Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 220 of 240
Found at i:66457053 original size:16 final size:17
Alignment explanation
Indices: 66457032--66457064 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
66457022 ATGTCTAGGT
66457032 AAATT-ATTAATTGAGA
1 AAATTAATTAATTGAGA
66457048 AAATTAGATTAATTGAG
1 AAATTA-ATTAATTGAG
66457065 GGGTTAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
AAATTAATTAATTGAGA
Found at i:66458609 original size:45 final size:45
Alignment explanation
Indices: 66458544--66458644 Score: 159
Period size: 45 Copynumber: 2.2 Consensus size: 45
66458534 ATGTGCCGAC
* *
66458544 TACTGTTACTGTTACTGATTC-GATACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAATACTGT
*
66458589 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGT
66458634 TACTGTTACTG
1 TACTGTTACTG
66458645 CTACCGTTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
45 51 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.44
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGT
Found at i:66466016 original size:17 final size:17
Alignment explanation
Indices: 66465994--66466027 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
66465984 ATCCACTAAT
*
66465994 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
66466011 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
66466028 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:66470654 original size:17 final size:17
Alignment explanation
Indices: 66470632--66470665 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
66470622 ATCCACTAAT
*
66470632 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
66470649 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
66470666 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:66473234 original size:20 final size:20
Alignment explanation
Indices: 66473209--66473258 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
66473199 TGGCTTAAAA
66473209 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
66473229 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
66473246 GTGGTAGTGGATT
1 TTGGTAGTGGATT
66473259 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:66477873 original size:20 final size:20
Alignment explanation
Indices: 66477848--66477897 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
66477838 TGGCTTAAAA
66477848 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
66477868 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
66477885 GTGGTAGTGGATT
1 TTGGTAGTGGATT
66477898 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:66482230 original size:39 final size:40
Alignment explanation
Indices: 66482099--66482235 Score: 138
Period size: 40 Copynumber: 3.5 Consensus size: 40
66482089 GGCGTTTGGA
* * *
66482099 TAAAAAACACCGCTAAAAATCAATCATTAGCGGCG-CTTC
1 TAAAAAGCGCCGCTAAAAATCAAGCATTAGCGGCGTCTTC
* * * * *
66482138 TAGAAAAGCGCTGCTAAAGATCAAGTATTCGCGGCGCTTTTC
1 TA-AAAAGCGCCGCTAAAAATCAAGCATTAGCGGCG-TCTTC
*
66482180 TAAAAA-TGCCGCTAAAAAT-AAGCATTAGCGGCGTCTTC
1 TAAAAAGCGCCGCTAAAAATCAAGCATTAGCGGCGTCTTC
*
66482218 CAAAAAGCGCCGC-AAAAA
1 TAAAAAGCGCCGCTAAAAA
66482236 CCTAAGCCCA
Statistics
Matches: 78, Mismatches: 16, Indels: 9
0.76 0.16 0.09
Matches are distributed among these distances:
38 14 0.18
39 19 0.24
40 36 0.46
41 4 0.05
42 5 0.06
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (40 bp):
TAAAAAGCGCCGCTAAAAATCAAGCATTAGCGGCGTCTTC
Found at i:66482330 original size:40 final size:41
Alignment explanation
Indices: 66482275--66482505 Score: 360
Period size: 41 Copynumber: 5.7 Consensus size: 41
66482265 TTTTTGGGAT
*
66482275 TTTAGCTGCGTTTTTGAAGAAGCGCCGCTAATGCTT-GGTC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTGGGTC
66482315 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTT-GGTC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTGGGTC
* *
66482355 TTTAGCGGCGTTTCTGAAGAAGCACCGCTAATGCTTGGGTC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTGGGTC
** *
66482396 TTTAGCGGCACTTTTGAAGAAGCGCCGCTAATGCTTAGGTC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTGGGTC
* *
66482437 TTTAGCGGCGCTTTTGAAGAAGCGCCGCTAATTCTTGGGTC
1 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTGGGTC
66482478 TTTAGCGGCGTTTTTGGAA-AAGCGCCGC
1 TTTAGCGGCGTTTTT-GAAGAAGCGCCGC
66482506 AAAAAATATT
Statistics
Matches: 177, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
40 73 0.41
41 101 0.57
42 3 0.02
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTTGGGTC
Found at i:66482973 original size:21 final size:20
Alignment explanation
Indices: 66482949--66482990 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
66482939 ATGTGTTAAG
66482949 GGTTTAGGGTTTTAGGATTTA
1 GGTTTAGGG-TTTAGGATTTA
*
66482970 GGTTTAGGGTTTAGGGTTTA
1 GGTTTAGGGTTTAGGATTTA
66482990 G
1 G
66482991 ATTAACTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (20 bp):
GGTTTAGGGTTTAGGATTTA
Found at i:66482977 original size:13 final size:14
Alignment explanation
Indices: 66482951--66482990 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
66482941 GTGTTAAGGG
66482951 TTTAGGGTTTTAGGA
1 TTTAGGG-TTTAGGA
*
66482966 TTTA-GGTTTAGGG
1 TTTAGGGTTTAGGA
66482979 TTTAGGGTTTAG
1 TTTAGGGTTTAG
66482991 ATTAACTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 10 0.43
14 9 0.39
15 4 0.17
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTAGGA
Found at i:66482990 original size:7 final size:7
Alignment explanation
Indices: 66482858--66482990 Score: 74
Period size: 7 Copynumber: 18.7 Consensus size: 7
66482848 GAGTTACTAT
*
66482858 TTTAAGG
1 TTTAGGG
*
66482865 TTTATGG
1 TTTAGGG
*
66482872 ATTATGGG
1 TTTA-GGG
66482880 TTTAGGG
1 TTTAGGG
* * *
66482887 GTTATGA
1 TTTAGGG
*
66482894 TTTATGG
1 TTTAGGG
*
66482901 TTTATGG
1 TTTAGGG
*
66482908 TTTAAAGG
1 TTT-AGGG
*
66482916 -TTGGGG
1 TTTAGGG
*
66482922 TTTAAGG
1 TTTAGGG
66482929 TTTAGAGG
1 TTTAG-GG
*
66482937 -TTATGTG
1 TTTA-GGG
*
66482944 TTAAGGG
1 TTTAGGG
66482951 TTTAGGG
1 TTTAGGG
*
66482958 TTTTAGGA
1 -TTTAGGG
66482966 TTTA-GG
1 TTTAGGG
66482972 TTTAGGG
1 TTTAGGG
66482979 TTTAGGG
1 TTTAGGG
66482986 TTTAG
1 TTTAG
66482991 ATTAACTAGT
Statistics
Matches: 97, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
6 7 0.07
7 71 0.73
8 19 0.20
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:66489665 original size:36 final size:36
