Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007812.1 Hibiscus syriacus cultivar Beakdansim tig00110140_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 304742
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1919 original size:181 final size:183
Alignment explanation
Indices: 1568--2218 Score: 1143
Period size: 182 Copynumber: 3.6 Consensus size: 183
1558 CATCAGGACA
1568 TACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACC-GTATA
1 TACCGACACAATATTA-AAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
1632 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATG
65 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATG
1697 TCGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAAT-TGGACATAAAG
130 TCGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAG
1750 TACCGACACAATATTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATAT
1 TACCGACACAATATTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATAT
1815 TTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
66 TTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
*
1880 CGACACTTTTTTAAATCGTATCGACACATTTTT-TTCCAATCTGGACATAAAG
131 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAG
1932 TACCGACACAATA-TAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATAT
1 TACCGACACAATATTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATAT
1996 TTATACCGGTTATATTACAAAATTATCTATTACATTATAA-TATGGGTTCCGATGTGT-AAATGT
66 TTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
*
2059 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAG
131 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAG
* * * *
2112 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTATACCTATTCGCGCATAAGACCGGTAGA
1 TACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATA
* * * **
2177 TTTATACCGGTTATATTGCAAATTTACCTATTTTATTATAAT
65 TTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
2219 ATGTTGAAAG
Statistics
Matches: 453, Mismatches: 10, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
179 39 0.09
180 48 0.11
181 141 0.31
182 225 0.50
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
TACCGACACAATATTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATAT
TTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAG
Found at i:3684 original size:3 final size:3
Alignment explanation
Indices: 3676--3762 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
3666 ACTTGTTTGG
* * * **
3676 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
3724 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
3763 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:3699 original size:18 final size:18
Alignment explanation
Indices: 3676--3777 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
3666 ACTTGTTTGG
3676 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
3694 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
3712 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
3730 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
3748 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
3766 AGCTTCATCTTC
1 ATCATCATCTTC
3778 TGCGACCGCT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:3743 original size:42 final size:42
Alignment explanation
Indices: 3684--3774 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
3674 GGATCATCAT
*
3684 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
3726 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
3768 CTTCATC
1 CTTCATC
3775 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:5930 original size:198 final size:198
Alignment explanation
Indices: 5354--6368 Score: 1898
Period size: 198 Copynumber: 5.1 Consensus size: 198
5344 GATGATTTTG
*
5354 GGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG-AAAAAATATCGACACAAACT
1 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACT
5418 ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAG
66 ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAG
5483 ATTG-AAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGATCGACACTTTTTATA
131 ATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATA
5546 TAT
196 TAT
*
5549 GGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG-AAAAAATATCGACACAAACT
1 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACT
5613 ATATTAGTGTCGACACATTATTTAGACATATT-TCTCATAAAACCGGTATAATTGTACCGGTTAG
66 ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAG
5677 ATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATA
131 ATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATA
5742 TAT
196 TAT
* **
5745 GGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAATATCGACACAAACT
1 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACT
5810 ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAG
66 ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAG
5875 ATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATA
131 ATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATA
5940 TAT
196 TAT
5943 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACT
1 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACT
6008 ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAG
66 ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAG
6073 ATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATA
131 ATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATA
6138 TAT
196 TAT
6141 GGATCGACACTTTATGGGTGCACCCTG-TTTCCATTCATTCTGGAAAAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAAAAAATATCGACACAAAC
6205 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
65 TATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTA
* * *
6270 GATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGATTGACACTTTTTA
130 GATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGATCGACACTTTTTA
6335 TATAT
194 TATAT
6340 GGATCGACACTTTATGGGTGCACCCTGTT
1 GGATCGACACTTTATGGGTGCACCCTGTT
6369 GGCCATATTG
Statistics
Matches: 805, Mismatches: 8, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
194 36 0.04
195 118 0.15
196 82 0.10
197 68 0.08
198 441 0.55
199 59 0.07
200 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (198 bp):
GGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAAAATATCGACACAAACT
ATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACCGGTTAG
ATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTTTTTATA
TAT
Found at i:6510 original size:18 final size:18
Alignment explanation
Indices: 6487--6533 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
6477 TTATATTCAC
6487 ATACAAAA-TATAAATCGT
1 ATACAAAATTAT-AATCGT
*
6505 ATACAAAATTATAATCTT
1 ATACAAAATTATAATCGT
6523 ATACAAAATTA
1 ATACAAAATTA
6534 ACTCGACATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 24 0.89
19 3 0.11
ACGTcount: A:0.55, C:0.11, G:0.02, T:0.32
Consensus pattern (18 bp):
ATACAAAATTATAATCGT
Found at i:14344 original size:24 final size:23
Alignment explanation
Indices: 14311--14356 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
14301 GAGAGACCAA
*
14311 TTTGATAGATTGCTTCAGGAATGAT
1 TTTGATAGA-TGCATC-GGAATGAT
14336 TTTGA-AGATGCATCGGAATGA
1 TTTGATAGATGCATCGGAATGA
14357 ATACAATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 5 0.25
24 3 0.15
25 5 0.25
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.35
Consensus pattern (23 bp):
TTTGATAGATGCATCGGAATGAT
Found at i:15201 original size:31 final size:33
Alignment explanation
Indices: 15139--15201 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
15129 AGAAAAGGAC
*
15139 TTGGACACTGGAAAGGAGTTTTTGTATGATTTT
1 TTGGACACTGGAAAGGAGTTTGTGTATGATTTT
15172 TTGGA-ACTGGAAAGTGA-TTTGT-TATGATTT
1 TTGGACACTGGAAAG-GAGTTTGTGTATGATTT
15202 ATGTTGCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 8 0.29
32 13 0.46
33 7 0.25
ACGTcount: A:0.25, C:0.05, G:0.27, T:0.43
Consensus pattern (33 bp):
TTGGACACTGGAAAGGAGTTTGTGTATGATTTT
Found at i:22062 original size:24 final size:24
Alignment explanation
Indices: 22034--22142 Score: 112
Period size: 24 Copynumber: 4.5 Consensus size: 24
22024 ATGTTTTATC
* *
22034 TGATTTCTGATTTGAATTCTATTA
1 TGATTTCTGATATGAATTCTGTTA
*
22058 TGATTTCTGATATGAATTCTGTTC
1 TGATTTCTGATATGAATTCTGTTA
* *
22082 TGATTT-TCGATCTGGATTCTGTTA
1 TGATTTCT-GATATGAATTCTGTTA
* * * *
22106 TGGTATATGATATGAATTCTGTTT
1 TGATTTCTGATATGAATTCTGTTA
*
22130 TGATTTTTGATAT
1 TGATTTCTGATAT
22143 CTACGTTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
23 1 0.01
24 67 0.97
25 1 0.01
ACGTcount: A:0.22, C:0.08, G:0.17, T:0.52
Consensus pattern (24 bp):
TGATTTCTGATATGAATTCTGTTA
Found at i:22065 original size:12 final size:13
Alignment explanation
Indices: 22034--22087 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 13
22024 ATGTTTTATC
22034 TGATTTCTGATT-
1 TGATTTCTGATTA
*
22046 TGAATTCT-ATTA
1 TGATTTCTGATTA
22058 TGATTTCTGA-TA
1 TGATTTCTGATTA
* *
22070 TGAATTCTG-TTC
1 TGATTTCTGATTA
22082 TGATTT
1 TGATTT
22088 TCGATCTGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
11 3 0.09
12 30 0.88
13 1 0.03
ACGTcount: A:0.22, C:0.09, G:0.15, T:0.54
Consensus pattern (13 bp):
TGATTTCTGATTA
Found at i:22101 original size:48 final size:49
Alignment explanation
Indices: 22032--22140 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 49
22022 GAATGTTTTA
* * *
22032 TCTGA-TTTCTGATTTGAATTCTATTATGATTTCTGATATGAATTCTGT
1 TCTGATTTTCTGATCTGAATTCTATTATGATATATGATATGAATTCTGT
* * *
22080 TCTGATTTTC-GATCTGGATTCTGTTATGGTATATGATATGAATTCTGT
1 TCTGATTTTCTGATCTGAATTCTATTATGATATATGATATGAATTCTGT
*
22128 TTTGATTTT-TGAT
1 TCTGATTTTCTGAT
22141 ATCTACGTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 48 0.92
49 4 0.08
ACGTcount: A:0.21, C:0.09, G:0.17, T:0.52
Consensus pattern (49 bp):
TCTGATTTTCTGATCTGAATTCTATTATGATATATGATATGAATTCTGT
Found at i:25068 original size:45 final size:45
Alignment explanation
Indices: 24995--26215 Score: 1883
Period size: 45 Copynumber: 27.0 Consensus size: 45
24985 AACGAATGAA
*
24995 CAAAATAATAATGCATATGGGTGAATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
*
