Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 64 of 255
Found at i:18562704 original size:27 final size:27
Alignment explanation
Indices: 18562438--18562780 Score: 183
Period size: 27 Copynumber: 12.7 Consensus size: 27
18562428 CTCCTGTAGG
* * *
18562438 GTAAAATTACTGAAATACCCTTGGTTT
1 GTAAAATTACAGAAATACCCCTGATTT
** * *
18562465 ACAAAATTACTG-AATA-CCCTGGTTT
1 GTAAAATTACAGAAATACCCCTGATTT
* *
18562490 GTAAAATTACCGAAATA-CCCTCAATTT
1 GTAAAATTACAGAAATACCCCT-GATTT
*
18562517 GTAAAATTACCA-AAATACCCCTAATTT
1 GTAAAATTA-CAGAAATACCCCTGATTT
* * **
18562544 GTGAAATTATCA-AAACA-CCCTCGACCT
1 GTAAAATTA-CAGAAATACCCCT-GATTT
** *
18562571 GTAAAATTATC-GAAATACCCCCAACTT
1 GTAAAATTA-CAGAAATACCCCTGATTT
*
18562598 ATAAAATTACCA-AAATA-CCCTCGATTT
1 GTAAAATTA-CAGAAATACCCCT-GATTT
* *
18562625 GTAAAGTTACCA-AAATACCCCTTATTT
1 GTAAAATTA-CAGAAATACCCCTGATTT
* *
18562652 GGAAAATTACCGAAATA-CCCTAGATTT
1 GTAAAATTACAGAAATACCCCT-GATTT
*
18562679 GGAAAATTACAGAAATACCCCTGATTT
1 GTAAAATTACAGAAATACCCCTGATTT
** * **
18562706 ACAAAATTACAAAAATACCATTGACTTT
1 GTAAAATTACAGAAATACCCCTGA-TTT
* * * *
18562734 -CAAATTTTATAGAAATACCACC-GGTTT
1 GTAAA-ATTACAGAAATACC-CCTGATTT
18562761 GTAAAATTACTA-AAATACCC
1 GTAAAATTAC-AGAAATACCC
18562781 TTAGTTTGTA
Statistics
Matches: 251, Mismatches: 47, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
25 17 0.07
26 25 0.10
27 174 0.69
28 35 0.14
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
GTAAAATTACAGAAATACCCCTGATTT
Found at i:18562871 original size:27 final size:27
Alignment explanation
Indices: 18562809--18562932 Score: 133
Period size: 27 Copynumber: 4.6 Consensus size: 27
18562799 AAAACGCCCT
* * *
18562809 TGTAGGGTGAAATGACTAAAATACCCC
1 TGTAGGGTAAAATGACCATAATACCCC
* * * **
18562836 TAATA-GGTAAAAAGACCGTAATGGCCC
1 T-GTAGGGTAAAATGACCATAATACCCC
*
18562863 TGTAGGGTAAAATGACCATAAAACCCC
1 TGTAGGGTAAAATGACCATAATACCCC
*
18562890 TGTAGGGTAAAGTGACCATAATACCCC
1 TGTAGGGTAAAATGACCATAATACCCC
*
18562917 TGTATGGTAAAATGAC
1 TGTAGGGTAAAATGAC
18562933 AATTATGCCC
Statistics
Matches: 77, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
26 2 0.03
27 73 0.95
28 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (27 bp):
TGTAGGGTAAAATGACCATAATACCCC
Found at i:18563131 original size:27 final size:27
Alignment explanation
Indices: 18563072--18563124 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
18563062 GGAAGTTCTG
18563072 TACTGGTGGCTATGCCACAATTACTGA
1 TACTGGTGGCTATGCCACAATTACTGA
* *
18563099 TACTGGTGGCTTTGCCACATTTACTG
1 TACTGGTGGCTATGCCACAATTACTG
18563125 TTTCTGGCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACAATTACTGA
Found at i:18567360 original size:44 final size:42
Alignment explanation
Indices: 18567272--18567381 Score: 116
Period size: 44 Copynumber: 2.6 Consensus size: 42
18567262 ATATGTTCTA
* *
18567272 TCGTGTAAGACCACGTCTGGGACGTTGCCATCGGCTTCTGTTT
1 TCGTGTAAGACCATGTCTGGGACATTGCCATCGGC-TCTGTTT
* *
18567315 TGCGTGTAAGACCATGTCTGGGACATTGGCATCATG-TCTGATTT
1 T-CGTGTAAGACCATGTCTGGGACATTGCCATC-GGCTCTG-TTT
* *
18567359 T-GTGTAGGACCTTGTCTGGGACA
1 TCGTGTAAGACCATGTCTGGGACA
18567382 GCGGCATCGA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
42 20 0.34
43 5 0.09
44 32 0.55
45 1 0.02
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATTGCCATCGGCTCTGTTT
Found at i:18570762 original size:37 final size:37
Alignment explanation
Indices: 18570651--18570786 Score: 121
Period size: 37 Copynumber: 3.7 Consensus size: 37
18570641 TGAGTACGTA
* * * *
18570651 TAAGACCATAGCTGGGCTATCGCATCGTAATACCGTG
1 TAAGACCATAGCTAGGCTATGGCATCGTAATCCCATG
* * * **
18570688 TAAGACCATAACTAGGCTATGACATCATAATGACATG
1 TAAGACCATAGCTAGGCTATGGCATCGTAATCCCATG
* * * *
18570725 TAAGACCATAGTTGGGCTATGGCATTGTTATCCCATG
1 TAAGACCATAGCTAGGCTATGGCATCGTAATCCCATG
* *
18570762 TAAGATCAT-GTCTAGGATATGGCAT
1 TAAGACCATAG-CTAGGCTATGGCAT
18570787 TGGTATCAAT
Statistics
Matches: 77, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
36 1 0.01
37 76 0.99
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (37 bp):
TAAGACCATAGCTAGGCTATGGCATCGTAATCCCATG
Found at i:18570810 original size:48 final size:48
Alignment explanation
Indices: 18570754--18570849 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
18570744 TGGCATTGTT
* * *
18570754 ATCCCATGTAAGATCATGTCTAGGATATGGCATTGGTATCAATATGTG
1 ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAATATGTG
*
18570802 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGTG
1 ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAATATGTG
18570850 GCACCCCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCAATATGTG
Found at i:18572207 original size:53 final size:53
Alignment explanation
Indices: 18572115--18572341 Score: 188
Period size: 53 Copynumber: 4.2 Consensus size: 53
18572105 ATACTAAGAA
* * * * *
18572115 TACATGGATACCTTTCCTTTTTA-AACTTACCATTTCCATGTCTTGACATGGTCT
1 TACATGG-TATCTTTCC-TTATAGAACTTACCAATGCCATGTCTTGGCATGGTCT
* * * *
18572169 TACTTGGTATCCTTTCCTTAT-GAACTCACCATTGCCATGACTTGGCATGGTCT
1 TACATGGTAT-CTTTCCTTATAGAACTTACCAATGCCATGTCTTGGCATGGTCT
* * ** *
18572222 TACATGGGATCTTTGTCTTATAGTAGTTTATCAATGCCATGTCTTGGCATGGTCT
1 TACATGGTATCTTT-CCTTATAG-AACTTACCAATGCCATGTCTTGGCATGGTCT
* * * * * *
18572277 TACATGATTTTCTTGCCTTATAAAACTTACCAATGTCATGCCTTGGCATGGTCTT
1 TACATG-GTATCTTTCCTTATAGAACTTACCAATGCCATGTCTTGGCATGGTC-T
*
18572332 TACTTGGTAT
1 TACATGGTAT
18572342 TCTTAAACGC
Statistics
Matches: 136, Mismatches: 30, Indels: 14
0.76 0.17 0.08
Matches are distributed among these distances:
52 4 0.03
53 45 0.33
54 40 0.29
55 43 0.32
56 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (53 bp):
TACATGGTATCTTTCCTTATAGAACTTACCAATGCCATGTCTTGGCATGGTCT
Found at i:18572297 original size:55 final size:53
Alignment explanation
Indices: 18572115--18572331 Score: 163
Period size: 54 Copynumber: 4.0 Consensus size: 53
18572105 ATACTAAGAA
* * * * * *
18572115 TACATGGATACCTTT-CCTTTTTAAACTTACCATTTCCATGTCTTGACATGGTCT
1 TACATGGAT--CTTTGCCTTATAAAACTTACCAATGCCATGACTTGGCATGGTCT
* * * *
18572169 TACTTGGTATCCTTT-CCTTAT-GAACTCACCATTGCCATGACTTGGCATGGTCT
1 TACATGG-AT-CTTTGCCTTATAAAACTTACCAATGCCATGACTTGGCATGGTCT
* * ** * *
18572222 TACATGGGATCTTTGTCTTATAGTAGTTTATCAATGCCATGTCTTGGCATGGTCT
1 TACAT-GGATCTTTGCCTTATA-AAACTTACCAATGCCATGACTTGGCATGGTCT
* * *
18572277 TACAT-GATTTTCTTGCCTTATAAAACTTACCAATGTCATGCCTTGGCATGGTCT
1 TACATGGA-TCT-TTGCCTTATAAAACTTACCAATGCCATGACTTGGCATGGTCT
18572331 T
1 T
18572332 TACTTGGTAT
Statistics
Matches: 132, Mismatches: 24, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
52 4 0.03
53 40 0.30
54 47 0.36
55 41 0.31
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (53 bp):
TACATGGATCTTTGCCTTATAAAACTTACCAATGCCATGACTTGGCATGGTCT
Found at i:18579696 original size:55 final size:54
Alignment explanation
Indices: 18579541--18579747 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
18579531 TTCCTTTTTA
* * * *
18579541 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTACCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
18579594 AACTCACCATTGCCATGCCTTGGCATAGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * *
18579648 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
18579703 AACTTACCAATTCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
18579748 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 30, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 44 0.36
54 37 0.30
55 41 0.34
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:18580098 original size:30 final size:30
Alignment explanation
Indices: 18580064--18580120 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
18580054 CCTTAACTCT
*
18580064 AACTTTGGAAAATTTATGATTTTTCCCCTA
1 AACTTTGGAAAATTTATAATTTTTCCCCTA
* * *
18580094 AACTTTTGCATATTTATAATTTTTCCC
1 AACTTTGGAAAATTTATAATTTTTCCC
18580121 AAAGGCTCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (30 bp):
AACTTTGGAAAATTTATAATTTTTCCCCTA
Found at i:18583580 original size:26 final size:26
Alignment explanation
Indices: 18583544--18583595 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
18583534 TGTTCCTGAA
18583544 AGAGTAATTTAGAAATCTGACACTAT
1 AGAGTAATTTAGAAATCTGACACTAT
18583570 AGAGTAATTTAGAAATCTGACACTAT
1 AGAGTAATTTAGAAATCTGACACTAT
18583596 GTCCTAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (26 bp):
AGAGTAATTTAGAAATCTGACACTAT
Found at i:18585783 original size:29 final size:29
Alignment explanation
Indices: 18585751--18585809 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
18585741 AGTCAATGTT
18585751 AGGTAAAAATTTGGTGGCTAAATTGACTA
1 AGGTAAAAATTTGGTGGCTAAATTGACTA
* *
18585780 AGGTGAAAATTTGTTGGCTAAATTGACTA
1 AGGTAAAAATTTGGTGGCTAAATTGACTA
18585809 A
1 A
18585810 AAAGAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (29 bp):
AGGTAAAAATTTGGTGGCTAAATTGACTA
Found at i:18585816 original size:29 final size:29
Alignment explanation
Indices: 18585756--18585816 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
18585746 ATGTTAGGTA
***
18585756 AAAATTTGGTGGCTAAATTGACTAAGGTG
1 AAAATTTGGTGGCTAAATTGACTAAAAAG
*
18585785 AAAATTTGTTGGCTAAATTGACTAAAAAG
1 AAAATTTGGTGGCTAAATTGACTAAAAAG
18585814 AAA
1 AAA
18585817 TAAAATAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.30
Consensus pattern (29 bp):
AAAATTTGGTGGCTAAATTGACTAAAAAG
Found at i:18586808 original size:46 final size:45
Alignment explanation
Indices: 18586627--18586984 Score: 168
Period size: 47 Copynumber: 7.6 Consensus size: 45
18586617 TCTGTGTGCT
* * *
18586627 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTACAAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTCATTACATGAGCC
* * *
18586673 AGTGTAGGACCATGTCTGGGACATGGCATC--CTCATTAAGACGAGACC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCATT-ACATGAG-CC
* *
18586720 TAGTGTAAGACATGTCTGGGATATGCATCGGC-C-TTGAGATGTAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCTCATT-ACATG--AGCC
* *
18586767 TGTGTAAGACATGTCTGGGACATGCATCGGCTACA-TA-ATGTA-TC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CATTACATG-AGCC
* * * * *
18586811 AGTATAAGACCATGCCTGGGACATGGCATCGGCACGGA-TACGTGAGAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTC--ATTACAT--GAGCC
* * *
18586861 AGT-TAAGACCATGTCTGGGACATGGCATCGACT--TAACGTGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCATTACAT--GAGCC
* * * *
18586907 AGTGTAAGACCATGTCTGCGACATGGCGTC-G-AC-TTAGCGTGAAAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCATTA-CATG--AGCC
18586954 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
18586985 ACATTATACC
Statistics
Matches: 255, Mismatches: 30, Indels: 52
0.76 0.09 0.15
Matches are distributed among these distances:
44 8 0.03
45 21 0.08
46 79 0.31
47 94 0.37
48 19 0.07
49 28 0.11
50 6 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCATTACATGAGCC
Found at i:18586930 original size:47 final size:47
Alignment explanation
Indices: 18586667--18586986 Score: 268
Period size: 47 Copynumber: 6.8 Consensus size: 47
18586657 CCACATTACA
* ** *
18586667 AGAGCCAGTGTAGGACCATGTCTGGGACATGGCATCCTCATTAA-GACG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTAACG-TG
* * *
18586715 AGA-CCTAGTGTAAGA-CATGTCTGGGATAT-GCATCGGCCTTGA-GATG
1 AGAGCC-AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTAACG-TG
* * * *
18586761 TA-AGCCTGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-T-ACATA