Alignment explanation
Indices: 66489625--66489697 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
66489615 ACAGAAGAAC
66489625 GAGCATTAACCCTTGGTGTCTCTACCTCAGGAGGGA
1 GAGCATTAACCCTTGGTGTCTCTACCTCAGGAGGGA
66489661 GAGCATTAACCCTTGGTGTCTCTACCTCAGGAGGGA
1 GAGCATTAACCCTTGGTGTCTCTACCTCAGGAGGGA
66489697 G
1 G
66489698 TTCCAAGTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.25
Consensus pattern (36 bp):
GAGCATTAACCCTTGGTGTCTCTACCTCAGGAGGGA
Found at i:66499202 original size:24 final size:23
Alignment explanation
Indices: 66499148--66499208 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
66499138 ACAATTTAAT
* *
66499148 TTTACCCCCTAAAAAAATTCTAG
1 TTTAACCCCTAAAAAAATTATAG
* * *
66499171 CTTCACCCCTGAATAAAATTATAG
1 TTTAACCCCT-AAAAAAATTATAG
*
66499195 TTTAACCCTTAAAA
1 TTTAACCCCTAAAA
66499209 TTGATAAAAT
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
23 10 0.36
24 18 0.64
ACGTcount: A:0.39, C:0.25, G:0.05, T:0.31
Consensus pattern (23 bp):
TTTAACCCCTAAAAAAATTATAG
Found at i:66502066 original size:8 final size:8
Alignment explanation
Indices: 66502031--66502069 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
66502021 GTTATCTTTG
66502031 TTATTATA
1 TTATTATA
66502039 TTA-TATA
1 TTATTATA
*
66502046 TTACTATTA
1 TTATTA-TA
66502055 TTATTATA
1 TTATTATA
66502063 TTATTAT
1 TTATTAT
66502070 TGTATGTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 7 0.25
8 14 0.50
9 7 0.25
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (8 bp):
TTATTATA
Found at i:66502148 original size:3 final size:3
Alignment explanation
Indices: 66502140--66502172 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
66502130 GTAGTACGTT
66502140 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
66502173 CAAATTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:66502241 original size:25 final size:26
Alignment explanation
Indices: 66502208--66502259 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
66502198 TATATATATA
66502208 TATTATATACATTCATATTTTATAAT
1 TATTATATACATTCATATTTTATAAT
** *
66502234 TATT-TATATTTTCATGTTTTATAAT
1 TATTATATACATTCATATTTTATAAT
66502259 T
1 T
66502260 CATATGTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.60
Consensus pattern (26 bp):
TATTATATACATTCATATTTTATAAT
Found at i:66502685 original size:13 final size:13
Alignment explanation
Indices: 66502667--66502696 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
66502657 TTACATCATC
66502667 ATTTTTTTTAAAA
1 ATTTTTTTTAAAA
*
66502680 ATTTTTTTTAAAT
1 ATTTTTTTTAAAA
66502693 ATTT
1 ATTT
66502697 GGCAATCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTTTTTTAAAA
Found at i:66506396 original size:16 final size:15
Alignment explanation
Indices: 66506375--66506413 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
66506365 AGATTCAATT
66506375 CAAAAAAAAAACAACA
1 CAAAAAAAAAACAA-A
*
66506391 CAAAAACAAAAAGAAA
1 CAAAAA-AAAAACAAA
66506407 CAAAAAA
1 CAAAAAA
66506414 CTTCCACTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 13 0.62
17 7 0.33
ACGTcount: A:0.82, C:0.15, G:0.03, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAAACAAA
Found at i:66508499 original size:132 final size:132
Alignment explanation
Indices: 66508357--66509292 Score: 1518
Period size: 132 Copynumber: 7.1 Consensus size: 132
66508347 AACAGAGAAG
* * * * *
66508357 TAGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGGGCAGATCAAAGATGGCAGATTT
1 TAGATTGAAGATTTCAGATCTTATCTCCCTAGGCATTAGTGGAGCAGATCGAAGATGGCAGATTT
*
66508422 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGG
66508487 AA
131 AA
*
66508489 TAGATTGAAGATTTCAGATCTTATCTCCTTAGGCATTAGTGGAGCAGATCGAAGATGGCAGATTT
1 TAGATTGAAGATTTCAGATCTTATCTCCCTAGGCATTAGTGGAGCAGATCGAAGATGGCAGATTT
* *
66508554 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGTGCAACAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGG
66508619 AA
131 AA
*
66508621 TAGATTGAAGATTTCAGATCTTATCTCCCTATGCATTAGTGGAGCAGATCGAAGATGGCAGATTT
1 TAGATTGAAGATTTCAGATCTTATCTCCCTAGGCATTAGTGGAGCAGATCGAAGATGGCAGATTT
* * *
66508686 TACCTCCCCGTGGTTACAGTGGAGTACATTGAAGCCAGGAATTCTACTTCCCTGGGCAGCAGTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGG
66508751 AA
131 AA
* * *
66508753 TAGATTGAAGATTTCAGATCTTATCTCTCTAGGCATTAGTGGAGTAGATCGAAGATGGAAGATTT
1 TAGATTGAAGATTTCAGATCTTATCTCCCTAGGCATTAGTGGAGCAGATCGAAGATGGCAGATTT
*
66508818 TACCTCCCTGAGGTTACAATGGAGTACATTGAAGCCAGTAATTCTA-TCTCCCTGGGCAGCAGTG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTG
66508882 GAA
130 GAA
* *
66508885 TAGATTGAAAATTTCAGATCTTATCTCCCTAGGCATTAGTAGAGCAGATCGAAGATGGCAGATTT
1 TAGATTGAAGATTTCAGATCTTATCTCCCTAGGCATTAGTGGAGCAGATCGAAGATGGCAGATTT
* * * *
66508950 TACCTCCCCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGAGCAGCATTGG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGG
66509015 AA
131 AA
* *
66509017 TAGATTGAAGATTTCAGATCTTATCTCCCTAGGCATTAGTGGAGTAGATCGAAGATGGCAAATTT
1 TAGATTGAAGATTTCAGATCTTATCTCCCTAGGCATTAGTGGAGCAGATCGAAGATGGCAGATTT
66509082 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCCCTGGGCAGCAGTG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTG
66509146 GAA
130 GAA
* * *
66509149 TAGATTGAAGATTACAGATCCTATCTCCCTAGGCATTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TAGATTGAAGATTTCAGATCTTATCTCCCTAGGCATTAGTGGAGCAGATCGAAGATGGCAGATTT
* * * *
66509214 TACCTCCCTCAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTTACTTCTCTGGTAG-TGTAG
66 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTC-TACTTCCCTGG--GCAGCAG
66509278 TGGAA
128 TGGAA
66509283 TAGATTGAAG
1 TAGATTGAAG
66509293 TCATGACGGC
Statistics
Matches: 748, Mismatches: 49, Indels: 12
0.92 0.06 0.01
Matches are distributed among these distances:
131 2 0.00
132 717 0.96
133 9 0.01
134 19 0.03
135 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
TAGATTGAAGATTTCAGATCTTATCTCCCTAGGCATTAGTGGAGCAGATCGAAGATGGCAGATTT
TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGG
AA
Found at i:66514441 original size:14 final size:14
Alignment explanation
Indices: 66514422--66514449 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66514412 AGATTGAAAA
66514422 CTTTAAAGAGATTT
1 CTTTAAAGAGATTT
66514436 CTTTAAAGAGATTT
1 CTTTAAAGAGATTT
66514450 AAAATACGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
CTTTAAAGAGATTT