25040 CAAAATAATAATGCATATAGGTGCATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
*
25085 CAAAATAATAATGTATATGGGTGCATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* * *
25130 AAAAATAATAATACATATGGGTGCATTATTGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
25175 CAAAATAATAATACATATGGGTGCATTATAGGCATGAAAGGATAC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
*
25220 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGT
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* * * * *
25265 CATAACTAA-AATTGCATGAACGGATGCATTA-AGACATGAAAGGGTGC
1 CA-AAATAATAA-TGCAT--ATGGGTGCATTATAGGCATGAAAGGATGC
* *
25312 CAAAATAATAATGTATATGGGTGCATTATAGGCATAAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
*
25357 CAAAATAATAATGCATATGGGTGCATTATAGACATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
25402 CAAAATAATAATCCATATGGGTGCATTATAGGTATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
25447 CAAAATAATAATGCATATAGGTGCATTATAGGCATGAAAAGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
*
25492 CAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
*
25537 CAAAATAATAATGCATATGAGTGCATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
25582 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
25627 CAAAATAATAATACATATGGGTGCATTATTGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
*
25672 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATAC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* **
25717 CAAAATAATAATACATATGGGTGCATTATAGGCATGAAAGGATAT
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* * * * * *
25762 CATAACTAA-AATTGCATGAACGGATGCATTA-AGACATGAGAGGGTGC
1 CA-AAATAATAA-TGCAT--ATGGGTGCATTATAGGCATGAAAGGATGC
* *
25809 CAAAATAATAATGTATATGGGTGCATTATAGGCATAAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
25854 TAAAATAATAATGCATATGGGTGCATTATAGACATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
25899 CAAAATAATAATCCATATGGGTGCATTATAGGTATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
25944 CAAAATAATAATGCATATAGGTGCATTATAGGCATGAAAAGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
25989 CAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
26034 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
*
26079 CAAAATAATAATGCATATGGGTACATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* **
26124 CAATATAATAATGTGTATGGGTGCATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
* *
26169 CAATATAATAATGCTTATGGGTGCATTATAGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
26214 CA
1 CA
26216 TAACTCAAAA
Statistics
Matches: 1072, Mismatches: 92, Indels: 24
0.90 0.08 0.02
Matches are distributed among these distances:
44 20 0.02
45 963 0.90
46 37 0.03
47 32 0.03
48 20 0.02
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.26
Consensus pattern (45 bp):
CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGC
Found at i:25929 original size:497 final size:497
Alignment explanation
Indices: 24995--26211 Score: 2247
Period size: 497 Copynumber: 2.4 Consensus size: 497
24985 AACGAATGAA
* *
24995 CAAAATAATAATGCATATGGGTGAATTATAGGCATGAAAGGATGCCAAAATAATAATGCATAT-A
1 CAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAAAATAATAATGCATATGA
*
25059 GGTGCATTATAGGCATGAAAGGATGCCAAAATAATAATGTATATGGGTGCATTATAGGCATGAAA
66 -GTGCATTATAGGCATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATAGGCATGAAA
* *
25124 GGATGCAAAAATAATAATACATATGGGTGCATTATTGGCATGAAAGGATGCCAAAATAATAATAC
130 GGATGCCAAAATAATAATACATATGGGTGCATTATTGGCATGAAAGGATGCCAAAATAATAATGC
*
25189 ATATGGGTGCATTATAGGCATGAAAGGATACCAAAATAATAATGCATATGGGTGCATTATAGGCA
195 ATATGGGTGCATTATAGGCATGAAAGGATACCAAAATAATAATACATATGGGTGCATTATAGGCA
*
25254 TGAAAGGATGTCATAACTAAAATTGCATGAACGGATGCATTAAGACATGAAAGGGTGCCAAAATA
260 TGAAAGGATATCATAACTAAAATTGCATGAACGGATGCATTAAGACATGAAAGGGTGCCAAAATA
25319 ATAATGTATATGGGTGCATTATAGGCATAAAAGGATGCCAAAATAATAATGCATATGGGTGCATT
325 ATAATGTATATGGGTGCATTATAGGCATAAAAGGATGCCAAAATAATAATGCATATGGGTGCATT
25384 ATAGACATGAAAGGATGCCAAAATAATAATCCATATGGGTGCATTATAGGTATGAAAGGATGCCA
390 ATAGACATGAAAGGATGCCAAAATAATAATCCATATGGGTGCATTATAGGTATGAAAGGATGCCA
25449 AAATAATAATGCATATAGGTGCATTATAGGCATGAAAAGATGC
455 AAATAATAATGCATATAGGTGCATTATAGGCATGAAAAGATGC
25492 CAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAAAATAATAATGCATATGA
1 CAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAAAATAATAATGCATATGA
25557 GTGCATTATAGGCATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAG
66 GTGCATTATAGGCATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAG
25622 GATGCCAAAATAATAATACATATGGGTGCATTATTGGCATGAAAGGATGCCAAAATAATAATGCA
131 GATGCCAAAATAATAATACATATGGGTGCATTATTGGCATGAAAGGATGCCAAAATAATAATGCA
25687 TATGGGTGCATTATAGGCATGAAAGGATACCAAAATAATAATACATATGGGTGCATTATAGGCAT
196 TATGGGTGCATTATAGGCATGAAAGGATACCAAAATAATAATACATATGGGTGCATTATAGGCAT
*
25752 GAAAGGATATCATAACTAAAATTGCATGAACGGATGCATTAAGACATGAGAGGGTGCCAAAATAA
261 GAAAGGATATCATAACTAAAATTGCATGAACGGATGCATTAAGACATGAAAGGGTGCCAAAATAA
*
25817 TAATGTATATGGGTGCATTATAGGCATAAAAGGATGCTAAAATAATAATGCATATGGGTGCATTA
326 TAATGTATATGGGTGCATTATAGGCATAAAAGGATGCCAAAATAATAATGCATATGGGTGCATTA
25882 TAGACATGAAAGGATGCCAAAATAATAATCCATATGGGTGCATTATAGGTATGAAAGGATGCCAA
391 TAGACATGAAAGGATGCCAAAATAATAATCCATATGGGTGCATTATAGGTATGAAAGGATGCCAA
25947 AATAATAATGCATATAGGTGCATTATAGGCATGAAAAGATGC
456 AATAATAATGCATATAGGTGCATTATAGGCATGAAAAGATGC
* *
25989 CAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTCCAAAATAATAATGCATATGG
1 CAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAAAATAATAATGCATATGA
*
26054 GTGCATTATAGGCATGAAAGGATGCCAAAATAATAATGCATATGGGTACATTATAGGCATGAAAG
66 GTGCATTATAGGCATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAG
* *** * * *
26119 GATGCCAATATAATAATGTGTATGGGTGCATTATAGGCATGAAAGGATGCCAATATAATAATGCT
131 GATGCCAAAATAATAATACATATGGGTGCATTATTGGCATGAAAGGATGCCAAAATAATAATGCA
26184 TATGGGTGCATTATAGGCATGAAAGGAT
196 TATGGGTGCATTATAGGCATGAAAGGAT
26212 GCCATAACTC
Statistics
Matches: 700, Mismatches: 19, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
497 699 1.00
498 1 0.00
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.26
Consensus pattern (497 bp):
CAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCAAAATAATAATGCATATGA
GTGCATTATAGGCATGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAG
GATGCCAAAATAATAATACATATGGGTGCATTATTGGCATGAAAGGATGCCAAAATAATAATGCA
TATGGGTGCATTATAGGCATGAAAGGATACCAAAATAATAATACATATGGGTGCATTATAGGCAT
GAAAGGATATCATAACTAAAATTGCATGAACGGATGCATTAAGACATGAAAGGGTGCCAAAATAA
TAATGTATATGGGTGCATTATAGGCATAAAAGGATGCCAAAATAATAATGCATATGGGTGCATTA
TAGACATGAAAGGATGCCAAAATAATAATCCATATGGGTGCATTATAGGTATGAAAGGATGCCAA
AATAATAATGCATATAGGTGCATTATAGGCATGAAAAGATGC
Found at i:26130 original size:22 final size:22
Alignment explanation
Indices: 26105--26175 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
26095 ATGGGTACAT
26105 TATAGGCATGAAAGGATGCCAA
1 TATAGGCATGAAAGGATGCCAA
*** * * * *
26127 TATAATAATGTGTATGGGTG-CAT
1 TATAGGCA--TGAAAGGATGCCAA
26150 TATAGGCATGAAAGGATGCCAA
1 TATAGGCATGAAAGGATGCCAA
26172 TATA
1 TATA
26176 ATAATGCTTA
Statistics
Matches: 32, Mismatches: 14, Indels: 6
0.62 0.27 0.12
Matches are distributed among these distances:
21 7 0.22
22 11 0.34
23 7 0.22
24 7 0.22
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.27
Consensus pattern (22 bp):
TATAGGCATGAAAGGATGCCAA
Found at i:26635 original size:81 final size:81
Alignment explanation
Indices: 26543--26692 Score: 237
Period size: 81 Copynumber: 1.9 Consensus size: 81
26533 GTTAATTAGT
* * *
26543 TGTGCATTTGACAGAAAAGTGTGAATTATGCCAGTTAAATGAAAGGTTAAATACCTTTGAGTAAA
1 TGTGCATTTGACAGAAAAGTGTCAATTATGCAAGTTAAATGAAAGGCTAAATACCTTTGAGTAAA
26608 AGATTAATGACCTAGC
66 AGATTAATGACCTAGC
* * * *
26624 TGTGCATTTGACAGAAAGGTGTCAATTATGCAAGTTAGATGAAAGGCTAAATGCCTTTGGGTAAA
1 TGTGCATTTGACAGAAAAGTGTCAATTATGCAAGTTAAATGAAAGGCTAAATACCTTTGAGTAAA
26689 AGAT
66 AGAT
26693 GAAAGGAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (81 bp):
TGTGCATTTGACAGAAAAGTGTCAATTATGCAAGTTAAATGAAAGGCTAAATACCTTTGAGTAAA
AGATTAATGACCTAGC
Found at i:28664 original size:2 final size:2
Alignment explanation
Indices: 28657--28699 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
28647 ATGATGTCAG
28657 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
28699 A
1 A
28700 ACTTTTATGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:31352 original size:45 final size:45
Alignment explanation
Indices: 31303--31573 Score: 411
Period size: 45 Copynumber: 6.0 Consensus size: 45
31293 AATGAATGAA
31303 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAAGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAAGATGC
* * *
31348 CAAAATAATAATGTATATGAGTGCATTATAGGCATGAAATGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAAGATGC
* * *
31393 CAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGT
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAAGATGC
*
31438 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAATGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAAGATGC
* * *
31483 CAAAATAATAATGCATATGGGTGAATTATAGACATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAAGATGC
* *
31528 C-AAATAATAATGCATATGGGTGCATTATCGACATG-AAAGAATGC
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAAG-ATGC
31572 CA
1 CA
31574 TAACTAAAAA
Statistics
Matches: 207, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
43 3 0.01
44 37 0.18
45 167 0.81
ACGTcount: A:0.41, C:0.11, G:0.22, T:0.26
Consensus pattern (45 bp):
CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAAGATGC
Found at i:31414 original size:90 final size:90
Alignment explanation
Indices: 31303--31625 Score: 445
Period size: 90 Copynumber: 3.6 Consensus size: 90
31293 AATGAATGAA
* * *
31303 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAAGATGCCAAAATAATAATGTATATGA
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAAATAATAATGCATATGG
31368 GTGCATTATAGGCATGAAATGATGC
66 GTGCATTATAGGCATGAAATGATGC
* *
31393 CAAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCAAAATAATAATGCATATGG
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAAATAATAATGCATATGG
31458 GTGCATTATAGGCATGAAATGATGC
66 GTGCATTATAGGCATGAAATGATGC
* *
31483 CAAAATAATAATGCATATGGGTGAATTATAGACATGAAAGGATGCC-AAATAATAATGCATATGG
1 CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAAATAATAATGCATATGG
* *
31547 GTGCATTATCGACATGAAA-GAATGC
66 GTGCATTATAGGCATGAAATG-ATGC
* * * * * *
31572 CATAACTAAAAATGTATGAACGGATGCATTA-AGGCAAGAAAGGATGCCATAAAT
1 CA-AAATAATAATGCAT--ATGGGTGCATTATAGGCATGAAAGGATGCCA-AAAT
31626 GAAATTAACG
Statistics
Matches: 208, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
88 1 0.00
89 41 0.20
90 138 0.66
91 15 0.07
92 9 0.04
93 4 0.02
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (90 bp):
CAAAATAATAATGCATATGGGTGCATTATAGGCATGAAAGGATGCCAAAATAATAATGCATATGG
GTGCATTATAGGCATGAAATGATGC
Found at i:32109 original size:81 final size:81
Alignment explanation
Indices: 31972--32138 Score: 235
Period size: 81 Copynumber: 2.1 Consensus size: 81
31962 TGTTTAAAAA
* * * * * *
31972 TAAAATATTAATGGCCTAGATGTGTATTTGGTAGAAAGGTGTCAATTATGCCAGTTATACGAAAG
1 TAAAAGATTAATGGCCTAGATGTGCATTTAGCAGAAAGGTGTCAATTATGCAAGTTAGACGAAAG
*
32037 GTTAAATACCTTTGAG
66 GCTAAATACCTTTGAG
* *
32053 TAAAAGATTAATGGCCTAGCTGTGCATTTAGCAGAAAGGTGTCAATTATGCAAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGATGTGCATTTAGCAGAAAGGTGTCAATTATGCAAGTTAGACGAAAG
* *
32118 GCTAAATGCCTTTGGG
66 GCTAAATACCTTTGAG
32134 TAAAA
1 TAAAA
32139 TACTAAAGGA
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGATGTGCATTTAGCAGAAAGGTGTCAATTATGCAAGTTAGACGAAAG
GCTAAATACCTTTGAG
Found at i:34694 original size:20 final size:20
Alignment explanation
Indices: 34669--34714 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
34659 CTTGAGTATT
34669 GATACTACAAGAACAATATC
1 GATACTACAAGAACAATATC
* *
34689 GATACTATAAGAACATTATC
1 GATACTACAAGAACAATATC
34709 GATACT
1 GATACT
34715 TCTTTTTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (20 bp):
GATACTACAAGAACAATATC
Found at i:35455 original size:14 final size:16
Alignment explanation
Indices: 35416--35456 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
35406 AAATTTGACC
35416 AAAAATCATTATGATG
1 AAAAATCATTATGATG
35432 AACAAA-CATT-T-ATG
1 AA-AAATCATTATGATG
35446 AAAAATCATTA
1 AAAAATCATTA
35457 AAAACCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
13 3 0.14
14 9 0.41
15 1 0.05
16 6 0.27
17 3 0.14
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (16 bp):
AAAAATCATTATGATG
Found at i:38394 original size:20 final size:21
Alignment explanation
Indices: 38369--38419 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
38359 GGGAGGGAAA
*
38369 TATCGATACTCT-TTGCTGAG
1 TATCGATACTCTACTGCTGAG
* *
38389 TATCGATACTCTACTGTTGGG
1 TATCGATACTCTACTGCTGAG
38410 TATCGATACT
1 TATCGATACT
38420 GTCCTGAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (21 bp):
TATCGATACTCTACTGCTGAG
Found at i:38414 original size:21 final size:20
Alignment explanation
Indices: 38369--38431 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 20
38359 GGGAGGGAAA
*
38369 TATCGATACTCTTTGCTGAG
1 TATCGATACTCTCTGCTGAG
* *
38389 TATCGATACTCTACTGTTGGG
1 TATCGATACTCT-CTGCTGAG
*
38410 TATCGATACTGTC--CTGAG
1 TATCGATACTCTCTGCTGAG
38428 TATC
1 TATC
38432 AAAATCGAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 7 0.19
20 13 0.36
21 16 0.44
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
TATCGATACTCTCTGCTGAG
Found at i:45844 original size:104 final size:104
Alignment explanation
Indices: 45664--45871 Score: 346
Period size: 104 Copynumber: 2.0 Consensus size: 104
45654 TGTGGTAGAG
* *
45664 TTGAGTTACTAATGTGTAACCTTTGGATTTCTAAGCGTTGGAAGCACCTCAAAATCACCCTAGCA
1 TTGAGTTACAAATGTGTAACCTTTGGATTTCTAAGCATTGGAAGCACCTCAAAATCACCCTAGCA
45729 CAAGCATCTCCTTGTTCTTGCTCTTGGAGATTTCACCCA
66 CAAGCATCTCCTTGTTCTTGCTCTTGGAGATTTCACCCA
* *
45768 TTGAGTTAGAAATGTGTAACC-TTGGATTTCTAAGCTATTGGAAGCACCTCAAAATTACCCTAGC
1 TTGAGTTACAAATGTGTAACCTTTGGATTTCTAAGC-ATTGGAAGCACCTCAAAATCACCCTAGC
* *
45832 ACAAGCTTCTCCTTTTTCTTGCTCTTGGAGATTTCACCCA
65 ACAAGCATCTCCTTGTTCTTGCTCTTGGAGATTTCACCCA
45872 CTTCTCTCAC
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
103 14 0.14
104 83 0.86
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (104 bp):
TTGAGTTACAAATGTGTAACCTTTGGATTTCTAAGCATTGGAAGCACCTCAAAATCACCCTAGCA
CAAGCATCTCCTTGTTCTTGCTCTTGGAGATTTCACCCA
Found at i:51248 original size:23 final size:20
Alignment explanation
Indices: 51200--51263 Score: 83
Period size: 20 Copynumber: 3.0 Consensus size: 20
51190 ACCTTAGGCA
* *
51200 AAGGTAGTACCGATACCATC
1 AAGGTAGTACCGATACTACC
51220 AAGGTAGTACCGATACTACC
1 AAGGTAGTACCGATACTACC
51240 AAGGTGGTAGTACCGATACTACC
1 AA---GGTAGTACCGATACTACC
51263 A
1 A
51264 TGAAGGATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
20 20 0.51
23 19 0.49
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (20 bp):
AAGGTAGTACCGATACTACC
Found at i:53291 original size:19 final size:20
Alignment explanation
Indices: 53267--53304 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
53257 TGAAAATAAT
53267 TTGATTTT-AAAAGCAAAAG
1 TTGATTTTGAAAAGCAAAAG
*
53286 TTGATTTTGAAAATCAAAA
1 TTGATTTTGAAAAGCAAAA
53305 TGAAATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.34
Consensus pattern (20 bp):
TTGATTTTGAAAAGCAAAAG
Found at i:54254 original size:13 final size:14
Alignment explanation
Indices: 54234--54270 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
54224 GGGGGAGCTT
54234 TGATTTTTTTCAAA
1 TGATTTTTTTCAAA
54248 TGATTTTTTTCAAA
1 TGATTTTTTTCAAA
54262 TGATTTTTT
1 TGATTTTTT
54271 AATGTCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (14 bp):
TGATTTTTTTCAAA
Found at i:59069 original size:23 final size:24
Alignment explanation
Indices: 59039--59105 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
59029 CTATTTTTTT
59039 AAAAAAAAAACAAAAAAAAGGCA-
1 AAAAAAAAAACAAAAAAAAGGCAC
** *
59062 AAAAAAAAAGGAAAAAGAAGGCAC
1 AAAAAAAAAACAAAAAAAAGGCAC
59086 AAAAAAAAGAAGCAAAAAAA
1 AAAAAAAA-AA-CAAAAAAA
59106 GTCAAAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
23 20 0.57
24 8 0.23
25 1 0.03
26 6 0.17
ACGTcount: A:0.79, C:0.07, G:0.13, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAACAAAAAAAAGGCAC
Found at i:59076 original size:12 final size:13
Alignment explanation
Indices: 59050--59105 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
59040 AAAAAAAAAC
59050 AAAAAAAAGGCAA
1 AAAAAAAAGGCAA
59063 AAAAAAAAGG---
1 AAAAAAAAGGCAA
*
59073 AAAAAGAAGGCACA
1 AAAAAAAAGGCA-A
*
59087 AAAAAAAGAAGCAA
1 AAAAAAA-AGGCAA
59101 AAAAA
1 AAAAA
59106 GTCAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
10 9 0.26
13 10 0.29
14 12 0.34
15 4 0.11
ACGTcount: A:0.77, C:0.07, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGGCAA
Found at i:59111 original size:23 final size:22
Alignment explanation
Indices: 59039--59112 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
59029 CTATTTTTTT
*
59039 AAAAAAAAAA-CAAAAAAAAGGC
1 AAAAAAAAAAGC-AAAAAAAGAC
*
59061 AAAAAAAAAAGGAAAAAGAAGGCAC
1 AAAAAAAAAAGCAAAAA-AA-G-AC
*
59086 AAAAAAAAGAAGCAAAAAAAGTC
1 AAAAAAAA-AAGCAAAAAAAGAC
59109 AAAA
1 AAAA
59113 TTTCAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
22 15 0.35
23 7 0.16
24 2 0.05
25 11 0.26
26 8 0.19
ACGTcount: A:0.77, C:0.08, G:0.14, T:0.01
Consensus pattern (22 bp):
AAAAAAAAAAGCAAAAAAAGAC
Found at i:67316 original size:15 final size:15
Alignment explanation
Indices: 67296--67377 Score: 112
Period size: 15 Copynumber: 5.5 Consensus size: 15
67286 TTCCAGAAAA
67296 TGAATTACTGGAATT
1 TGAATTACTGGAATT
67311 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
67326 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
*
67341 TGAATTACTAGAATT
1 TGAATTACTGGAATT
**
67356 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
67370 TGAATTAC
1 TGAATTAC
67378 ATTTCTGTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
14 11 0.19
15 47 0.81
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:67330 original size:30 final size:30
Alignment explanation
Indices: 67296--67377 Score: 130
Period size: 30 Copynumber: 2.8 Consensus size: 30
67286 TTCCAGAAAA
** *
67296 TGAATTACTGGAATTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTAGAATT
67326 TGAATTACTGGAAAATGAATTACTAGAATT
1 TGAATTACTGGAAAATGAATTACTAGAATT
67356 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
67378 ATTTCTGTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 16 0.33
30 33 0.67
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTAGAATT
Found at i:67355 original size:45 final size:44
Alignment explanation
Indices: 67291--67377 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 44
67281 TGGTTTTCCA
* **
67291 GAAAATGAATTACTGGAATTTGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTAGAATTTGAATT-CTGGAAAATGAATTACTG
67336 GAAAATGAATTACTAGAATTTGAATTCTGGAAAATGAATTAC
1 GAAAATGAATTACTAGAATTTGAATTCTGGAAAATGAATTAC
67378 ATTTCTGTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 14 0.36
45 25 0.64
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.33
Consensus pattern (44 bp):
GAAAATGAATTACTAGAATTTGAATTCTGGAAAATGAATTACTG
Found at i:67383 original size:20 final size:20
Alignment explanation
Indices: 67360--67409 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
67350 AGAATTTGAA
67360 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
67380 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
67400 TTCTGGAAAA
1 TTCTGGAAAA
67410 CATCTGGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:67614 original size:27 final size:29
Alignment explanation
Indices: 67577--67675 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 29
67567 TTACTAAAAT
67577 ATTATTGAAATATATAAATATA-TTATT-C
1 ATTATT-AAATATATAAATATATTTATTAC
* *
67605 ATTATTAAATATATAAA-AAATTTATTAT
1 ATTATTAAATATATAAATATATTTATTAC
* * * *
67633 ATTATTAAA-ATAAAAATATAATATCTTAT
1 ATTATTAAATATATAAATAT-ATTTATTAC
67662 ATTATTATAATATA
1 ATTATTA-AATATA
67676 ATTGATTATT
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
26 2 0.03
27 22 0.37
28 16 0.27
29 14 0.24
30 2 0.03
31 3 0.05
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (29 bp):