1 -AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAACGTG
* * * **
18586804 ATGTA-TCAGTATAAGACCATGCCTGGGACATGGCATCGGCACGGATACGTG
1 A-G-AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTA-ACGTG
*
18586855 AGAGTCAGT-TAAGACCATGTCTGGGACATGGCATCGACTTAACGTG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAACGTG
* * *
18586901 AGAGCCAGTGTAAGACCATGTCTGCGACATGGCGTCGACTTAGCGTG
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAACGTG
*
18586948 AAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
18586987 ATTATACCAT
Statistics
Matches: 226, Mismatches: 29, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 9 0.04
45 16 0.07
46 56 0.25
47 93 0.41
48 13 0.06
49 26 0.12
50 6 0.03
51 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (47 bp):
AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAACGTG
Found at i:18588173 original size:20 final size:21
Alignment explanation
Indices: 18588135--18588173 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18588125 TTATAATGAA
*
18588135 CACATGGGCGTGTTACCCTTC
1 CACACGGGCGTGTTACCCTTC
18588156 CACACGGGCGTG-TACCCT
1 CACACGGGCGTGTTACCCT
18588174 GTTTCAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.36, G:0.26, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTTACCCTTC
Found at i:18601424 original size:45 final size:45
Alignment explanation
Indices: 18601373--18601598 Score: 236
Period size: 45 Copynumber: 4.9 Consensus size: 45
18601363 TTGGGTGACA
* * *
18601373 TGTGAGCCAATGTATGACCATGTTGGACATGGCATCGGCGTTGAT
1 TGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTGAT
* * *
18601418 TGTGAGCCAGTGTAAAACCATGTTGGACATGGAATTGGCATTGAT
1 TGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTGAT
* * * *
18601463 TGTGAGCCAGTGTAAGACCATGTTGGACATGGCTTTGGCACTGAGA
1 TGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTGA-T
* * * * *
18601509 TGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACA
1 TGTGAGCCAGTGTAAGACCATG-TT-GGACATGGCATCGGCATTGA-T
* * *
18601557 TGTGAGCTAGTGCAAGACCACGTTTGGGACATGGCATCGGCA
1 TGTGAGCCAGTGTAAGACCATG-TT-GGACATGGCATCGGCA
18601599 ATTCACCCTC
Statistics
Matches: 155, Mismatches: 23, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
45 79 0.51
46 20 0.13
47 2 0.01
48 54 0.35
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (45 bp):
TGTGAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTGAT
Found at i:18607507 original size:32 final size:32
Alignment explanation
Indices: 18607471--18607537 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
18607461 TACATATATG
18607471 TTAAGTATAGATGATCAAGTGATGTTTAATGT
1 TTAAGTATAGATGATCAAGTGATGTTTAATGT
18607503 TTAAGTATAGATGATCAAGTGATGTTTAATGT
1 TTAAGTATAGATGATCAAGTGATGTTTAATGT
18607535 TTA
1 TTA
18607538 TGTTAAACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.42
Consensus pattern (32 bp):
TTAAGTATAGATGATCAAGTGATGTTTAATGT
Found at i:18610721 original size:62 final size:61
Alignment explanation
Indices: 18610613--18610750 Score: 152
Period size: 62 Copynumber: 2.2 Consensus size: 61
18610603 AAGAAATATG
* * *
18610613 GCACTAAGTGTGCGAGGGATAAAGTGACGGAACTAAGTGTGCGATACATCAC-AAGATTTTA
1 GCACTAAGTGTGCGAAGGATAAAGTAACGGAACTAACTGTGCGATACATCACAAAGA-TTTA
* * * * * *
18610674 GCACTAAGTGTGCGACATGTTAAGGTAACGGCACTAACTGTGCGATACGTTACAAAGATTTA
1 GCACTAAGTGTGCGA-AGGATAAAGTAACGGAACTAACTGTGCGATACATCACAAAGATTTA
* *
18610736 GCATTGAGTGTGCGA
1 GCACTAAGTGTGCGA
18610751 GTTGGTTGAT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
61 15 0.23
62 45 0.70
63 4 0.06
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.25
Consensus pattern (61 bp):
GCACTAAGTGTGCGAAGGATAAAGTAACGGAACTAACTGTGCGATACATCACAAAGATTTA
Found at i:18612118 original size:26 final size:25
Alignment explanation
Indices: 18612089--18612139 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
18612079 ATTAATAAAG
18612089 ATTTAAAAAAATGAGATAATGAGTAT
1 ATTTAAAAAAATGAGAT-ATGAGTAT
* * *
18612115 ATTTGAATAAATGTGATATGAGTAT
1 ATTTAAAAAAATGAGATATGAGTAT
18612140 CGAACATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (25 bp):
ATTTAAAAAAATGAGATATGAGTAT
Found at i:18613866 original size:23 final size:23
Alignment explanation
Indices: 18613840--18613887 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
18613830 ATGCATTTCT
*
18613840 ATGATAT-TTCATGCCAATAATAA
1 ATGATATCATCATG-CAATAATAA
*
18613863 ATGATATCATCATGCATTAATAA
1 ATGATATCATCATGCAATAATAA
18613886 AT
1 AT
18613888 CATACAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.35
Consensus pattern (23 bp):
ATGATATCATCATGCAATAATAA
Found at i:18620389 original size:120 final size:120
Alignment explanation
Indices: 18620176--18620416 Score: 437
Period size: 120 Copynumber: 2.0 Consensus size: 120
18620166 ACAAAGAATC
*
18620176 CACCTACCTCAGCTTTTATCTTAAAACAGTATGGAGAAACAAATAAAGACGCATGTTAGTACACC
1 CACCTACCTCAGCTATTATCTTAAAACAGTATGGAGAAACAAATAAAGACGCATGTTAGTACACC
*
18620241 TATAGCTCTAACAGCAACGATGAAGTCACAATCTCATAGTGTCCAAGCTGGAACA
66 TATAGCTCTAACAGCAAAGATGAAGTCACAATCTCATAGTGTCCAAGCTGGAACA
* *
18620296 CACCTACCTCAGCTATTATCTTAAAAGAGTATGGAGAAACAAATAAAGACGTATGTTAGTACACC
1 CACCTACCTCAGCTATTATCTTAAAACAGTATGGAGAAACAAATAAAGACGCATGTTAGTACACC
*
18620361 TATAGCTCTAACAGCAAAGATGAAGTCACAATCTCATAGTGTCCAAGCTGGGACA
66 TATAGCTCTAACAGCAAAGATGAAGTCACAATCTCATAGTGTCCAAGCTGGAACA
18620416 C
1 C
18620417 CCACTAAACA
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (120 bp):
CACCTACCTCAGCTATTATCTTAAAACAGTATGGAGAAACAAATAAAGACGCATGTTAGTACACC
TATAGCTCTAACAGCAAAGATGAAGTCACAATCTCATAGTGTCCAAGCTGGAACA
Found at i:18626259 original size:96 final size:96
Alignment explanation
Indices: 18626087--18626262 Score: 228
Period size: 96 Copynumber: 1.8 Consensus size: 96
18626077 CTCACACACT
* * * * * * *
18626087 AAGTGCCAATATCATGGTCTGAAGCCAACTCAATATATCTTGCACTCGAAGTGCTAATATCAGGG
1 AAGTGCCAATATCATGGCCTAAAGCCAAATCAATATAACTTGCACCCAAAGTGCCAATATCAGGG
** *
18626152 CCCGTATCCAAATCAGTGAAGCTCGTTCCCG
66 CCCAAAGCCAAATCAGTGAAGCTCGTTCCCG
* *
18626183 AAGTGCCGATATCATGGCCTAAAGCCAAATCAA-AGTAACTTGCACCCAAAGTGCCAATATCATG
1 AAGTGCCAATATCATGGCCTAAAGCCAAATCAATA-TAACTTGCACCCAAAGTGCCAATATCAGG
18626247 GCCCAAAGCCAAATCA
65 GCCCAAAGCCAAATCA
18626263 ATGTATACCC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
95 1 0.01
96 66 0.99
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (96 bp):
AAGTGCCAATATCATGGCCTAAAGCCAAATCAATATAACTTGCACCCAAAGTGCCAATATCAGGG
CCCAAAGCCAAATCAGTGAAGCTCGTTCCCG
Found at i:18626263 original size:48 final size:48
Alignment explanation
Indices: 18626087--18626263 Score: 153
Period size: 48 Copynumber: 3.7 Consensus size: 48
18626077 CTCACACACT
* ** * * *
18626087 AAGTGCCAATATCATGGTCTGAAGCCAACTCAATA-TATCTTGCACTCG
1 AAGTGCCAATATCATGGCCCAAAGCCAAATCAA-AGTAACTTGCACCCG
* * ** * * **
18626135 AAGTGCTAATATCAGGGCCCGTATCCAAATC--AGTGAAGCTCGTTCCCG
1 AAGTGCCAATATCATGGCCCAAAGCCAAATCAAAGT-AA-CTTGCACCCG
* * *
18626183 AAGTGCCGATATCATGGCCTAAAGCCAAATCAAAGTAACTTGCACCCA
1 AAGTGCCAATATCATGGCCCAAAGCCAAATCAAAGTAACTTGCACCCG
18626231 AAGTGCCAATATCATGGCCCAAAGCCAAATCAA
1 AAGTGCCAATATCATGGCCCAAAGCCAAATCAA
18626264 TGTATACCCT
Statistics
Matches: 99, Mismatches: 25, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
45 1 0.01
46 1 0.01
47 1 0.01
48 91 0.92
49 2 0.02
50 3 0.03
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCCCAAAGCCAAATCAAAGTAACTTGCACCCG
Found at i:18629400 original size:37 final size:37
Alignment explanation
Indices: 18629341--18629449 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
18629331 AGCTCAGACG
* *
18629341 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
18629378 AAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
18629415 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
18629450 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:18629721 original size:48 final size:48
Alignment explanation
Indices: 18629595--18629879 Score: 430
Period size: 48 Copynumber: 5.8 Consensus size: 48
18629585 GCACATCGCC
*
18629595 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
18629647 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
18629695 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
18629745 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
18629793 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
18629841 TACACATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
18629880 TGCATGTTCA
Statistics
Matches: 217, Mismatches: 10, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
48 127 0.59
49 3 0.01
50 44 0.20
51 1 0.00
52 42 0.19
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:18629797 original size:98 final size:98
Alignment explanation
Indices: 18629595--18629878 Score: 493
Period size: 98 Copynumber: 2.9 Consensus size: 98
18629585 GCACATCGCC
*
18629595 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATATATATATTTCACA
18629660 TTGACCATTCGGCTTTACCACATATGCATATCTCA
64 TTGACCATTCGGCTTTACCACATATGCATATCTCA
18629695 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
18629760 GACCATTCGGCTTTACCACATATGCATATCTCA
66 GACCATTCGGCTTTACCACATATGCATATCTCA
* *
18629793 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACACATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
18629856 -AGCCATTCGGCTTTACCACATAT
66 GA-CCATTCGGCTTTACCACATAT
18629879 ATGCATGTTC
Statistics
Matches: 180, Mismatches: 3, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
95 1 0.01
96 35 0.19
98 98 0.54
100 46 0.26
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (98 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
GACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:18629836 original size:146 final size:147
Alignment explanation
Indices: 18629598--18629879 Score: 453
Period size: 146 Copynumber: 1.9 Consensus size: 147
18629588 CATCGCCTAC
*
18629598 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACATTG
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A-ATACATATTTCACATTG
* *
18629663 ACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
63 ACCATTCGGCTTTACCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACCA
18629728 CATATACATATCTCATATAT
128 CATATACATATCTCATATAT
* *
18629748 ATATTTCACA-TTGACCATTCGGCTTTACCACATATGCATATCTC-ATACATATTTCACATT-AG
1 ATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTGA-
18629810 CCATTCGGCTTTACCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACCAC
64 CCATTCGGCTTTACCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACCAC
18629875 ATATA
129 ATATA
18629880 TGCATGTTCA
Statistics
Matches: 125, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
145 1 0.01
146 83 0.66
149 2 0.02
150 39 0.31
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (147 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTGACC
ATTCGGCTTTACCACATATACATATCTCATACACATTTCACATTAGCCATTCGGCTTTACCACAT
ATACATATCTCATATAT
Found at i:18629923 original size:47 final size:47
Alignment explanation
Indices: 18629849--18630136 Score: 468
Period size: 47 Copynumber: 6.1 Consensus size: 47
18629839 CATACACATT
* * * *
18629849 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
18629896 CCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
18629943 TCACATTGGCCATTCGGCCTTATCATATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
18629990 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