Found at i:66514727 original size:72 final size:72
Alignment explanation
Indices: 66514596--66514735 Score: 228
Period size: 71 Copynumber: 1.9 Consensus size: 72
66514586 ATCTCAGATT
* *
66514596 AAAAAAGGGATCATGCCTAATAAGTTAGGACACAATCTTTTCTTAATTCCCAAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAATAAGTTAGGACACAATCTCTTCTTAATTCCCAAGATCGTTTAAAA
66514661 CTTGAGG
66 CTTGAGG
* *
66514668 AAAAAA-GGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTTAATTCCCGAGATCGTTTAAA
1 AAAAAAGGGATCATGCCCAATAAGTTAGGACACAATCTCTTC-TTAATTCCCAAGATCGTTTAAA
66514732 ACTT
65 ACTT
66514736 AGGTTTGAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 32 0.51
72 31 0.49
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (72 bp):
AAAAAAGGGATCATGCCCAATAAGTTAGGACACAATCTCTTCTTAATTCCCAAGATCGTTTAAAA
CTTGAGG
Found at i:66515332 original size:29 final size:29
Alignment explanation
Indices: 66515299--66515371 Score: 74
Period size: 33 Copynumber: 2.3 Consensus size: 29
66515289 AATTATAAAG
66515299 TATAAAAAATATACAAGTATGTACATATA
1 TATAAAAAATATACAAGTATGTACATATA
** *
66515328 TATAAATTAAAAATATGTATGTATGTACATATA
1 TAT--A--AAAAATATACAAGTATGTACATATA
66515361 TATAACAAAAT
1 TATAA-AAAAT
66515372 CTAAAATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
29 4 0.11
30 5 0.14
31 2 0.06
33 25 0.69
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.34
Consensus pattern (29 bp):
TATAAAAAATATACAAGTATGTACATATA
Found at i:66515341 original size:33 final size:33
Alignment explanation
Indices: 66515303--66515365 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
66515293 ATAAAGTATA
66515303 AAAAATATACAAGTATGTACATATATATAAATT
1 AAAAATATACAAGTATGTACATATATATAAATT
** *
66515336 AAAAATATGTATGTATGTACATATATATAA
1 AAAAATATACAAGTATGTACATATATATAA
66515366 CAAAATCTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (33 bp):
AAAAATATACAAGTATGTACATATATATAAATT
Found at i:66517061 original size:40 final size:40
Alignment explanation
Indices: 66516983--66517080 Score: 106
Period size: 40 Copynumber: 2.5 Consensus size: 40
66516973 GCTTTTGTAT
*
66516983 AAAAAACGCCGCTAAAAATCAAGCATTACCGGCGCTTTTA
1 AAAAAACGCCGCTAAAAATCAAGCATTACCGGCCCTTTTA
* * * ** *
66517023 AAAAAACGCCGCTAAAGATTAAGTATTAGTGGCCCTTTTT
1 AAAAAACGCCGCTAAAAATCAAGCATTACCGGCCCTTTTA
** *
66517063 GGAAATCGCCGCTAAAAA
1 AAAAAACGCCGCTAAAAA
66517081 AAAGAATTAG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.22
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATCAAGCATTACCGGCCCTTTTA
Found at i:66517221 original size:41 final size:41
Alignment explanation
Indices: 66517176--66517512 Score: 385
Period size: 41 Copynumber: 8.2 Consensus size: 41
66517166 GTTTCTCAAA
* * * * * *
66517176 AAGCGCCGTTAATGCTCTAGCCTTTAGAGGCGTTTTTGTTG
1 AAGCGCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTGATG
*
66517217 AAGCGCCGCTAATGCTTTGGTCTATAGCGGCGTTTTTGATG
1 AAGCGCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTGATG
* * *
66517258 AAGCGCCGCTAATGCTGTGGTCTATAGCGGCGCTTTTG-GG
1 AAGCGCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTGATG
*
66517298 AAAGCGCCGCTAATGCTCTGGTCTATAGCGGCGTTTATGATG
1 -AAGCGCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTGATG
* * * *
66517340 AAGCGACACTAATGCTCTGGTCTATAGAGGCGTTTTTTATG
1 AAGCGCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTGATG
* * *
66517381 AAGCGCCGCTAATGCTCTAGTCTATAGCGGCGCTTTTG-GG
1 AAGCGCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTGATG
* * *
66517421 AAAGCACCGCTAATGCTCTGGTCTTTAGCGACGTTTTTGAAT-
1 -AAGCGCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTG-ATG
* * * *
66517463 AAGCGCCGCTAATGCTCTGATCTTTTGCGGCGTTTTTCGA-A
1 AAGCGCCGCTAATGCTCTGGTCTATAGCGGCGTTTTT-GATG
66517504 AAGCGCCGC
1 AAGCGCCGC
66517513 ACAATGTATT
Statistics
Matches: 253, Mismatches: 36, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.01
41 249 0.98
42 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (41 bp):
AAGCGCCGCTAATGCTCTGGTCTATAGCGGCGTTTTTGATG
Found at i:66517394 original size:123 final size:123
Alignment explanation
Indices: 66517175--66517512 Score: 464
Period size: 123 Copynumber: 2.7 Consensus size: 123
66517165 CGTTTCTCAA
* * * * * *
66517175 AAAGCGCCGTTAATGCTCTAGCCTTTAGAGGCGTTTTTGTTGAAGCGCCGCTAATGCTTTGGTCT
1 AAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGATGAAGCGCCGCTAATGCTCTGGTCT
* *
66517240 ATAGCGGCGTTTTTGATGAAGCGCCGCTAATGCTGTGGTCTATAGCGGCGCTTTTGGG
66 ATAGCGGCGTTTTTGATGAAGCGCCGCTAATGCTCTAGTCTATAGCGGCGCTTTTGGG
* * * *
66517298 AAAGCGCCGCTAATGCTCTGGTCTATAGCGGCGTTTATGATGAAGCGACACTAATGCTCTGGTCT
1 AAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGATGAAGCGCCGCTAATGCTCTGGTCT
* *
66517363 ATAGAGGCGTTTTTTATGAAGCGCCGCTAATGCTCTAGTCTATAGCGGCGCTTTTGGG
66 ATAGCGGCGTTTTTGATGAAGCGCCGCTAATGCTCTAGTCTATAGCGGCGCTTTTGGG
* * *
66517421 AAAGCACCGCTAATGCTCTGGTCTTTAGCGACGTTTTTGAAT-AAGCGCCGCTAATGCTCTGATC
1 AAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTG-ATGAAGCGCCGCTAATGCTCTGGTC
* * *
66517485 TTTTGCGGCGTTTTTCGA-AAAGCGCCGC
65 TATAGCGGCGTTTTT-GATGAAGCGCCGC
66517513 ACAATGTATT
Statistics
Matches: 187, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
123 184 0.98
124 3 0.02
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.31
Consensus pattern (123 bp):
AAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCGTTTTTGATGAAGCGCCGCTAATGCTCTGGTCT
ATAGCGGCGTTTTTGATGAAGCGCCGCTAATGCTCTAGTCTATAGCGGCGCTTTTGGG
Found at i:66517997 original size:22 final size:22
Alignment explanation
Indices: 66517972--66518027 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
66517962 AGATTTAGGT
66517972 TTTAAGAGTTTAA-GGGTTGGGG
1 TTTAAG-GTTTAAGGGGTTGGGG
66517994 TTTAAGGTTTAAGGGGTTGGGG
1 TTTAAGGTTTAAGGGGTTGGGG
*
66518016 TTTAGGGTTTAA
1 TTTAAGGTTTAA
66518028 AGGATAGAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.39
Consensus pattern (22 bp):
TTTAAGGTTTAAGGGGTTGGGG
Found at i:66522576 original size:16 final size:16
Alignment explanation
Indices: 66522552--66522585 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
66522542 TAATACTAAT
*
66522552 TAATTTTTGATATTAA
1 TAATGTTTGATATTAA
*
66522568 TAATGTTTGATTTTAA
1 TAATGTTTGATATTAA
66522584 TA
1 TA
66522586 TTTAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (16 bp):
TAATGTTTGATATTAA
Found at i:66522708 original size:43 final size:43
Alignment explanation
