTTTATTTTA
31789373 TAAATATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
24 3 0.08
25 10 0.26
26 1 0.03
27 1 0.03
28 4 0.11
29 19 0.50
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (25 bp):
TAATTTTTATTTTAAATTTATTATT
Found at i:31790139 original size:25 final size:25
Alignment explanation
Indices: 31790097--31790144 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
31790087 AGTTTAATTT
**
31790097 ATAATAAAAATATTATTTTTAAAAAC
1 ATAATAAAAATAACA-TTTTAAAAAC
31790123 ATAAT-AAAATAACATTTTAAAA
1 ATAATAAAAATAACATTTTAAAA
31790145 GTGATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 7 0.35
26 5 0.25
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
ATAATAAAAATAACATTTTAAAAAC
Found at i:31791916 original size:23 final size:23
Alignment explanation
Indices: 31791886--31791931 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
31791876 TCATCACTAT
31791886 CCAATTCCTCAATTTAAACATTC
1 CCAATTCCTCAATTTAAACATTC
31791909 CCAATTCCTCAATTTAAACATTC
1 CCAATTCCTCAATTTAAACATTC
31791932 AAATTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (23 bp):
CCAATTCCTCAATTTAAACATTC
Found at i:31804657 original size:151 final size:151
Alignment explanation
Indices: 31803804--31804918 Score: 1431
Period size: 152 Copynumber: 7.3 Consensus size: 151
31803794 TCGTATTTTA
* * *
31803804 GCCCTCTGTTCGTATTTTTTTCCCGGATTTTATTATTTTTAAAAAATATAATATTTTCTAATTTT
1 GCCCTTTGTTCGTA-TTTTTTCCCGGATTTTATTACTTTTAAAAAATATATTATTTTCTAATTTT
* * * *
31803869 TTTATTTTACATTATTTTAGTACATTATATTTTAAATGTATTAATTTAGTTTGTTTTTTAAATAA
65 ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAA
* * *
31803934 A--TTAAAAAATCTTTATTTCT
130 ATTTTAAAAAAACCTTATTTCG
* * * * *
31803954 GCCTTTTGTTCGTATTTTTTTTCTGGATTTTATTACTTTCAATAAAAATATATTATTTTTTAATT
1 GCCCTTTGTTCGTA-TTTTTTCCCGGATTTTATTACTTT-TA-AAAAATATATTATTTTCTAATT
* *
31804019 TTATTATTTTACATTATTTTAGTACATCAAGTTTGAAATGTATTAATTTAGTGT-TTTTTTAAAT
63 TTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAAT
31804083 AAATTTTAAAAAAAACCCCTTATTTCG
128 AAATTTT-AAAAAAA--CCTTATTTCG
* * *
31804110 GCCCTTTGTTCGTATTTTTTCCCCAGAGTTTATTAC-TTTAAAAAATATACTATTTTCTAATTTT
1 GCCCTTTGTTCGTATTTTTT-CCCGGATTTTATTACTTTTAAAAAATATATTATTTTCTAATTTT
* *
31804174 ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTGTTAATTTACTGTGTTTTTTAAATAA
65 ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAA
**
31804239 ATTTTAAAAAAATATTATTTCG
130 ATTTTAAAAAAACCTTATTTCG
* * * * *
31804261 GCCATTTATTCCTATTTTTTCCCCGGATTTTATTATTTTTTAAAAAATATAATTTTTTTTTCTAA
1 GCCCTTTGTTCGTATTTTTT-CCCGGATTTTATTA-CTTTTAAAAAATAT-A--TTATTTTCTAA
* * *
31804326 TTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATATATTAATTTACTGTGTTTTTTAA
61 TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAA
31804391 ATAAA-TTTAAAAAAAGCCTTATTTCG
126 ATAAATTTTAAAAAAA-CCTTATTTCG
* ** * *
31804417 GCCCTTTGTTCATATTTTTTTCCCTTAATTTTATTAC-TTTAAAAAAAATACTATTTTCTAATTT
1 GCCCTTTGTTCGTA-TTTTTTCCC-GGATTTTATTACTTTTAAAAAATATATTATTTTCTAATTT
* * *
31804481 TATTATTTTACATTATTTTAATACATTATGTTTTAAATGTATTCATTTAGTGTG-TTTTTAAATA
64 TATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATA
*
31804545 AATTTTTAAAAAAATTCTTATTTCG
129 AA-TTTTAAAAAAA-CCTTATTTCG
* * *
31804570 GCCCTTTATTCGTATTTTTT-CTGGATTTTATTACTTTCAATAAAA-ATATTATTTTCGT-ATTT
1 GCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTTAA-AAAATATATTATTTTC-TAATTT
* *
31804632 TATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATA
64 TATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATA
31804697 AATTTTAAAAAAACCATTATTTCG
129 AATTTTAAAAAAACC-TTATTTCG
* * *
31804721 GCCCTTTGTTCGTATTTTTCCCCGAATTTTATTACTTTTAAAAAATATAATATTTTCTAATTTTA
1 GCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTTAAAAAATATATTATTTTCTAATTTTA
* *
31804786 TTATTTTACATTATTTTAGTACATTATGTTTGATATGTATTCATTTAGTGTGTTTTTTAAATAAA
66 TTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAA
* *
31804851 TTTAAAAAAAAAACTTATTTCG
131 TTT-TAAAAAAACCTTATTTCG
* * * **
31804873 GCCATTTATTCGTATTTTTTACCAAATTTTATTACTTTTAATAAAA
1 GCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTTAA-AAAA
31804919 ACACACTAAA
Statistics
Matches: 845, Mismatches: 91, Indels: 55
0.85 0.09 0.06
Matches are distributed among these distances:
150 45 0.05
151 174 0.21
152 292 0.35
153 134 0.16
154 26 0.03
155 29 0.03
156 130 0.15
157 15 0.02
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.53
Consensus pattern (151 bp):
GCCCTTTGTTCGTATTTTTTCCCGGATTTTATTACTTTTAAAAAATATATTATTTTCTAATTTTA
TTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAA
TTTTAAAAAAACCTTATTTCG
Found at i:31804777 original size:303 final size:304
Alignment explanation
Indices: 31803804--31804918 Score: 1543
Period size: 303 Copynumber: 3.6 Consensus size: 304
31803794 TCGTATTTTA
* * * *
31803804 GCCCTCTGTTCGTATTTTTTTCCCGGATTTTATTATTTTTAAAAAATATAATATTTTCTAATTTT
1 GCCCTTTGTTCGTATTTTTTCCCCGAATTTTATTA-CTTTAAAAAATATAATATTTTCTAATTTT
* * * *
31803869 TTTATTTTACATTATTTTAGTACATTATATTTTAAATGTATTAATTTAGTTTGTTTTTTAAATAA
65 ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAA
* * * * *
31803934 A--TT-AAAAAATCTTTATTTCTGCCTTTTGTTCGTATTTTTTTTCTGGATTTTATTACTTTCAA
130 ATTTTAAAAAAATC-TTATTTCGGCCATTTATTCGTA-TTTTTTCCCGGATTTTATTACTTTCAA
* * *
31803996 TAAAAATATATTATTTTTTAATTTTATTATTTTACATTATTTTAGTACATCAAGTTTGAAATGTA
193 T-AAAATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTA
*
31804061 TTAATTTAGTGT-TTTTTTAAATAAATTTTAAAAAAAACCCCTTATTTCG
257 TTAATTTACTGTGTTTTTTAAATAAATTTT-AAAAAAA-CCCTTATTTCG
* *
31804110 GCCCTTTGTTCGTATTTTTTCCCC-AGAGTTTATTACTTTAAAAAATATACTATTTTCTAATTTT
1 GCCCTTTGTTCGTATTTTTTCCCCGA-ATTTTATTACTTTAAAAAATATAATATTTTCTAATTTT
* *
31804174 ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTGTTAATTTACTGTGTTTTTTAAATAA
65 ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAA
* * * *
31804239 ATTTTAAAAAAATATTATTTCGGCCATTTATTCCTATTTTTTCCCCGGATTTTATTATTTTTTAA
130 ATTTTAAAAAAATCTTATTTCGGCCATTTATTCGTATTTTTT-CCCGGATTTTATTA-CTTTCAA
* * *
31804304 -AAAATATAATTTTTTTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATATTTGAAATA
193 TAAAATAT-A--TTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATG
*
31804368 TATTAATTTACTGTGTTTTTTAAATAAA-TTTAAAAAAAGCCTTATTTCG
255 TATTAATTTACTGTGTTTTTTAAATAAATTTTAAAAAAACCCTTATTTCG
* ** * *
31804417 GCCCTTTGTTCATATTTTTTTCCCTTAATTTTATTACTTTAAAAAAAATACTATTTTCTAATTTT
1 GCCCTTTGTTCGTA-TTTTTTCCCCGAATTTTATTACTTTAAAAAATATAATATTTTCTAATTTT
* * *
31804482 ATTATTTTACATTATTTTAATACATTATGTTTTAAATGTATTCATTTAGTGTG-TTTTTAAATAA
65 ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAA
* *
31804546 ATTTTTAAAAAAATTCTTATTTCGGCCCTTTATTCGTATTTTTT-CTGGATTTTATTACTTTCAA
130 A-TTTTAAAAAAA-TCTTATTTCGGCCATTTATTCGTATTTTTTCCCGGATTTTATTACTTTCAA
*
31804610 TAAAA-ATATTATTTTCGT-ATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTA
193 TAAAATATATTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTA
*
31804673 TTAATTTACTGTGTTTTTTAAATAAATTTTAAAAAAACCATTATTTCG
257 TTAATTTACTGTGTTTTTTAAATAAATTTTAAAAAAACCCTTATTTCG
31804721 GCCCTTTGTTCGTA-TTTTTCCCCGAATTTTATTACTTTTAAAAAATATAATATTTTCTAATTTT
1 GCCCTTTGTTCGTATTTTTTCCCCGAATTTTATTAC-TTTAAAAAATATAATATTTTCTAATTTT
* *
31804785 ATTATTTTACATTATTTTAGTACATTATGTTTGATATGTATTCATTTAGTGTGTTTTTTAAATAA
65 ATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAA
* * * ** *
31804850 ATTTAAAAAAAAAACTTATTTCGGCCATTTATTCGTATTTTTTACCAAATTTTATTACTTTTAAT
130 ATTT-TAAAAAAATCTTATTTCGGCCATTTATTCGTATTTTTTCCCGGATTTTATTACTTTCAAT
31804915 AAAA
194 AAAA
31804919 ACACACTAAA
Statistics
Matches: 723, Mismatches: 65, Indels: 44
0.87 0.08 0.05
Matches are distributed among these distances:
302 19 0.03
303 182 0.25
304 73 0.10
305 88 0.12
306 50 0.07
307 84 0.12
308 123 0.17
309 91 0.13
310 13 0.02
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.53
Consensus pattern (304 bp):
GCCCTTTGTTCGTATTTTTTCCCCGAATTTTATTACTTTAAAAAATATAATATTTTCTAATTTTA
TTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAA
TTTTAAAAAAATCTTATTTCGGCCATTTATTCGTATTTTTTCCCGGATTTTATTACTTTCAATAA
AATATATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAA
TTTACTGTGTTTTTTAAATAAATTTTAAAAAAACCCTTATTTCG
Found at i:31804963 original size:18 final size:18
Alignment explanation
Indices: 31804942--31804976 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31804932 ATACATTTTA
* *
31804942 AATATAATATACTAAAAT
1 AATATAAAATAATAAAAT
31804960 AATATAAAATAATAAAA
1 AATATAAAATAATAAAA
31804977 CTAAAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
AATATAAAATAATAAAAT
Found at i:31808055 original size:18 final size:20
Alignment explanation
Indices: 31808019--31808056 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
31808009 ACAATTTTTT
31808019 TCTTTTATTTTCTCCCTAAA
1 TCTTTTATTTTCTCCCTAAA
31808039 TCTTTTA-TTTC-CCCTAAA
1 TCTTTTATTTTCTCCCTAAA
31808057 AAAATTTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (20 bp):
TCTTTTATTTTCTCCCTAAA
Found at i:31808213 original size:9 final size:9
Alignment explanation
Indices: 31808201--31808262 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
31808191 AATTTATGTC
31808201 TATTATTTA
1 TATTATTTA
*
31808210 TATTATTGA
1 TATTATTTA
31808219 -ATTAAATTTCA
1 TATT--ATTT-A
31808230 TA-T-TTTA
1 TATTATTTA
*
31808237 TACTATTTA
1 TATTATTTA
31808246 TATTATTTA
1 TATTATTTA
31808255 -ATTATTTA
1 TATTATTTA
31808263 ATCGTTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
7 3 0.07
8 15 0.34
9 20 0.45
10 3 0.07
11 2 0.05
12 1 0.02
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (9 bp):
TATTATTTA
Found at i:31808260 original size:17 final size:17
Alignment explanation
Indices: 31808202--31808262 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
31808192 ATTTATGTCT
*
31808202 ATTATTTATATTATTGA
1 ATTATTTATATTATTTA
31808219 ATTAAATTTCATA-T-TTTA
1 ATT--ATTT-ATATTATTTA
*
31808237 TACTATTTATATTATTTA
1 -ATTATTTATATTATTTA
31808255 ATTATTTA
1 ATTATTTA
31808263 ATCGTTATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
16 3 0.09
17 15 0.43
18 7 0.20
19 7 0.20
20 3 0.09
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTATTTATATTATTTA
Found at i:31818581 original size:19 final size:18
Alignment explanation
Indices: 31818541--31818588 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