18630037 TCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
18630084 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
18630131 TCACAT
1 TCACAT
18630137 AAAATCCTAA
Statistics
Matches: 225, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 225 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:18630024 original size:141 final size:141
Alignment explanation
Indices: 18629801--18630136 Score: 471
Period size: 141 Copynumber: 2.4 Consensus size: 141
18629791 CATACATATT
* * * * * *
18629801 TCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACACATT--TCACATTAGCCATTC
1 TCACATTGGCCATTCGGCCTTATCTCATAT--ATA-CACATTCACATTCATCACATTAGCCATTC
* *
18629864 GGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACATATATG
63 GGCCTTACCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACATATATG
18629929 CATGCTCACATTCA
128 CATGCTCACATTCA
* ** *
18629943 TCACATTGGCCATTCGGCCTTATCAT-ATATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 TCACATTGGCCATTCGGCCTTATC-TCATATATACACATTCACATTCATCACATTAGCCATTCGG
* * *
18630007 CCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTTGGCCTTATCACATATATGCA
65 CCTTACCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACATATATGCA
*
18630072 TGTTCACATTCA
130 TGCTCACATTCA
18630084 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
18630137 AAAATCCTAA
Statistics
Matches: 171, Mismatches: 19, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
139 8 0.05
140 3 0.02
141 135 0.79
142 25 0.15
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (141 bp):
TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACATTAGCCATTCGGC
CTTACCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCACATATATGCAT
GCTCACATTCA
Found at i:18630064 original size:22 final size:22
Alignment explanation
Indices: 18629989--18630064 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
18629979 GTTCACATTC
*
18629989 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTTGGCCTT
* ** *
18630011 ATCACATATATG-CATGTTCACATT
1 ATCACAT-T-GGCCAT-TTGGCCTT
18630035 CATCACATTGGCCATTTGGCCTT
1 -ATCACATTGGCCATTTGGCCTT
18630058 ATCACAT
1 ATCACAT
18630065 ATATGCATGT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 14 0.35
23 10 0.25
24 9 0.22
25 7 0.17
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTTGGCCTT
Found at i:18637850 original size:17 final size:17
Alignment explanation
Indices: 18637828--18637860 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
18637818 AAGGCACATA
18637828 ACATCATATGGATTATG
1 ACATCATATGGATTATG
18637845 ACATCATATGGATTAT
1 ACATCATATGGATTAT
18637861 CGAACAAACA
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:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (17 bp):
ACATCATATGGATTATG
Found at i:18640377 original size:30 final size:31
Alignment explanation
Indices: 18640270--18640383 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
18640260 TTAGTCTTGA
* *
18640270 CATAT-ACTGGGCCAAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
18640300 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
18640331 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
18640362 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
18640384 ACTGTAAACG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
30 18 0.23
31 61 0.77
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:18640454 original size:42 final size:42
Alignment explanation
Indices: 18640407--18640498 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
18640397 TGGCCCTTAG
*
18640407 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
18640449 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
18640491 GCCCATTT
1 GCCCATTT
18640499 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:18640674 original size:25 final size:25
Alignment explanation
Indices: 18640646--18640715 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
18640636 CTCTTTTAAT
*
18640646 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCAG-TA
18640671 AACTGGGGCAAAGCCCTTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTCAGTA
*
18640696 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
18640716 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 37 0.88
26 5 0.12
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCAGTA
Found at i:18641195 original size:20 final size:22
Alignment explanation
Indices: 18641170--18641211 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
18641160 TGGGCCCAAA
*
18641170 AGCCCATT-TGGCCCAA-TTAC
1 AGCCCATTGAGGCCCAACTTAC
18641190 AGCCCATTGAGGCCCAACTTAC
1 AGCCCATTGAGGCCCAACTTAC
18641212 CATCGTGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 7 0.37
22 4 0.21
ACGTcount: A:0.26, C:0.36, G:0.17, T:0.21
Consensus pattern (22 bp):
AGCCCATTGAGGCCCAACTTAC
Found at i:18641590 original size:27 final size:27
Alignment explanation
Indices: 18641531--18641605 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
18641521 CATATTCGTC
18641531 ATTTTACCATATAGGGGTATTACGGTA
1 ATTTTACCATATAGGGGTATTACGGTA
* * *
18641558 ACTTTACCCTATAGGGGCT-TTACGGTC
1 ATTTTACCATATAGGGG-TATTACGGTA
* *
18641585 TTTTTACC-TATTAAGGGTATT
1 ATTTTACCATA-TAGGGGTATT
18641606 TTAGTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (27 bp):
ATTTTACCATATAGGGGTATTACGGTA
Found at i:18641741 original size:56 final size:55
Alignment explanation
Indices: 18641623--18641812 Score: 167
Period size: 54 Copynumber: 3.5 Consensus size: 55
18641613 TTTCATCCTA
* * * * *
18641623 CAAGGGTGTTTTGGTAAATCTAC-AAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAATCAAGGGTATTTCAGTAATTTTGTAAAC
* *
18641677 CAATGGTATTTTTA-TAATTTTTA-AAAAGTCAAGGGTATTTCTA-TAATTTTGTAAAT
1 CAAGGGTA-TTTTAGTAA-TTTTACAAAA-TCAAGGGTATTTC-AGTAATTTTGTAAAC
* * * ***
18641733 TAGGGGTATTTTAGTAATTTTACAAAAT-AAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAATCAAGGGTATTTCAGTAATTTTGTAAAC
*
18641787 C-AGTGGTATTTTGGTAATTTTACAAA
1 CAAG-GGTATTTTAGTAATTTTACAAA
18641813 CTAGGGGTAT
Statistics
Matches: 109, Mismatches: 18, Indels: 18
0.75 0.12 0.12
Matches are distributed among these distances:
53 1 0.01
54 50 0.46
55 21 0.19
56 36 0.33
57 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.39
Consensus pattern (55 bp):
CAAGGGTATTTTAGTAATTTTACAAAATCAAGGGTATTTCAGTAATTTTGTAAAC
Found at i:18641784 original size:27 final size:27
Alignment explanation
Indices: 18641624--18641832 Score: 118
Period size: 27 Copynumber: 7.7 Consensus size: 27
18641614 TTCATCCTAC
* * * **
18641624 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAAAT
** ** **
18641651 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAAAT
* **
18641678 AATGGTATTTTTATAATTTTTA-AAAAGT
1 AAGGGTATTTTGGTAA-TTTTACAAAA-T
* ** *
18641706 CAAGGGTATTTCT-ATAATTTTGTAAATT
1 -AAGGGTATTT-TGGTAATTTTACAAAAT
* *
18641734 AGGGGTATTTTAGTAATTTTACAAAAT
1 AAGGGTATTTTGGTAATTTTACAAAAT
* * *
18641761 AAGGGTATTTCGGTAATTTCAC-AAAC
1 AAGGGTATTTTGGTAATTTTACAAAAT
* *
18641787 CAGTGGTATTTTGGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAAAT
*
18641815 AGGGGTATTTTGGTAATT
1 AAGGGTATTTTGGTAATT
18641833 CTACCCTATA
Statistics
Matches: 140, Mismatches: 34, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
26 6 0.04
27 105 0.75
28 12 0.09
29 16 0.11
30 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAAAT
Found at i:18641795 original size:54 final size:54
Alignment explanation
Indices: 18641651--18641832 Score: 188
Period size: 54 Copynumber: 3.3 Consensus size: 54
18641641 TCTACAAACC
* *
18641651 AAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTTTA-TAATTTTTA-AAAAGT
1 AAGGGTATTTCGGTAATTTTGTAAACCAGTGGTA-TTTTAGTAA-TTTTACAAAA-T
** ** *
18641706 CAAGGGTATTTCTATAATTTTGTAAATTAGGGGTATTTTAGTAATTTTACAAAAT
1 -AAGGGTATTTCGGTAATTTTGTAAACCAGTGGTATTTTAGTAATTTTACAAAAT
*** * *
18641761 AAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTGTAAACCAGTGGTATTTTAGTAATTTTACAAAAT
* *
18641815 AGGGGTATTTTGGTAATT
1 AAGGGTATTTCGGTAATT
18641833 CTACCCTATA
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
54 60 0.57
55 11 0.10
56 35 0.33
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (54 bp):
AAGGGTATTTCGGTAATTTTGTAAACCAGTGGTATTTTAGTAATTTTACAAAAT
Found at i:18641851 original size:27 final size:27
Alignment explanation
Indices: 18641733--18641836 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 27
18641723 TTTTGTAAAT
* * *
18641733 TAGGGGTATTTTAGTAATTTTACAAAA
1 TAGGGGTATTTTGGTAATTCTACAAAC
* *
18641760 TAAGGGTATTTCGGTAATT-TCACAAAC
1 TAGGGGTATTTTGGTAATTCT-ACAAAC
* * *
18641787 CAGTGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTCTACAAAC
18641814 TAGGGGTATTTTGGTAATTCTAC
1 TAGGGGTATTTTGGTAATTCTAC
18641837 CCTATAGGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.02
27 62 0.97
28 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTCTACAAAC
Found at i:18641901 original size:27 final size:27
Alignment explanation
Indices: 18641864--18641955 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
18641854 ATAATTTCAC
* *
18641864 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTA
** *
18641891 AATTGAGGGTAAAATAGTAATTCTGTA
1 AATCAAGGGTAAAACAGTAATTCTGTA
* *
18641918 AATCAAGGGTAAAACAGTGATTCTATA
1 AATCAAGGGTAAAACAGTAATTCTGTA
*
18641945 AATCTAGGGTA
1 AATCAAGGGTA
18641956 CTTTGGTAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AATCAAGGGTAAAACAGTAATTCTGTA
Found at i:18647043 original size:4 final size:4
Alignment explanation
Indices: 18647034--18647058 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
18647024 ATGTCTATAC
18647034 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
18647059 GAGAACAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:18653676 original size:16 final size:16
Alignment explanation
Indices: 18653629--18653676 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
18653619 CGTTGTAGCT
* *
18653629 AACCATGCATGAATCC
1 AACCATGCATGCACCC
18653645 -ACCTATGCATTGCACCC
1 AACC-ATGCA-TGCACCC
18653662 AACCATGCATGCACC
1 AACCATGCATGCACC
18653677 TTGCATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 3 0.11
16 11 0.41
17 10 0.37
18 3 0.11
ACGTcount: A:0.31, C:0.38, G:0.12, T:0.19
Consensus pattern (16 bp):
AACCATGCATGCACCC
Found at i:18654006 original size:20 final size:20
Alignment explanation
Indices: 18653981--18654018 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18653971 AGATAAAATG
*
18653981 AAGCTGAAATGAGCTCAAAC
1 AAGCTGAAATAAGCTCAAAC
18654001 AAGCTGAAATAAGCTCAA
1 AAGCTGAAATAAGCTCAA
18654019 GTAAGTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.16
Consensus pattern (20 bp):
AAGCTGAAATAAGCTCAAAC
Found at i:18659265 original size:24 final size:24
Alignment explanation
Indices: 18659199--18659273 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
18659189 TATTCGGTGC
* **
18659199 TTCCTGATAAAAACTCTTCGGAGT
1 TTCCTGATTAAAACTCTTATGAGT
* *
18659223 TACCTG-TT-AAGCTC-TATGAGT
1 TTCCTGATTAAAACTCTTATGAGT
18659244 TTCCTGATTAAAACTCTTATGAGT
1 TTCCTGATTAAAACTCTTATGAGT
18659268 TTCCTG
1 TTCCTG
18659274 TTTAGCCCAG
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 10 0.24
22 7 0.17
23 6 0.15
24 18 0.44
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (24 bp):
TTCCTGATTAAAACTCTTATGAGT
Found at i:18663597 original size:51 final size:49
Alignment explanation