Indices: 66522659--66523012 Score: 417
Period size: 43 Copynumber: 8.3 Consensus size: 43
66522649 ACGAAATTTT
* ** * *
66522659 TAGCGGCGTTTGTAATTAAAGCGTCGCTAAAAGTCTTGAGT-TA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGGTCTTGA-TCTA
* *
66522702 TAGCGGCGTTTGTTGGAAAAGCGTCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * *
66522745 TAGCGGAGTTTGTGAGAAAAGCGTCGCTAAAGGTCTTGGTCTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * *
66522788 TAGCAGCGTTTGTGATAAAAGCGCCGCTAAAGGTATTGATCTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * * *
66522831 TAGCGGCGTTTGTTAGAAAAGCGCCACTAAAGATCATGGTCTT
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
66522874 TAGCGGTGTTTGTTGGAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGGTCTTGATCTA
*
66522917 TAGCGGCGTTTG-TAGGAAAAGCGCCGCTATAGGTCTTGATCTA
1 TAGCGGCGTTTGTTA-GAAAAGCGCCGCTAAAGGTCTTGATCTA
* * * *
66522960 TAGCGGCGTTTG-TGGAAAAGCACCGCTAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGGTCTTGATCTA
*
66523002 TAGCTGCGTTT
1 TAGCGGCGTTT
66523013 ATTTTTTAAA
Statistics
Matches: 269, Mismatches: 40, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
42 36 0.13
43 233 0.87
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGGTCTTGATCTA
Found at i:66522894 original size:129 final size:128
Alignment explanation
Indices: 66522659--66523005 Score: 466
Period size: 129 Copynumber: 2.7 Consensus size: 128
66522649 ACGAAATTTT
* * *
66522659 TAGCGGCGTTTGTAATTAAAGCGTCGCTAAAAGTCTTGAGT-TATAGCGGCGTTTGTTGGAAAAG
1 TAGCGGCGTTTGT-ATAAAAGCGCCGCTAAAGGTCTTGA-TCTATAGCGGCGTTTGTTGGAAAAG
* * * * *
66522723 CGTCGCTAAAGGTCTTGATCTATAGCGGAGTTTGTGAGAAAAGCGTCGCTAAAGGTCTTGGTCTA
64 CGCCGCTAAAGGTCATGGTCTATAGCGGAGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* * *
66522788 TAGCAGCGTTTGTGATAAAAGCGCCGCTAAAGGTATTGATCTATAGCGGCGTTTGTTAGAAAAGC
1 TAGCGGCGTTTGT-ATAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTTGGAAAAGC
* * * *
66522853 GCCACTAAAGATCATGGTCTTTAGCGGTGTTTGTTG-GAAAAGCGCCGCTAAAGGTCTTGATCTA
65 GCCGCTAAAGGTCATGGTCTATAGCGGAGTTTG-TGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
* *
66522917 TAGCGGCGTTTGTAGGAAAAGCGCCGCTATAGGTCTTGATCTATAGCGGCGTTTG-TGGAAAAGC
1 TAGCGGCGTTTGTA-TAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTTGGAAAAGC
*
66522981 ACCGCTAAAGGTCATGGTCTATAGC
65 GCCGCTAAAGGTCATGGTCTATAGC
66523006 TGCGTTTATT
Statistics
Matches: 190, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
128 31 0.16
129 157 0.83
130 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (128 bp):
TAGCGGCGTTTGTATAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTTGGAAAAGCG
CCGCTAAAGGTCATGGTCTATAGCGGAGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGATCTA
Found at i:66523510 original size:44 final size:44
Alignment explanation
Indices: 66523451--66523613 Score: 166
Period size: 44 Copynumber: 3.7 Consensus size: 44
66523441 CAGATTCAGT
* *
66523451 CTGCTTCACTACAACTTCAGGGAGATAAGACTTGCATATTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATATTCAAC
* * **
66523495 CTGCCCCACTGCAACTTCAGGGGGATAAGGTTTGC-TACTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATA-TTCAAC
* * * ** * *
66523539 CTGCTCTACTGCAACTTCAAGAAGATAAGACTGATTTATTTTTAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT--TGCATATTCAAC
*
66523585 CTGCTCCATTGCAACTTCAGGGAGATAAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAG
66523614 GTTTAGTATG
Statistics
Matches: 94, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
43 2 0.02
44 60 0.64
46 31 0.33
47 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATATTCAAC
Found at i:66523995 original size:50 final size:50
Alignment explanation
Indices: 66523941--66524125 Score: 228
Period size: 50 Copynumber: 3.7 Consensus size: 50
66523931 ACTGTAACTC
* * *
66523941 CAGGGAAATAAGATTTATTGTTGTAGCTTCAATCTATTTAACTGCAATGT
1 CAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTGCAATGT
* ** *
66523991 CAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACCT-T
1 CAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTGCA-ATGT
* *
66524041 TAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTTTTTAACTGCAATGT
1 CAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTGCAATGT
* * * * *
66524091 CGGGGAAGCAAGATTCGCTATTGTAGCTTTAATCT
1 CAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCT
66524126 GTTCCACTAC
Statistics
Matches: 114, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 1 0.01
50 112 0.98
51 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (50 bp):
CAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATTTAACTGCAATGT
Found at i:66524087 original size:100 final size:100
Alignment explanation
Indices: 66523914--66524156 Score: 342
Period size: 100 Copynumber: 2.4 Consensus size: 100
66523904 TACTCTGCTT
* * * * * *
66523914 TAGCTTTAATCTATTCCACTGTAACTCCAGGGAAATAAGATTTATTGTTGTAGCTTCAATCTATT
1 TAGCTTTAATCTATTCCACTGCACCTCTAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATT
* *
66523979 TAACTGCAATGTCAGGGAAGTAAGATTCGCTGTTG
66 TAACTGCAATGTCAGGGAAGCAAGATTCGCTATTG
* * *
66524014 TAGCTTCAATCTATTCCACTGCACCTTTAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTTTT
1 TAGCTTTAATCTATTCCACTGCACCTCTAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATT
*
66524079 TAACTGCAATGTCGGGGAAGCAAGATTCGCTATTG
66 TAACTGCAATGTCAGGGAAGCAAGATTCGCTATTG
* * * *
66524114 TAGCTTTAATCTGTTCCACTACACCGCTAGAGAAGTAAGATTC
1 TAGCTTTAATCTATTCCACTGCACCTCTAGGGAAGTAAGATTC
66524157 GCTATCTTTA
Statistics
Matches: 125, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
100 125 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (100 bp):
TAGCTTTAATCTATTCCACTGCACCTCTAGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTATT
TAACTGCAATGTCAGGGAAGCAAGATTCGCTATTG
Found at i:66524154 original size:50 final size:49
Alignment explanation
Indices: 66523961--66524161 Score: 195
Period size: 50 Copynumber: 4.0 Consensus size: 49
66523951 AGATTTATTG
** ** *
66523961 TTGTAGCTTCAATCTATTTAACTGCAATGTCAGGGAAGTAAGATTCGCTG
1 TTGTAGCTTCAATCTATTCCACTGCACCGT-AGGGAAGTAAGATTCGCTA
* * *
66524011 TTGTAGCTTCAATCTATTCCACTGCACCTTTAGGGAAGTAAGATTCACTG
1 TTGTAGCTTCAATCTATTCCACTGCACC-GTAGGGAAGTAAGATTCGCTA
* ** ** * *
66524061 TTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCTA
1 TTGTAGCTTCAATCTATTCCACTGCACCGT-AGGGAAGTAAGATTCGCTA