31818531 GAAATTAAGG
31818541 GTTT-AGAG-TTTAAGAA
1 GTTTGAGAGATTTAAGAA
31818557 GTTTTGAGAGATTTAAGAGA
1 G-TTTGAGAGATTTAAGA-A
*
31818577 GTTTGAGGGATT
1 GTTTGAGAGATT
31818589 AGGGGTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 1 0.04
17 3 0.11
18 4 0.15
19 17 0.63
20 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (18 bp):
GTTTGAGAGATTTAAGAA
Found at i:31825188 original size:19 final size:21
Alignment explanation
Indices: 31825148--31825188 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
31825138 GGAATTTTAG
31825148 TTGATCAAGGGATTAATTAAGT
1 TTGATCAAGGGATT-ATTAAGT
31825170 TTGATCAAGGG-TT-TTAAGT
1 TTGATCAAGGGATTATTAAGT
31825189 GATAACTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
21 2 0.11
22 11 0.58
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (21 bp):
TTGATCAAGGGATTATTAAGT
Found at i:31826405 original size:75 final size:75
Alignment explanation
Indices: 31826282--31826526 Score: 463
Period size: 75 Copynumber: 3.3 Consensus size: 75
31826272 TGGCCAAGCT
*
31826282 ATTTGTTGTGTAGGTTTAACTCGGATGGGGTTACTAGACACTATTGTTTATGAATAGCTTAGACG
1 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGACACTATTGTTTATGAATAGCTTAGACG
31826347 AGCAATTTTC
66 AGCAATTTTC
* *
31826357 ATTTGTTGTGTAGATTTAACTCGGACGGGGTTACTAGACACTATTGTTTATGAATAACTTAGACG
1 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGACACTATTGTTTATGAATAGCTTAGACG
31826422 AGCAATTTTC
66 AGCAATTTTC
31826432 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGACACTATTGTTTATGAATAGCTTAGACG
1 ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGACACTATTGTTTATGAATAGCTTAGACG
31826497 AGCAATTTTC
66 AGCAATTTTC
31826507 ATTTGTTGTGTAGGTTTAAC
1 ATTTGTTGTGTAGGTTTAAC
31826527 CCAAATGGGT
Statistics
Matches: 165, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 165 1.00
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (75 bp):
ATTTGTTGTGTAGGTTTAACTCGGACGGGGTTACTAGACACTATTGTTTATGAATAGCTTAGACG
AGCAATTTTC
Found at i:31828117 original size:83 final size:83
Alignment explanation
Indices: 31827978--31828138 Score: 277
Period size: 83 Copynumber: 1.9 Consensus size: 83
31827968 CCAAAAGTTC
**
31827978 TGGAATGATTGACATCCACCGCTTCTTGGACTTCTTGACCATGGTTTAATCACCATTTTGGCCCC
1 TGGAATGATTGACATCCACCGCCACTTGGACTTCTTGACCATGGTTTAATCACCATTTTGGCCCC
31828043 TTTAATATTTTAAGTTAG
66 TTTAATATTTTAAGTTAG
* *
31828061 TGGAATGATTGACATCCACCGCCACTTGGACTTCTTGATCATGGTTTAATCACCATTTTGGTCCC
1 TGGAATGATTGACATCCACCGCCACTTGGACTTCTTGACCATGGTTTAATCACCATTTTGGCCCC
*
31828126 TTTACTATTTTAA
66 TTTAATATTTTAA
31828139 ATCTAGCAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (83 bp):
TGGAATGATTGACATCCACCGCCACTTGGACTTCTTGACCATGGTTTAATCACCATTTTGGCCCC
TTTAATATTTTAAGTTAG
Found at i:31833916 original size:38 final size:38
Alignment explanation
Indices: 31833865--31833940 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
31833855 TTAATCAATA
* * *
31833865 ACGATTAACTTTTATAAATTTTATGATTTAGTCCTTTT
1 ACGATTAACTTTTACAAATTTTACGATTTAGTCATTTT
* * *
31833903 ACGATTAAGTTTTACGACTTTTACGATTTAGTCATTTT
1 ACGATTAACTTTTACAAATTTTACGATTTAGTCATTTT
31833941 TCTTTAATTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.50
Consensus pattern (38 bp):
ACGATTAACTTTTACAAATTTTACGATTTAGTCATTTT
Found at i:31834936 original size:19 final size:18
Alignment explanation
Indices: 31834913--31835007 Score: 58
Period size: 18 Copynumber: 5.3 Consensus size: 18
31834903 ATGTGGTTCA
31834913 AAAAATTATAAAACTTATT
1 AAAAATTATAAAA-TTATT
*
31834932 GAAAA-TATAAAATT-TT
1 AAAAATTATAAAATTATT
31834948 AAATAATT-TAAATAATTATT
1 AAA-AATTAT-AA-AATTATT
*
31834968 TAAAATTATAATAA-TA-T
1 AAAAATTATAA-AATTATT
* *
31834985 AGAAAAATATTAAA-TATT
1 A-AAAATTATAAAATTATT
31835003 AAAAA
1 AAAAA
31835008 CTGGATATTC
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
16 4 0.06
17 14 0.23
18 22 0.35
19 17 0.27
20 5 0.08
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (18 bp):
AAAAATTATAAAATTATT
Found at i:31836986 original size:43 final size:43
Alignment explanation
Indices: 31836765--31836972 Score: 267
Period size: 43 Copynumber: 4.8 Consensus size: 43
31836755 TTTTATAAAT
* *
31836765 AAACGCCGCTATAGATCAGGACCTTTAGC-AGCGC-TTTTGCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGA-CGCTTTTTCCAC
*
31836807 AAACGCCGCTATAGATCAAGACCTTTAGCGTCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTTCCAC
* * * *
31836850 AAATGTCGCTATAGCTTAAGACCTTTAGCGACGCTTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGC-TTTTTCCAC
** * * *
31836894 AAACGTGGTTATAGATCAATACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTTCCAC
*
31836937 AAACGCCGCTATAGATCAAGACCCTTAGCGACGCTT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTT
31836973 CTCGCAAAAA
Statistics
Matches: 142, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
42 31 0.22
43 75 0.53
44 36 0.25
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGACGCTTTTTCCAC
Found at i:31838434 original size:40 final size:40
Alignment explanation
Indices: 31838371--31838455 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
31838361 TAGCTTGAAT
* * *
31838371 ATCAACACTTCAATATTTAATATGTAAGGAATTATCAAAA
1 ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
* *
31838411 ATCAACATTTCAATAATTT-ATATGCAAGAAATTAACACAA
1 ATCAACACTTCAAT-ATTTAATATGCAAGAAATTAACAAAA
31838451 ATCAA
1 ATCAA
31838456 TGGTTCAAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 35 0.90
41 4 0.10
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (40 bp):
ATCAACACTTCAATATTTAATATGCAAGAAATTAACAAAA
Found at i:31838575 original size:86 final size:86
Alignment explanation
Indices: 31838428--31838592 Score: 240
Period size: 86 Copynumber: 1.9 Consensus size: 86
31838418 TTTCAATAAT
* * * * * *
31838428 TTATATGCAAGAAATTAACACAAATCAATGGTTCAAGTTCATGTATTTACCAAAAATCAGACTAA
1 TTATAAGCAACAAATTAACAAAAATAAATGGTTCAAGTTCATGCATTTACCAAAAAGCAGACTAA
*
31838493 TTTTTCAATATTTATAACAAC
66 ATTTTCAATATTTATAACAAC
* *
31838514 TTATAAGCAACAAATTAGCAAAAATAAATGGTTCAAGTTCATGCATTTACCAACAAGCAGACTAA
1 TTATAAGCAACAAATTAACAAAAATAAATGGTTCAAGTTCATGCATTTACCAAAAAGCAGACTAA
*
31838579 ATTTTCAATTTTTA
66 ATTTTCAATATTTA
31838593 AAACCCCAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (86 bp):
TTATAAGCAACAAATTAACAAAAATAAATGGTTCAAGTTCATGCATTTACCAAAAAGCAGACTAA
ATTTTCAATATTTATAACAAC
Found at i:31838836 original size:259 final size:252
Alignment explanation
Indices: 31838374--31838851 Score: 584
Period size: 259 Copynumber: 1.9 Consensus size: 252
31838364 CTTGAATATC
* * * *
31838374 AACACTTCAATATTTAATATGTAAGGAATTATCAAAAATCAACATTTCAATAATTTATATGCAAG
1 AACACTTCAATATTTAATATGTAAGGAATTATAAAAAATCAACATTTCAACAATTTACATGCAAA
* ** * * *
31838439 AAATTAACACAAATCAATGGTTCAAGTTCATGTATTTACCAAAAATCAGACTAATTTTTCAATAT
66 AAATTAACAAAAATCAACAGTTCAAGTTCATGTATTTACCAAAAATCAGACCAACTTGTCAATAT
* *** * * *
31838504 TTATAACAACTTATAAGCAACAAATTAGCAAAAATAAATGGTTCAAGTTCATGCATTTACCAACA
131 TTATAACAACTTATAAACAACAAATTAGCAAAAATAAACAATTCAAGTTCATACATTCACCAAAA
* *
31838569 AGCAGACTAAATTTTCAATTTTTAAAACCCCAAACCTATTTTGGGTAACATTGGTAG
196 ACCAGACTAAAATTTCAATTTTTAAAACCCCAAACCTATTTTGGGTAACATTGGTAG
* *
31838626 AACATTTCAATATTTAATATGTAAGGAGA-TATAAAAAATCATCATTTCAACAATTTACATGCAA
1 AACACTTCAATATTTAATATGTAAGGA-ATTATAAAAAATCAACATTTCAACAATTTACATGCAA
* *
31838690 AAAATTAGCAAAAATTAACAGTTCAAGTTCATGTATAATGTATTTACCAAAAA-CTAGACCAACT
65 AAAATTAACAAAAATCAACAGTTCAAGTTC-------ATGTATTTACCAAAAATC-AGACCAACT
* ** * * *
31838754 TGTCAATTTTTATAACATTTTA-AATACAACAAATTAGCACAAATTAACAATTCAAGTTCATATA
122 TGTCAATATTTATAACAACTTATAA-ACAACAAATTAGCAAAAATAAACAATTCAAGTTCATACA
31838818 TTCACCAAAAACCAGACTAAAATTTCAATTTTTA
186 TTCACCAAAAACCAGACTAAAATTTCAATTTTTA
31838852 TAAAATAAGA
Statistics
Matches: 187, Mismatches: 29, Indels: 13
0.82 0.13 0.06
Matches are distributed among these distances:
252 81 0.43
253 1 0.01
258 3 0.02
259 102 0.55
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.32
Consensus pattern (252 bp):
AACACTTCAATATTTAATATGTAAGGAATTATAAAAAATCAACATTTCAACAATTTACATGCAAA
AAATTAACAAAAATCAACAGTTCAAGTTCATGTATTTACCAAAAATCAGACCAACTTGTCAATAT
TTATAACAACTTATAAACAACAAATTAGCAAAAATAAACAATTCAAGTTCATACATTCACCAAAA
ACCAGACTAAAATTTCAATTTTTAAAACCCCAAACCTATTTTGGGTAACATTGGTAG
Found at i:31841570 original size:19 final size:18
Alignment explanation
Indices: 31841548--31841595 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
31841538 AAAATTATAA
*
31841548 ATTTTAGTTTTTTTATTTC
1 ATTTTA-TTTTTGTATTTC
*
31841567 ATTTTTATTTTTGTATTTT
1 A-TTTTATTTTTGTATTTC
31841586 ATTTTTATTT
1 A-TTTTATTT
31841596 CTTATAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (18 bp):
ATTTTATTTTTGTATTTC
Found at i:31842014 original size:21 final size:21
Alignment explanation
Indices: 31841976--31842046 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
31841966 CCCTTAAATC
* *
31841976 CCTAAACCCTAAATCTCTAACT
1 CCTAACCCCT-AACCTCTAACT
* *
31841998 CTTAACCCCTAACCTCTAACC
1 CCTAACCCCTAACCTCTAACT
*
31842019 CCTAACCCCTAACCT-TAAAT
1 CCTAACCCCTAACCTCTAACT
31842039 CCTAACCC
1 CCTAACCC
31842047 TTAAACTATA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 11 0.26
21 23 0.55
22 8 0.19
ACGTcount: A:0.32, C:0.44, G:0.00, T:0.24
Consensus pattern (21 bp):
CCTAACCCCTAACCTCTAACT
Found at i:31842017 original size:14 final size:14
Alignment explanation
Indices: 31842000--31842032 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
31841990 CTCTAACTCT
*
31842000 TAACCCCTAACCTC
1 TAACCCCTAACCCC
31842014 TAACCCCTAACCCC
1 TAACCCCTAACCCC
31842028 TAACC
1 TAACC
31842033 TTAAATCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.30, C:0.52, G:0.00, T:0.18
Consensus pattern (14 bp):
TAACCCCTAACCCC
Found at i:31842076 original size:14 final size:15
Alignment explanation
Indices: 31842029--31842085 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 15
31842019 CCTAACCCCT
*
31842029 AACCTTAAATCC-T-
1 AACCCTAAATCCATA
*
31842042 AACCCTTAAA-CTATA
1 AACCC-TAAATCCATA
*
31842057 ATCCCT-AATCCATA
1 AACCCTAAATCCATA
31842071 AACCCTAAATCCATA
1 AACCCTAAATCCATA
31842086 CTCACTAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
13 7 0.21
14 15 0.44
15 12 0.35
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
AACCCTAAATCCATA
Found at i:31842568 original size:41 final size:41