ATTATTAAATATATAAATATATTTATTAC
Found at i:67643 original size:29 final size:29
Alignment explanation
Indices: 67575--67675 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 29
67565 CTTTACTAAA
* *
67575 ATATTATTGAAATATAT-AAATATATTATT
1 ATATTATTAAAATATATAAAAAAT-TTATT
*
67604 -CATTATT-AAATATATAAAAAATTTATT
1 ATATTATTAAAATATATAAAAAATTTATT
* *
67631 ATATTATTAAAATA-A-AAATATAATATCTT
1 ATATTATTAAAATATATAAA-A-AATTTATT
*
67660 ATATTATTATAATATA
1 ATATTATTAAAATATA
67676 ATTGATTATT
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
27 16 0.27
28 19 0.32
29 24 0.40
30 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (29 bp):
ATATTATTAAAATATATAAAAAATTTATT
Found at i:67698 original size:15 final size:16
Alignment explanation
Indices: 67660--67719 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 16
67650 ATAATATCTT
67660 ATATTATTATAATATA
1 ATATTATTATAATATA
*
67676 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
** *
67693 ATATTAAAAT-ATATT
1 ATATTATTATAATATA
67708 ATATTATTATAA
1 ATATTATTATAA
67720 ATATTAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
15 16 0.47
16 4 0.12
17 8 0.24
18 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:67704 original size:30 final size:28
Alignment explanation
Indices: 67682--67736 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
67672 TATAATTGAT
67682 TATT-TTATATAATATTAAAATATATTA
1 TATTATTATATAATATTAAAATATATTA
67709 TATTATTATA-AATATTAATAAATATATT
1 TATTATTATATAATATT-A-AAATATATT
67737 TTAAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 10 0.40
28 6 0.24
29 9 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
TATTATTATATAATATTAAAATATATTA
Found at i:67744 original size:48 final size:48
Alignment explanation
Indices: 67652--67799 Score: 122
Period size: 50 Copynumber: 3.0 Consensus size: 48
67642 ATAAAAATAT
* **
67652 AATATCTTATATTATTATAATATAATTGATTATTTTATATAATATTAA
1 AATATATTATATTATTATAATATAATAAATTATTTTATATAATATTAA
* *
67700 AATATATTATATTATTATAAATATTAATAAATATATTTTAAAT-ATTTTAA
1 AATATATTATATTATTAT-AATA-TAATAAAT-TATTTTATATAATATTAA
* * * * * *
67750 TAAT-TAATATTTTGATGAAAATGATATTAAAATATTTTAT-TAATATTAA
1 -AATATATTATATT-ATTATAAT-ATAATAAATTATTTTATATAATATTAA
67799 A
1 A
67800 TTCATAAAAT
Statistics
Matches: 80, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
48 19 0.24
49 17 0.21
50 28 0.35
51 16 0.20
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (48 bp):
AATATATTATATTATTATAATATAATAAATTATTTTATATAATATTAA
Found at i:67998 original size:42 final size:42
Alignment explanation
Indices: 67939--68050 Score: 181
Period size: 42 Copynumber: 2.7 Consensus size: 42
67929 TTACATTCCG
* *
67939 GAAAACGAATTAGGTGAAACAAACACGGGAAAACGTTTTTC-
1 GAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTTCA
*
67980 GAAAAACGAATTATGTGAAACAAACACGGGAAAACATTTTTCA
1 G-AAAACGAATTACGTGAAACAAACACGGGAAAACATTTTTCA
68023 GAAAACGAATTACGTGAAACAAACACGG
1 GAAAACGAATTACGTGAAACAAACACGG
68051 AAATTCGGGA
Statistics
Matches: 66, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (42 bp):
GAAAACGAATTACGTGAAACAAACACGGGAAAACATTTTTCA
Found at i:72729 original size:13 final size:13
Alignment explanation
Indices: 72711--72735 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72701 GAAGGCTTAT
72711 TTGTTTGTTATTG
1 TTGTTTGTTATTG
72724 TTGTTTGTTATT
1 TTGTTTGTTATT
72736 AAACTGATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.20, T:0.72
Consensus pattern (13 bp):
TTGTTTGTTATTG
Found at i:74603 original size:13 final size:13
Alignment explanation
Indices: 74585--74611 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
74575 TCGAATATAA
74585 AATCTTAAAATTC
1 AATCTTAAAATTC
74598 AATCTTAAAATTC
1 AATCTTAAAATTC
74611 A
1 A
74612 TTAACACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
AATCTTAAAATTC
Found at i:80753 original size:21 final size:21
Alignment explanation
Indices: 80712--80754 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
80702 TGAAAGAAGC
*
80712 TTTAAGATCATCAATTTCTTT
1 TTTAAGATCATCAATTACTTT
*
80733 TTTATGATCATC-ATATACTTT
1 TTTAAGATCATCAAT-TACTTT
80754 T
1 T
80755 GAAAGTAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.28, C:0.14, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTAAGATCATCAATTACTTT
Found at i:83278 original size:13 final size:13
Alignment explanation
Indices: 83260--83299 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
83250 TTGAATATAA
83260 AATCTTAAAATTC
1 AATCTTAAAATTC
83273 AATCTTAAAATTC
1 AATCTTAAAATTC
83286 AATCTTAAAATTC
1 AATCTTAAAATTC
83299 A
1 A
83300 TTAATACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
AATCTTAAAATTC
Found at i:87039 original size:14 final size:14
Alignment explanation
Indices: 87020--87049 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
87010 ACACATAATT
87020 TAAAATAAAAATAA
1 TAAAATAAAAATAA
87034 TAAAATAAAAATAA
1 TAAAATAAAAATAA
87048 TA
1 TA
87050 TAAACTCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAAATAAAAATAA
Found at i:94182 original size:25 final size:25
Alignment explanation
Indices: 94148--94205 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
94138 GTAAATGATC
94148 ATCAAAGAAAAGATGGAAAGCGCTT
1 ATCAAAGAAAAGATGGAAAGCGCTT
*
94173 ATCAAAGAAAAGATGGAAAGTGCTT
1 ATCAAAGAAAAGATGGAAAGCGCTT
*
94198 GTCAAAGA
1 ATCAAAGA
94206 TAGATCAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.48, C:0.10, G:0.24, T:0.17
Consensus pattern (25 bp):
ATCAAAGAAAAGATGGAAAGCGCTT
Found at i:97765 original size:19 final size:19
Alignment explanation
Indices: 97706--97784 Score: 68
Period size: 19 Copynumber: 4.2 Consensus size: 19
97696 TATGTATTGG
* *
97706 GTTATGAATTTGAAAATAA
1 GTTATGAATCTGAAAACAA
* ****
97725 GCTATGAATCTGACTGTAA
1 GTTATGAATCTGAAAACAA
* *
97744 GTTATGAGTCTGAAAACTA
1 GTTATGAATCTGAAAACAA
*
97763 GTTATGAATCTGGAAACAA
1 GTTATGAATCTGAAAACAA
97782 GTT
1 GTT
97785 CTGATTAAGA
Statistics
Matches: 45, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (19 bp):
GTTATGAATCTGAAAACAA
Found at i:97883 original size:25 final size:25
Alignment explanation
Indices: 97832--97883 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
97822 TATTATGAAC
* *
97832 ATGGAATATGAAAATGAATATGTGA
1 ATGGAATATGAAAATGAAAATGAGA
*
97857 ATGG-ATATGAAAGTGGAAAATGAGA
1 ATGGAATATGAAAAT-GAAAATGAGA
97882 AT
1 AT
97884 AAAATAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.25
Consensus pattern (25 bp):
ATGGAATATGAAAATGAAAATGAGA
Found at i:101726 original size:19 final size:20
Alignment explanation
Indices: 101702--101752 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
101692 CGGCCAAGAG
*
101702 CATGTATCTTCATT-AAAAT
1 CATGTATTTTCATTAAAAAT
101721 CATGTATTTTCATTAAAAAT
1 CATGTATTTTCATTAAAAAT
101741 CATGTATTTTCA
1 CATGTATTTTCA
101753 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (20 bp):
CATGTATTTTCATTAAAAAT
Found at i:105736 original size:19 final size:20
Alignment explanation
Indices: 105712--105761 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
105702 GGCCAAGAGC
*
105712 ATGTATCTTCATT-AAAATA
1 ATGTATTTTCATTAAAAATA
*
105731 ATGTATTTTCATTAAAAATC
1 ATGTATTTTCATTAAAAATA
105751 ATGTATTTTCA
1 ATGTATTTTCA
105762 AAGGAATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (20 bp):
ATGTATTTTCATTAAAAATA
Found at i:106296 original size:4 final size:4
Alignment explanation
Indices: 106287--106323 Score: 56
Period size: 4 Copynumber: 8.8 Consensus size: 4
106277 TAACATCTTT
106287 ATTC ATTC ATTTC ATTTC ATTC ATTC ATTC ATTC ATT
1 ATTC ATTC A-TTC A-TTC ATTC ATTC ATTC ATTC ATT
106324 TTTTATTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 23 0.72
5 9 0.28
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (4 bp):
ATTC
Found at i:106867 original size:24 final size:23
Alignment explanation
Indices: 106835--106884 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
106825 TATCACAAGC
106835 CTACAACTTGTATGGTCTTCTTTT
1 CTACAACTTGTATGGT-TTCTTTT
* * *
106859 CTACTACTTTTTTGGTTTCTTTT
1 CTACAACTTGTATGGTTTCTTTT
106882 CTA
1 CTA
106885 AAGCTTGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.14, C:0.20, G:0.10, T:0.56
Consensus pattern (23 bp):
CTACAACTTGTATGGTTTCTTTT
Found at i:108613 original size:54 final size:54
Alignment explanation
Indices: 108554--108771 Score: 268
Period size: 54 Copynumber: 4.1 Consensus size: 54
108544 ACCCACTACA
* *
108554 AATACGAAAATTCATAAAGTTATTATGAATTTCTTAGTTTGCACACATAGTGCC
1 AATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCC
* *
108608 AATACG----TTCATAAACTTATTAT-AATTTTTTTAGTTTGCACACACAGTGCT
1 AATACGAAAATTCATAAACTTATTATGAA-TTTCTTAGTTTGCACACACAGTGCC
* * **
108658 AATACAAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAATAAC
1 AATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCC
* * *
108712 GATACAAAAATTCATAAACTTATTATGAATTT-TATAGTTTGCACACATAGTGCC
1 AATACGAAAATTCATAAACTTATTATGAATTTCT-TAGTTTGCACACACAGTGCC
*
108766 GATACG
1 AATACG
108772 GTAATCACCA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
49 2 0.01
50 42 0.30
53 1 0.01
54 94 0.67
55 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (54 bp):
AATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTGCACACACAGTGCC
Found at i:112581 original size:54 final size:55
Alignment explanation
Indices: 112393--112593 Score: 307
Period size: 55 Copynumber: 3.7 Consensus size: 55
112383 TCAAAAAAGT
* *
112393 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
1 TAAGAAATCCATACTAAGTGTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAC
* * *
112448 TAGGAAATCCATACTAAGTGTATGGATTTTCGTATAGGCACTTTGTGTGCAAAAC
1 TAAGAAATCCATACTAAGTGTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAC
* * *
112503 AAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCA-TTATGTGTGC-CAAC
1 TAAGAAATCCATACTAAGTGTATGAATTTTCGTATGGGCACTT-TGTGTGCAAAAC
112557 TAAGAAATCCATACTAAGTGTATGAATTTTCGTATGG
1 TAAGAAATCCATACTAAGTGTATGAATTTTCGTATGG
112594 AAAATATATG
Statistics
Matches: 132, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
54 40 0.30
55 92 0.70
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (55 bp):
TAAGAAATCCATACTAAGTGTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAC
Found at i:112624 original size:109 final size:110
Alignment explanation
Indices: 112394--112608 Score: 319
Period size: 109 Copynumber: 2.0 Consensus size: 110
112384 CAAAAAAGTT
*
112394 AAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAGGAAATCCA
1 AAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATCCA
* * * * *
112459 TACTAAGTGTATGGATTTTCGTATAGGCACTTTGTGTGCAAAACA
66 TACTAAGTGTATGAATTTTCGTATAGGAAATATATGTGCAAAACA
* *
112504 AAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCA-TTATGTGTGC-CAACTAAGAAATCC
1 AAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTT-TGTGTGCAAAACTAAGAAATCC
112567 ATACTAAGTGTATGAATTTTCGTAT-GGAAAATATATGTGCAA
65 ATACTAAGTGTATGAATTTTCGTATAGG-AAATATATGTGCAA
112609 TTATAATATG
Statistics
Matches: 95, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
108 2 0.02
109 48 0.51
110 45 0.47
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (110 bp):
AAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAAATCCA
TACTAAGTGTATGAATTTTCGTATAGGAAATATATGTGCAAAACA
Found at i:112887 original size:68 final size:67
Alignment explanation
Indices: 112806--113554 Score: 901
Period size: 68 Copynumber: 11.0 Consensus size: 67
112796 AAGATTAATA
* ** *
112806 GCCTAACAGTGCATTTGACAGAAATATGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGTCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATG-CAGTTAGATGAAAGGCTAAGTGCCTTT
112871 GAG
65 GAG
* * *
112874 GCCTAACTCTGCATTTGACAGAAAAGGTGTCAATTATGCTAGTTAGATGAAAGGATAAGTGCATT
1 GCCTAACTGTGCATTTGACAG-AAAGGTGTCAATTATGC-AGTTAGATGAAAGGCTAAGTGCCTT
112939 TGAG
64 TGAG
* * * * * * *
112943 GCCTAATTGTGGATTTGATAGAAAGGTGTCAATTGTTCCAGTTATATGAAAGGCTAAGTGCGTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATT-ATGCAGTTAGATGAAAGGCTAAGTGCCTTT
113008 GAG
65 GAG
* * *
113011 GCCTAACTGTGCAATTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTTCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATG-CAGTTAGATGAAAGGCTAAGTGCCTTT
113076 GAG
65 GAG
* * * * *
113079 GCATAACTATGCATTTGACATAAAGGTGTCAATTATGCCAGTTAGATTAAAAGACTAAGTGCCTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATG-CAGTTAGA-TGAAAGGCTAAGTGCCTT
113144 TGAG
64 TGAG
** *
113148 GCCTAACTGTGCATTTGACAGAAATATGTCAATTATGCCAGTTAGATGAAAGGATAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATG-CAGTTAGATGAAAGGCTAAGTGCCTTT
113213 GA-
65 GAG
* * * * *
113215 ACCTTAATTATGCATTTGACAGAAAGATGTCAATTATGCTAGTCAGATGAAAGGCTAAGTGCCTT
1 GCC-TAACTGTGCATTTGACAGAAAGGTGTCAATTATGC-AGTTAGATGAAAGGCTAAGTGCCTT
113280 TGAG
64 TGAG
* * * *
113284 GCCAAACAT-TGCAATTGACATAAAGGTGTCAATAATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GCCTAAC-TGTGCATTTGACAGAAAGGTGTCAATTATG-CAGTTAGATGAAAGGCTAAGTGCCTT
113348 TGAG
64 TGAG
* * *
113352 GCCTAGCTGTGCAATTGACAAAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGC-AGTTAGATGAAAGGCTAAGTGCCTTT
113417 GAG
65 GAG
* * *** **
113420 GCCTAATTGTGCATTTGACAAAAAGGTGTCAATTATATTGTTAGATGAAAGTTTAAGTGCCTTTG
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCAGTTAGATGAAAGGCTAAGTGCCTTTG
113485 AG
66 AG
* * * * *
113487 GCCTAACTGTGCATTTGACAAAAAGATGTC-ATTCATGCGAGTTAGGTGAAAGGTTAAATGCCTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATT-ATGC-AGTTAGATGAAAGGCTAAGTGCCTT
113551 TGAG
64 TGAG
113555 TAAAAGACTA
Statistics
Matches: 592, Mismatches: 75, Indels: 28
0.85 0.11 0.04
Matches are distributed among these distances:
66 3 0.01
67 62 0.10
68 404 0.68
69 123 0.21
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (67 bp):
GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCAGTTAGATGAAAGGCTAAGTGCCTTTG
AG
Found at i:113180 original size:205 final size:205
Alignment explanation
Indices: 112806--113531 Score: 899
Period size: 205 Copynumber: 3.6 Consensus size: 205
112796 AAGATTAATA
* * * * *
112806 GCCTAACAGTGCATTTGACAGAAATATGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGTCTTT
1 GCCTAACTGTGCATTTGACAAAAAGATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
* * * * *
112871 GAGGCCTAACTCTGCATTTGACAGAAAAGGTGTCAATTATGCTAGTTAGATGAAAGGA-TAAGTG
66 GAGGCATAACTATGCATTTGACA-AAAAGGTGTCAATTATGCCAGTTAGATTAAAAGACTAAGTG
* * * * * * *
112935 CATTTGAGGCCTAATTGTGGATTTGATAGAAAGGTGTCAATTGTTCCAGTTATATGAAAGGCTAA
130 CCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAA
*
113000 GTGCGTTTGAG
195 GTGCCTTTGAG
* * *
113011 GCCTAACTGTGCAATTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTTCCTTT
1 GCCTAACTGTGCATTTGACAAAAAGATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
*
113076 GAGGCATAACTATGCATTTGACATAAAGGTGTCAATTATGCCAGTTAGATTAAAAGACTAAGTGC
66 GAGGCATAACTATGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATTAAAAGACTAAGTGC
** *
113141 CTTTGAGGCCTAACTGTGCATTTGACAGAAATATGTCAATTATGCCAGTTAGATGAAAGGATAAG
131 CTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAG
113206 TGCCTTTGA-
196 TGCCTTTGAG
* * * * * *
113215 ACCTTAATTATGCATTTGACAGAAAGATGTCAATTATGCTAGTCAGATGAAAGGCTAAGTGCCTT
1 GCC-TAACTGTGCATTTGACAAAAAGATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* * * * *
113280 TGAGGCCA-AAC-ATTGCAATTGACATAAAGGTGTCAATAATGCCAGTTAGA-TGAAAGGCTAAG
65 TGAGG-CATAACTA-TGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATTAAAAGACTAAG
* * * *
113342 TGCCTTTGAGGCCTAGCTGTGCAATTGACAAAAAGGTGTCAATTATGCTAGTTAGATGAAAGGCT
128 TGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCT
113407 AAGTGCCTTTGAG
193 AAGTGCCTTTGAG
* * *** **
113420 GCCTAATTGTGCATTTGACAAAAAGGTGTCAATTAT-ATTGTTAGATGAAAGTTTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAAAAAGATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
* * * *
113484 GAGGCCTAACTGTGCATTTGACAAAAAGATGTC-ATTCATGCGAGTTAG
66 GAGGCATAACTATGCATTTGACAAAAAGGTGTCAATT-ATGCCAGTTAG
113532 GTGAAAGGTT
Statistics
Matches: 452, Mismatches: 61, Indels: 18
0.85 0.11 0.03
Matches are distributed among these distances:
202 3 0.01
203 58 0.13
204 143 0.32
205 246 0.54
206 2 0.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (205 bp):
GCCTAACTGTGCATTTGACAAAAAGATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAGGCATAACTATGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATTAAAAGACTAAGTGC
CTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAG
TGCCTTTGAG
Found at i:113637 original size:46 final size:46
Alignment explanation
Indices: 113579--113707 Score: 145
Period size: 46 Copynumber: 2.8 Consensus size: 46
113569 TATAACAATT
*
113579 CATAAT-GTCATATAAAAGGGCATGAAAGGATGCCATAAACAAAATG
1 CATAATAG-CATATAAAAGGGCATGAAAAGATGCCATAAACAAAATG
* * * * * **
113625 TATAATAGCATATAAAGGGGAATGAGATGATGCCATAAATGAAATG
1 CATAATAGCATATAAAAGGGCATGAAAAGATGCCATAAACAAAATG
* *
113671 CATAATAGCGTATAAGA-GGCATGAAAAGATGCCATAA
1 CATAATAGCATATAAAAGGGCATGAAAAGATGCCATAA
113708 TTGAGATGCA
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
45 17 0.25
46 50 0.74
47 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.21
Consensus pattern (46 bp):
CATAATAGCATATAAAAGGGCATGAAAAGATGCCATAAACAAAATG
Found at i:117812 original size:55 final size:55
Alignment explanation
Indices: 117739--117995 Score: 367
Period size: 55 Copynumber: 4.7 Consensus size: 55
117729 TGCAAAAAGT
* * *
117739 TAAGAAATTCATACTAAGTGCATGAATTTCCGTATGGGCACTTTGTGTGCAAAAC
1 TAAGAAATCCATACTAAGTGTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAC
* *
117794 TATGAAATCCATACTAAGTGTATGAATTTTCGTATGGGCACTTTGTGTGAAAAAC
1 TAAGAAATCCATACTAAGTGTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAC
*
117849 TAAGAAATTCATACTAAGTGTATGAATTTAT-GTATGGGCACTTTGTGTGCAAAAC
1 TAAGAAATCCATACTAAGTGTATGAATTT-TCGTATGGGCACTTTGTGTGCAAAAC
* * * * *
117904 TAAGAAAACCATACCAAGTGTATAAAGTTTT-GTATGGGCACTATGTGTGC-GAAC
1 TAAGAAATCCATACTAAGTGTATGAA-TTTTCGTATGGGCACTTTGTGTGCAAAAC
*
117958 TAAGAAATACATACTAAGTGTATGAATTTTCGTATGGG
1 TAAGAAATCCATACTAAGTGTATGAATTTTCGTATGGG
117996 AAATATATGT
Statistics
Matches: 181, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
53 4 0.02
54 32 0.18
55 141 0.78
56 4 0.02
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (55 bp):
TAAGAAATCCATACTAAGTGTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAC
Found at i:118324 original size:68 final size:68
Alignment explanation
Indices: 118206--118808 Score: 812
Period size: 68 Copynumber: 9.0 Consensus size: 68
118196 AAGATTAATA
* * * *
118206 GCCTAATTGTGCATATGACAGAAA-GTGACAATTATGCCAGTTATATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
118270 GAG
66 GAG
* * * *
118273 ACCTAATTGTGCATTTGACAGAAACGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTACCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
118338 GAG
66 GAG
* *
118341 GCCTAATTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAAATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
118406 GAG
66 GAG
* * * *
118409 GCCTAACTGTGCATTTGACAAAAAGGTGTAAATTGTGCCAG-TAGATGAAAGGCTAGGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
118473 GAG
66 GAG
* * * *
118476 GCCTAACTGTGCATTTGACAGAAATGTTTCAATTATG-TATGTTAGATGAAAAGCTAAGTGCCTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCA-GTTAGATGAAAGGCTAAGTGCCTT
118540 TGAG
65 TGAG
* *
118544 ACCTAACTGTGCATTTGACAGAAA--TGTCAATTATGCCAGTTAGGTGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
118607 GAG
66 GAG
* * * *
118610 TCCTAACTGTGCATTTGACAGAAAGGTATCAATTAT-CCATTTAGATGAAAGGCTAAGTGTCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
118674 GAG
66 GAG
* *
118677 GCCTAACTTTGCATTTGACA-AAAAGTGTCAATTATG-CAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
118740 GAG
66 GAG
** * * * * * * *
118743 GTATAGCTGTGCATTTGACAAAAAGGTGT-TATCATGCCAG-TATATGAAAGGTTAAATGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
118806 GAG
66 GAG
118809 CAAATACTAG
Statistics
Matches: 478, Mismatches: 49, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
66 145 0.30
67 136 0.28
68 197 0.41
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (68 bp):
GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAG
Found at i:118909 original size:46 final size:46
Alignment explanation
Indices: 118840--118960 Score: 165