* * * *
66524111 TTGTAGCTTTAATCTGTTCCACTACACCGCTAGAGAAGTAAGATTCGCTA
1 TTGTAGCTTCAATCTATTCCACTGCACCG-TAGGGAAGTAAGATTCGCTA
66524161 T
1 T
66524162 CTTTAATTTG
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 1 0.01
50 119 0.98
51 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (49 bp):
TTGTAGCTTCAATCTATTCCACTGCACCGTAGGGAAGTAAGATTCGCTA
Found at i:66524357 original size:45 final size:45
Alignment explanation
Indices: 66524199--66524685 Score: 356
Period size: 44 Copynumber: 10.9 Consensus size: 45
66524189 GTGTCTTCGA
* *
66524199 TCTGCTTCGCTGTCAGTACAGGAAGACAAGATTTGCTATCTTCAG
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
* * * * * * *
66524244 TCTACTCCGCTG-CA-AACCCAGGGAGGTAAGA-CTAG-TGTCATC-G
1 TCTGCTTCGCTGTCAGTA--CAGGAAGGCAAGATCT-GCTATCTTCAG
* * * **
66524287 ATCTGCTTCGCTGTAAGTACGGGAAGGCGAGATCTATTATCTTCAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
* * * * *
66524333 TCTGTTTCGCTGTCAGAACAGGAAGGCAAG-GCTGGTGTCTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
66524376 ATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
* * * * * *
66524422 TCTGC-TCTACTATCAGTATAGGAAGGCAAG-GCTGGTGTCTTC-G
1 TCTGCTTC-GCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
* *
66524465 ATCTGCTTCGCTATCAGTATAGGAAGGCAAGATCTGCTATCTTCAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
** * * * *
66524511 TCCACTCCACTGTCAGTACAGGAAGGCAAG-GCTAG-TGTCTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCT-GCTATCTTCAG
* * * *
66524554 ATCTGCTTCGCTGTCAGTACATGAAGGCAACATCTACTATCTTTAG
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
* * * * * *
66524600 TATGCTCCGCTGTCAGTATAGGAAGGCAAG-GCTGGTGTCTTC-G
1 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
* * * *
66524643 ATCAGCTTCACTGTCAGTATAGGAAGGTAAGATCTGCTATCTT
1 -TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTT
66524686 TACTGATCTG
Statistics
Matches: 338, Mismatches: 80, Indels: 48
0.73 0.17 0.10
Matches are distributed among these distances:
43 6 0.02
44 164 0.49
45 163 0.48
46 5 0.01
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (45 bp):
TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
Found at i:66524669 original size:267 final size:266
Alignment explanation
Indices: 66524187--66524685 Score: 721
Period size: 267 Copynumber: 1.9 Consensus size: 266
66524177 CTGCAAACTA
* * *
66524187 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGACAAGATTTGCTATCTTCAGTCTACTCC
1 TGGTGTCTTCGATCTGCTTCGCTATCAGTACAGGAAGACAAGATCTGCTATCTTCAGTCCACTCC
* * * * *
66524252 GCTGCAAACCCAGGGAGGTAAGACTAGTGTCATCGATCTGCTTCGCTGTAAGTACGGGAAGGCGA
66 ACTGCAAA-CCAGGAAGGCAAGACTAGTGTCATCGATCTGCTTCGCTGTAAGTACAGGAAGGCAA
* * * * * *
66524317 GATCTATTATCTTCAGTCTGTTTCGCTGTCAGAACAGGAAGGCAAGGCTGGTGTCTTCGATCTGC
130 CATCTACTATCTTCAGTATGCTCCGCTGTCAGAACAGGAAGGCAAGGCTGGTGTCTTCGATCAGC
*
66524382 TTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCTACTATCAGTATAGGAAG
195 TTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCTACTATCAGTATAGGAAG
66524447 GCAAGGC
260 GCAAGGC
* *
66524454 TGGTGTCTTCGATCTGCTTCGCTATCAGTATAGGAAGGCAAGATCTGCTATCTTCAGTCCACTCC
1 TGGTGTCTTCGATCTGCTTCGCTATCAGTACAGGAAGACAAGATCTGCTATCTTCAGTCCACTCC
* * * * *
66524519 ACTGTCAGTA-CAGGAAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACATGAAGGCA
66 ACTG-CA-AACCAGGAAGGCAAGACTAGTGTCATCGATCTGCTTCGCTGTAAGTACAGGAAGGCA
* * *
66524583 ACATCTACTATCTTTAGTATGCTCCGCTGTCAGTATAGGAAGGCAAGGCTGGTGTCTTCGATCAG
129 ACATCTACTATCTTCAGTATGCTCCGCTGTCAGAACAGGAAGGCAAGGCTGGTGTCTTCGATCAG
* *
66524648 CTTCACTGTCAGTATAGGAAGGTAAGATCTGCTATCTT
194 CTTCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTT
66524686 TACTGATCTG
Statistics
Matches: 203, Mismatches: 27, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
267 200 0.99
268 2 0.01
269 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.29
Consensus pattern (266 bp):
TGGTGTCTTCGATCTGCTTCGCTATCAGTACAGGAAGACAAGATCTGCTATCTTCAGTCCACTCC
ACTGCAAACCAGGAAGGCAAGACTAGTGTCATCGATCTGCTTCGCTGTAAGTACAGGAAGGCAAC
ATCTACTATCTTCAGTATGCTCCGCTGTCAGAACAGGAAGGCAAGGCTGGTGTCTTCGATCAGCT
TCACTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCTACTATCAGTATAGGAAGG
CAAGGC
Found at i:66524687 original size:89 final size:89
Alignment explanation
Indices: 66524187--66524685 Score: 633
Period size: 89 Copynumber: 5.6 Consensus size: 89
66524177 CTGCAAACTA
* * *
66524187 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGACAAGATTTGCTATCTTCAGTCTACTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * * *
66524252 GCTG-CA-AACCCAGGGAGGTAAGAC
66 GCTGTCAGTA--CAGGAAGGCAAGGC
* * * * * ** * *
66524276 TAGTGTCATCGATCTGCTTCGCTGTAAGTACGGGAAGGCGAGATCTATTATCTTCAGTCTGTTTC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
*
66524341 GCTGTCAGAACAGGAAGGCAAGGC
66 GCTGTCAGTACAGGAAGGCAAGGC
*
66524365 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCT
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
* * *
66524430 ACTATCAGTATAGGAAGGCAAGGC
66 GCTGTCAGTACAGGAAGGCAAGGC
* * **
66524454 TGGTGTCTTCGATCTGCTTCGCTATCAGTATAGGAAGGCAAGATCTGCTATCTTCAGTCCACTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
*
66524519 ACTGTCAGTACAGGAAGGCAAGGC
66 GCTGTCAGTACAGGAAGGCAAGGC
* * * * * *
66524543 TAGTGTCTTCGATCTGCTTCGCTGTCAGTACATGAAGGCAACATCTACTATCTTTAGTATGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
*
66524608 GCTGTCAGTATAGGAAGGCAAGGC
66 GCTGTCAGTACAGGAAGGCAAGGC
* * * *
66524632 TGGTGTCTTCGATCAGCTTCACTGTCAGTATAGGAAGGTAAGATCTGCTATCTT
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTT
66524686 TACTGATCTG
Statistics
Matches: 352, Mismatches: 56, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
89 348 0.99
90 2 0.01
91 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.29
Consensus pattern (89 bp):
TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCC
GCTGTCAGTACAGGAAGGCAAGGC
Found at i:66530411 original size:70 final size:72
Alignment explanation
Indices: 66530318--66530452 Score: 184
Period size: 70 Copynumber: 1.9 Consensus size: 72
66530308 TCTCAGATTA
* * ** *
66530318 AAAAAGGGATCATGCCGAGTAAGTTAGGACATGATCTTTTC-TTAATTCCCAAGATCGTTTAAAA
1 AAAAAGGGATCATGCCCAATAAGTTAGGACACAATCTCTTCTTTAATTCCCAAGATCGTTTAAAA
66530382 CTTGAGG
66 CTTGAGG
** *
66530389 AAAAA-GGATCATGCCCAATAAGTTAGGACACAATCTCTTCTTTAATTCCTGATATCGTTTAAAA