Alignment explanation
Indices: 31842473--31842828 Score: 350
Period size: 41 Copynumber: 8.9 Consensus size: 41
31842463 AATATTTTTT
****
31842473 GCGGCGCTTTTTCAAAAACGCCGCTAAA-AATAGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * *
31842513 GTGGCGCTTATTCAAAAACGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * *
31842554 GCGACACTTTTTCAAAAATGTCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
31842595 GCAGCGCTTTTCCAAAAACGCCGCTAAAG---C---CATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * * *
31842630 GCGGCGCTTTTCCAAAAACGTCGTTAAAGGCCCAAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
31842671 GCGGCGC-TTTTCGAAAAATGCCGTTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAAGCCCCGAGCATTA
* * * **
31842712 GCGGCGCTTCTTCAAAAATGCCGCTATAGCCTTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* **
31842753 GTGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCTTGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * * *
31842794 GTGACGCTTTCTGAAAAACGCCACTAAAGCCCCGA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGA
31842829 AAACTCAAAA
Statistics
Matches: 262, Mismatches: 45, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
35 31 0.12
38 2 0.01
40 30 0.11
41 195 0.74
42 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:31842671 original size:76 final size:76
Alignment explanation
Indices: 31842549--31842701 Score: 207
Period size: 76 Copynumber: 2.0 Consensus size: 76
31842539 AAGACCCGAG
* * *
31842549 CATTAGCGACACTTTTTCAAAAATGTCGCTAAAGCCCCGAGCATTAGCAGCGCTTTTCCAAAAAC
1 CATTAGCGACACTTTTCCAAAAACGTCGCTAAAGCCCCAAGCATTAGCAGCGCTTTTCCAAAAAC
31842614 GCCGCTAAAGC
66 GCCGCTAAAGC
* * * * * * *
31842625 CATTAGCGGCGCTTTTCCAAAAACGTCGTTAAAGGCCCAAGCATTAGCGGCGCTTTTCGAAAAAT
1 CATTAGCGACACTTTTCCAAAAACGTCGCTAAAGCCCCAAGCATTAGCAGCGCTTTTCCAAAAAC
*
31842690 GCCGTTAAAGC
66 GCCGCTAAAGC
31842701 C
1 C
31842702 CCGAGCATTA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
76 66 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (76 bp):
CATTAGCGACACTTTTCCAAAAACGTCGCTAAAGCCCCAAGCATTAGCAGCGCTTTTCCAAAAAC
GCCGCTAAAGC
Found at i:31842688 original size:117 final size:116
Alignment explanation
Indices: 31842476--31842828 Score: 332
Period size: 117 Copynumber: 2.9 Consensus size: 116
31842466 ATTTTTTGCG
* *
31842476 GCGCTTTTTCAAAAACGCCGCTAAAAATAGAGCATTAGTGGCGCTTATTCAAAAACGCCGCTAAA
1 GCGC-TTTTCAAAAACGCCGCT---AA-AG-CCATTAGCGGCGCTTATTCAAAAACGCCGCTAAA
* *
31842541 GACCCGAGCATTAGCGACACTTTTTCAAAAATGTCGCTAAAGCCCCGAGCATTAGCA
60 GACCCAAGCATTAGCGACACTTTTTCAAAAATGCCGCTAAAGCCCCGAGCATTAGCA
* * *
31842598 GCGCTTTTCCAAAAACGCCGCTAAAGCCATTAGCGGCGCTT-TTCCAAAAACGTCGTTAAAGGCC
1 GCGCTTTT-CAAAAACGCCGCTAAAGCCATTAGCGGCGCTTATT-CAAAAACGCCGCTAAAGACC
* * * *
31842662 CAAGCATTAGCGGCGC-TTTTCGAAAAATGCCGTTAAAGCCCCGAGCATTAGCG
64 CAAGCATTAGCGACACTTTTTC-AAAAATGCCGCTAAAGCCCCGAGCATTAGCA
* * * *
31842715 GCGCTTCTTCAAAAATGCCGCTATAGCCTTGAGCATTAGTGGCGCTTTTTCAAAAACGCCGCTAA
1 GCGCTT-TTCAAAAACGCCGCTAAAG-C-----CATTAGCGGCGCTTATTCAAAAACGCCGCTAA
* ** * * * * * *
31842780 AGCCCCTTGCATTAGTGACGCTTTCTGAAAAACGCCACTAAAGCCCCGA
59 AGACCCAAGCATTAGCGACACTTTTTCAAAAATGCCGCTAAAGCCCCGA
31842829 AAACTCAAAA
Statistics
Matches: 193, Mismatches: 26, Indels: 23
0.80 0.11 0.10
Matches are distributed among these distances:
116 7 0.04
117 92 0.48
118 5 0.03
119 2 0.01
121 4 0.02
122 17 0.09
123 61 0.32
124 5 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (116 bp):
GCGCTTTTCAAAAACGCCGCTAAAGCCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCCA
AGCATTAGCGACACTTTTTCAAAAATGCCGCTAAAGCCCCGAGCATTAGCA
Found at i:31842947 original size:40 final size:40
Alignment explanation
Indices: 31842903--31842989 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
31842893 ATTTTTAGCA
* *
31842903 GCGTTTTCCAAAAAGCGCCGCTAATACTCGATCTTTAGTG
1 GCGTTTTCCAAAAAGCACCGATAATACTCGATCTTTAGTG
*** * *
31842943 GCGTTTTTTTAAAAGCACCGATAATGCTTGATCTTTAGTG
1 GCGTTTTCCAAAAAGCACCGATAATACTCGATCTTTAGTG
31842983 GCGTTTT
1 GCGTTTT
31842990 GTATCCAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (40 bp):
GCGTTTTCCAAAAAGCACCGATAATACTCGATCTTTAGTG
Found at i:31846082 original size:18 final size:17
Alignment explanation
Indices: 31846051--31846084 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
31846041 ATTACGAAAA
*
31846051 TTTAAAAAATTAAAATT
1 TTTAAAAAACTAAAATT
31846068 TTTAAAAAACCTAAAAT
1 TTTAAAAAA-CTAAAAT
31846085 GTTATATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
TTTAAAAAACTAAAATT
Found at i:31846213 original size:9 final size:9
Alignment explanation
Indices: 31846196--31846307 Score: 54
Period size: 9 Copynumber: 12.4 Consensus size: 9
31846186 CATGGTTCAA
31846196 AAAAATTAT
1 AAAAATTAT
*
31846205 AAAACTTATT
1 AAAAATTA-T
*
31846215 GAAAA-TAT
1 AAAAATTAT
*
31846223 -AAAATTGT
1 AAAAATTAT
31846231 AAATAATTAT
1 AAA-AATTAT
31846241 AAAAAATTA-
1 -AAAAATTAT
* *
31846250 AATAATTTT
1 AAAAATTAT
*
31846259 AATAATTATT
1 AAAAATTA-T
* *
31846269 TAAAATCAT
1 AAAAATTAT
*
31846278 AATAA-TAT
1 AAAAATTAT
*
31846286 AAAAAATAT
1 AAAAATTAT
31846295 AAAATATTA-
1 AAAA-ATTAT
31846304 AAAA
1 AAAA
31846308 CTAGATATTC
Statistics
Matches: 78, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
7 4 0.05
8 15 0.19
9 33 0.42
10 23 0.29
11 3 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:31846240 original size:27 final size:26
Alignment explanation
Indices: 31846197--31846288 Score: 62
Period size: 27 Copynumber: 3.4 Consensus size: 26
31846187 ATGGTTCAAA
* *
31846197 AAAATTATAAA-ACTTATTGAAAATAT
1 AAAATT-TAAATAATTATTAAAAATAT
*
31846223 AAAATTGTAAATAATTATAAAAAAT-T
1 AAAATT-TAAATAATTATTAAAAATAT
* *
31846249 AAATAATTTTAATAATTATTTAAAATCAT
1 -AA-AATTTAAATAATTATTAAAAAT-AT
*
31846278 AATAATATAAA
1 AA-AATTTAAA
31846289 AAATATAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
26 11 0.21
27 27 0.52
28 13 0.25
29 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
AAAATTTAAATAATTATTAAAAATAT
Found at i:31846300 original size:16 final size:19
Alignment explanation
Indices: 31846270--31846307 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
31846260 ATAATTATTT
31846270 AAAATCATAATAATA-TAA
1 AAAATCATAATAATATTAA
31846288 AAAAT-ATAA-AATATTAA
1 AAAATCATAATAATATTAA
31846305 AAA
1 AAA
31846308 CTAGATATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 10 0.53
18 5 0.26
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAATCATAATAATATTAA
Found at i:31848431 original size:22 final size:21
Alignment explanation
Indices: 31848398--31848438 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
31848388 AAGAGTTTTC
31848398 AAAATATAT-AAATAAAATTT
1 AAAATATATAAAATAAAATTT
31848418 AAAATATATTTAAAATAAAAT
1 AAAATATA--TAAAATAAAAT
31848439 ATTTATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
22 1 0.06
23 9 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATATATAAAATAAAATTT
Found at i:31848450 original size:15 final size:14
Alignment explanation
Indices: 31848423--31848465 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
31848413 AATTTAAAAT
31848423 ATATTTAAAATAAA
1 ATATTTAAAATAAA
*
31848437 ATATTTATAAATAAT
1 ATATTTA-AAATAAA
* *
31848452 AGATTTCAAATAAA
1 ATATTTAAAATAAA
31848466 TAAACAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (14 bp):
ATATTTAAAATAAA
Found at i:31856946 original size:6 final size:7
Alignment explanation
Indices: 31856928--31856953 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31856918 TTTAATGTCT
31856928 TAAAAAA
1 TAAAAAA
31856935 TAAAAAA
1 TAAAAAA
31856942 TAAAAAA
1 TAAAAAA
31856949 TAAAA
1 TAAAA
31856954 TTATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:31861497 original size:32 final size:32
Alignment explanation
Indices: 31861451--31861558 Score: 123
Period size: 32 Copynumber: 3.5 Consensus size: 32
31861441 CTTTAGATAA
*
31861451 GAAAGCCTTTGTGGCGAGTACTGGATGTAAAG
1 GAAAACCTTTGTGGCGAGTACTGGATGTAAAG
* ** * * *
31861483 GACAACCTTTGTGGC-AAAACT--TTGGACAG
1 GAAAACCTTTGTGGCGAGTACTGGATGTAAAG
31861512 GAAAACCTTTGTGGCGAGTACTGGATGTAAAG
1 GAAAACCTTTGTGGCGAGTACTGGATGTAAAG
*
31861544 GATAACCTTTGTGGC
1 GAAAACCTTTGTGGC
31861559 AAAACTTTGA
Statistics
Matches: 59, Mismatches: 14, Indels: 6
0.75 0.18 0.08
Matches are distributed among these distances:
29 19 0.32
30 4 0.07
31 4 0.07
32 32 0.54
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.26
Consensus pattern (32 bp):
GAAAACCTTTGTGGCGAGTACTGGATGTAAAG
Found at i:31861497 original size:61 final size:60
Alignment explanation
Indices: 31861417--31861587 Score: 252
Period size: 61 Copynumber: 2.8 Consensus size: 60
31861407 AAACATCAAT
* * *
31861417 TAAAGGATAACATTTGTGGCAAAACTTTAGATAAGAAAGCCTTTGTGGCGAGTACTGGATG
1 TAAAGGATAACCTTTGTGGCAAAACTTT-GAAAAGAAAACCTTTGTGGCGAGTACTGGATG
* * *
31861478 TAAAGGACAACCTTTGTGGCAAAACTTTGGACAGGAAAACCTTTGTGGCGAGTACTGGATG
1 TAAAGGATAACCTTTGTGGCAAAACTTT-GAAAAGAAAACCTTTGTGGCGAGTACTGGATG
*
31861539 TAAAGGATAACCTTTGTGGCAAAACTTTGAAAAGAAACACATTTGTGGC
1 TAAAGGATAACCTTTGTGGCAAAACTTTGAAAAGAAA-ACCTTTGTGGC
31861588 TCTCTAAAAA
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
60 7 0.07
61 92 0.93
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
TAAAGGATAACCTTTGTGGCAAAACTTTGAAAAGAAAACCTTTGTGGCGAGTACTGGATG
Found at i:31861520 original size:29 final size:29
Alignment explanation
Indices: 31861418--31861587 Score: 101
Period size: 29 Copynumber: 5.7 Consensus size: 29
31861408 AACATCAATT
* * *
31861418 AAAGGATAACATTTGTGGCAAAACTTTAG
1 AAAGGAAAACCTTTGTGGCAAAACTTTGG
* ** * *
31861447 ATAA-GAAAGCCTTTGTGGCGAGTACTGGATGT
1 A-AAGGAAAACCTTTGTGGC-AAAACT--TTGG
*
31861479 AAAGGACAACCTTTGTGGCAAAACTTTGG
1 AAAGGAAAACCTTTGTGGCAAAACTTTGG
* ** * *
31861508 ACAGGAAAACCTTTGTGGCGAGTACTGGATGT
1 AAAGGAAAACCTTTGTGGC-AAAACT--TTGG
*
31861540 AAAGGATAACCTTTGTGGCAAAACTTT-G
1 AAAGGAAAACCTTTGTGGCAAAACTTTGG
* *
31861568 AAAAGAAACACATTTGTGGC
1 AAAGGAAA-ACCTTTGTGGC
31861588 TCTCTAAAAA
Statistics
Matches: 103, Mismatches: 29, Indels: 18
0.69 0.19 0.12
Matches are distributed among these distances:
28 6 0.06
29 43 0.42
30 10 0.10
31 10 0.10
32 34 0.33
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (29 bp):
AAAGGAAAACCTTTGTGGCAAAACTTTGG
Found at i:31864383 original size:36 final size:37