Period size: 46 Copynumber: 2.7 Consensus size: 46
118830 TGTGTAATGT
*
118840 CGTATAAAAGGGCATGAAAGGATGCCATAAATGAAATATATAATAG
1 CGTATAAAAGGGCATGAAAGGATGCCATAAATGAAATACATAATAG
* *
118886 CGTA-AAAAGGGGCATGAGAGGATGCCATAAATGAAATGCATAATAG
1 CGTATAAAA-GGGCATGAAAGGATGCCATAAATGAAATACATAATAG
* * *
118932 CGTATAAGA-GGCACGAAAGGATGACATAA
1 CGTATAAAAGGGCATGAAAGGATGCCATAA
118961 TTGAGATGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 21 0.32
46 42 0.64
47 3 0.05
ACGTcount: A:0.45, C:0.11, G:0.26, T:0.18
Consensus pattern (46 bp):
CGTATAAAAGGGCATGAAAGGATGCCATAAATGAAATACATAATAG
Found at i:119961 original size:48 final size:47
Alignment explanation
Indices: 119905--119999 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 47
119895 ATTAGCTCAT
119905 GACCTCGAATATAGCTCACATCACCATAATCATACATGACAACAAGG
1 GACCTCGAATATAGCTCACATCACCATAATCATACATGACAACAAGG
119952 GACCTTCGAATATAGCTCACATCACCATAATCATACATGACAACAAGG
1 GACC-TCGAATATAGCTCACATCACCATAATCATACATGACAACAAGG
120000 TATTTAGCTC
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 4 0.09
48 43 0.91
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (47 bp):
GACCTCGAATATAGCTCACATCACCATAATCATACATGACAACAAGG
Found at i:121301 original size:19 final size:22
Alignment explanation
Indices: 121279--121327 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
121269 AAATCCAGCA
*
121279 AAGAAAATCAAAGCACTCAAAG
1 AAGAAATTCAAAGCACTCAAAG
*
121301 AAGAAATTGAAAGCACTCAAA-
1 AAGAAATTCAAAGCACTCAAAG
121322 AAGAAA
1 AAGAAA
121328 GAAAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.61, C:0.14, G:0.14, T:0.10
Consensus pattern (22 bp):
AAGAAATTCAAAGCACTCAAAG
Found at i:124098 original size:45 final size:46
Alignment explanation
Indices: 124043--124134 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
124033 ACATATTTTG
124043 AGATGATATAA-TAGCTCGTGACCTTCGAACATAGCTCACATCACC
1 AGATGATATAATTAGCTCGTGACCTTCGAACATAGCTCACATCACC
124088 AGATGATATAATTAGCTCGTGACCTTCGAACATAGCTCACATCACC
1 AGATGATATAATTAGCTCGTGACCTTCGAACATAGCTCACATCACC
124134 A
1 A
124135 TATCATACAT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 11 0.24
46 35 0.76
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (46 bp):
AGATGATATAATTAGCTCGTGACCTTCGAACATAGCTCACATCACC
Found at i:128014 original size:11 final size:11
Alignment explanation
Indices: 127998--128022 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
127988 TTAGAGACAT
127998 AAACAGCTCAC
1 AAACAGCTCAC
128009 AAACAGCTCAC
1 AAACAGCTCAC
128020 AAA
1 AAA
128023 GAACATGCAT
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:0.52, C:0.32, G:0.08, T:0.08
Consensus pattern (11 bp):
AAACAGCTCAC
Found at i:128507 original size:66 final size:66
Alignment explanation
Indices: 128401--128530 Score: 242
Period size: 66 Copynumber: 2.0 Consensus size: 66
128391 AAGACTAACA
*
128401 TGTTATTGATTGATGATAACGAGTTGTCAATGACATAGAGATTTCAGAATTGATACATGATTATA
1 TGTTATTGATTGATGATAACGAGTTGTCAATGACATAGAGATTTCAGAATTAATACATGATTATA
128466 T
66 T
*
128467 TGTTATTGATTGATGATAACGAGTTGTCATTGACATAGAGATTTCAGAATTAATACATGATTAT
1 TGTTATTGATTGATGATAACGAGTTGTCAATGACATAGAGATTTCAGAATTAATACATGATTAT
128531 TGTCCAATGG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (66 bp):
TGTTATTGATTGATGATAACGAGTTGTCAATGACATAGAGATTTCAGAATTAATACATGATTATA
T
Found at i:128850 original size:30 final size:29
Alignment explanation
Indices: 128768--128851 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 29
128758 ACATCTTGAT
128768 GAGCATTTGGATGACATATACAGCTTAGTG
1 GAGCATTTGGA-GACATATACAGCTTAGTG
* * *
128798 GAG-AATTGGAAGACATGTACAGCTTGGTG
1 GAGCATTTGG-AGACATATACAGCTTAGTG
*
128827 GAGCATTTAGGAGACATAAACAGCT
1 GAGCATTT-GGAGACATATACAGCT
128852 CACAAACAGC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
29 24 0.53
30 19 0.42
31 2 0.04
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (29 bp):
GAGCATTTGGAGACATATACAGCTTAGTG
Found at i:128860 original size:11 final size:11
Alignment explanation
Indices: 128844--128868 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
128834 TAGGAGACAT
128844 AAACAGCTCAC
1 AAACAGCTCAC
128855 AAACAGCTCAC
1 AAACAGCTCAC
128866 AAA
1 AAA
128869 GAACATGGCA
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:0.52, C:0.32, G:0.08, T:0.08
Consensus pattern (11 bp):
AAACAGCTCAC
Found at i:130102 original size:86 final size:87
Alignment explanation
Indices: 129998--130163 Score: 257
Period size: 86 Copynumber: 1.9 Consensus size: 87
129988 CCAAATATTT
*
129998 AATTTTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTA-AT-ATTAGG-T
1 AATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAAT-AAA-CCCTATATGATTAGGTT
130060 AACTTAGATATAAAAGGATTATCA
64 AACTTAGATATAAAAGGATTATCA
*
130084 AATTCTAATTAATTAAATATTGATTTAATTAATTTGAAATAATAAACCCTATATGATTAGGTTAA
1 AATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAACCCTATATGATTAGGTTAA
* *
130149 CTTGGCTATAAAAGG
66 CTTAGATATAAAAGG
130164 GTGTGTTAGG
Statistics
Matches: 73, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
84 5 0.07
85 5 0.07
86 47 0.64
87 16 0.22
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.39
Consensus pattern (87 bp):
AATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAACCCTATATGATTAGGTTAA
CTTAGATATAAAAGGATTATCA
Found at i:130830 original size:2 final size:2
Alignment explanation
Indices: 130823--130857 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
130813 TAAGAACATG
130823 TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
130858 GTTTGTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 28 0.90
3 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:130845 original size:13 final size:13
Alignment explanation
Indices: 130823--130857 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
130813 TAAGAACATG
130823 TATA-TATATATA
1 TATATTATATATA
130835 TATATTATATATA
1 TATATTATATATA
*
130848 TATATGATAT
1 TATATTATAT
130858 GTTTGTTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (13 bp):
TATATTATATATA
Found at i:135843 original size:21 final size:21
Alignment explanation
Indices: 135812--135864 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 21
135802 GCTTAAGACT
*
135812 AACATGTTATTGATTGATGAC
1 AACAAGTTATTGATTGATGAC
*
135833 AACGAGTTATTATTGATTGATGAC
1 AACAAG---TTATTGATTGATGAC
135857 AACAAGTT
1 AACAAGTT
135865 GTCATTGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
21 6 0.23
24 20 0.77
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (21 bp):
AACAAGTTATTGATTGATGAC
Found at i:135847 original size:24 final size:24
Alignment explanation
Indices: 135818--135864 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
135808 GACTAACATG
*
135818 TTATTGATTGATGACAACGAGTTA
1 TTATTGATTGATGACAACAAGTTA
135842 TTATTGATTGATGACAACAAGTT
1 TTATTGATTGATGACAACAAGTT
135865 GTCATTGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (24 bp):
TTATTGATTGATGACAACAAGTTA
Found at i:135871 original size:24 final size:24
Alignment explanation
Indices: 135820--135872 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
135810 CTAACATGTT
* *
135820 ATTGATTGATGACAACGAGTTATT
1 ATTGATTGATGACAACAAGTTATC
*
135844 ATTGATTGATGACAACAAGTTGTC
1 ATTGATTGATGACAACAAGTTATC
135868 ATTGA
1 ATTGA
135873 CATAGAGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (24 bp):
ATTGATTGATGACAACAAGTTATC
Found at i:146333 original size:30 final size:30
Alignment explanation
Indices: 146299--146402 Score: 154
Period size: 30 Copynumber: 3.5 Consensus size: 30
146289 CATCCATAGA
*
146299 AGACATATACAACTTGGTGGAGCATTTGGG
1 AGACATATACAGCTTGGTGGAGCATTTGGG
* * *
146329 AGACATATACAGCTTAGTGGAGTATTTGGA
1 AGACATATACAGCTTGGTGGAGCATTTGGG
*
146359 AGACATGTACAGCTTGGTGGAGCATTTGGG
1 AGACATATACAGCTTGGTGGAGCATTTGGG
*
146389 AGACATAAACAGCT
1 AGACATATACAGCT
146403 CAGAAATAGC
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (30 bp):
AGACATATACAGCTTGGTGGAGCATTTGGG
Found at i:148440 original size:54 final size:54
Alignment explanation
Indices: 148359--148498 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
148349 TTTACGTGGA
* * *
148359 TTGCACACCCACTACCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGT
1 TTGCACACACAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGT
*
148413 TTGCACACACAGTGCCAATAC-ATAAATTCATTAACTTATTATGAATTTCTTAGT
1 TTGCACACACAGTGCCAATACGA-AAATTCATAAACTTATTATGAATTTCTTAGT
* * * *
148467 TTGCACACACGGTGCTAATAAGGAAATTCATA
1 TTGCACACACAGTGCCAATACGAAAATTCATA
148499 TCTCAACCCA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 74 0.99
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (54 bp):
TTGCACACACAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGT
Found at i:148577 original size:22 final size:22
Alignment explanation
Indices: 148549--148603 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
148539 ACCCCTACCA
148549 TGGTATCGATAGTTCTATATTG
1 TGGTATCGATAGTTCTATATTG
148571 TGGTATCGATAGTTCTATATTG
1 TGGTATCGATAGTTCTATATTG
148593 TGGTATCGATA
1 TGGTATCGATA
148604 CTCCCTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.44
Consensus pattern (22 bp):
TGGTATCGATAGTTCTATATTG
Found at i:148711 original size:94 final size:95
Alignment explanation
Indices: 148577--148754 Score: 243
Period size: 94 Copynumber: 1.9 Consensus size: 95
148567 ATTGTGGTAT
* * * * * * *
148577 CGATAGTTCTATATTGTGGTATCGATACTCCCTTTTAGTATCGATATCATTTCTACATTAT-GGA
1 CGATACTTCTATACTATGGTATCGATACTCCCTTTCAGTATCGATACCATTTCAACATTATAGAA
148641 TCCATGGTACCGATACTTTTCTCCTAGTAC
66 TCCATGGTACCGATACTTTTCTCCTAGTAC
* *
148671 CGATACTTCTATACTATGGTA-CTGATATTCCCTTTCAGTATCGATACCATTTCAACATTCTAGA
1 CGATACTTCTATACTATGGTATC-GATACTCCCTTTCAGTATCGATACCATTTCAACATTATAGA
*
148735 ATCCATGGTATCGATACTTT
65 ATCCATGGTACCGATACTTT
148755 CCTTTTTGTA
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
93 1 0.01
94 51 0.71
95 20 0.28
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.39
Consensus pattern (95 bp):
CGATACTTCTATACTATGGTATCGATACTCCCTTTCAGTATCGATACCATTTCAACATTATAGAA
TCCATGGTACCGATACTTTTCTCCTAGTAC
Found at i:156703 original size:22 final size:23