1 AAAAAGGGATCATGCCCAATAAGTTAGGACACAATCTCTTCTTTAATTCCCAAGATCGTTTAAAA
66530453 AACTTAGGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
70 30 0.55
71 25 0.45
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (72 bp):
AAAAAGGGATCATGCCCAATAAGTTAGGACACAATCTCTTCTTTAATTCCCAAGATCGTTTAAAA
CTTGAGG
Found at i:66531128 original size:3 final size:3
Alignment explanation
Indices: 66531120--66531159 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
66531110 TAAATGAGTA
66531120 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
66531160 CAAGATTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:66532343 original size:148 final size:147
Alignment explanation
Indices: 66532090--66532385 Score: 565
Period size: 148 Copynumber: 2.0 Consensus size: 147
66532080 AAAAGAACAA
66532090 TAAAATCCAATAAAAGAATCGAACCCAAAATGAAATAAAAAAATCCCCTTTTAAATTGGTTTTCT
1 TAAAATCCAATAAAAGAATCGAACCCAAAATGAAATAAAAAAATCCCCTTTTAAATTGGTTTTCT
* *
66532155 ATTTTTATTTCTCTCAAAGTTCGTCTATTGTAAAAAGGGAAAATGAAAAGAGGACAAGAAAAGAG
66 ATTTTTATTTCTCTCAAAGTTCGTCTATTGCAAAAAGGGAAAATGAAAAGAGGACAAAAAAAGAG
66532220 AAAAAAAACACACCCAT
131 AAAAAAAACACACCCAT
66532237 TAAAATCCAATAAAAGAATCGAACCCAAAATGAAATAAAAAAAATCCCCTTTTAAATTGGTTTTC
1 TAAAATCCAATAAAAGAATCGAACCCAAAATGAAAT-AAAAAAATCCCCTTTTAAATTGGTTTTC
66532302 TATTTTTATTTCTCTCAAAGTTCGTCTATTGCAAAAAGGGAAAATGAAAAGAGGACAAAAAAAGA
65 TATTTTTATTTCTCTCAAAGTTCGTCTATTGCAAAAAGGGAAAATGAAAAGAGGACAAAAAAAGA
66532367 GAAAAAAAACACACCCAT
130 GAAAAAAAACACACCCAT
66532385 T
1 T
66532386 TATGTTACAG
Statistics
Matches: 146, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
147 36 0.25
148 110 0.75
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (147 bp):
TAAAATCCAATAAAAGAATCGAACCCAAAATGAAATAAAAAAATCCCCTTTTAAATTGGTTTTCT
ATTTTTATTTCTCTCAAAGTTCGTCTATTGCAAAAAGGGAAAATGAAAAGAGGACAAAAAAAGAG
AAAAAAAACACACCCAT
Found at i:66548671 original size:20 final size:20
Alignment explanation
Indices: 66548646--66548695 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
66548636 TGGCTTAAAA
66548646 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
66548666 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
66548683 GTGGTAGTGGATT
1 TTGGTAGTGGATT
66548696 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:66553309 original size:20 final size:20
Alignment explanation
Indices: 66553284--66553333 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
66553274 TGGCTTAAAA
66553284 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
66553304 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
66553321 GTGGTAGTGGATT
1 TTGGTAGTGGATT
66553334 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:66559444 original size:15 final size:16
Alignment explanation
Indices: 66559420--66559449 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66559410 TTTCTCTTAA
66559420 CTCT-ATTTTTAATTT
1 CTCTAATTTTTAATTT
66559435 CTCTAATTTTTAATT
1 CTCTAATTTTTAATT
66559450 CAATATTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.63
Consensus pattern (16 bp):
CTCTAATTTTTAATTT
Found at i:66561192 original size:30 final size:30
Alignment explanation
Indices: 66561158--66561216 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
66561148 TTTATTTGTG
66561158 GAGGTGATTAAAAACTAGGATTTTAACTAT
1 GAGGTGATTAAAAACTAGGATTTTAACTAT
66561188 GAGGTGATTAAAAACTAGGATTTTAACTA
1 GAGGTGATTAAAAACTAGGATTTTAACTA
66561217 AGTAAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (30 bp):
GAGGTGATTAAAAACTAGGATTTTAACTAT
Found at i:66579208 original size:31 final size:29
Alignment explanation
Indices: 66579139--66579212 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
66579129 ACAAAATAAT
**
66579139 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGGCA
*
66579168 AACATAAGTGACTAAAATGTAACATGAGGCA
1 AACATAAGTGACTAAAACGTAACAT--GGCA
*
66579199 AACAAAAGTGACTA
1 AACATAAGTGACTA
66579213 TTTTTGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGGCA
Found at i:66583480 original size:17 final size:18
Alignment explanation
Indices: 66583458--66583491 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
66583448 AATTGAACTA
*
66583458 TTAAAAGAACAT-TTATG
1 TTAAAAAAACATCTTATG
66583475 TTAAAAAAACATCTTAT
1 TTAAAAAAACATCTTAT
66583492 CAATGTTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (18 bp):
TTAAAAAAACATCTTATG
Found at i:66583558 original size:25 final size:23
Alignment explanation
Indices: 66583529--66583575 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
66583519 ACAAAATTTT
66583529 AAATTAAATCTAAAATTTATAAAAG
1 AAATTAAAT-TAAAATTT-TAAAAG
* *
66583554 AAATTTAATTACAATTTTAAAA
1 AAATTAAATTAAAATTTTAAAA
66583576 AACAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
AAATTAAATTAAAATTTTAAAAG
Found at i:66583896 original size:15 final size:16
Alignment explanation
Indices: 66583876--66583905 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66583866 AAGGTTATGT
66583876 ATTATA-TTAAATTAA
1 ATTATATTTAAATTAA
66583891 ATTATATTTAAATTA
1 ATTATATTTAAATTA
66583906 CTATGTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTATATTTAAATTAA
Found at i:66591482 original size:10 final size:10
Alignment explanation
Indices: 66591469--66591497 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
66591459 TGGATGAAAA
66591469 TGTTAACTTT
1 TGTTAACTTT
66591479 TGTTAACTTT
1 TGTTAACTTT
66591489 TGTTAACTT
1 TGTTAACTT
66591498 CATTGACGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (10 bp):
TGTTAACTTT
Found at i:66596736 original size:8 final size:8
Alignment explanation
Indices: 66596720--66596751 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
66596710 TTTGTTTTCG
*
66596720 TAAATAAA
1 TAAAAAAA
66596728 TAAAAAAA
1 TAAAAAAA
66596736 TAAAAAAA
1 TAAAAAAA
66596744 TAAAAAAA
1 TAAAAAAA
66596752 CTAGATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:66596764 original size:16 final size:16
Alignment explanation
Indices: 66596745--66596784 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
66596735 ATAAAAAAAT
66596745 AAAAAAACTAGATATA
1 AAAAAAACTAGATATA
66596761 AAAAAAACTAGATATA
1 AAAAAAACTAGATATA
66596777 AAAAAAAC
1 AAAAAAAC
66596785 ACACACTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.15
Consensus pattern (16 bp):
AAAAAAACTAGATATA
Found at i:66597591 original size:82 final size:82
Alignment explanation
Indices: 66597499--66598477 Score: 1690