Alignment explanation
Indices: 31864324--31864399 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 37
31864314 TCTTTGTTGA
31864324 AGGGTTCGCATGGTGGTGCGAACTAGGC-TTCGTAGG
1 AGGGTTCGCATGGTGGTGCGAACTAGGCTTTCGTAGG
* ** * * *
31864360 AGGGTTTGCATGGTTTTGTGAACTGGGCTTTTGTAGG
1 AGGGTTCGCATGGTGGTGCGAACTAGGCTTTCGTAGG
31864397 AGG
1 AGG
31864400 CTAAAAACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 23 0.70
37 10 0.30
ACGTcount: A:0.16, C:0.12, G:0.41, T:0.32
Consensus pattern (37 bp):
AGGGTTCGCATGGTGGTGCGAACTAGGCTTTCGTAGG
Found at i:31867306 original size:20 final size:20
Alignment explanation
Indices: 31867283--31867323 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
31867273 TAATGTGAAT
31867283 AGGGACACCAAAGTGTATAC
1 AGGGACACCAAAGTGTATAC
* **
31867303 AGGGGCACTGAAGTGTATAC
1 AGGGACACCAAAGTGTATAC
31867323 A
1 A
31867324 TGGGCATCGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (20 bp):
AGGGACACCAAAGTGTATAC
Found at i:31867328 original size:20 final size:20
Alignment explanation
Indices: 31867293--31867357 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
31867283 AGGGACACCA
31867293 AAGTGTATACAGGGGCACTG
1 AAGTGTATACAGGGGCACTG
*
31867313 AAGTGTATACATGGGCA-TCG
1 AAGTGTATACAGGGGCACT-G
* *
31867333 AAGTGCAAACAGGGGCACTG
1 AAGTGTATACAGGGGCACTG
31867353 AAGTG
1 AAGTG
31867358 CAAATTCCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 37 0.95
21 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.34, T:0.18
Consensus pattern (20 bp):
AAGTGTATACAGGGGCACTG
Found at i:31871363 original size:27 final size:27
Alignment explanation
Indices: 31871333--31871500 Score: 162
Period size: 27 Copynumber: 6.2 Consensus size: 27
31871323 CCCTGTAGGA
* * *
31871333 TAAAATGACCGAAATACCCTCGATGGG
1 TAAAATTACCAAAATACCCTCAATGGG
** *
31871360 TAAAATTACCAAAATACCCTTGATTGG
1 TAAAATTACCAAAATACCCTCAATGGG
*
31871387 TAAAATTATCAAAATACCCTCAATGGG
1 TAAAATTACCAAAATACCCTCAATGGG
* *
31871414 TAAAATTACTAAAATACCCTCAAAGGG
1 TAAAATTACCAAAATACCCTCAATGGG
** *
31871441 TAAAATTACTGAAATACCCCCGAA-GGAG
1 TAAAATTACCAAAATACCCTC-AATGG-G
* *
31871469 -AAAATTATCGAAATACCC-CAATAGGG
1 TAAAATTACCAAAATACCCTCAAT-GGG
31871495 TAAAAT
1 TAAAAT
31871501 GACTATTATA
Statistics
Matches: 121, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.02
26 2 0.02
27 114 0.94
28 3 0.02
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCAATGGG
Found at i:31871473 original size:81 final size:81
Alignment explanation
Indices: 31871328--31871505 Score: 207
Period size: 81 Copynumber: 2.2 Consensus size: 81
31871318 GAGACCCCTG
* ** * * ** * *
31871328 TAGGATAAAATGACCGAAATACCCTCGATGGGTAAAATTACCAAAATACCCTTGATTGGTAAAAT
1 TAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATTACCAAAATACCCCCGATAGGGAAAAT
31871393 TATCAAAATACCCTCAA
66 TATCAAAATACCC-CAA
* **
31871410 T-GGGTAAAATTACTAAAATACCCTCAAAGGGTAAAATTACTGAAATACCCCCGA-AGGAGAAAA
1 TAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATTACCAAAATACCCCCGATAGG-GAAAA
*
31871473 TTATCGAAATACCCCAA
65 TTATCAAAATACCCCAA
31871490 TAGGGTAAAATGACTA
1 TAGGGTAAAATGACTA
31871506 TTATACCCCT
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
80 6 0.08
81 73 0.91
82 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (81 bp):
TAGGGTAAAATGACTAAAATACCCTCAAAGGGTAAAATTACCAAAATACCCCCGATAGGGAAAAT
TATCAAAATACCCCAA
Found at i:31874041 original size:11 final size:11
Alignment explanation
Indices: 31874025--31874049 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31874015 CAGGATTTGG
31874025 TTTTTTTTCCC
1 TTTTTTTTCCC
31874036 TTTTTTTTCCC
1 TTTTTTTTCCC
31874047 TTT
1 TTT
31874050 CCATCTCTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTTTCCC
Found at i:31878830 original size:22 final size:22
Alignment explanation
Indices: 31878802--31878844 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
31878792 TGATTATGAA
31878802 ACTTATAGGGGACTCTATCACC
1 ACTTATAGGGGACTCTATCACC
* *
31878824 ACTTATAGTGGATTCTATCAC
1 ACTTATAGGGGACTCTATCAC
31878845 TACACATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (22 bp):
ACTTATAGGGGACTCTATCACC
Found at i:31879409 original size:18 final size:18
Alignment explanation
Indices: 31879385--31879428 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
31879375 CATAGTTTGG
**
31879385 CAAATTAATACAGTTCAC
1 CAAATTAATACAAATCAC
*
31879403 CATATTAATACAAATCAC
1 CAAATTAATACAAATCAC
31879421 CAAATTAA
1 CAAATTAA
31879429 CATAGTTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.27
Consensus pattern (18 bp):
CAAATTAATACAAATCAC
Found at i:31894440 original size:32 final size:31
Alignment explanation
Indices: 31894382--31894458 Score: 82
Period size: 32 Copynumber: 2.5 Consensus size: 31
31894372 TTTGAAGAGT
** **
31894382 CTTTGGTGTGAACACTTGGACTTGAATCGTC
1 CTTTGGTGTGAACACCAGGAAGTGAATCGTC
*
31894413 CTTTGGGTGTGAACACCAGGAAGTGAATGGTC
1 CTTT-GGTGTGAACACCAGGAAGTGAATCGTC
**
31894445 CACTGGTGTGAACA
1 CTTTGGTGTGAACA
31894459 AAAGGAGCAG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 14 0.37
32 24 0.63
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (31 bp):
CTTTGGTGTGAACACCAGGAAGTGAATCGTC
Found at i:31903018 original size:27 final size:28
Alignment explanation
Indices: 31902936--31903031 Score: 124
Period size: 30 Copynumber: 3.4 Consensus size: 28
31902926 TAAACAGTAT
*
31902936 CAGT-ACAGTGTGGGCCTTAGCCCATTA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
*
31902963 CAGTAATAGTGTGTGGGCCTTAGCCCAATA
1 CAGTAACA--GTGTGGGCCTTAGCCCAATA
*
31902993 CAGTAACAGTG-GGGCCTTAGCTCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
31903020 CAGTAATCAGTG
1 CAGTAA-CAGTG
31903032 CAATGCAGTA
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
27 25 0.41
28 10 0.16
30 26 0.43
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:31903417 original size:27 final size:27
Alignment explanation
Indices: 31903378--31903615 Score: 246
Period size: 27 Copynumber: 8.8 Consensus size: 27
31903368 TATCCTATGG
*
31903378 GGGTATGTCGGTCATTTTACCCTTCAA
1 GGGTATTTCGGTCATTTTACCCTTCAA
* **
31903405 GGTTACTTT-GGTCATTTTACCCTTCGG
1 GGGTA-TTTCGGTCATTTTACCCTTCAA
* * *
31903432 GGGTATTTCAGACATTTTTCCCTTCAA
1 GGGTATTTCGGTCATTTTACCCTTCAA
* * *
31903459 AGCTATTTCGATCATTTTACCCTTCAA
1 GGGTATTTCGGTCATTTTACCCTTCAA
* * **
31903486 GGGTATTTCGATTATTTTACCCTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCAA
*
31903513 GGGTATTTCGGTTATTTTACCCTTC-A
1 GGGTATTTCGGTCATTTTACCCTTCAA
** **
31903539 GGGATATTTTAGTCATTTTACCCTTTGA
1 GGG-TATTTCGGTCATTTTACCCTTCAA
31903567 GGGTATTTCGGTCATTTTACCCTTCAA
1 GGGTATTTCGGTCATTTTACCCTTCAA
* * *
31903594 GGGTATTTTGATTATTTTACCC
1 GGGTATTTCGGTCATTTTACCC
31903616 ATGAATCGCA
Statistics
Matches: 173, Mismatches: 34, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
26 6 0.03
27 161 0.93
28 6 0.03
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.43
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTTCAA
Found at i:31905994 original size:11 final size:13
Alignment explanation
Indices: 31905970--31906001 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
31905960 TAGTTTATTA
31905970 ATATTTTAATATG
1 ATATTTTAATATG
31905983 AT-TTTTAA-ATG
1 ATATTTTAATATG
31905994 ATATTTTA
1 ATATTTTA
31906002 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:31908440 original size:102 final size:102
Alignment explanation
Indices: 31908158--31908694 Score: 848
Period size: 102 Copynumber: 5.3 Consensus size: 102
31908148 ATTGAATATA
* *
31908158 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATCGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGT
31908223 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
* *
31908260 AAGGGGGTTGCTAAGTGCTGA-TCCCCCAAGGGGTTGCTAAGTGTTGATTCCTCAATTC-TTCGG
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCAATTCATT-GG
*
31908323 TGGTTGCTAATTGCTGATTCCACCGTATTTTAAATGTG
65 TGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
*
31908361 AAGGGGGTTGCTAAGTGCTGATTCCCCTAAGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGT
31908426 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
*
31908463 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTT-CGTAAGTGCTGATTCCCCGATTCATTGG
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGC-TAAGTGCTGATTCCCCAATTCATTGG
31908527 TGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
65 TGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
* * ** * *
31908565 AAAGGGGTTGCTAAGAGCAAATTCCCCCAAGGGGTTGCCAAGTGCTGATTCCCTGAA-TCATTGG
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCC-CAATTCATTGG
* * * *
31908629 TGGTTGCTGAGTGCTAATTCCACCATATCTTTGAATGTG
65 TGGTTGCTAAGTGCTGATTCCACCGTAT-TTTAAATGTG
*
31908668 AAAGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
31908695 GAATCACTGG
Statistics
Matches: 403, Mismatches: 25, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
100 1 0.00
101 95 0.24
102 270 0.67
103 37 0.09
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGT
GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
Found at i:31909623 original size:49 final size:49
Alignment explanation
Indices: 31909560--31909754 Score: 282
Period size: 49 Copynumber: 4.0 Consensus size: 49
31909550 ACATGTGAAC
* * *
31909560 ATGTGATTATGTGATTCCGTATAAGACCATAGTTGGGCTATGGCATCGGT
1 ATGTGA-TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGT
* *
31909610 AAGTGATATGTGATTGCGTGTAAGACCATAGCTGGGCTATGGCATCGGT
1 ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGT
* * *
31909659 ATGTGATTTGTGATTATGTGTTAGACCATAGCTGGGCTATGGCATCGGT
1 ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGT
* * *
31909708 ATGTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCG
31909755 AGAAAACGAA
Statistics
Matches: 132, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 127 0.96
50 5 0.04
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.33
Consensus pattern (49 bp):
ATGTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGT
Found at i:31909957 original size:27 final size:27
Alignment explanation
Indices: 31909920--31909981 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
31909910 TAATAAATAG
31909920 ATGT-GTTAATTTGCTTGGAATGAACT
1 ATGTGGTTAATTTGCTTGGAATGAACT
31909946 ATGTGGTTAATTTGCTTGGAATGAACT
1 ATGTGGTTAATTTGCTTGGAATGAACT
31909973 ATGTGGTTA