Indices: 18663488--18663604 Score: 148
Period size: 49 Copynumber: 2.3 Consensus size: 49
18663478 TGTCACTAGT
* * *
18663488 AAGTGTGGTACTATGTGAAGGCCACTGTGAGAAGAGTTAGCTTGGTCAC
1 AAGTGTGGTACTATGTGAAGGCCACTGTGAGAAAAGGTAGCTTGGACAC
*
18663537 AAGTGTGGTACTATGTGAAGGCCACTTTGTGA-AAAAGGTAGCTTTGACTAC
1 AAGTGTGGTACTATGTGAAGGCCAC--TGTGAGAAAAGGTAGCTTGGAC-AC
18663588 AAG-GATGGTACTATGTG
1 AAGTG-TGGTACTATGTG
18663605 CGGGCCATCG
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
49 25 0.42
50 13 0.22
51 22 0.37
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (49 bp):
AAGTGTGGTACTATGTGAAGGCCACTGTGAGAAAAGGTAGCTTGGACAC
Found at i:18666845 original size:16 final size:16
Alignment explanation
Indices: 18666824--18666854 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18666814 TTTACTATTA
*
18666824 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
18666840 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
18666855 GCATGCATAG
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:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:18670147 original size:48 final size:47
Alignment explanation
Indices: 18670010--18670188 Score: 192
Period size: 48 Copynumber: 3.9 Consensus size: 47
18670000 ACATAGTAAG
*
18670010 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACAGATC
1 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
* * * *
18670057 --G--AA-GCCGATAGCCCA-ACTATGGTCTTACACGATG-TCTCATATC
1 ATGCCAATGCC-ATATCCCAGA-TATGGTCTTACATG-GGATCACATATC
*
18670100 AATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCAAATATC
1 -ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
* *
18670148 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
1 -ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATC
18670189 CCACATAACC
Statistics
Matches: 108, Mismatches: 13, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
42 4 0.04
43 29 0.27
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 67 0.62
49 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (47 bp):
ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATATC
Found at i:18672317 original size:212 final size:212
Alignment explanation
Indices: 18671950--18672374 Score: 832
Period size: 212 Copynumber: 2.0 Consensus size: 212
18671940 TAGAAACAAC
18671950 TTTTGTGAAAGGTGATAGCATGAAAACACCTAAAGAGACCATTTTACATAAGTTGTAAAATAGAT
1 TTTTGTGAAAGGTGATAGCATGAAAACACCTAAAGAGACCATTTTACATAAGTTGTAAAATAGAT
18672015 GAAAAATGTGTGAAATAGTAGGATTTTGGAGTTTCTATAAGATTAAAAAGGGTTTGGCTTGCTTA
66 GAAAAATGTGTGAAATAGTAGGATTTTGGAGTTTCTATAAGATTAAAAAGGGTTTGGCTTGCTTA
18672080 AGATGCGAAGAAATTCGATAAAAATCGATTTTCAAGCCTAGGGGTAAAATGGTCATTTTGTCAAA
131 AGATGCGAAGAAATTCGATAAAAATCGATTTTCAAGCCTAGGGGTAAAATGGTCATTTTGTCAAA
*
18672145 GTATATGGGCAAAATGG
196 GTATAGGGGCAAAATGG
*
18672162 TTTTGTGAAAGGTGATAGCATGAAAACACCTAAAGAGACCATTTTGCATAAGTTGTAAAATAGAT
1 TTTTGTGAAAGGTGATAGCATGAAAACACCTAAAGAGACCATTTTACATAAGTTGTAAAATAGAT
18672227 GAAAAATGTGTGAAATAGTAGGATTTTGGAGTTTCTATAAGATTAAAAAGGGTTTGGCTTGCTTA
66 GAAAAATGTGTGAAATAGTAGGATTTTGGAGTTTCTATAAGATTAAAAAGGGTTTGGCTTGCTTA
18672292 AGATGCGAAGAAATTCGATAAAAATCGATTTTCAAGCCTAGGGGTAAAATGGTCATTTTGTCAAA
131 AGATGCGAAGAAATTCGATAAAAATCGATTTTCAAGCCTAGGGGTAAAATGGTCATTTTGTCAAA
18672357 GTATAGGGGCAAAATGG
196 GTATAGGGGCAAAATGG
18672374 T
1 T
18672375 CATTTTACAA
Statistics
Matches: 211, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
212 211 1.00
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (212 bp):
TTTTGTGAAAGGTGATAGCATGAAAACACCTAAAGAGACCATTTTACATAAGTTGTAAAATAGAT
GAAAAATGTGTGAAATAGTAGGATTTTGGAGTTTCTATAAGATTAAAAAGGGTTTGGCTTGCTTA
AGATGCGAAGAAATTCGATAAAAATCGATTTTCAAGCCTAGGGGTAAAATGGTCATTTTGTCAAA
GTATAGGGGCAAAATGG
Found at i:18672783 original size:46 final size:46
Alignment explanation
Indices: 18672725--18672945 Score: 158
Period size: 46 Copynumber: 4.7 Consensus size: 46
18672715 TCACATGTGT
* * * *
18672725 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACAATATGA
* * ** * **
18672771 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATTGA-CATTGAGACAA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCA-CAATATGA
* * * * *
18672819 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCAACACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACAATATG-A
* * * * *
18672866 -AGCCAATGTAAGACATGTTTGGGACATGCGTCGACTACAAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACAATATGA
* * *
18672911 TAGTCAGTATAAGACCATGTCTGGGACATGGCATC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
18672946 AGCACCTTAC
Statistics
Matches: 133, Mismatches: 34, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
45 1 0.01
46 67 0.50
47 43 0.32
48 22 0.17
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCACAATATGA
Found at i:18676023 original size:28 final size:28
Alignment explanation
Indices: 18675991--18676060 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
18675981 AATGAGATTG
18675991 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
18676019 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
18676047 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
18676061 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:18682120 original size:6 final size:6
Alignment explanation
Indices: 18682103--18682132 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
18682093 AAGTAATGCG
*
18682103 CCCGCT CTCGCT CCCGCT CCCGCT CCCGCT
1 CCCGCT CCCGCT CCCGCT CCCGCT CCCGCT
18682133 TAAGGAGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.63, G:0.17, T:0.20
Consensus pattern (6 bp):
CCCGCT
Found at i:18687468 original size:68 final size:68
Alignment explanation
Indices: 18687380--18687517 Score: 249
Period size: 68 Copynumber: 2.0 Consensus size: 68
18687370 TCCAAATCCT
18687380 ATGTCTGATAATTTTTCTCATGTAGCTTCAACTGGCTCGAGGCATAAGCTATCACCTTGCCTTCT
1 ATGTCTGATAATTTTTCTCATGTAGCTTCAACTGGCTCGAGGCATAAGCTATCACCTTGCCTTCT
18687445 TGC
66 TGC
* * *
18687448 ATGTTTGATAATTTTTCTCATGTGGCTTCAACTTGCTCGAGGCATAAGCTATCACCTTGCCTTCT
1 ATGTCTGATAATTTTTCTCATGTAGCTTCAACTGGCTCGAGGCATAAGCTATCACCTTGCCTTCT
18687513 TGC
66 TGC
18687516 AT
1 AT
18687518 AAGTACACAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.38
Consensus pattern (68 bp):
ATGTCTGATAATTTTTCTCATGTAGCTTCAACTGGCTCGAGGCATAAGCTATCACCTTGCCTTCT
TGC
Found at i:18698866 original size:40 final size:40
Alignment explanation
Indices: 18698809--18699026 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
18698799 CGGATGATAA
* *
18698809 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
18698849 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
18698889 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
18698929 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
18698969 CCGAGCTAAGTCCCGAAGGCATTTGAGTGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
18699009 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
18699027 TACTTGGTTG
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 145 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:18713493 original size:42 final size:43
Alignment explanation
Indices: 18713393--18713531 Score: 138
Period size: 42 Copynumber: 3.2 Consensus size: 43
18713383 TGAGATATCA
* * * **
18713393 TGTAAGACCGTGTCTGGGACACAGGCCTCGATTTGAGATTTACG
1 TGTAAGACCATGTCTGGGACACAGGCATCGATATCTGATTT-CG
*
18713437 TGTAAGACCATGTCTGGGACATAGGCATC-ATATCTGATTTCG
1 TGTAAGACCATGTCTGGGACACAGGCATCGATATCTGATTTCG
* * * * * *
18713479 TGTAAGACCCTGTCTAGGATAGAGGCATCGATA-CTGAATTACA
1 TGTAAGACCATGTCTGGGACACAGGCATCGATATCTG-ATTTCG
18713522 TGTAAGACCA
1 TGTAAGACCA
18713532 CGTTCGGGAC
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
42 30 0.38
43 24 0.30
44 26 0.32
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACACAGGCATCGATATCTGATTTCG
Found at i:18722421 original size:47 final size:47
Alignment explanation
Indices: 18722304--18722503 Score: 201
Period size: 47 Copynumber: 4.5 Consensus size: 47
18722294 TACGTGTAAT
* * * * * *
18722304 GTGGTTCTAAGTGGATATACCATGATTACACATATTGATGCATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATACATTGATTCAT-TAAC
* *
18722352 GTGGTGCT-A---GATATGCCACGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATACATTGATTCATTAAC
* *
18722395 GTGGAGCTAAGTGGATATACCACGGTTA-A-ACA-TG------TAAT
1 GTGGTGCTAAGTGGATATACCACGGTTACATACATTGATTCATTAAC
*
18722433 GTGGTGCTAAGTGGATATGCCACGGTTACATACATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATACATTGATTCATTAAC
18722480 GTGGTGCTAAGTGGATATACCACG
1 GTGGTGCTAAGTGGATATACCACG
18722504 ATTAAACATG
Statistics
Matches: 125, Mismatches: 14, Indels: 27
0.75 0.08 0.16
Matches are distributed among these distances:
38 29 0.23
39 1 0.01
40 3 0.02
41 2 0.02
43 11 0.09
44 28 0.22
45 2 0.02
46 1 0.01
47 41 0.33
48 7 0.06
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (47 bp):
GTGGTGCTAAGTGGATATACCACGGTTACATACATTGATTCATTAAC
Found at i:18722456 original size:38 final size:38
Alignment explanation
Indices: 18722391--18722535 Score: 173
Period size: 38 Copynumber: 3.6 Consensus size: 38
18722381 ATTGATTCAT
*
18722391 TAACGTGGAGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
18722429 TAATGTGGTGCTAAGTGGATATGCCACGGTTACATACATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
*
18722470 ATTCATTAACGTGGTGCTAAGTGGATATACCACGATTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
18722514 TAACGTGGTGCTAAGTGGATAT
1 TAACGTGGTGCTAAGTGGATAT
18722536 GTCATGGTTA
Statistics
Matches: 92, Mismatches: 6, Indels: 18
0.79 0.05 0.16
Matches are distributed among these distances:
38 51 0.55
39 1 0.01
40 3 0.03
41 2 0.02
44 2 0.02
45 3 0.03
46 1 0.01
47 29 0.32
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:18722470 original size:85 final size:85
Alignment explanation
Indices: 18722344--18722545 Score: 322
Period size: 85 Copynumber: 2.4 Consensus size: 85
18722334 CATATTGATG
*
18722344 CATGTAACGTGGTGCT-A---GATATGCCACGGTTACATATATTGATTCATTAACGTGGAGCTAA
1 CATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATACATTGATTCATTAACGTGGAGCTAA
*
18722405 GTGGATATACCACGGTTAAA
66 GTGGATATACCACGATTAAA
* *
18722425 CATGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATACATTGATTCATTAACGTGGTGCTAA
1 CATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATACATTGATTCATTAACGTGGAGCTAA
18722490 GTGGATATACCACGATTAAA
66 GTGGATATACCACGATTAAA
* *
18722510 CATGTAACGTGGTGCTAAGTGGATATGTCATGGTTA
1 CATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
18722546 TACATGTTAA
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
81 15 0.14
82 1 0.01
85 94 0.85
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (85 bp):
CATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATACATTGATTCATTAACGTGGAGCTAA
GTGGATATACCACGATTAAA
Found at i:18725301 original size:48 final size:48
Alignment explanation
Indices: 18725269--18725414 Score: 238
Period size: 48 Copynumber: 3.0 Consensus size: 48
18725259 CACGATGTCT
* *
18725269 CATATCGATGCCAATGTCATATCCCAGATATGGTCTTACATGGGATCA
1 CATATCGATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCA
* *
18725317 AATATCGATGCCAATGCCATATCCCAAACATGGTCTTACATGGGATCA
1 CATATCGATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCA
* *
18725365 CATATCGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCA
1 CATATCGATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCA
18725413 CA
1 CA
18725415 CATAACCTTA
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 90 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (48 bp):
CATATCGATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCA
Found at i:18733574 original size:47 final size:47
Alignment explanation
Indices: 18733521--18733941 Score: 637
Period size: 47 Copynumber: 9.0 Consensus size: 47
18733511 TTAGGATTTT
*
18733521 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
18733568 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
18733615 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
18733662 ATGTGATGAATGTGAACATCCATATATGTGATGAA-GCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGAT-AAGGCCGAATGGCCA
* *
18733709 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
18733756 ATGTGGTGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
18733803 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
18733850 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
18733897 ATGTGGTGAATATGAAAATGCATATATGCGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
18733942 TAGTGTGAAA
Statistics
Matches: 339, Mismatches: 33, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
46 2 0.01
47 335 0.99
48 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:18733774 original size:141 final size:141
Alignment explanation
Indices: 18733520--18733949 Score: 729
Period size: 141 Copynumber: 3.0 Consensus size: 141
18733510 TTTAGGATTT
*
18733520 TATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGC
18733585 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
18733650 GCCGAATGGCC
131 GCCGAATGGCC
*
18733661 TATGTGATGAATGTGAACATCCATATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGC
* *
18733726 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATGTGAACATGCATATATGTGATGAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
18733791 GCCGAATGGCC
131 GCCGAATGGCC
* * *
18733802 AATGTGATAAATGTGAGCATGCATATATGTGAT-AAGGCCGAATGGCCAATGTGATGAATGTGAG
1 TATGTGATGAATGTGAACATGCATATATGTGATGAA-GCCGAATGGCCAATGTGATGAATGTGAG
* * *
18733866 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAAATGCATATATGCGGTAA
65 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAA
*
18733931 AGCCGAATGG-C
130 GGCCGAATGGCC
18733942 TAGTGTGA
1 TA-TGTGA
18733950 AATATGTAGG
Statistics
Matches: 272, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
140 4 0.01
141 268 0.99
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.26
Consensus pattern (141 bp):
TATGTGATGAATGTGAACATGCATATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGC
ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
GCCGAATGGCC
Found at i:18733905 original size:25 final size:25
Alignment explanation
Indices: 18733830--18733905 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
18733820 ATGCATATAT
18733830 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
18733855 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
18733877 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
18733902 GTGA
1 GTGA
18733906 ATATGAAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:18734154 original size:37 final size:37
Alignment explanation
Indices: 18734104--18734218 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
18734094 GGAAATATAT
*
18734104 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
18734141 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
18734178 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTACG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
18734215 TCCG
1 TCCG
18734219 AGCTAAAGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:18742241 original size:26 final size:25
Alignment explanation
Indices: 18742190--18742242 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
18742180 AAAACTTTTC
* *
18742190 TAAAAGAGAACTCAAGAAAAATTCT
1 TAAAAGAAAACTCAAGAAAAAATCT
18742215 TAAATAGAAAACTCAA-AAAGAAATCT
1 TAAA-AGAAAACTCAAGAAA-AAATCT
18742241 TA
1 TA
18742243 TTGAGTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.58, C:0.11, G:0.09, T:0.21
Consensus pattern (25 bp):
TAAAAGAAAACTCAAGAAAAAATCT
Found at i:18744522 original size:20 final size:20
Alignment explanation
Indices: 18744497--18744537 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
18744487 CCTCGGACAC
18744497 AAATCTATAGGATGATAGTT
1 AAATCTATAGGATGATAGTT
18744517 AAATCTATAGGATGATAGTT
1 AAATCTATAGGATGATAGTT
18744537 A
1 A
18744538 TCCATATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (20 bp):
AAATCTATAGGATGATAGTT
Found at i:18756333 original size:46 final size:46
Alignment explanation
Indices: 18756283--18756450 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 46
18756273 TGGTTGAGCA
*
18756283 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
18756329 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
18756376 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
18756422 CCCGAGCTCGTTGAGTTGAGTCTGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
18756451 GTTTATGGGC
Statistics
Matches: 100, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 55 0.55
47 28 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:18756439 original size:93 final size:93
Alignment explanation
Indices: 18756280--18756452 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
18756270 GGATGGTTGA
* *
18756280 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
18756345 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
18756373 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
18756438 TGAGTCTGAGTTCGT
66 TGAGTCCGAGTTCGT
18756453 TTATGGGCGG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18781209 original size:30 final size:30
Alignment explanation
Indices: 18781175--18781236 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
18781165 ATTATATTTG
* *
18781175 AATTGATTAACTTTAATTTTTGTACTTTTA
1 AATTGATTAACTTTAATCTTTATACTTTTA
*
18781205 AATTGATTAATTTTAATCTTTATACTTTTA
1 AATTGATTAACTTTAATCTTTATACTTTTA
18781235 AA
1 AA
18781237 ATATTGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (30 bp):
AATTGATTAACTTTAATCTTTATACTTTTA
Found at i:18782688 original size:364 final size:364
Alignment explanation
Indices: 18782010--18782737 Score: 908
Period size: 364 Copynumber: 2.0 Consensus size: 364
18782000 TTTGTAAACC
* *** ** *
18782010 CCTTTGGGCTCTCTTTGGAGTAGGAAGAGAAAAACTTGAGGCTAAAATCGAGCATAGATACCTTA
1 CCTTTGGGCTCTCCTCAAAGTAGGAAGAGAAAAACCCGAGGCTAAAATCGAGCATAGACACCTTA
* ** *
18782075 GGAACAATACATTTACTGTTGAGGGAGTGAGACACTACAAAGTAGATACTTACCCTTAACATAAA
66 GAAACAATACATCCACTGTTGAAGGAGTGAGACACTACAAAGTAGATACTTACCCTTAACATAAA
* * * * *
18782140 AGGTGGCTTTAATGGGTTTGAATCCCACCAAGGCTAAATTATAAAATATTTCTTGGTGGACCTAA
131 AGATGGCTTTAATGGGTTTGAATCCCACCAAGGCTAAATTATAAAACATTACTTGGCGCACCTAA
* * * ** * *
18782205 ATGCTTCCACTGAAACTTCTTGAACCCCTTTAAGCTCTCCTCAGGGTATAAAAACCAAAACTCAA
196 ATGCTCCCACTGAAACTCCTTGAACACCTTTAAGCTCTCCTCAGAATAGAAAAACAAAAACTCAA
* * * * * *
18782270 GGCTAAGATCGAGCATAGACATCTCGGGAATAATACTTCCACCCTTGAGGAAGTGAGGCAC-TCT
261 GGCTAAAATCAAGCAAAGACATCTCGAGAATAATACCTCCACCCTTGAGGAAGTGAGACACTTC-
** * * *
18782334 AGAGCAAATACTTGCTCTCTACAAGCTTAATGCAAGAACT
325 AGAGCAAATACTCACCCTCAACAAGCATAATGCAAGAACT
* * *
18782374 CCTTTGGGCTCTCCTCAAAGTAGGGAGAGAAAAACCCGATGTTAAAATCGAGCATAGACA-CTCT
1 CCTTTGGGCTCTCCTCAAAGTAGGAAGAGAAAAACCCGAGGCTAAAATCGAGCATAGACACCT-T
*
18782438 AGAAACACTACATCCACTGTTGAAGGAGTGAGACACTACAAAGTAGATACTTACCCTTAACATAA
65 AGAAACAATACATCCACTGTTGAAGGAGTGAGACACTACAAAGTAGATACTTACCCTTAACATAA
***
18782503 AAGATGGCTTTAATGGGTTTGAATCCGGTCAAGGCTAAATTATAAAACATTAACTTGGCGCACCT
130 AAGATGGCTTTAATGGGTTTGAATCCCACCAAGGCTAAATTATAAAACATT-ACTTGGCGCACCT
* * **
18782568 AGATGCTCCCACTGAAAC-CCTATGAATACCTTTGGGCTCTCCTC-GAAATAGAAAAACAAAAAC
194 AAATGCTCCCACTGAAACTCCT-TGAACACCTTTAAGCTCTCCTCAG-AATAGAAAAACAAAAAC
** * * *
18782631 TTGAGGTTAAAATCAAGCAAAGACATCTTGAGAATAATACCTCCACCC-TGGGGAAGTGAGACAC
257 TCAAGGCTAAAATCAAGCAAAGACATCTCGAGAATAATACCTCCACCCTTGAGGAAGTGAGACAC
* *
18782695 TTCAGAGCATATACTCACCCTCAACCAGCATAATGCAAGAACT
322 TTCAGAGCAAATACTCACCCTCAACAAGCATAATGCAAGAACT
18782738 AATAATAGCA
Statistics
Matches: 307, Mismatches: 52, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
363 2 0.01
364 207 0.67
365 98 0.32
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (364 bp):
CCTTTGGGCTCTCCTCAAAGTAGGAAGAGAAAAACCCGAGGCTAAAATCGAGCATAGACACCTTA
GAAACAATACATCCACTGTTGAAGGAGTGAGACACTACAAAGTAGATACTTACCCTTAACATAAA
AGATGGCTTTAATGGGTTTGAATCCCACCAAGGCTAAATTATAAAACATTACTTGGCGCACCTAA
ATGCTCCCACTGAAACTCCTTGAACACCTTTAAGCTCTCCTCAGAATAGAAAAACAAAAACTCAA
GGCTAAAATCAAGCAAAGACATCTCGAGAATAATACCTCCACCCTTGAGGAAGTGAGACACTTCA
GAGCAAATACTCACCCTCAACAAGCATAATGCAAGAACT
Found at i:18795336 original size:16 final size:17
Alignment explanation
Indices: 18795312--18795349 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
18795302 CGGTTTAGTC
*
18795312 ATTTGTTTATTTC-ATT
1 ATTTATTTATTTCAATT
18795328 ATTTATTTATTTCAATT
1 ATTTATTTATTTCAATT
18795345 ATTTA
1 ATTTA
18795350 ATTTCTATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (17 bp):
ATTTATTTATTTCAATT
Found at i:18819336 original size:40 final size:40
Alignment explanation
Indices: 18819153--18819322 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
18819143 TCCTCGTTCA
* * * * *
18819153 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
18819192 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
18819232 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
18819272 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
18819312 AAGGCCTTCGG
1 AATGCCTTCGG
18819323 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 33 0.28
40 83 0.72
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:18821863 original size:38 final size:38
Alignment explanation
Indices: 18821811--18821885 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
18821801 TCTAACATTA
*
18821811 TGTACTTAGTTAAGTTCATGTGTAAATGTAGTAATATT
1 TGTACTTAGGTAAGTTCATGTGTAAATGTAGTAATATT
18821849 TGTACTTAGGTAAGTTCATGTGTAAATGTAGTAATAT
1 TGTACTTAGGTAAGTTCATGTGTAAATGTAGTAATAT
18821886 AATTGTCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (38 bp):
TGTACTTAGGTAAGTTCATGTGTAAATGTAGTAATATT
Found at i:18825688 original size:46 final size:45
Alignment explanation
Indices: 18825637--18825849 Score: 189
Period size: 46 Copynumber: 4.6 Consensus size: 45
18825627 GACGAGAGCT
18825637 AGTGTAAGA-CATGTCTGGGACATGCATCGGC-ATCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCAAT-GAGATGT--GCC
* * *
18825683 AGTGTAAGA-CATGTCTGGGACATGCATTGGCTATGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCAATGAGATGTGCC
* * * *
18825727 AGTGTAAGACCATGTCTGGGACATGGCATTGGCAGATATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCA-AT-GAGATGTGCC
* * * * * *
18825775 AGTGCAAGACCATGTCTAGGACATGGCATCGACAAGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCAATGAGATGT----GCC
18825825 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
18825850 GCGTCAGCCT
Statistics
Matches: 141, Mismatches: 17, Indels: 15
0.82 0.10 0.09
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 49 0.35
47 5 0.04
48 38 0.27
49 1 0.01
50 23 0.16
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCAATGAGATGTGCC
Found at i:18825785 original size:48 final size:48