Period size: 82 Copynumber: 11.9 Consensus size: 82
66597489 GTTTTTTTTT
* * * * * * *
66597499 TGTCTGCTCCACTACTGCTTAGGCAGTTAAAACTGGATGTGATCTACTCCACTACTGCTTAGGG-
1 TGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGA
66597563 GAATAAGATCTGTGGTTC
66 G-ATAAGATCTGTGGTTC
66597581 TGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGA
1 TGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGA
66597646 GATAAGATCTGTGGTTC
66 GATAAGATCTGTGGTTC
* *
66597663 TGTTTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGA
1 TGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGA
66597728 GATAAGATCTGTGGTTC
66 GATAAGATCTGTGGTTC
* *
66597745 TGTCTGCTCCACTATTACTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTACTTAGGGA
1 TGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGA
66597810 GATAAGATCTGTGGTTC
66 GATAAGATCTGTGGTTC
66597827 TGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGA
1 TGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGA
66597892 GATAAGATCTGTGGTTC
66 GATAAGATCTGTGGTTC
*
66597909 TGTCTGCTCCACTATTGCTTATGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGA
1 TGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGA
66597974 GATAAGATCTGTGGTTC
66 GATAAGATCTGTGGTTC
* *
66597991 TGTCTGCTCCACTATTGCTTATGGAGATAAGACTTGATGCGATCTGCTCTACTACTGCTTAGGGA
1 TGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGA
66598056 GATAAGATCTGTGGTTC
66 GATAAGATCTGTGGTTC
* *
66598073 TGTTTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTGCTGCTTAGGGA
1 TGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGA
*
66598138 GATAAGATCTGTAGTTC
66 GATAAGATCTGTGGTTC
* *
66598155 TGTCTACTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGA
1 TGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGA
66598220 GATAAGATCTGTGGTTC
66 GATAAGATCTGTGGTTC
* *
66598237 TGTCTGCTCCACTATTGCTTAAGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGA
1 TGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGA
*
66598302 GATAAGACCTGTGGTTC
66 GATAAGATCTGTGGTTC
* * **
66598319 TGTCTGCTCCACTATTTCTTAGGGAGATAAGACTTGATGCAATCTGCTCCACTGTTGCTTAGGGA
1 TGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGA
66598384 GATAAGATCTGTGGTTC
66 GATAAGATCTGTGGTTC
* *
66598401 TGTCTGCTCCGCTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGA
1 TGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGA
66598466 GATAAGATCTGT
66 GATAAGATCTGT
66598478 AATCTTCACT
Statistics
Matches: 853, Mismatches: 43, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
82 852 1.00
83 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (82 bp):
TGTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGA
GATAAGATCTGTGGTTC
Found at i:66598611 original size:130 final size:131
Alignment explanation
Indices: 66598448--66598704 Score: 358
Period size: 130 Copynumber: 2.0 Consensus size: 131
66598438 TGCGATCTGC
* *
66598448 TCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTC-ACTCTATTCCACTGTTGCCCAGGGAGA
1 TCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCGA-TCTATTCAACTGTTGCCCAGGAAGA
*
66598512 TAGAACTA-CTGGCTTTAATGTACTCCACCGTAAT-CAGAGAGGTAAAATCCGCCATCTTCGACC
65 TAGAACTATC-GGCTTCAATGTACTCCACCGTAATACAGAGAGGTAAAATCCGCCATCTTCGACC
66598575 TGT
129 TGT
* * *
66598578 TCCACTATTGCTTAGGGGGATAAGATCTTTAATCTTCGATCTATTCAACTGTTGCCTAGGAAGAT
1 TCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCAACTGTTGCCCAGGAAGAT
** * * * *
66598643 AGAGTTATCGGCTTCAATGTACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATCTTCGA
66 AGAACTATCGGCTTCAATGTACTCCACCGTAAT-ACAGAGAGGTAAAATCCGCCATCTTCGA
66598705 TCTGCTTCGC
Statistics
Matches: 111, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
130 84 0.76
131 2 0.02
132 25 0.23
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (131 bp):
TCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCGATCTATTCAACTGTTGCCCAGGAAGAT
AGAACTATCGGCTTCAATGTACTCCACCGTAATACAGAGAGGTAAAATCCGCCATCTTCGACCTG
T
Found at i:66598991 original size:86 final size:86
Alignment explanation
Indices: 66598832--66599181 Score: 475
Period size: 86 Copynumber: 4.1 Consensus size: 86
66598822 AAATCTGCCA
* * * * *
66598832 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGGAAGATCTGCTATCTTTAGCCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTA
* *
66598897 CAAACGAGAGAGGCAAGTTTTT
65 CAAACGAGAGAGGCAAGGTTTG
* ** * * *
66598919 TCTTTGATCTGCTTCGCTGTCAATGCAGGAATACAAGATCTGTTATCTTCAACCAGCTTTGCTAT
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
* *
66598984 GACCGAGAGAGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* *
66599005 GCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCAATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
66599070 AAACGAGAGAGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* * *
66599091 TCTTCGATCTGCTTCGCTATCAATGCAGGAAGTCAAGATCTACTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
* * * *
66599156 GACCGAGAGAGGTAAGGTTTA
66 AAACGAGAGAGGCAAGGTTTG
66599177 TCTTC
1 TCTTC
66599182 AATTTTTACT
Statistics
Matches: 229, Mismatches: 34, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
86 210 0.92
87 19 0.08
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:66599120 original size:172 final size:173
Alignment explanation
Indices: 66598833--66599175 Score: 528
Period size: 172 Copynumber: 2.0 Consensus size: 173
66598823 AATCTGCCAT
* * * *
66598833 CTTCGATCTGCTTCGCTGCCAAATACAGGAAGGGAAGATCTGCTATCTTTAGCCAGCTCTGCTAC
1 CTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAACCAGCTCTGCTAC
* * * * **
66598898 AAACGAGAGAGGCAAGTTTTTTCTTTGATCTGCTTCGCTGTCAATGCAGGAA-TACAAGATCTGT
66 AAACGAGAGAGGCAAGGTTTGTCTTCGATCTGCTTCGCTATCAATGCAGGAAGT-CAAGATCTAC
* *
66598962 TATCTTCAACCAGCTTTGCTATGACCGAGAGAGGCAAGGTTTGG
130 TATCTTCAACCAGCTCTGCTACGACCGAGAGAGGCAAGGTTTGG
* *
66599006 CTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGCAATCTTCAACCAGCTCTGCTAC
1 CTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAACCAGCTCTGCTAC
66599070 AAACGAGAGAGGCAAGGTTTGTCTTCGATCTGCTTCGCTATCAATGCAGGAAGTCAAGATCTACT
66 AAACGAGAGAGGCAAGGTTTGTCTTCGATCTGCTTCGCTATCAATGCAGGAAGTCAAGATCTACT
*
66599135 ATCTTCAACCAGCTCTGCTACGACCGAGAGAGGTAAGGTTT
131 ATCTTCAACCAGCTCTGCTACGACCGAGAGAGGCAAGGTTT
66599176 ATCTTCAATT
Statistics
Matches: 154, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