1 ATGTGGTTA
31909982 TGATGGTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.11
27 31 0.89
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.42
Consensus pattern (27 bp):
ATGTGGTTAATTTGCTTGGAATGAACT
Found at i:31911515 original size:11 final size:13
Alignment explanation
Indices: 31911491--31911522 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
31911481 TAGTTTATTA
31911491 ATATTTTAATATG
1 ATATTTTAATATG
31911504 AT-TTTTAA-ATG
1 ATATTTTAATATG
31911515 ATATTTTA
1 ATATTTTA
31911523 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:31917414 original size:23 final size:23
Alignment explanation
Indices: 31917385--31917430 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
31917375 CTTTCTAACT
31917385 GTAGTAAGTTTCAGGG-TATTACA
1 GTAGTAA-TTTCAGGGATATTACA
*
31917408 GTAGTAATTTTAGGGATATTACA
1 GTAGTAATTTCAGGGATATTACA
31917431 CCACCTGACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (23 bp):
GTAGTAATTTCAGGGATATTACA
Found at i:31922474 original size:28 final size:28
Alignment explanation
Indices: 31922434--31922528 Score: 104
Period size: 28 Copynumber: 3.4 Consensus size: 28
31922424 TAAACAGTAT
* *
31922434 TAGT-ACAATGTGGGCCTTAGCCCATTA
1 TAGTAACAGTGTGGGCCTTAGCCCAATA
*
31922461 TAGTAACAGTGTGGACCTTAGCCCAATA
1 TAGTAACAGTGTGGGCCTTAGCCCAATA
* *
31922489 CAGTAACAGTG-GGGACCTTAGCCTAATA
1 TAGTAACAGTGTGGG-CCTTAGCCCAATA
*
31922517 CAGTAATCAGTG
1 TAGTAA-CAGTG
31922529 CAATGCAGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
27 6 0.10
28 48 0.81
29 5 0.08
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (28 bp):
TAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:31922662 original size:26 final size:26
Alignment explanation
Indices: 31922633--31922707 Score: 105
Period size: 26 Copynumber: 2.9 Consensus size: 26
31922623 ACTCCAATAT
*
31922633 CGCAGCAAAGCTGCCAGTAATAGTGA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
* *
31922659 CGCAGCAAAGCTGCCAGTAACAATAA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
* *
31922685 TGCAACAAAGCTGCCAGTAATAG
1 CGCAGCAAAGCTGCCAGTAATAG
31922708 AATATGTAGC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.39, C:0.24, G:0.23, T:0.15
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAATAGTAA
Found at i:31931067 original size:28 final size:28
Alignment explanation
Indices: 31931035--31931114 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 28
31931025 AAAGATAGTA
31931035 GCCTTTATGGAAAT-TAAGGAAAATGGAG
1 GCCTTTATGGAAATATAA-GAAAATGGAG
* * *
31931063 GCCTTTGTGGCAATATAAGAAAATGGAA
1 GCCTTTATGGAAATATAAGAAAATGGAG
* * * *
31931091 GACTTTGTGGCAATCTAAGAAAAT
1 GCCTTTATGGAAATATAAGAAAAT
31931115 AAAAGCCTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 43 0.93
29 3 0.07
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.26
Consensus pattern (28 bp):
GCCTTTATGGAAATATAAGAAAATGGAG
Found at i:31931124 original size:28 final size:28
Alignment explanation
Indices: 31931063--31931140 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
31931053 GAAAATGGAG
* **
31931063 GCCTTTGTGGCAATATAAGAAAATGGAA
1 GCCTTTGTGGCAATCTAAGAAAATAAAA
*
31931091 GACTTTGTGGCAATCTAAGAAAATAAAA
1 GCCTTTGTGGCAATCTAAGAAAATAAAA
*
31931119 GCCTTTGTAGCAATCTATAGAA
1 GCCTTTGTGGCAATCTA-AGAA
31931141 TGGAAACCTT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 39 0.91
29 4 0.09
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.27
Consensus pattern (28 bp):
GCCTTTGTGGCAATCTAAGAAAATAAAA
Found at i:31931443 original size:27 final size:27
Alignment explanation
Indices: 31931371--31931457 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
31931361 GATTGGATGC
*
31931371 TATGGTAAAC-ATTGAAGGAATAGCACA
1 TATGGTAAACTATT-AAGGAATAGTACA
* * * **
31931398 TAAGGCAAACTCTGCAGGAATAGTACA
1 TATGGTAAACTATTAAGGAATAGTACA
* * *
31931425 TATGGTAAACTATTTAGGAATAGTGCG
1 TATGGTAAACTATTAAGGAATAGTACA
31931452 TATGGT
1 TATGGT
31931458 TAACACTAAG
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.26
Consensus pattern (27 bp):
TATGGTAAACTATTAAGGAATAGTACA
Found at i:31945553 original size:49 final size:49
Alignment explanation
Indices: 31945500--31945600 Score: 141
Period size: 49 Copynumber: 2.1 Consensus size: 49
31945490 AAACATGGTA
* *
31945500 GTTATAATT-CTTTGGGAAAGAATATAACGTTTTTTAATACTTTCCATAT
1 GTTATAATTACTTTCGGAAAGAATATAACG-TGTTTAATACTTTCCATAT
* * *
31945549 GTTATAATTATTTTCGGAAAGAATATAATGTGTTTAATGCTTTCCATAT
1 GTTATAATTACTTTCGGAAAGAATATAACGTGTTTAATACTTTCCATAT
31945598 GTT
1 GTT
31945601 CTCTATAAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 29 0.63
50 17 0.37
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.46
Consensus pattern (49 bp):
GTTATAATTACTTTCGGAAAGAATATAACGTGTTTAATACTTTCCATAT
Found at i:31947580 original size:203 final size:206
Alignment explanation
Indices: 31947207--31947608 Score: 582
Period size: 203 Copynumber: 2.0 Consensus size: 206
31947197 ATTCATTCCA
*
31947207 ATTTATGGGGTCCATCTTCTGACATCTCAAAAGGAGGTAATAAATATTTCCTAACTTTTATTGAT
1 ATTTATGGAGTCCATCTTCTGACATCTCAAAAGGAGGTAATAAATATTTCCTAACTTTTATTGAT
* *
31947272 GATCACTCCAGAAAAATGTTTGGGTTTATTTTTTGAAACAAAAAAGCAAAATTTTTGGAATCTTC
66 GATCACTCCAGAAAAATGTTAGGGTTTATTTTTTGAAACAAAAAAGCAAAATCTTTGGAATCTTC
* * *
31947337 AAATAATGGAAGACACCGTTAGAAGAACAAATCAGAAAGTCCGTGAAA-CAGTTGAGAATTGG-T
131 AAACAATGGAAGACACCATTAGAAGAACAAACCAGAAAGTCCGT-AAAGCAGTTGAGAA-TGGAT
31947400 AATGGTTATTTCG
194 AATGGTTATTTCG
* *
31947413 ATTTAT-GAGTCCATCTTCTGGCATCTCAGAAGGAGGTAATAAATATTTCCTAACTTTTACTT-A
1 ATTTATGGAGTCCATCTTCTGACATCTCAAAAGGAGGTAATAAATATTTCCTAACTTTTA-TTGA
* * ** *
31947476 TGATCACTCCA-AAAAA-GTTAGGTTTTATTTTTTGAAACAGAAAAGTGAAGTCTTTGGAATCTT
65 TGATCACTCCAGAAAAATGTTAGGGTTTATTTTTTGAAACAAAAAAGCAAAATCTTTGGAATCTT
* * * *
31947539 CAAACAGTGGAAGACACTATTAGAAGAACAAACCGGAAAGTCCGTAAAGCGGTTGAGAATGGATA
130 CAAACAATGGAAGACACCATTAGAAGAACAAACCAGAAAGTCCGTAAAGCAGTTGAGAATGGATA
31947604 ATGGT
195 ATGGT
31947609 CTTGAGTTCT
Statistics
Matches: 176, Mismatches: 17, Indels: 9
0.87 0.08 0.04
Matches are distributed among these distances:
202 6 0.03
203 95 0.54
204 5 0.03
205 62 0.35
206 8 0.05
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (206 bp):
ATTTATGGAGTCCATCTTCTGACATCTCAAAAGGAGGTAATAAATATTTCCTAACTTTTATTGAT
GATCACTCCAGAAAAATGTTAGGGTTTATTTTTTGAAACAAAAAAGCAAAATCTTTGGAATCTTC
AAACAATGGAAGACACCATTAGAAGAACAAACCAGAAAGTCCGTAAAGCAGTTGAGAATGGATAA
TGGTTATTTCG
Found at i:31960073 original size:18 final size:19
Alignment explanation
Indices: 31960041--31960080 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
31960031 CAAGATTTAT
31960041 CATTTCATATTTCATTCCA
1 CATTTCATATTTCATTCCA
*
31960060 CATTTCAT-TTTCATTTCA
1 CATTTCATATTTCATTCCA
31960078 CAT
1 CAT
31960081 ACTTTTCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (19 bp):
CATTTCATATTTCATTCCA
Found at i:31962807 original size:2 final size:2
Alignment explanation
Indices: 31962800--31962825 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31962790 GATATCATGG
31962800 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
31962826 GGTATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31962940 original size:22 final size:23
Alignment explanation
Indices: 31962895--31962940 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
31962885 TGAACATTAA
*
31962895 GGTATGATATGAGATGTTGTTTT
1 GGTATGATATGAGATGTTGCTTT
31962918 GGTATGATAT-AGATAG-TGCTTT
1 GGTATGATATGAGAT-GTTGCTTT
31962940 G
1 G
31962941 AAGTGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.24, C:0.02, G:0.30, T:0.43
Consensus pattern (23 bp):
GGTATGATATGAGATGTTGCTTT
Found at i:31979551 original size:15 final size:15
Alignment explanation
Indices: 31979531--31979565 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
31979521 TCAAAAGAGG
31979531 AAATAAATCTTGAGA
1 AAATAAATCTTGAGA
31979546 AAATAAATCTTGAGA
1 AAATAAATCTTGAGA
31979561 AAATA
1 AAATA
31979566 TTATACAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (15 bp):
AAATAAATCTTGAGA
Found at i:31981956 original size:51 final size:50
Alignment explanation
Indices: 31981890--31982076 Score: 182
Period size: 51 Copynumber: 3.7 Consensus size: 50
31981880 TGAACAAGTG
* *
31981890 TGTAGTACTATGTGAAGGCTCCTACGTGTATCGATAAA-TAATGGTCACATA
1 TGTAGTACTATGTGAAGGCTACTACGTGTACCGA-AAACT-ATGGTCACATA
* * * * *
31981941 TGTAGTAGTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACATG
1 TGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAA-CTATGGTCACATA
* * * * * *
31981992 TGTAGTACTATGTGAAGGCTACTACCTGAACCATAAAACT-TGATCACGTGC
1 TGTAGTACTATGTGAAGGCTACTACGTGTACC-GAAAACTATGGTCACAT-A
*
31982043 T-TAGTACTATGTGAAGGCTACTACGTGTATCGAA
1 TGTAGTACTATGTGAAGGCTACTACGTGTACCGAA
31982077 TGATAATAGT
Statistics
Matches: 112, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 2 0.02
50 37 0.33
51 68 0.61
52 5 0.04
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (50 bp):
TGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAACTATGGTCACATA
Found at i:31985975 original size:17 final size:17
Alignment explanation
Indices: 31985948--31986073 Score: 63
Period size: 17 Copynumber: 6.7 Consensus size: 17
31985938 CCGATATAAT
* * *
31985948 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
31985965 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
*
31985982 AAATATTTTTAAAATATTTTTT
1 AAATATTTTT---A-A-TTTTA
** *
31986004 TTATTTTTTTTAATTTTA
1 AAATATT-TTTAATTTTA
*
31986022 AAATATTTTTAAAATACTTTTT
1 AAATATTTTT---A-A-TTTTA
31986044 AAATATTTTTTAATTTTA
1 AAATA-TTTTTAATTTTA
31986062 AAATATTTTTAA
1 AAATATTTTTAA
31986074 AATACTTTTT
Statistics
Matches: 82, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
17 32 0.39
18 17 0.21
19 2 0.02
20 4 0.05
21 2 0.02
22 17 0.21
23 8 0.10
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:31985991 original size:11 final size:11
Alignment explanation
Indices: 31985977--31986083 Score: 79
Period size: 11 Copynumber: 10.4 Consensus size: 11
31985967 ATTTTTTTAA
31985977 TTTTAAAATAT
1 TTTTAAAATAT
31985988 TTTTAAAATAT
1 TTTTAAAATAT
**
31985999 TTTT--TTTAT
1 TTTTAAAATAT
** *
31986008 TTTT--TTTAA
1 TTTTAAAATAT
31986017 TTTTAAAATAT
1 TTTTAAAATAT
31986028 TTTTAAAATACT
1 TTTTAAAATA-T
31986040 TTTT-AAATAT
1 TTTTAAAATAT
*
31986050 TTTT----TAA
1 TTTTAAAATAT