Alignment explanation
Indices: 18825682--18825851 Score: 183
Period size: 48 Copynumber: 3.6 Consensus size: 48
18825672 AGATGTAAGC
*
18825682 CAGTGTAAGA-CATGTCTGGGACAT-GCATTGGC---TATGAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCAGATAT-AGAGGTGT
18825726 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCAGATATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCAGATATAGAGGTGT
* * * * * *
18825774 CAGTGCAAGACCATGTCTAGGACATGGCATCGACAAGGATAT-GTGAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGC-A-GATATAGAG-GTGT
18825823 CTAGTGTAAGACCATGTCTGGGACATGGC
1 C-AGTGTAAGACCATGTCTGGGACATGGC
18825852 GTCAGCCTTG
Statistics
Matches: 108, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
44 10 0.09
45 14 0.13
46 8 0.07
48 37 0.34
49 7 0.06
50 32 0.30
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATTGGCAGATATAGAGGTGT
Found at i:18826872 original size:20 final size:20
Alignment explanation
Indices: 18826833--18826872 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
18826823 GTTATAATGA
18826833 TCACATGGGCATGTTGCCCTT
1 TCACATGGGCA-GTTGCCCTT
18826854 TCACATGGGC-GTCTGCCCT
1 TCACATGGGCAGT-TGCCCT
18826873 GTTTCAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 6 0.33
21 10 0.56
ACGTcount: A:0.12, C:0.33, G:0.25, T:0.30
Consensus pattern (20 bp):
TCACATGGGCAGTTGCCCTT
Found at i:18834220 original size:40 final size:40
Alignment explanation
Indices: 18834163--18834380 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
18834153 CGGATGGTAA
* **
18834163 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
18834203 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
18834243 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
18834283 CCGGGCTTAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
18834323 CTGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
18834363 CC-GGCTAAATCTCGAAGG
1 CCGGGCTAAGTCCCGAAGG
18834381 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 16 0.10
40 145 0.90
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:18835939 original size:33 final size:33
Alignment explanation
Indices: 18835891--18835955 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
18835881 ATATCTGCAT
*
18835891 CTGATACTGATTCTGT-ATTGGGCTTAGGCCCAC
1 CTGATACTGATTCTGTGA-TGGGCTCAGGCCCAC
18835924 CTGATACTG-TGTCTGTGATGGGCTCAGGCCCA
1 CTGATACTGAT-TCTGTGATGGGCTCAGGCCCA
18835956 ATCTAGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 1 0.03
33 27 0.93
34 1 0.03
ACGTcount: A:0.17, C:0.25, G:0.28, T:0.31
Consensus pattern (33 bp):
CTGATACTGATTCTGTGATGGGCTCAGGCCCAC
Found at i:18849628 original size:20 final size:22
Alignment explanation
Indices: 18849588--18849628 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
18849578 TTGGTACAGT
18849588 ATGGTGTGTAGGGATGGATGGAG
1 ATGGTGTGTA-GGATGGATGGAG
18849611 ATGGTGTGTA-GA-GGATGG
1 ATGGTGTGTAGGATGGATGG
18849629 GGGTAGGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
23 10 0.56
ACGTcount: A:0.22, C:0.00, G:0.51, T:0.27
Consensus pattern (22 bp):
ATGGTGTGTAGGATGGATGGAG
Found at i:18851561 original size:20 final size:20
Alignment explanation
Indices: 18851538--18851584 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
18851528 GGGTTAAGAT
*
18851538 TGAGCTGAATTGAGCTTAAG
1 TGAGCTGAATTGAGCTCAAG
* * *
18851558 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCAAG
18851578 TGAGCTG
1 TGAGCTG
18851585 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:18860460 original size:40 final size:40
Alignment explanation
Indices: 18860364--18860586 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
18860354 TTGAATGCTG
* * * * * *
18860364 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
18860404 TCC-GGATAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
18860443 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
18860483 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
18860523 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
18860563 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
18860587 TGAACGAGGA
Statistics
Matches: 165, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 24 0.15
40 141 0.85
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:18860606 original size:80 final size:80
Alignment explanation
Indices: 18860438--18860621 Score: 262
Period size: 80 Copynumber: 2.3 Consensus size: 80
18860428 GTGCGAGATA
*
18860438 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGG
** **
18860503 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * *
18860518 TTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGG
*
18860583 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
18860598 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
18860622 TACGTGATTT
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 15 0.16
80 77 0.84
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:18868332 original size:40 final size:40
Alignment explanation
Indices: 18868302--18868550 Score: 367
Period size: 40 Copynumber: 6.3 Consensus size: 40
18868292 GGACTAAGAT
* * * *
18868302 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
18868342 CCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
18868382 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGT-
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
18868421 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
18868461 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
18868501 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
18868540 CCGAAGGCATT
1 CCGAAGGCATT
18868551 TGAACGAGGA
Statistics
Matches: 193, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
39 73 0.38
40 120 0.62
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:18868459 original size:79 final size:80
Alignment explanation
Indices: 18868249--18868550 Score: 369
Period size: 79 Copynumber: 3.8 Consensus size: 80
18868239 TTGAATGCTG
* * * * * * ** *
18868249 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
18868312 TTGTGCGAGATACTAAA
64 TCGTGCGAGTTATTAAA
* *
18868329 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
18868394 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
18868409 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
18868473 GTGCGAGTTGTTAAA
66 GTGCGAGTTATTAAA
* * * * * *
18868488 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
18868551 TGAACGAGGA
Statistics
Matches: 198, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
79 110 0.56
80 82 0.41
81 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:18868461 original size:119 final size:118
Alignment explanation
Indices: 18868249--18868550 Score: 406
Period size: 119 Copynumber: 2.5 Consensus size: 118
18868239 TTGAATGCTG
* * * * * * * *
18868249 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCGAAGGCATTC
18868314 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAA
64 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAA
* *
18868369 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCGAAGGCATTCG
* * *
18868434 TGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAA
* * * * *
18868488 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGT-CCGAAGGCATT
18868551 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
118 22 0.14
119 97 0.60
120 38 0.24
121 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (118 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCGAAGGCATTCGT
GCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAA
Found at i:18868570 original size:79 final size:80
Alignment explanation
Indices: 18868249--18868585 Score: 346
Period size: 79 Copynumber: 4.2 Consensus size: 80
18868239 TTGAATGCTG
* * * * * * ** *
18868249 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* *
18868312 TTGTGCGAGATA-CTAAA
64 TCGTGCGAG-TAGTTAAA
* *
18868329 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
18868394 GTGCGAGTTA-TTAAA
66 GTGCGAG-TAGTTAAA
18868409 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
18868473 GTGCGAGTTGTTAAA
66 GTGCGAGTAGTTAAA
* * * * * * *
18868488 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
** * * *
18868552 GAACGAGGAGCTATA
66 GTGCGAGTAGTTAAA
*
18868567 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
18868586 TATGTGATTT
Statistics
Matches: 223, Mismatches: 30, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
78 15 0.07
79 120 0.54
80 82 0.37
81 6 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTAGTTAAA
Found at i:18868570 original size:119 final size:119
Alignment explanation
Indices: 18868323--18868585 Score: 361
Period size: 119 Copynumber: 2.2 Consensus size: 119
18868313 TGTGCGAGAT
18868323 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGTTAAGTCCCGAAG
* * * ** *
18868388 GCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTT
66 GCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGCATTCGAACGAGTG
* * *
18868442 ATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGTTAAGTCCCGAAG
* * *
18868507 GCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-G
66 GCATTCGTGCGAGTTACTAAAACCGGGCTAAGT-CCGAAGGCATTCGAACGAGTG
* *
18868560 AGCTATATCC-GGTTAAATCCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
18868586 TATGTGATTT
Statistics
Matches: 127, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
118 38 0.30
119 89 0.70
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (119 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGTTAAGTCCCGAAG
GCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGCATTCGAACGAGTG
Found at i:18879858 original size:28 final size:28
Alignment explanation
Indices: 18879798--18879858 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
18879788 TTTGCATTGT
* *
18879798 TGTGTATTAGATCTAGTAAATTTTGATA
1 TGTGTATTAGATCAAGTAAATTTTGACA
* * *
18879826 CGTGTATTAGATCAAGTGATTTTTGACA
1 TGTGTATTAGATCAAGTAAATTTTGACA
18879854 TGTGT
1 TGTGT
18879859 TGAGGCAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (28 bp):
TGTGTATTAGATCAAGTAAATTTTGACA
Found at i:18888262 original size:40 final size:40
Alignment explanation
Indices: 18888207--18888430 Score: 279
Period size: 40 Copynumber: 5.5 Consensus size: 40
18888197 TATTCGGATG
*
18888207 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
18888247 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTTCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
18888290 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
18888330 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * *
18888370 ATATCCAGGCTAAGACCTGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
18888410 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
18888431 ATACTTGGGT
Statistics
Matches: 161, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 12 0.07
40 111 0.69
41 1 0.01
43 37 0.23
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:18888354 original size:83 final size:80
Alignment explanation
Indices: 18888215--18888430 Score: 274
Period size: 83 Copynumber: 2.7 Consensus size: 80
18888205 TGATATCCGA
* **
18888215 GCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
1 GCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC-
** *
18888280 AGTAGTTTCTATACCCGG
65 --TAGTGACTATACCCAG
*
18888298 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGCT
1 GCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGCT
*
18888363 AGTGACTATATCCAG
66 AGTGACTATACCCAG
* * * *
18888378 GCTAAGACCTGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 GCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
18888431 ATACTTGGGT
Statistics
Matches: 120, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 14 0.12
80 44 0.37
81 2 0.02
83 60 0.50
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
GCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGCT
AGTGACTATACCCAG
Found at i:18906295 original size:22 final size:22
Alignment explanation
Indices: 18906185--18906296 Score: 68
Period size: 22 Copynumber: 4.9 Consensus size: 22
18906175 GAGACATGGC
18906185 CAGTAAGCTCATAATGAGCTGATAA
1 CAGTAAGCTCAT-ATGAGCTG--AA
*
18906210 CAGTAAGCTCGAT-TGAGTTGGAAA
1 CAGTAAGCTC-ATATGAGCT-G-AA
* * *
18906234 CGGAAAGCTC-TATTAAGCTGAA
1 CAGTAAGCTCATA-TGAGCTGAA
* * *
18906256 CAGTAAGCAC-TTTCGAGCTGAT
1 CAGTAAGCTCATAT-GAGCTGAA
18906278 CAGTAAGCTCATATGAGCT
1 CAGTAAGCTCATATGAGCT
18906297 ATTGTGAGTC
Statistics
Matches: 67, Mismatches: 14, Indels: 15
0.70 0.15 0.16
Matches are distributed among these distances:
21 1 0.01
22 31 0.46
23 3 0.04
24 19 0.28
25 11 0.16
26 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (22 bp):
CAGTAAGCTCATATGAGCTGAA
Found at i:18914388 original size:21 final size:21
Alignment explanation
Indices: 18914364--18914406 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18914354 AGTTGTTTAC
*
18914364 CTATCAAAAACATTTCATTTT
1 CTATCAAAAACATTTAATTTT
* *
18914385 CTATCATAAATATTTAATTTT
1 CTATCAAAAACATTTAATTTT
18914406 C
1 C
18914407 AGCATATACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (21 bp):
CTATCAAAAACATTTAATTTT
Found at i:18930612 original size:84 final size:84
Alignment explanation
Indices: 18930427--18930658 Score: 256
Period size: 84 Copynumber: 2.8 Consensus size: 84
18930417 TTGTATCATT
* * * **
18930427 AAATCAAATTAAAAT-ATGTTAAACGGCGAGAATAAATCCTGAAATAGA-ATTATTTGA-TTACG
1 AAATCAAA-TAAAATCTTGTTAAACGGCAAGAATAAATCCTGAAATAGATTTTATTT-ATTTAAT
****
18930489 TCTTTGTTTGGAAACAAAACA
64 TCTAAACTTGGAAACAAAACA
* *
18930510 ATATCGAATAAAATCTTGTTAAACGGCAAGAATAAATCCTGAAATAGATTTTATTTATTTCAATT
1 AAATCAAATAAAATCTTGTTAAACGGCAAGAATAAATCCTGAAATAGATTTTATTTATTT-AATT
*
18930575 C-AAACTTGGAAACAAAATA
65 CTAAACTTGGAAACAAAACA
** * *
18930594 AAATCAAATAAAATCTTGTTAAATAGCAGGAATAAATCCCGAAATAGATTTTATTTTATTTAATT
1 AAATCAAATAAAATCTTGTTAAACGGCAAGAATAAATCCTGAAATAGATTTTA-TTTATTTAATT
18930659 TCTCGTTTTT
Statistics
Matches: 126, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
82 6 0.05
83 38 0.30
84 72 0.57
85 10 0.08
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (84 bp):
AAATCAAATAAAATCTTGTTAAACGGCAAGAATAAATCCTGAAATAGATTTTATTTATTTAATTC
TAAACTTGGAAACAAAACA
Found at i:18930713 original size:87 final size:86
Alignment explanation
Indices: 18930622--18930822 Score: 242
Period size: 87 Copynumber: 2.3 Consensus size: 86
18930612 TTAAATAGCA
* * *
18930622 GGAATAAATCCCGAAATAGATTTTATTTTATTTAATTTCTCGTTTTTGAAAACAAAATC-AAATC
1 GGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCTCATTTTTGAAAACAAAATCAAAATC
*
18930686 AAATAAATCTTTATTGAACGGTG
66 AAATAAATC--CATTGAACGGTG
* * * ** *
18930709 GGAATAAATCCCGAAACATATTTAATTTAATTTAATTTTTCATTTTTGGCAACAAAATCAAAATG
1 GGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCTCATTTTTGAAAACAAAATCAAAATC
* * *
18930774 TAATAAATCCGTTGAACTGTG
66 AAATAAATCCATTGAACGGTG
* *
18930795 GGAATCAATCCCGAAACGGATTTTATTT
1 GGAATAAATCCCGAAACAGATTTTATTT
18930823 CACTCATTTT
Statistics
Matches: 96, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
86 33 0.34
87 51 0.53
88 12 0.12
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.36
Consensus pattern (86 bp):
GGAATAAATCCCGAAACAGATTTTATTTAATTTAATTTCTCATTTTTGAAAACAAAATCAAAATC
AAATAAATCCATTGAACGGTG
Found at i:18933145 original size:34 final size:34
Alignment explanation
Indices: 18933107--18933175 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
18933097 ATAAAAGTAA
*
18933107 TACTTAGGTTATATTAGGTTGTGATATCCTATGG
1 TACTTAGATTATATTAGGTTGTGATATCCTATGG
*
18933141 TACTTAGATTATATTGGGTTGTGATATCCTATGG
1 TACTTAGATTATATTAGGTTGTGATATCCTATGG
18933175 T
1 T
18933176 CCGGATCTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.45
Consensus pattern (34 bp):
TACTTAGATTATATTAGGTTGTGATATCCTATGG
Found at i:18934702 original size:15 final size:15
Alignment explanation
Indices: 18934653--18934703 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
18934643 TTTAAAAAAT
18934653 ATTTATATTATT-TTA
1 ATTTATA-TATTGTTA
* *
18934668 ATTTAAAT-TTGATA
1 ATTTATATATTGTTA
18934682 ATTTTATATATTGTTA
1 A-TTTATATATTGTTA
18934698 ATTTAT
1 ATTTAT
18934704 TAAGATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 2 0.07
14 4 0.14
15 17 0.59
16 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (15 bp):
ATTTATATATTGTTA
Found at i:18946790 original size:45 final size:44
Alignment explanation
Indices: 18946684--18946835 Score: 218
Period size: 44 Copynumber: 3.5 Consensus size: 44
18946674 GGTACTAATT
*
18946684 GGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAAATGATATC
1 GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATC
* * * *
18946728 GGGCCTTTGAGCCTAGCAGGATATAATGCTGGTGACAT-ACTATTC
1 GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TC
18946773 GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATC
1 GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATC
*
18946817 GAG-CTTCGAGCCTAGCAGG
1 GGGCCTTCGAGCCTAGCAGG
18946836 TGAAATGTCG
Statistics
Matches: 95, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
43 17 0.18
44 39 0.41
45 38 0.40
46 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (44 bp):
GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGATATC
Found at i:18954402 original size:44 final size:43
Alignment explanation
Indices: 18954339--18954488 Score: 198
Period size: 44 Copynumber: 3.5 Consensus size: 43
18954329 GGTACTAATT
18954339 GGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAAATGATATC
1 GGGCCTTCGAGCCTAGCAGGCTATAAT-CCGGTGAAATGATATC
* * *
18954383 GGGCCTTTGAGCCTAGCAGGATATAATGCTGGTG-AAT-ACTATTC
1 GGGCCTTCGAGCCTAGCAGGCTATAAT-CCGGTGAAATGA-TA-TC
*
18954427 GGGCCTTCGAGCCTAGCAGGCTATAATGCGGTGAAATGATATC
1 GGGCCTTCGAGCCTAGCAGGCTATAATCCGGTGAAATGATATC
*
18954470 GAG-CTTCGAGCCTAGCAGG
1 GGGCCTTCGAGCCTAGCAGG
18954489 TGAAATGTCG
Statistics
Matches: 93, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
42 17 0.18
43 13 0.14
44 62 0.67
45 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (43 bp):
GGGCCTTCGAGCCTAGCAGGCTATAATCCGGTGAAATGATATC
Found at i:18962289 original size:45 final size:45
Alignment explanation
Indices: 18962184--18962336 Score: 206
Period size: 44 Copynumber: 3.5 Consensus size: 45
18962174 TAGGTACTAA
* * *
18962184 TCGGGCCTTCGAGCCTAGTAGGCTATAAAGCCAGTGAAATGATAT
1 TCGGGCCTTCGAGCCTAGCAGGCTATAATGCTAGTGAAATGATAT
* *
18962229 T-GGGCCTTTGAGCCTAGCAGGCTATAATGCTAGTGAGAT-ACTAT
1 TCGGGCCTTCGAGCCTAGCAGGCTATAATGCTAGTGAAATGA-TAT
*
18962273 TCGGGCCTTCGAGCCTAGCAGGCTATAATGCTGGTGAAATGATA-
1 TCGGGCCTTCGAGCCTAGCAGGCTATAATGCTAGTGAAATGATAT
*
18962317 TC-GGTCTTCGAGCCTAGCAG
1 TCGGGCCTTCGAGCCTAGCAG
18962337 TCGAAATACC
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
43 18 0.19
44 39 0.41
45 38 0.40
46 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (45 bp):
TCGGGCCTTCGAGCCTAGCAGGCTATAATGCTAGTGAAATGATAT
Found at i:18971599 original size:27 final size:27
Alignment explanation
Indices: 18971569--18972025 Score: 553
Period size: 27 Copynumber: 16.9 Consensus size: 27
18971559 AGTACTCCCA
*
18971569 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
18971596 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
* **
18971623 ATTTACAGAATTACCGTTTTACCCTTA
1 ATTTACAGAATTACCATTTTACCCTCG
** * *
18971650 ATTTTTAAAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
* *
18971677 ATTTACAGAATTACCGTTTTACCCTTG
1 ATTTACAGAATTACCATTTTACCCTCG
*
18971704 ATTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
* ***
18971731 ATTTATAGAATTATTGTTTTACCCTC-
1 ATTTACAGAATTACCATTTTACCCTCG
*
18971757 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCATTTTACCCTCG
* *
18971785 ATTTATAGAATTACTATTTTACCCTC-
1 ATTTACAGAATTACCATTTTACCCTCG
*
18971811 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCATTTTACCCTCG
18971839 ATTTACAGAATTACCATTTTACCCTC-
1 ATTTACAGAATTACCATTTTACCCTCG
* *
18971865 AGTTTACAGAATTACTATTTTACCCTCA
1 A-TTTACAGAATTACCATTTTACCCTCG
*
18971893 ATTTACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCATTTTACCCTCG
** * *
18971920 ATTTGTAAAATTACCATTTTACCCTTG
1 ATTTACAGAATTACCATTTTACCCTCG
* * *
18971947 ATTTACAAAATTACTAGTTTACCCTC-
1 ATTTACAGAATTACCATTTTACCCTCG
* * *
18971973 AGTTTACAAAATTATCGTTTTACCCTCG
1 A-TTTACAGAATTACCATTTTACCCTCG
*
18972001 ATTTATAGAATTACCATTTTACCCT
1 ATTTACAGAATTACCATTTTACCCT
18972026 TAATTGTGAA
Statistics
Matches: 379, Mismatches: 43, Indels: 16
0.87 0.10 0.04
Matches are distributed among these distances:
26 4 0.01
27 371 0.98
28 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
ATTTACAGAATTACCATTTTACCCTCG
Found at i:18972065 original size:27 final size:27
Alignment explanation
Indices: 18972035--18972230 Score: 241
Period size: 27 Copynumber: 7.3 Consensus size: 27
18972025 TTAATTGTGA
* *
18972035 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
18972062 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
18972089 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
18972116 AATTACCAAAATACCCCTT-TAGGGTAG
1 AATTACCGAAATA-CCCTTGTAGGGTAG
*
18972143 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
18972170 AAATACCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
18972197 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
18972224 AATTACC
1 AATTACC
18972231 ATTTTGCCCC
Statistics
Matches: 147, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 5 0.03
27 137 0.93
28 5 0.03
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:18972644 original size:27 final size:27
Alignment explanation
Indices: 18972622--18972695 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
18972612 TAGGTGGGTT
*
18972622 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
18972649 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
18972676 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
18972696 CAGCCATGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:18972822 original size:6 final size:6
Alignment explanation
Indices: 18972813--18972945 Score: 123
Period size: 6 Copynumber: 21.8 Consensus size: 6
18972803 TTGCATTCAC
* *
18972813 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
18972862 -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG
18972911 ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
18972946 CATTTTGGTT
Statistics
Matches: 105, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
5 7 0.07
6 88 0.84
7 7 0.07
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:18972848 original size:31 final size:30
Alignment explanation
Indices: 18972813--18972945 Score: 205
Period size: 31 Copynumber: 4.4 Consensus size: 30
18972803 TTGCATTCAC
18972813 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTCAC-TAATTCTG