Alignment explanation
Indices: 156673--156715 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
156663 TATATAATCA
156673 TCTTAATTTTATAAAAAAAATTC
1 TCTTAATTTTATAAAAAAAATTC
156696 TCTT-ATTTTATAAAAAAAAT
1 TCTTAATTTTATAAAAAAAAT
156716 AAGTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
TCTTAATTTTATAAAAAAAATTC
Found at i:156951 original size:238 final size:235
Alignment explanation
Indices: 156276--156980 Score: 1289
Period size: 238 Copynumber: 3.0 Consensus size: 235
156266 ACACGTGGCG
156276 TGGCGTTCTCT---AAAAAAAAA-AAGAAAGCAAACTCTTTTCTTTTCTAAGCACAAACAATTTA
1 TGGCGTTCTCTCAAAAAAAAAAAGAAGAAAGCAAACTCTTTTCTTTTCTAAGCACAAACAATTTA
156337 TCTTAATAATTAAAAAAAACGTTATAACTACAATAGAGTGAATAATTATTTATTATTAAATAATT
66 TCTTAATAATTAAAAAAAACGTTATAACTACAATAGAGTGAATAATTATTTATTATTAAATAATT
156402 AAATACATTTTAAAATTTATATTATTATATAATCATCTTAATTTTATAAAAAAAATTCTCTTATT
131 AAATACATTTTAAAATTTATATTATTATATAATCATCTTAATTTTATAAAAAAAATTCTCTTATT
156467 TTATAAAAAAAAATAAGTTTTTTTCGACTGATCTTGGAAA
196 TTATAAAAAAAAATAAGTTTTTTTCGACTGATCTTGGAAA
156507 TGGCGTTCTCTCAAAAAAAAAAAGAAGAAAGCAAACTCTTTTCTTTTCTAAGCACAAACAATTTA
1 TGGCGTTCTCTCAAAAAAAAAAAGAAGAAAGCAAACTCTTTTCTTTTCTAAGCACAAACAATTTA
156572 TCTTAATAATTAAAAAAAAACGTTATAACTACAATAGAGTGAATAATTATTTATTATTAAATAAT
66 TCTTAATAATT-AAAAAAAACGTTATAACTACAATAGAGTGAATAATTATTTATTATTAAATAAT
156637 TAAATACATTTTAAAATTTATATTATTATATAATCATCTTAATTTTATAAAAAAAATTCTCTTAT
130 TAAATACATTTTAAAATTTATATTATTATATAATCATCTTAATTTTATAAAAAAAATTCTCTTAT
156702 TTTAT-AAAAAAAATAAGTTTTTTTCGACTGATCTTGGAAA
195 TTTATAAAAAAAAATAAGTTTTTTTCGACTGATCTTGGAAA
156742 TGGCGTTCTCTCAAAAAAAAAAAAAAAAGAAGAAAGCAAACTCTTTTCTTTTCTAAGCACAAACA
1 TGGCGTTCTCTC-----AAAAAAAAAAAGAAGAAAGCAAACTCTTTTCTTTTCTAAGCACAAACA
156807 ATTTATCTTAATAATT-AAAAAAACGTTATAACTACAATAGAGTGAATAATTATTTATTATTAAA
61 ATTTATCTTAATAATTAAAAAAAACGTTATAACTACAATAGAGTGAATAATTATTTATTATTAAA
*
156871 TAATTAAATACATTTTAAATTTTATATTATTATATAATCATCTTAATTTTAT-AAAAAAATTCTC
126 TAATTAAATACATTTTAAAATTTATATTATTATATAATCATCTTAATTTTATAAAAAAAATTCTC
*
156935 TTATTTTATAAAAAAAAATAAGTTTTTTTCGACTAATCTTGGAAA
191 TTATTTTATAAAAAAAAATAAGTTTTTTTCGACTGATCTTGGAAA
156980 T
1 T
156981 TGATTTCATA
Statistics
Matches: 461, Mismatches: 2, Indels: 15
0.96 0.00 0.03
Matches are distributed among these distances:
231 11 0.02
234 9 0.02
235 99 0.21
236 123 0.27
237 21 0.05
238 134 0.29
240 64 0.14
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (235 bp):
TGGCGTTCTCTCAAAAAAAAAAAGAAGAAAGCAAACTCTTTTCTTTTCTAAGCACAAACAATTTA
TCTTAATAATTAAAAAAAACGTTATAACTACAATAGAGTGAATAATTATTTATTATTAAATAATT
AAATACATTTTAAAATTTATATTATTATATAATCATCTTAATTTTATAAAAAAAATTCTCTTATT
TTATAAAAAAAAATAAGTTTTTTTCGACTGATCTTGGAAA
Found at i:168061 original size:34 final size:34
Alignment explanation
Indices: 168023--168095 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 34
168013 TTTATTCTTC
* *
168023 TAGTTAATTTAGGGAAGTAGTTCATTTATGAAT-T
1 TAGTTAATTTA-GGAAGTAATTCATTCATGAATCT
* * *
168057 TAGTTCATTTAGTAAGTAATTCATTCATGCATCT
1 TAGTTAATTTAGGAAGTAATTCATTCATGAATCT
168091 TAGTT
1 TAGTT
168096 CATTCAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 17 0.52
34 16 0.48
ACGTcount: A:0.30, C:0.08, G:0.16, T:0.45
Consensus pattern (34 bp):
TAGTTAATTTAGGAAGTAATTCATTCATGAATCT
Found at i:168096 original size:34 final size:34
Alignment explanation
Indices: 168023--168099 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
168013 TTTATTCTTC
* * *
168023 TAGTTAATTTAGGGAAGTAGTTCATTTATGAATT
1 TAGTTCATTTAGGGAAGTAATTCATTCATGAATT
* *
168057 TAGTTCATTTA-GTAAGTAATTCATTCATGCATCT
1 TAGTTCATTTAGGGAAGTAATTCATTCATGAAT-T
168091 TAGTTCATT
1 TAGTTCATT
168100 CAATAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 17 0.46
34 20 0.54
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (34 bp):
TAGTTCATTTAGGGAAGTAATTCATTCATGAATT
Found at i:168155 original size:16 final size:17
Alignment explanation
Indices: 168109--168160 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
168099 TCAATAAATT
168109 TAGTTCATTAAT-TAAAC
1 TAGTTCATTAATCT-AAC
* *
168126 TAGTTAATTCATCTAA-
1 TAGTTCATTAATCTAAC
168142 TAGTTCATTAATCTAAC
1 TAGTTCATTAATCTAAC
168159 TA
1 TA
168161 ACTCTTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 14 0.48
17 14 0.48
18 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.42
Consensus pattern (17 bp):
TAGTTCATTAATCTAAC
Found at i:170897 original size:22 final size:24
Alignment explanation
Indices: 170869--170921 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
170859 AAATCTAGCA
170869 AAGAAAA-TAAAGCACTC-AAAAG
1 AAGAAAATTAAAGCACTCAAAAAG
**
170891 AAGAAAATTCCAGCACTCAAAAAG
1 AAGAAAATTAAAGCACTCAAAAAG
170915 AAGAAAA
1 AAGAAAA
170922 GCAAGAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 7 0.26
23 8 0.30
24 12 0.44
ACGTcount: A:0.62, C:0.15, G:0.13, T:0.09
Consensus pattern (24 bp):
AAGAAAATTAAAGCACTCAAAAAG
Found at i:171769 original size:43 final size:43
Alignment explanation
Indices: 171715--171815 Score: 184
Period size: 43 Copynumber: 2.3 Consensus size: 43
171705 GTTAAGAATG
*
171715 GTGATGAATATGGTAATGGGATGGTGATAGAGTTGGCGTGAAA
1 GTGATGGATATGGTAATGGGATGGTGATAGAGTTGGCGTGAAA
171758 GTGATGGATATGGTAATGGGATGGTGATAGAGTTGGCGTGAAA
1 GTGATGGATATGGTAATGGGATGGTGATAGAGTTGGCGTGAAA
171801 GTGATGGATAATGGT
1 GTGATGGAT-ATGGT
171816 GAAGGAAATA
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
43 51 0.91
44 5 0.09
ACGTcount: A:0.29, C:0.02, G:0.41, T:0.29
Consensus pattern (43 bp):
GTGATGGATATGGTAATGGGATGGTGATAGAGTTGGCGTGAAA
Found at i:171785 original size:23 final size:23
Alignment explanation
Indices: 171712--171785 Score: 57
Period size: 23 Copynumber: 3.3 Consensus size: 23
171702 ATGGTTAAGA
*
171712 ATGGTGATGAATATGGTAATGGG
1 ATGGTGATGGATATGGTAATGGG
* * *
171735 ATGGTGATAGAGT-TGG---CGTG
1 ATGGTGATGGA-TATGGTAATGGG
**
171755 AAAGTGATGGATATGGTAATGGG
1 ATGGTGATGGATATGGTAATGGG
171778 ATGGTGAT
1 ATGGTGAT
171786 AGAGTTGGCG
Statistics
Matches: 35, Mismatches: 11, Indels: 10
0.62 0.20 0.18
Matches are distributed among these distances:
19 1 0.03
20 13 0.37
23 20 0.57
24 1 0.03
ACGTcount: A:0.28, C:0.01, G:0.41, T:0.30
Consensus pattern (23 bp):
ATGGTGATGGATATGGTAATGGG
Found at i:174540 original size:16 final size:16
Alignment explanation
Indices: 174519--174551 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
174509 TAGTTAGCTC
174519 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
174535 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
174551 A
1 A
174552 GGTGGCAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTGCATTCTAACAT
Found at i:179050 original size:22 final size:22
Alignment explanation
Indices: 179010--179051 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
179000 AAATATGTGG
*
179010 TTCATAATAATATCTTCATACA
1 TTCATAATAATATCATCATACA
179032 TTCATAAT-ATCATCATCATA
1 TTCATAATAAT-ATCATCATA
179052 ACTATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.40
Consensus pattern (22 bp):
TTCATAATAATATCATCATACA
Found at i:181915 original size:13 final size:12
Alignment explanation
Indices: 181890--181924 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
181880 TGTAGGAGTA
181890 TTTTTCT-TTTC
1 TTTTTCTCTTTC
181901 TTTTTCTTCTTTC
1 TTTTTC-TCTTTC
181914 TTTTTCTCTTT
1 TTTTTCTCTTT
181925 TTGTTGCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.27
12 6 0.27
13 10 0.45
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTCTCTTTC
Found at i:183514 original size:22 final size:22
Alignment explanation
Indices: 183474--183515 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
183464 AAATATGTGG
*
183474 TTCATAATAATATCTTCATACA
1 TTCATAATAATATCATCATACA
183496 TTCATAAT-ATCATCATCATA
1 TTCATAATAAT-ATCATCATA
183516 ACTATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.40
Consensus pattern (22 bp):
TTCATAATAATATCATCATACA
Found at i:192246 original size:251 final size:251
Alignment explanation
Indices: 191747--192250 Score: 960
Period size: 251 Copynumber: 2.0 Consensus size: 251
191737 TTTATTTTGT
191747 AATTAAATTATGACTCTATAGGAAGGCACAAGGCTGGCTGAATCCCTTGTAATCATTCGGCCATG
1 AATTAAATTATGACTCTATAGGAAGGCACAAGGCTGGCTGAATCCCTTGTAATCATTCGGCCATG
191812 CCTCTCCATTTCCTATAAATAGGAAAGCATATATCATTTGTACTCAGACCTTTTTGATTAATATA
66 CCTCTCCATTTCCTATAAATAGGAAAGCATATATCATTTGTACTCAGACCTTTTTGATTAATATA
191877 AGTGAGATTATTCTCTTCTTAAGTCCTGGTGACTTTATCGACTTATCAAGTATTTTATACTTGTG
131 AGTGAGATTATTCTCTTCTTAAGTCCTGGTGACTTTATCGACTTATCAAGTATTTTATACTTGTG
191942 TAACAACCTCTTTTCACTTTGATACTTCTGGTTCCTAGTTCTTATAATAGTGGGTC
196 TAACAACCTCTTTTCACTTTGATACTTCTGGTTCCTAGTTCTTATAATAGTGGGTC
191998 AATTAAATTATGACTCTATAGGAAGGCACAAGGCTGGCTGAATCCCTTGTAATCATTCGGCCATG
1 AATTAAATTATGACTCTATAGGAAGGCACAAGGCTGGCTGAATCCCTTGTAATCATTCGGCCATG
192063 CCTCTCCATTTCCTATAAATAGGAAAGCATATATCATTTGTACTCAGACC-TTTTGATT-A-ATA
66 CCTCTCCATTTCCTATAAATAGGAAAGCATATATCATTTGTACTCAGACCTTTTTGATTAATATA
192125 AGTGAGATTATTCTCTTCTTAAGTCCTGGTGACTTTTATCGACTTATCAAGTATTTTATACTTGT
131 AGTGAGATTATTCTCTTCTTAAGTCCTGGTGAC-TTTATCGACTTATCAAGTATTTTATACTTGT
192190 GGTAACAACCTCTTTTCACTTTGATACTTCTGGTTCCTAGTTCTTATAACTAGTGGGTC
195 -GTAACAACCTCTTTTCACTTTGATACTTCTGGTTCCTAGTTCTTATAA-TAGTGGGTC
192249 AA
1 AA
192251 AGTACTTAAT
Statistics
Matches: 250, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
248 36 0.14
249 32 0.13
250 56 0.22
251 126 0.50
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (251 bp):
AATTAAATTATGACTCTATAGGAAGGCACAAGGCTGGCTGAATCCCTTGTAATCATTCGGCCATG
CCTCTCCATTTCCTATAAATAGGAAAGCATATATCATTTGTACTCAGACCTTTTTGATTAATATA
AGTGAGATTATTCTCTTCTTAAGTCCTGGTGACTTTATCGACTTATCAAGTATTTTATACTTGTG
TAACAACCTCTTTTCACTTTGATACTTCTGGTTCCTAGTTCTTATAATAGTGGGTC
Found at i:194112 original size:17 final size:17
Alignment explanation
Indices: 194090--194143 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
194080 TCTCCTTCCA
194090 AGCTAGCTTGAGTGTGG
1 AGCTAGCTTGAGTGTGG
**
194107 AGCTAGC-T-A--G-CA
1 AGCTAGCTTGAGTGTGG
194119 AGCTAGCTTGAGTGTGG
1 AGCTAGCTTGAGTGTGG
194136 AGCTAGCT
1 AGCTAGCT
194144 AGCAAGCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
12 7 0.25
13 2 0.07