31986057 TTTTAAAATAT
1 TTTTAAAATAT
31986068 TTTTAAAATACT
1 TTTTAAAATA-T
31986080 TTTT
1 TTTT
31986084 TTAATTTTTA
Statistics
Matches: 80, Mismatches: 8, Indels: 15
0.78 0.08 0.15
Matches are distributed among these distances:
7 6 0.08
9 15 0.19
10 5 0.06
11 44 0.55
12 10 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:31986014 original size:40 final size:40
Alignment explanation
Indices: 31985959--31986092 Score: 216
Period size: 40 Copynumber: 3.4 Consensus size: 40
31985949 AATATATTTA
*
31985959 TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAT
1 TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
* *
31985999 TTTTTTTATTTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
31986039 -TTTTTAAATATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAAT-TTTTTTAATTTTAAAATATTTTTAAAATAC
*
31986079 TTTTTTTAATTTTT
1 TTTTTTAAATTTTT
31986093 AAAATAAATT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
39 7 0.08
40 71 0.83
41 8 0.09
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:31986104 original size:21 final size:21
Alignment explanation
Indices: 31986066--31986105 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
31986056 ATTTTAAAAT
**
31986066 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
31986087 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
31986106 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:31986112 original size:22 final size:21
Alignment explanation
Indices: 31986065--31986123 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
31986055 AATTTTAAAA
* *
31986065 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
31986085 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
31986108 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
31986124 GGGCTGGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:31989719 original size:50 final size:51
Alignment explanation
Indices: 31989590--31989720 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 51
31989580 TATCGATGAA
** * *
31989590 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGTACCAAAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACCTGAACCAAAAAGCTTTGAT
* **
31989641 CATGTGTGTAGTACTATGTGAAGGCTACTACCTGAATCGTAAAA-C-TTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACCTGAA-CCAAAAAGCTTTGAT
31989691 CACGTGTGTAGTACTATGTGAAGGCTACTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTA
31989721 TGTGTATCGA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
50 33 0.46
51 33 0.46
52 5 0.07
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACCTGAACCAAAAAGCTTTGAT
Found at i:31999288 original size:15 final size:15
Alignment explanation
Indices: 31999270--31999300 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31999260 CCATGTTTGG
31999270 TCAATCCTAAAATGA
1 TCAATCCTAAAATGA
*
31999285 TCAATCCTGAAATGA
1 TCAATCCTAAAATGA
31999300 T
1 T
31999301 TCCACCAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (15 bp):
TCAATCCTAAAATGA
Found at i:32011021 original size:57 final size:57
Alignment explanation
Indices: 32010927--32011235 Score: 317
Period size: 57 Copynumber: 5.5 Consensus size: 57
32010917 TCAATTTCTG
* * * *
32010927 TAAAAGTG-AGCCATTT-TGGCTATCTCTATTAAAGGAAGCCTTTGTGGCGATCTGTGT
1 TAAAAG-GAAGCC-TTTGTGGCTATCTCTGTTAAAGGAAGCCTTTGTGGCTATCTCTAT
* * * * * *
32010984 T-AAAGGAAGCCTTTGTGGTTAACTCTGTTAAAAGGAAGTCTTTGTGGCAATCTGTGT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGTT-AAAGGAAGCCTTTGTGGCTATCTCTAT
* * *
32011041 T-AAAGGAAACCTTTGTGGCTACCTCTGTT-AAGGAAGCCTTTATGGCTATCTCTAT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGTTAAAGGAAGCCTTTGTGGCTATCTCTAT
** *
32011096 TAAAAGGAAGAATTTGTGG-TGATCTCTGTTAAAGGAAGCCTTCGTGGCTATCTCTAT
1 TAAAAGGAAGCCTTTGTGGCT-ATCTCTGTTAAAGGAAGCCTTTGTGGCTATCTCTAT
* * * * * *
32011153 TAAAAGGAAGCCTTCGTGGCTATCTCTATTAAAGGAAGTCTTTATGG-TCATCTTTTT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGTTAAAGGAAGCCTTTGTGGCT-ATCTCTAT
*
32011210 TAAAAGGAAGCCTTTTTGGCTATCTC
1 TAAAAGGAAGCCTTTGTGGCTATCTC
32011236 AATTAAATGA
Statistics
Matches: 214, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
55 27 0.13
56 42 0.20
57 144 0.67
58 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (57 bp):
TAAAAGGAAGCCTTTGTGGCTATCTCTGTTAAAGGAAGCCTTTGTGGCTATCTCTAT
Found at i:32011027 original size:29 final size:28
Alignment explanation
Indices: 32010935--32011235 Score: 304
Period size: 28 Copynumber: 10.6 Consensus size: 28
32010925 TGTAAAAGTG
*
32010935 AGCCATTT-TGGCTATCTCTATTAAAGGA
1 AGCC-TTTGTGGCTATCTCTGTTAAAGGA
* *
32010963 AGCCTTTGTGGCGATCTGTGTTAAAGGA
1 AGCCTTTGTGGCTATCTCTGTTAAAGGA
* *
32010991 AGCCTTTGTGGTTAACTCTGTTAAAAGGA
1 AGCCTTTGTGGCTATCTCTGTT-AAAGGA
* * *
32011020 AGTCTTTGTGGCAATCTGTGTTAAAGGA
1 AGCCTTTGTGGCTATCTCTGTTAAAGGA
* *
32011048 AACCTTTGTGGCTACCTCTGTT-AAGGA
1 AGCCTTTGTGGCTATCTCTGTTAAAGGA
* *
32011075 AGCCTTTATGGCTATCTCTATTAAAAGGA
1 AGCCTTTGTGGCTATCTCTGTT-AAAGGA
**
32011104 AGAATTTGTGG-TGATCTCTGTTAAAGGA
1 AGCCTTTGTGGCT-ATCTCTGTTAAAGGA
* *
32011132 AGCCTTCGTGGCTATCTCTATTAAAAGGA
1 AGCCTTTGTGGCTATCTCTGTT-AAAGGA
* *
32011161 AGCCTTCGTGGCTATCTCTATTAAAGGA
1 AGCCTTTGTGGCTATCTCTGTTAAAGGA
* * * *
32011189 AGTCTTTATGG-TCATCTTTTTTAAAAGGA
1 AGCCTTTGTGGCT-ATCTCTGTT-AAAGGA
*
32011218 AGCCTTTTTGGCTATCTC
1 AGCCTTTGTGGCTATCTC
32011236 AATTAAATGA
Statistics
Matches: 226, Mismatches: 37, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
27 27 0.12
28 106 0.47
29 92 0.41
30 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.36
Consensus pattern (28 bp):
AGCCTTTGTGGCTATCTCTGTTAAAGGA
Found at i:32011265 original size:57 final size:57
Alignment explanation
Indices: 32011152--32011271 Score: 152
Period size: 57 Copynumber: 2.1 Consensus size: 57
32011142 GCTATCTCTA
* * * *
32011152 TTAAAAGGAAGCCTTCGTGGCTATCTCTATTAAAGGAAGTCTTTATGGTCATCTTTT
1 TTAAAAGGAAGCCTTCGTGGCTATCTCAATTAAAGGAAGTCCTTATGGTAAACTTTT
** * *
32011209 TTAAAAGGAAGCCTTTTTGGCTATCTCAATTAAATGAA-TACCTTGTGGTAAACTTTT
1 TTAAAAGGAAGCCTTCGTGGCTATCTCAATTAAAGGAAGT-CCTTATGGTAAACTTTT
32011266 TTAAAA
1 TTAAAA
32011272 TGACACCTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
56 1 0.02
57 53 0.98
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (57 bp):
TTAAAAGGAAGCCTTCGTGGCTATCTCAATTAAAGGAAGTCCTTATGGTAAACTTTT
Found at i:32012659 original size:50 final size:50
Alignment explanation
Indices: 32012563--32012686 Score: 140
Period size: 50 Copynumber: 2.5 Consensus size: 50
32012553 TTATGAGGGA
* * * * * **
32012563 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCAAGATGAGAGG
1 TCCCACGTAAGATCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
* * *
32012613 TCCCCCGTAAGATCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGATCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
* *
32012663 TCCCATGTAAGATCATATCTGGGA
1 TCCCACGTAAGATCATGTCTGGGA
32012687 TATGTCATTG
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGATCATGTCTGGGACATGGCATGGGCACCAAGATGAGAAC
Found at i:32022133 original size:16 final size:16
Alignment explanation
Indices: 32022095--32022125 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32022085 ACCATAAGCC
*
32022095 CTAAAAACCTTAAAAA
1 CTAAAAACCCTAAAAA
32022111 CTAAAAACCCTAAAA
1 CTAAAAACCCTAAAA
32022126 TATAAAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.23, G:0.00, T:0.16
Consensus pattern (16 bp):
CTAAAAACCCTAAAAA
Found at i:32034744 original size:18 final size:20
Alignment explanation
Indices: 32034710--32034749 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
32034700 AAACCTATTC
32034710 TTATATTTATCTCAATTCAA
1 TTATATTTATCTCAATTCAA
32034730 TTATATTTAT-T-AATTCAA
1 TTATATTTATCTCAATTCAA
32034748 TT
1 TT
32034750 GAATTCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
19 1 0.05
20 10 0.50
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (20 bp):
TTATATTTATCTCAATTCAA
Found at i:32036012 original size:3 final size:3
Alignment explanation
Indices: 32036006--32036053 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
32035996 TTTTAACTGT
32036006 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32036053 T
1 T
32036054 AACATTCATG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:32036545 original size:20 final size:20
Alignment explanation
Indices: 32036520--32036563 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
32036510 TTTTACTTTT
32036520 TATATATACTTTATATGTTA
1 TATATATACTTTATATGTTA
* * *
32036540 TATATATATTTTTTATTTTA
1 TATATATACTTTATATGTTA
32036560 TATA
1 TATA
32036564 CACATACTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TATATATACTTTATATGTTA
Found at i:32036554 original size:22 final size:20
Alignment explanation
Indices: 32036520--32036563 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
32036510 TTTTACTTTT
32036520 TATATATACTTTATATGTTATA
1 TATATATACTTTAT-T-TTATA
**
32036542 TATATATTTTTTATTTTATA
1 TATATATACTTTATTTTATA
32036562 TA
1 TA
32036564 CACATACTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 1 0.05
22 12 0.60
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TATATATACTTTATTTTATA
Found at i:32040901 original size:13 final size:14
Alignment explanation
Indices: 32040878--32040907 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
32040868 GTTTGAGTCC
32040878 GAAAAAGAGAAAAA
1 GAAAAAGAGAAAAA
32040892 GAAAAA-AGAAAAA
1 GAAAAAGAGAAAAA
32040905 GAA
1 GAA
32040908 GTGATGTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
GAAAAAGAGAAAAA
Found at i:32042344 original size:100 final size:100
Alignment explanation
Indices: 32042170--32042438 Score: 423
Period size: 100 Copynumber: 2.7 Consensus size: 100
32042160 ACCATAGATT
*
32042170 TTACTTCCTTAGCAGTGTAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
* *
32042235 TGCACTTAAAAAGATTGAAGCCATAACGGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
*
32042270 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
32042335 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* * * * * * *
32042370 TTACTTCCCT-GAAGGTGCGGTGGAACAGATTGAAGCTACGACGATGAATCTGGTTTCCCCGACA
1 TTACTTCCTTAGCA-GTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATA
32042434 TTGCA
65 TTGCA
32042439 GTTGAACAAA
Statistics
Matches: 156, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