18972844 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCA-CTAATTCTG
*
18972875 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTCACTAAT-TCTG
* *
18972905 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTCACTAATTCTG
18972935 ATTCTGATTCT
1 ATTCTGATTCT
18972946 CATTTTGGTT
Statistics
Matches: 97, Mismatches: 2, Indels: 7
0.92 0.02 0.07
Matches are distributed among these distances:
29 1 0.01
30 45 0.46
31 50 0.52
32 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTCACTAATTCTG
Found at i:18972963 original size:30 final size:30
Alignment explanation
Indices: 18972813--18972966 Score: 186
Period size: 30 Copynumber: 5.1 Consensus size: 30
18972803 TTGCATTCAC
* *
18972813 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-CAATTCTG
*
18972844 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACC-AATTCTG
*
18972875 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACCAAT-TCTG
**
18972905 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
* *
18972935 ATTCTGATTCTCATTTTGGTT-CCAATTCTG
1 ATTCTGATTCTGATTCT-GTTACCAATTCTG
18972965 AT
1 AT
18972967 AATGTTTCTT
Statistics
Matches: 111, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
29 1 0.01
30 56 0.50
31 54 0.49
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACCAATTCTG
Found at i:18973771 original size:10 final size:10
Alignment explanation
Indices: 18973756--18973800 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
18973746 AGTTAGATTA
18973756 AACCTTAATT
1 AACCTTAATT
18973766 AACCTTAATT
1 AACCTTAATT
*
18973776 AA--TTAAGT
1 AACCTTAATT
*
18973784 AA-ATTAATT
1 AACCTTAATT
18973793 AACCTTAA
1 AACCTTAA
18973801 CCGTAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 7 0.23
9 7 0.23
10 16 0.53
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (10 bp):
AACCTTAATT
Found at i:18974777 original size:35 final size:35
Alignment explanation
Indices: 18974731--18974802 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
18974721 TCACCTAAGG
*
18974731 TTGACACACATAGGTTTTGCACAACGATTCGTACA
1 TTGACACACATAGGTTTTGCACAACGATTCATACA
*
18974766 TTGACACACATAGGTTTTGCACAACGGTTCATACA
1 TTGACACACATAGGTTTTGCACAACGATTCATACA
18974801 TT
1 TT
18974803 TAGGGTTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (35 bp):
TTGACACACATAGGTTTTGCACAACGATTCATACA
Found at i:18974955 original size:22 final size:22
Alignment explanation
Indices: 18974919--18975028 Score: 136
Period size: 22 Copynumber: 5.0 Consensus size: 22
18974909 GGTTCACAAA
*
18974919 ACTAACATA-AGGGCTCGCATGGT
1 ACTAACATATA-GGCTCACAT-GT
18974942 A-TAACATATAGGCTTC-CATGT
1 ACTAACATATAGGC-TCACATGT
*
18974963 ACTAACATATAGGCTCACATAT
1 ACTAACATATAGGCTCACATGT
*
18974985 ACTAACATATTGGCTCACATGT
1 ACTAACATATAGGCTCACATGT
*
18975007 ACTAACATATAGGCTCGCATGT
1 ACTAACATATAGGCTCACATGT
18975029 TTACAGAGTT
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
21 5 0.06
22 69 0.88
23 4 0.05
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (22 bp):
ACTAACATATAGGCTCACATGT
Found at i:18980685 original size:15 final size:15
Alignment explanation
Indices: 18980665--18980693 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18980655 AAGAAATGGC
18980665 TAGTCATAGCACCAA
1 TAGTCATAGCACCAA
18980680 TAGTCATAGCACCA
1 TAGTCATAGCACCA
18980694 GATTGGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (15 bp):
TAGTCATAGCACCAA
Found at i:18993072 original size:47 final size:47
Alignment explanation
Indices: 18992994--18993638 Score: 1040
Period size: 47 Copynumber: 13.6 Consensus size: 47
18992984 CCCTTCAGGA
* * * *
18992994 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
18993041 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18993088 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18993135 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
18993182 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18993231 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18993278 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18993325 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18993374 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18993421 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18993468 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18993517 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18993566 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18993613 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
18993639 CACAATTATC
Statistics
Matches: 561, Mismatches: 30, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
46 2 0.00
47 376 0.67
49 183 0.33
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18993232 original size:96 final size:94
Alignment explanation
Indices: 18992994--18993638 Score: 1040
Period size: 96 Copynumber: 6.8 Consensus size: 94
18992984 CCCTTCAGGA
* * * * * *
18992994 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTT-GGCCCTGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCTTATCACATATATACA
18993058 CTTTCACATTCATCACATCGGCCATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
* *
18993088 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
18993153 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
18993182 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
18993247 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
18993278 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
18993343 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
18993374 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
18993439 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
18993468 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* *
18993533 ACACTTTCACATTCATCACATTGGCCATTCGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
18993566 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
18993631 ATTCACAT
66 TTTCACAT
18993639 CACAATTATC
Statistics
Matches: 516, Mismatches: 26, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
93 2 0.00
94 195 0.38
96 274 0.53
98 45 0.09
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:18993250 original size:143 final size:143
Alignment explanation
Indices: 18992994--18993638 Score: 1084
Period size: 143 Copynumber: 4.5 Consensus size: 143
18992984 CCCTTCAGGA
* * * * * *
18992994 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTT-GGCCCTGTCAC--ATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCTTATCACATATATATA
*
18993056 CACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
*
18993121 ATCGGCTATTAGGC
130 ATCGGCCATTAGGC
18993135 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * *
18993200 ACTTTCACATTCATCACATTGGCCACTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
18993265 TCGGCCATTAGGC
131 TCGGCCATTAGGC
18993278 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
18993343 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
18993408 TCGGCTATTAGGC
131 TCGGCCATTAGGC
18993421 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
18993486 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
* *
18993551 CATTGGCCATTCGGC
129 CATCGGCCATTAGGC
18993566 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
18993631 A--TTCACAT
66 ACTTTCACAT
18993639 CACAATTATC
Statistics
Matches: 481, Mismatches: 18, Indels: 8
0.95 0.04 0.02
Matches are distributed among these distances:
140 2 0.00
141 46 0.10
143 331 0.69
145 102 0.21
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:18995692 original size:18 final size:20
Alignment explanation
Indices: 18995669--18995709 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
18995659 GTTTTCATCA
18995669 TATTCCC-TT-TCATTATTT
1 TATTCCCATTCTCATTATTT
*
18995687 TATTCCCATTCTCCTTATTT
1 TATTCCCATTCTCATTATTT
18995707 TAT
1 TAT
18995710 CATACTTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 2 0.10
20 11 0.55
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTCCCATTCTCATTATTT
Found at i:19012305 original size:15 final size:15
Alignment explanation
Indices: 19012264--19012306 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
19012254 CGTATTGTTG
*
19012264 GATTAAGTTGAATGA
1 GATTAATTTGAATGA
* *
19012279 AATTGTATTTGAATGA
1 GATT-AATTTGAATGA
19012295 GATTAATTTGAA
1 GATTAATTTGAA
19012307 ATTGTATAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.40
Consensus pattern (15 bp):
GATTAATTTGAATGA
Found at i:19020943 original size:11 final size:11
Alignment explanation
Indices: 19020907--19020962 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
19020897 CATGGTATGT
19020907 ATGATATGCAC
1 ATGATATGCAC
* *
19020918 ATGACATG--T
1 ATGATATGCAC
19020927 ATGATATGCAC
1 ATGATATGCAC
*
19020938 ATGATATG--T
1 ATGATATGCAC
19020947 ATGATATGCAC
1 ATGATATGCAC
19020958 ATGAT
1 ATGAT
19020963 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:19020962 original size:20 final size:20
Alignment explanation
Indices: 19020896--19020962 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
19020886 ATTTTGATAA
*
19020896 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
19020916 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
19020936 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
19020956 ACATGAT
1 ACATGAT
19020963 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:19021033 original size:25 final size:25
Alignment explanation
Indices: 19021005--19021133 Score: 149
Period size: 25 Copynumber: 5.2 Consensus size: 25
19020995 AGGAAGTGCA
19021005 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
19021030 AAAGGGCTTATACCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
19021055 AAAGGGCTTATGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
19021079 AAAGGGC-TCTGCCCCAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
*
19021102 AAAGAGGC-TAGGCCTCCAGTTATATGAT
1 AAAG-GGCTTATGCC-CCAG-T-TATGAT
19021130 AAAG
1 AAAG
19021134 CAGCTATGCT
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
23 19 0.21
24 14 0.15
25 50 0.54
26 1 0.01
27 4 0.04
28 4 0.04
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:19021372 original size:31 final size:31
Alignment explanation
Indices: 19021318--19021378 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
19021308 CGTTTACAGT
*
19021318 AAAGGCTTCGGCCCAGTAATATGAGATATGG
1 AAAGGCTTCGGCCCAGTAATATGAAATATGG
* **
19021349 AAAGGTTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
19021379 AAATATGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGG
Found at i:19022967 original size:34 final size:34
Alignment explanation
Indices: 19022924--19022992 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
19022914 CGTATGTTTA
*
19022924 AATAATGTTTTAATGTTATTTTGATGTATATGCT
1 AATAATGTTTTAATGTTATTTTGATGCATATGCT
19022958 AATAATGTTTTAATGTTATTTTGATGCATATGCT
1 AATAATGTTTTAATGTTATTTTGATGCATATGCT
19022992 A
1 A
19022993 TTGTGATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.51
Consensus pattern (34 bp):
AATAATGTTTTAATGTTATTTTGATGCATATGCT
Found at i:19026323 original size:17 final size:17
Alignment explanation
Indices: 19026301--19026333 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19026291 TTTAAGAGAC
*
19026301 ATAACTTTTGATTTGTT
1 ATAACTTTTCATTTGTT
19026318 ATAACTTTTCATTTGT
1 ATAACTTTTCATTTGT
19026334 AATTAGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (17 bp):
ATAACTTTTCATTTGTT
Done.