14 1 0.04
15 1 0.04
16 2 0.07
17 15 0.54
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (17 bp):
AGCTAGCTTGAGTGTGG
Found at i:194121 original size:29 final size:29
Alignment explanation
Indices: 194088--194150 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
194078 TGTCTCCTTC
194088 CAAGCTAGCTTGAGTGTGGAGCTAGCTAG
1 CAAGCTAGCTTGAGTGTGGAGCTAGCTAG
194117 CAAGCTAGCTTGAGTGTGGAGCTAGCTAG
1 CAAGCTAGCTTGAGTGTGGAGCTAGCTAG
194146 CAAGC
1 CAAGC
194151 ATGGGCTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (29 bp):
CAAGCTAGCTTGAGTGTGGAGCTAGCTAG
Found at i:205615 original size:16 final size:17
Alignment explanation
Indices: 205589--205620 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
205579 AGTGCTTTAA
205589 CTTTCTTTTTTTCTTTT
1 CTTTCTTTTTTTCTTTT
205606 CTTT-TTTTTTTCTTT
1 CTTTCTTTTTTTCTTT
205621 CATTTTGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
CTTTCTTTTTTTCTTTT
Found at i:209856 original size:6 final size:6
Alignment explanation
Indices: 209847--209891 Score: 60
Period size: 6 Copynumber: 8.0 Consensus size: 6
209837 TTTAACTTTC
*
209847 TTTCTT TTTCTT TTTC-T TTTCTT TTTC-T TTTC-T TTTATT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
209892 CCTTTTTGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 14 0.40
6 21 0.60
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:209864 original size:16 final size:17
Alignment explanation
Indices: 209843--209891 Score: 75
Period size: 16 Copynumber: 3.0 Consensus size: 17
209833 GTGCTTTAAC
209843 TTTC-TTTCTTTTTCTT
1 TTTCTTTTCTTTTTCTT
209859 TTTCTTTTCTTTTTC-T
1 TTTCTTTTCTTTTTCTT
*
209875 TTTCTTTTATTTTTCTT
1 TTTCTTTTCTTTTTCTT
209892 CCTTTTTGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 19 0.63
17 11 0.37
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTCTTTTCTTTTTCTT
Found at i:209868 original size:11 final size:10
Alignment explanation
Indices: 209843--209891 Score: 62
Period size: 11 Copynumber: 4.6 Consensus size: 10
209833 GTGCTTTAAC
*
209843 TTTCTTTCTT
1 TTTCTTTTTT
209853 TTTCTTTTTCT
1 TTTCTTTTT-T
209864 TTTCTTTTTCT
1 TTTCTTTTT-T
209875 TTTCTTTTATT
1 TTTCTTTT-TT
209886 TTTCTT
1 TTTCTT
209892 CCTTTTTGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
10 8 0.22
11 27 0.75
12 1 0.03
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:214463 original size:53 final size:53
Alignment explanation
Indices: 214395--214511 Score: 216
Period size: 53 Copynumber: 2.2 Consensus size: 53
214385 GAGTTAGAGA
* *
214395 TTCATCAAAGGGCACATGATGGTTCAAAGGAAAACTTCCAAAGATTATGTCCT
1 TTCACCAAGGGGCACATGATGGTTCAAAGGAAAACTTCCAAAGATTATGTCCT
214448 TTCACCAAGGGGCACATGATGGTTCAAAGGAAAACTTCCAAAGATTATGTCCT
1 TTCACCAAGGGGCACATGATGGTTCAAAGGAAAACTTCCAAAGATTATGTCCT
214501 TTCACCAAGGG
1 TTCACCAAGGG
214512 TGATGAATTT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 62 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (53 bp):
TTCACCAAGGGGCACATGATGGTTCAAAGGAAAACTTCCAAAGATTATGTCCT
Found at i:215258 original size:20 final size:22
Alignment explanation
Indices: 215223--215262 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
215213 CATGCTTAAT
215223 CATTCATTTGTTAGCTCATATG
1 CATTCATTTGTTAGCTCATATG
215245 CATTCA-TT-TTAGCTCATA
1 CATTCATTTGTTAGCTCATA
215263 GGTCTTACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (22 bp):
CATTCATTTGTTAGCTCATATG
Found at i:226753 original size:19 final size:18
Alignment explanation
Indices: 226708--226756 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
226698 AAAAGCAACA
*
226708 AAAAG-AGAAAAAGAATG
1 AAAAGAAGAAAAAGAAAG
*
226725 AATAAAAAGAAAAAGAAAAG
1 AA-AAGAAGAAAAAG-AAAG
226745 AAAAGAAGAAAA
1 AAAAGAAGAAAA
226757 TTCAAAGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 2 0.08
18 2 0.08
19 17 0.65
20 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (18 bp):
AAAAGAAGAAAAAGAAAG
Found at i:234675 original size:24 final size:23
Alignment explanation
Indices: 234625--234675 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
234615 TTTCTTTGCT
* *
234625 TTTTCTTCTTTTGAGTGCTGGAT
1 TTTTCTTCTTTTGAGTGCTGCAC
* *
234648 TTTTCTTTCTTTTGAGTGTTTCAC
1 TTTTC-TTCTTTTGAGTGCTGCAC
234672 TTTT
1 TTTT
234676 TTTTTTCCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.08, C:0.14, G:0.16, T:0.63
Consensus pattern (23 bp):
TTTTCTTCTTTTGAGTGCTGCAC
Found at i:249073 original size:43 final size:47
Alignment explanation
Indices: 248971--249076 Score: 141
Period size: 50 Copynumber: 2.3 Consensus size: 47
248961 ATGATTAGAT
248971 TTATTATTTTATTAGGAATTAAGGTTGAGTTAAAACAATAGTTTTAGTTA
1 TTATTATTTTATTAGGAATTAA-G--GAGTTAAAACAATAGTTTTAGTTA
249021 TTATTATTTTATTAGGAATT-A-GAGTTAAAAC-AT-G-TTTAGTTTA
1 TTATTATTTTATTAGGAATTAAGGAGTTAAAACAATAGTTTTAG-TTA
249064 TTATTATTTTATT
1 TTATTATTTTATT
249077 CTTCAGTTAT
Statistics
Matches: 55, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
42 5 0.09
43 17 0.31
44 2 0.04
45 10 0.18
49 1 0.02
50 20 0.36
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (47 bp):
TTATTATTTTATTAGGAATTAAGGAGTTAAAACAATAGTTTTAGTTA
Found at i:257877 original size:98 final size:98
Alignment explanation
Indices: 257682--257877 Score: 376
Period size: 99 Copynumber: 2.0 Consensus size: 98
257672 AGCAATCTTG
257682 CCATTTCATGCATAATTGCTTGAGTTTGCAAGTTAGGGCTTATCTTTCAGGGGTTCATCCTGGAC
1 CCATTTCATGCATAATTGCTTGAGTTTGCAAGTTAGGGCTTATCTTTCAGGGGTTCATCCTGGAC
257747 TTCGAGACATGGTTAGGGAAATAGAAATGAAAA
66 TTCGAGACATGGTTAGGGAAATAGAAATGAAAA
257780 CCATTTCATGCATAATTGCTTGAGTTTGCAAGTTAGTGGCTTATCTTTCAGGGGTTCATCCTGGA
1 CCATTTCATGCATAATTGCTTGAGTTTGCAAGTTAG-GGCTTATCTTTCAGGGGTTCATCCTGGA
257845 CTTCGAGACATGGTTAGGGAAATAGAAA-GAAAA
65 CTTCGAGACATGGTTAGGGAAATAGAAATGAAAA
257878 AGATATGTAA
Statistics
Matches: 97, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
98 41 0.42
99 56 0.58
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (98 bp):
CCATTTCATGCATAATTGCTTGAGTTTGCAAGTTAGGGCTTATCTTTCAGGGGTTCATCCTGGAC
TTCGAGACATGGTTAGGGAAATAGAAATGAAAA
Found at i:260027 original size:32 final size:33
Alignment explanation
Indices: 259958--260028 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 33
259948 ACGTGCAACA
*
259958 AAAAGTAAAATAGAAAAAAAAGTGAAAGAAATC
1 AAAAGAAAAATAGAAAAAAAAGTGAAAGAAATC
* *
259991 --AAGAAAAATTAG-AAAAAAAGTG-AAGCACTC
1 AAAAGAAAAA-TAGAAAAAAAAGTGAAAGAAATC
260021 AAAAGAAA
1 AAAAGAAA
260029 GAAAACTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
30 6 0.19
31 17 0.53
32 9 0.28
ACGTcount: A:0.68, C:0.06, G:0.15, T:0.11
Consensus pattern (33 bp):
AAAAGAAAAATAGAAAAAAAAGTGAAAGAAATC
Found at i:274076 original size:13 final size:13
Alignment explanation
Indices: 274055--274096 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
274045 TGTAGGAGTC
274055 TTTTCTTTTGCTT
1 TTTTCTTTTGCTT
* *
274068 TTTTGTTTTTCTT
1 TTTTCTTTTGCTT
*
274081 ATTTCTTTTGCTT
1 TTTTCTTTTGCTT
274094 TTT
1 TTT
274097 GTTGCAGCAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.79
Consensus pattern (13 bp):
TTTTCTTTTGCTT
Found at i:274897 original size:19 final size:20
Alignment explanation
Indices: 274850--274899 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
274840 GAAACCCTTT
**
274850 TGAAAATACATGATTTTTTA
1 TGAAAATACATGATTTTAAA
274870 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
274889 TGAAGATACAT
1 TGAAAATACAT
274900 ACTCTTGCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:284654 original size:14 final size:14
Alignment explanation
Indices: 284634--284669 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
284624 AGTGCTTCAA
284634 CTTCTTTTCTTTCTT
1 CTTCTTTTCTTT-TT
284649 -TTCTTTTCTTTTT
1 CTTCTTTTCTTTTT
284662 CTTCTTTT
1 CTTCTTTT
284670 GAGTGTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.10
14 18 0.90
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
CTTCTTTTCTTTTT
Found at i:289141 original size:19 final size:20
Alignment explanation
Indices: 289113--289152 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
289103 GGATAATAAT
289113 ATAAGTAATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
289133 ATAAG-AATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
289152 A
1 A
289153 GGATGGGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (20 bp):
ATAAGTAATGAAAAGAAATA
Found at i:289606 original size:19 final size:20
Alignment explanation
Indices: 289568--289610 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
289558 GAAACCCCTT
*
289568 TGAAAACACATGATTTTTAA
1 TGAAAACACATGAATTTTAA
*
289588 TGAAAATACAT-AATTTTAA
1 TGAAAACACATGAATTTTAA
289607 TGAA
1 TGAA
289611 GATAAATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (20 bp):
TGAAAACACATGAATTTTAA
Found at i:292864 original size:14 final size:13
Alignment explanation
Indices: 292834--292882 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
292824 TTGAACTTCT
292834 TTTTC-TTTTGTTC
1 TTTTCTTTTTG-TC
292847 TTTTCTTAATTTGT-
1 TTTTCTT--TTTGTC
292861 TTTTCTTTTTGTC
1 TTTTCTTTTTGTC
292874 TTTTCTTTT
1 TTTTCTTTT
292883 CTTTTCGCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 5 0.16
13 14 0.44
14 8 0.25
15 1 0.03
16 4 0.12
ACGTcount: A:0.04, C:0.12, G:0.06, T:0.78
Consensus pattern (13 bp):
TTTTCTTTTTGTC
Found at i:293640 original size:19 final size:20
Alignment explanation
Indices: 293602--293644 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
293592 GAAACCCCTT
*
293602 TGAAAAGACATGATTTTTAA
1 TGAAAAGACATGAATTTTAA
*
293622 TGAAAATACAT-AATTTTAA
1 TGAAAAGACATGAATTTTAA
293641 TGAA
1 TGAA
293645 GATAAATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (20 bp):
TGAAAAGACATGAATTTTAA
Found at i:296796 original size:14 final size:12
Alignment explanation
Indices: 296768--296805 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
296758 CCATTCAATA
296768 AAAAAGAAAATC
1 AAAAAGAAAATC
296780 AAAAAGAGAAATGC
1 AAAAAGA-AAAT-C
296794 AAAAA-AAAATC
1 AAAAAGAAAATC
296805 A
1 A
296806 GCAAGTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.08
12 11 0.46
13 5 0.21
14 6 0.25
ACGTcount: A:0.74, C:0.08, G:0.11, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATC
Done.