99 2 0.01
100 154 0.99
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (100 bp):
TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
Found at i:32042428 original size:50 final size:50
Alignment explanation
Indices: 32042183--32042454 Score: 206
Period size: 50 Copynumber: 5.4 Consensus size: 50
32042173 CTTCCTTAGC
* *
32042183 AGTGTAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGAT
1 AGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGAT
* * ** * * ** *** * *
32042233 ATTGCACTTAAAAAGATTGAAGCCATAACGGCGGATCTTACTT-CCTTAGC
1 AGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA-T
32042283 AGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGAT
1 AGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGAT
* * ** * * * ***
32042333 ATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGA-
1 AGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGAT
* ** * * *
32042382 AGGTGCGGTGGAACAGATTGAAGCTACGACGATGAATCTGGTTTCCCCGAC
1 A-GTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGAT
* * *
32042433 ATTGCAGTTGAACAAATTGAAG
1 AGTGCAGTGGAACAGATTGAAG
32042455 ATTACAGATC
Statistics
Matches: 161, Mismatches: 57, Indels: 8
0.71 0.25 0.04
Matches are distributed among these distances:
49 5 0.03
50 151 0.94
51 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (50 bp):
AGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGAT
Found at i:32042619 original size:132 final size:132
Alignment explanation
Indices: 32042448--32043749 Score: 1797
Period size: 132 Copynumber: 9.9 Consensus size: 132
32042438 AGTTGAACAA
* * *
32042448 ATTGAAGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAACATGGTGGATTTTAC
1 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTAC
* * * *
32042513 CTCCCTGGGGCTACAGTGGAGTACATTGAACCCAATAATTCTA-TCTCCCTGGGCAGCAGTGGAA
66 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGGAA
32042577 TAG
130 TAG
* ** * * *
32042580 ATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAAATGG-CAGATTTTA
1 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGA-ATTTTA
* *
32042644 CCT-CCTCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGTA
65 CCTCCCT-GTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGA
32042708 ATAG
129 ATAG
** * * * * * * * *
32042712 ATTGAAGATAGCAGATCTTGCCTTCCTACA-TAGACAGCGAAGCAGATCGAAGATGG-CAGATTT
1 ATTGAAGATTTCAGATCTTGTCTCCCTA-AGCAG-TAGTGGAGCAGATCAAAGATGGTGA-ATTT
* *
32042775 TACCT-CCTCGTGGTTACAGTGGAGTACATTGAAGACAGTAATTCTACTTCCCTGGGCAGCAGCG
63 TACCTCCCT-GTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTG
32042839 GAATAG
127 GAATAG
* ** * * * * *
32042845 ATTGAAAATAGCAGATCTTGCCTTCCT--GCA-TAGACAGCGAAGCAGATCGAAGATGG-CAGAT
1 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG--TG-G-AGCAGATCAAAGATGGTGA-AT
* * *
32042906 TTTACCT-CCTCGTGGTTACAGTGGAGTACATTGAAGCCAGCAATTCTACTTCCCTGGACAACAG
61 TTTACCTCCCT-GTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAG
32042970 TGGAATAG
125 TGGAATAG
* *
32042978 ATTGAAGATTTCAAATCTTGTCTCCCTAAGCAGTAGTGGGGCAGATCAAAGATGGTGAATTTTAC
1 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTAC
* *
32043043 CTCCCTGTGGTTACAGTGGAGTACATTGAAACCAGTAATACTACTTCCCTGGGCAGCAGTGGAAT
66 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
32043108 AG
131 AG
*
32043110 ATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTAC
1 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTAC
* *
32043175 CTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGAAT
66 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
32043240 AG
131 AG
*
32043242 ATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTAC
1 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTAC
*
32043307 CTCCCTGTGGTTACAGTGGAGTACATTGAAACCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
66 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
32043372 AG
131 AG
*
32043374 ATTGAAGATTTCAGATC-TGATCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTA
1 ATTGAAGATTTCAGATCTTG-TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTA
*
32043438 CCTCCCTGTGGTTACAGTGGAGTACATTGAAACCAGTAATTCTACTTCCCTGGGCAGCAGTGGAA
65 CCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAA
32043503 TAG
130 TAG
*
32043506 ATTGAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTAC
1 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTAC
** *
32043571 CTCATTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGAAT
66 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
32043636 AG
131 AG
* * * **
32043638 ATTGAAGATTACAGGTCTTATCTCCCT-AGCAGTAGTGGAATAGATCAAAGATGGT-AGATTTTA
1 ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGA-ATTTTA
* * * * *
32043701 CCTCCTTGAGGTTGCAGTGGAGTATATTGAATCCAGTAATTCTA-TTCCC
65 CCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCC
32043750 CCGGTCGGCA
Statistics
Matches: 1077, Mismatches: 75, Indels: 38
0.91 0.06 0.03
Matches are distributed among these distances:
129 2 0.00
130 6 0.01
131 78 0.07
132 748 0.69
133 236 0.22
134 1 0.00
135 3 0.00
136 3 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (132 bp):
ATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTAC
CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAAT
AG
Found at i:32042809 original size:45 final size:45
Alignment explanation
Indices: 32042634--32042941 Score: 132
Period size: 45 Copynumber: 6.9 Consensus size: 45
32042624 ATCAAAAATG
* **
32042634 GCAGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGCCA
1 GCAGATTTTACCTCCTCGTGGTTACAGCGGAGTACATTGAAGATA
* * * ** * * *
32042679 GTA-ATTCTACTTCC-C-TGGGCAGCAGCGTAATAGATTGAAGATA
1 GCAGATTTTACCTCCTCGTGGTTA-CAGCGGAGTACATTGAAGATA
* * * * * * * * *
32042722 GCAGATCTTGCCTTCCTACATAG--ACAGCGAAGCAGATCGAAGATG
1 GCAGATTTTACC-TCCT-CGTGGTTACAGCGGAGTACATTGAAGATA
* *
32042767 GCAGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAGACA
1 GCAGATTTTACCTCCTCGTGGTTACAGCGGAGTACATTGAAGATA
* * * ** * * *
32042812 GTA-ATTCTACTTCC-C-TGGGCAGCAGCGGAATAGATTGAAAATA
1 GCAGATTTTACCTCCTCGTGGTTA-CAGCGGAGTACATTGAAGATA
* * * * * * * * *
32042855 GCAGATCTTGCCTTCCTGCATAG--ACAGCGAAGCAGATCGAAGATG
1 GCAGATTTTACC-TCCT-CGTGGTTACAGCGGAGTACATTGAAGATA
*
32042900 GCAGATTTTACCTCCTCGTGGTTACAGTGGAGTACATTGAAG
1 GCAGATTTTACCTCCTCGTGGTTACAGCGGAGTACATTGAAG
32042942 CCAGCAATTC
Statistics
Matches: 183, Mismatches: 64, Indels: 32
0.66 0.23 0.11
Matches are distributed among these distances:
42 8 0.04
43 43 0.23
44 34 0.19
45 90 0.49
46 2 0.01
47 2 0.01
48 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (45 bp):
GCAGATTTTACCTCCTCGTGGTTACAGCGGAGTACATTGAAGATA
Found at i:32044760 original size:16 final size:17
Alignment explanation
Indices: 32044734--32044770 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
32044724 TAGATTTCTG
32044734 TTTTTCTTTCTACTTTT-
1 TTTTTCTTTCT-CTTTTC
32044751 TTTTTC-TTCTCTTTTC
1 TTTTTCTTTCTCTTTTC
32044767 TTTT
1 TTTT
32044771 ATTTTGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 8 0.42
17 6 0.32
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTCTTTCTCTTTTC
Found at i:32045379 original size:3 final size:3
Alignment explanation
Indices: 32045373--32045417 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
32045363 TTTTAACTGT
32045373 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
32045418 AACATTCATG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:32045909 original size:20 final size:20
Alignment explanation
Indices: 32045884--32045927 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
32045874 TTTTACTTTT
32045884 TATATATACTTTATATGTTA
1 TATATATACTTTATATGTTA
* * *
32045904 TATATATATTTTTTATTTTA
1 TATATATACTTTATATGTTA
32045924 TATA
1 TATA
32045928 CACATACTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TATATATACTTTATATGTTA
Found at i:32045918 original size:22 final size:20
Alignment explanation
Indices: 32045884--32045927 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
32045874 TTTTACTTTT
32045884 TATATATACTTTATATGTTATA
1 TATATATACTTTAT-T-TTATA
**
32045906 TATATATTTTTTATTTTATA
1 TATATATACTTTATTTTATA
32045926 TA
1 TA
32045928 CACATACTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 1 0.05
22 12 0.60
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TATATATACTTTATTTTATA
Found at i:32055082 original size:16 final size:15
Alignment explanation
Indices: 32055061--32055092 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
32055051 CAATCTTCGC
32055061 ACATAATCATGCATCA
1 ACATAATCATGC-TCA
32055077 ACATAATCATGCTCA
1 ACATAATCATGCTCA
32055092 A
1 A
32055093 AAATACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (15 bp):
ACATAATCATGCTCA
Found at i:32088381 original size:17 final size:17
Alignment explanation
Indices: 32088335--32088388 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
32088325 ATTGGGCTAC
* * *
32088335 GTGGGCCACACAGATGT
1 GTGGGCCCCACATACGT
32088352 GTGGGCCCCACATACGT
1 GTGGGCCCCACATACGT
*
32088369 GTGGGCCCCACATAGGT
1 GTGGGCCCCACATACGT
32088386 GTG
1 GTG
32088389 TGGGAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.19, C:0.28, G:0.35, T:0.19
Consensus pattern (17 bp):
GTGGGCCCCACATACGT
Found at i:32090803 original size:20 final size:21
Alignment explanation
Indices: 32090778--32090819 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
32090768 CTCTCTCTAT
*
32090778 ATATATTAATT-CTTTAAAAA
1 ATATATTAATTACTATAAAAA
32090798 ATATATTAATTACTATAAAAA
1 ATATATTAATTACTATAAAAA
32090819 A
1 A
32090820 ATTATTAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATATTAATTACTATAAAAA
Found at i:32090825 original size:21 final size:20
Alignment explanation
Indices: 32090778--32090826 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
32090768 CTCTCTCTAT
*
32090778 ATATATTAATTCTTTAAAAA
1 ATATATTAATTCTTAAAAAA
32090798 ATATATTAATTACTATAAAAAA
1 ATATATTAATT-CT-TAAAAAA
32090820 AT-TATTA
1 ATATATTA
32090827 GTATGATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 11 0.42
21 7 0.27
22 8 0.31
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (20 bp):
ATATATTAATTCTTAAAAAA
Found at i:32091563 original size:16 final size:15
Alignment explanation
Indices: 32091531--32091574 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
32091521 TTAGGTAAAA
32091531 ATAATATAAAAATTT
1 ATAATATAAAAATTT
*
32091546 ATAATATATAACATTT
1 ATAATATA-AAAATTT
*
32091562 ATAA-AAAAAAATT
1 ATAATATAAAAATT
32091575 GAAGTGATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 5 0.20
15 10 0.40
16 10 0.40
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATATAAAAATTT
Found at i:32092265 original size:19 final size:19
Alignment explanation
Indices: 32092241--32092302 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
32092231 AAACATATAA
32092241 ATTATTTTTATAAATTTTT
1 ATTATTTTTATAAATTTTT
32092260 ATTATTTTTA-ATAATTTTT
1 ATTATTTTTATA-AATTTTT
*
32092279 AAT-TTTTTAT-AATTTTT
1 ATTATTTTTATAAATTTTT
*
32092296 ATAATTT
1 ATTATTT
32092303 CAAAATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 8 0.22
18 10 0.27
19 19 0.51
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTATTTTTATAAATTTTT
Found at i:32092266 original size:9 final size:9
Alignment explanation
Indices: 32092244--32092302 Score: 75
Period size: 9 Copynumber: 6.4 Consensus size: 9
32092234 CATATAAATT
32092244 ATTTTTATAA
1 ATTTTTAT-A
*
32092254 ATTTTTATT
1 ATTTTTATA
32092263 ATTTTTAATA
1 ATTTTT-ATA
32092273 ATTTTTA-A
1 ATTTTTATA
*
32092281 TTTTTTATA
1 ATTTTTATA
32092290 ATTTTTATA
1 ATTTTTATA
32092299 ATTT
1 ATTT
32092303 CAAAATATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
8 7 0.16
9 20 0.47
10 16 0.37
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTTATA
Found at i:32094740 original size:47 final size:47
Alignment explanation
Indices: 32094674--32094775 Score: 170
Period size: 47 Copynumber: 2.2 Consensus size: 47
32094664 ATAAATAAAT
* * *
32094674 AAAA-TAATAAAATCTAATAAATACAATATTTGGCTCATATATAATA
1 AAAATTAAGAAAACCTAATAAATACAATATTTGGCTAATATATAATA
32094720 AAAATTAAGAAAACCTAATAAATACAATATTTGGCTAATATATAATA
1 AAAATTAAGAAAACCTAATAAATACAATATTTGGCTAATATATAATA
32094767 AAAATTAAG
1 AAAATTAAG
32094776 CCTAAAAACC
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
46 4 0.08
47 48 0.92
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.30
Consensus pattern (47 bp):
AAAATTAAGAAAACCTAATAAATACAATATTTGGCTAATATATAATA
Found at i:32094764 original size:24 final size:24
Alignment explanation
Indices: 32094690--32094764 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
32094680 ATAAAATCTA
*
32094690 ATAAATACAATATTTGGCTCATAT
1 ATAAATACAATATTTGGCTAATAT
* ** **
32094714 AT-AATA-AAAATTAAGAAAACCTA-
1 ATAAATACAATATTTGGCTAA--TAT
32094737 ATAAATACAATATTTGGCTAATAT
1 ATAAATACAATATTTGGCTAATAT
32094761 ATAA
1 ATAA
32094765 TAAAAATTAA
Statistics
Matches: 35, Mismatches: 11, Indels: 10
0.62 0.20 0.18
Matches are distributed among these distances:
22 7 0.20
23 8 0.23
24 12 0.34
25 8 0.23
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (24 bp):
ATAAATACAATATTTGGCTAATAT
Found at i:32111488 original size:3 final size:3
Alignment explanation
Indices: 32111474--32111531 Score: 62
Period size: 3 Copynumber: 19.3 Consensus size: 3
32111464 TACAAAGCGG
* * * * * *
32111474 TAA TAG TAA TAA TAA TAA CAA TAG TAG TAA TAA TTA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
32111522 TAA TAA TAA T
1 TAA TAA TAA T
32111532 GAAATTTAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:32111503 original size:21 final size:21
Alignment explanation
Indices: 32111474--32111531 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
32111464 TACAAAGCGG
32111474 TAATAGTAATAATAATAACAA
1 TAATAGTAATAATAATAACAA
* * *
32111495 TAGTAGTAATAATTATAATAA
1 TAATAGTAATAATAATAACAA
32111516 TAATAGTAATAATAAT
1 TAATAGTAATAATAAT
32111532 GAAATTTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (21 bp):
TAATAGTAATAATAATAACAA
Found at i:32113167 original size:44 final size:44
Alignment explanation
Indices: 32113106--32113525 Score: 306
Period size: 44 Copynumber: 9.7 Consensus size: 44
32113096 GATCATTTTG
* *
32113106 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTATTACTTTA
1 ATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
* * * *
32113150 ATCCACTCCACTACAACTTCAGGGAGATAGGAT-TATCGACTTCA
1 ATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTCA
* * * * * *
32113194 ATCTGCTCCACTGCAACCTCAGGGAGATAAGA-C-CTGA-TGCG
1 ATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
* * *
32113235 ATCCACTCTACTGCAACTTC-GGAGAGATAAGATCTATTACTTTA
1 ATCCGCTCCACTGCAACTTCAGG-GAGATAAGATCTATTACTTCA
* ** *
32113279 ATCCGCTCCACTACAACTTCAATGAGATAGGAT-TATCGT-CTTCA
1 ATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTAT--TACTTCA
* * * * * *
32113323 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTCATCTTCG
1 ATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTATTA-CTTCA
* * * * *
32113368 ATCTGCACCACTGCAACTTCAGGGGGATAAGACCTGCTTAC-TCA
1 ATCCGCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTCA
* * * * * * *
32113412 GTCTGCTCCGCTGCAACTTCAGGGAGATAAGACCCGA-T--GT-G
1 ATCCGCTCCACTGCAACTTCAGGGAGATAAGA-TCTATTACTTCA
* * * * *
32113453 ATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTA
1 ATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
*
32113497 ATCCGCTCCACTACAACTTCAGGGAGATA
1 ATCCGCTCCACTGCAACTTCAGGGAGATA
32113526 GGATTATCGG
Statistics
Matches: 291, Mismatches: 66, Indels: 38
0.74 0.17 0.10
Matches are distributed among these distances:
40 4 0.01
41 54 0.19
42 4 0.01
43 11 0.04
44 176 0.60
45 40 0.14
46 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
ATCCGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
Found at i:32113287 original size:85 final size:86
Alignment explanation
Indices: 32113070--32113295 Score: 207
Period size: 85 Copynumber: 2.7 Consensus size: 86
32113060 AATGTGGTCT
** * * *
32113070 ACTCTACTGCAACTTTAGAGAGATGAGATC-A-T--TTTGATCCGCTCCACTGCAACTTCAGGGA
1 ACTCTACTGCAACTTCGGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACCTCAGGGA
* *
32113131 GATAGGATCTATTACTTTAATCC
66 GATAAGACCTATTAC--TAATCC
* * * * * *
32113154 ACTCCACTACAACTTCAGG-GAGATAGGAT-TATCGACTTCAATCTGCTCCACTGCAACCTCAGG
1 ACTCTACTGCAACTTC-GGAGAGATAAGATCTAT-TACTTTAATCCGCTCCACTGCAACCTCAGG
* *
32113217 GAGATAAGACCTGA-TGC-GATCC
64 GAGATAAGACCT-ATTACTAATCC
*
32113239 ACTCTACTGCAACTTCGGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAAC
1 ACTCTACTGCAACTTCGGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAAC
32113296 TTCAATGAGA
Statistics
Matches: 111, Mismatches: 22, Indels: 17
0.74 0.15 0.11
Matches are distributed among these distances:
84 24 0.22
85 48 0.43
86 3 0.03
88 35 0.32
89 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (86 bp):
ACTCTACTGCAACTTCGGAGAGATAAGATCTATTACTTTAATCCGCTCCACTGCAACCTCAGGGA
GATAAGACCTATTACTAATCC
Found at i:32113335 original size:129 final size:129
Alignment explanation
Indices: 32113105--32113354 Score: 403
Period size: 129 Copynumber: 1.9 Consensus size: 129
32113095 AGATCATTTT
* *
32113105 GATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTATTACTTTAATCCACTCCACTACAACTTC
1 GATCCACTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCCACTCCACTACAACTTC
*
32113170 AGGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGC
66 AAGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGC
* *
32113234 GATCCACTCTACTGCAACTTC-GGAGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTT
1 GATCCACTCCACTGCAACTTCAGG-GAGATAAGATCTATTACTTTAATCCACTCCACTACAACTT
* * * *
32113298 CAATGAGATAGGATTATCGTCTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGA
65 CAAGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGA
32113355 TTTGTCATCT
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
128 2 0.02
129 109 0.98
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (129 bp):
GATCCACTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTTAATCCACTCCACTACAACTTC
AAGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGC
Found at i:32113713 original size:128 final size:128
Alignment explanation
Indices: 32113516--32113790 Score: 444
Period size: 128 Copynumber: 2.1 Consensus size: 128
32113506 ACTACAACTT
* * *
32113516 CAGGGAGATAGGA-TTATCGGCTTCAATCTACTTCCTTACACTTGAAGATAAGATTTGCCGTCTT
1 CAGGGATATAGGACTTGT-GGCTTAAATCTACTTCCTTACACTTGAAGATAAGATTTGCCGTCTT
* *
32113580 CGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGGC
65 CGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTATAATTTCCAACCTATTCCACTACTGGC
* * * *
32113644 CAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGTCGTCTTT
1 CAGGGATATAGGACTTGTGGCTTAAATCTACTTCCTTACACTTGAAGATAAGATTTGCCGTCTTC
*
32113709 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTATAGTTTCCAACCTATTCCACTACTGGC
66 GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTATAATTTCCAACCTATTCCACTACTGGC
32113772 CAGGGATATAGGACTTGTG
1 CAGGGATATAGGACTTGTG
32113791 ATTTCACCGA
Statistics
Matches: 136, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
128 133 0.98
129 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (128 bp):
CAGGGATATAGGACTTGTGGCTTAAATCTACTTCCTTACACTTGAAGATAAGATTTGCCGTCTTC
GATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTATAATTTCCAACCTATTCCACTACTGGC
Found at i:32114252 original size:17 final size:17
Alignment explanation
Indices: 32114230--32114262 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
32114220 CACACCATTC
32114230 CCGAGGTAACCTCTTCT
1 CCGAGGTAACCTCTTCT
32114247 CCGAGGTAACCTCTTC
1 CCGAGGTAACCTCTTC
32114263 CTCTTGCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.36, G:0.18, T:0.27
Consensus pattern (17 bp):
CCGAGGTAACCTCTTCT
Found at i:32115032 original size:16 final size:17
Alignment explanation
Indices: 32115011--32115043 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32115001 TTAGCCTCTC
32115011 CATTTTAC-TTTTTCAT
1 CATTTTACATTTTTCAT
*
32115027 CATTTTTCATTTTTCAT
1 CATTTTACATTTTTCAT
32115044 TCTTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (17 bp):
CATTTTACATTTTTCAT
Found at i:32121212 original size:3 final size:3
Alignment explanation
Indices: 32121190--32121265 Score: 107
Period size: 3 Copynumber: 25.3 Consensus size: 3
32121180 TACAAAGCAG
* * * *
32121190 TAA TAG TAA TAG TTA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
32121238 TAA TAA TAA TAA TAA TAG TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
32121266 GAAATTTAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (3 bp):
TAA
Done.