172 134 0.87
173 20 0.13
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (173 bp):
CTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAACCAGCTCTGCTAC
AAACGAGAGAGGCAAGGTTTGTCTTCGATCTGCTTCGCTATCAATGCAGGAAGTCAAGATCTACT
ATCTTCAACCAGCTCTGCTACGACCGAGAGAGGCAAGGTTTGG
Found at i:66599824 original size:108 final size:108
Alignment explanation
Indices: 66599612--66599819 Score: 235
Period size: 108 Copynumber: 1.9 Consensus size: 108
66599602 GAAAAATGCT
** *
66599612 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCCAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTCAAGAGCAAAGCTCTAAACAAACAAAT
* *
66599677 CAATCAAGATATCATATTTTGCTGAGATACAAGATGAATAAGA
66 CAATCAAGATATCATAATTTGCTGAGATACAAAATGAATAAGA
* * * * ** *
66599720 TGAAAAAGATTATCACAATGGATAAGATGGAAA-TTTGTCAAGAGTAAAGCTCTAAATGAACGAA
1 TGAAAAAGATTATCAAAATGGACAAAAT-GAAATTTTGTCAAGAGCAAAGCTCTAAACAAACAAA
* * *
66599784 TTAATCAAGATA-GA-AATTTGCT-AGAATTCAAAATGA
65 TCAATCAAGATATCATAATTTGCTGAG-ATACAAAATGA
66599820 GAATACATTA
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
105 2 0.02
106 16 0.19
107 1 0.01
108 60 0.72
109 4 0.05
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTCAAGAGCAAAGCTCTAAACAAACAAAT
CAATCAAGATATCATAATTTGCTGAGATACAAAATGAATAAGA
Found at i:66601982 original size:21 final size:21
Alignment explanation
Indices: 66601958--66602022 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
66601948 AAAAGATGCT
*
66601958 TGCAATGAAATGTAATGCAGA
1 TGCAATGAAATGTAAAGCAGA
*
66601979 TGC-AT-AAATGCAAAAAG-AGCA
1 TGCAATGAAATG--TAAAGCAG-A
66602000 TGCAATGAAATGTAAAGCAGA
1 TGCAATGAAATGTAAAGCAGA
66602021 TG
1 TG
66602023 TATGAATGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
19 5 0.14
20 4 0.11
21 17 0.49
22 4 0.11
23 5 0.14
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (21 bp):
TGCAATGAAATGTAAAGCAGA
Found at i:66602008 original size:42 final size:42
Alignment explanation
Indices: 66601948--66602039 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
66601938 TTAATGAATG
* *
66601948 AAAAGATGCTTGCAATGAAATGTAATGCAGATGCATAAATGCA
1 AAAAGA-GCATGCAATGAAATGTAAAGCAGATGCATAAATGCA
* *
66601991 AAAAGAGCATGCAATGAAATGTAAAGCAGATGTATGAATGCA
1 AAAAGAGCATGCAATGAAATGTAAAGCAGATGCATAAATGCA
66602033 AAAAGAG
1 AAAAGAG
66602040 ACATTGATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 39 0.87
43 6 0.13
ACGTcount: A:0.48, C:0.10, G:0.23, T:0.20
Consensus pattern (42 bp):
AAAAGAGCATGCAATGAAATGTAAAGCAGATGCATAAATGCA
Found at i:66605157 original size:8 final size:8
Alignment explanation
Indices: 66605141--66605180 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
66605131 TTTGTTTTCG
*
66605141 TAAATAAA
1 TAAAAAAA
66605149 TAAAAAAA
1 TAAAAAAA
*
66605157 TAAATAAA
1 TAAAAAAA
*
66605165 TAAAAAAT
1 TAAAAAAA
66605173 TAAAAAAA
1 TAAAAAAA
66605181 AACTAGATCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (8 bp):
TAAAAAAA
Found at i:66605162 original size:16 final size:16
Alignment explanation
Indices: 66605141--66605176 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
66605131 TTTGTTTTCG
66605141 TAAATAAATAAAAAAA
1 TAAATAAATAAAAAAA
*
66605157 TAAATAAATAAAAAAT
1 TAAATAAATAAAAAAA
66605173 TAAA
1 TAAA
66605177 AAAAAACTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAATAAATAAAAAAA
Found at i:66607837 original size:18 final size:18
Alignment explanation
Indices: 66607814--66607856 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
66607804 TTATCAGAAC
*
66607814 TAGGCGTGGACAAAATTT
1 TAGGCGCGGACAAAATTT
66607832 TAGGCGCGGACAAAATTT
1 TAGGCGCGGACAAAATTT
66607850 TAGGCGC
1 TAGGCGC
66607857 ATTTTTGGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (18 bp):
TAGGCGCGGACAAAATTT
Found at i:66607934 original size:21 final size:21
Alignment explanation
Indices: 66607908--66607948 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
66607898 TTTTAGTCTA
66607908 GCCCAACCCAAACCCGGTCCG
1 GCCCAACCCAAACCCGGTCCG
66607929 GCCCAACCCAAACCCGGTCC
1 GCCCAACCCAAACCCGGTCC
66607949 AGCTCATAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.54, G:0.17, T:0.05
Consensus pattern (21 bp):
GCCCAACCCAAACCCGGTCCG
Found at i:66609798 original size:23 final size:25
Alignment explanation
Indices: 66609772--66609824 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
66609762 CTTAATACTC
*
66609772 TTAAAAACCCAA-ACC-ATTAAAAT
1 TTAAAAACACAATACCTATTAAAAT
*
66609795 TT-AAAACACAATACCTATTAATAT
1 TTAAAAACACAATACCTATTAAAAT
66609819 TTAAAA
1 TTAAAA
66609825 TCATAATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 8 0.32
23 5 0.20
24 9 0.36
25 3 0.12
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (25 bp):
TTAAAAACACAATACCTATTAAAAT
Found at i:66611493 original size:14 final size:14
Alignment explanation
Indices: 66611474--66611515 Score: 84
Period size: 14 Copynumber: 3.0 Consensus size: 14
66611464 TAACAACTTT
66611474 CTAACTGCTTAATA
1 CTAACTGCTTAATA
66611488 CTAACTGCTTAATA
1 CTAACTGCTTAATA
66611502 CTAACTGCTTAATA
1 CTAACTGCTTAATA
66611516 TTCATCCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
CTAACTGCTTAATA
Found at i:66615418 original size:78 final size:78
Alignment explanation
Indices: 66615289--66615443 Score: 283
Period size: 78 Copynumber: 2.0 Consensus size: 78
66615279 TGGCACACGC
* *
66615289 ACCAAATTATCATTTTACATGCCAGCACACCAATTTTGACCATCAACATGCCTATTTTGACTAGC
1 ACCAAATGATCATTTTACACGCCAGCACACCAATTTTGACCATCAACATGCCTATTTTGACTAGC
66615354 ATAGTTCCCTTGT
66 ATAGTTCCCTTGT
*
66615367 ACCAAATGATCATTTTGCACGCCAGCACACCAATTTTGACCATCAACATGCCTATTTTGACTAGC
1 ACCAAATGATCATTTTACACGCCAGCACACCAATTTTGACCATCAACATGCCTATTTTGACTAGC
66615432 ATAGTTCCCTTG
66 ATAGTTCCCTTG
66615444 GCCATAAAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.32
Consensus pattern (78 bp):
ACCAAATGATCATTTTACACGCCAGCACACCAATTTTGACCATCAACATGCCTATTTTGACTAGC
ATAGTTCCCTTGT
Found at i:66616637 original size:14 final size:14
Alignment explanation
Indices: 66616618--66616659 Score: 84
Period size: 14 Copynumber: 3.0 Consensus size: 14
66616608 AAACAACTTT
66616618 CTAACTGCTTAATA
1 CTAACTGCTTAATA
66616632 CTAACTGCTTAATA
1 CTAACTGCTTAATA
66616646 CTAACTGCTTAATA
1 CTAACTGCTTAATA
66616660 TAGTTCAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
CTAACTGCTTAATA
Found at i:66626805 original size:18 final size:18
Alignment explanation
Indices: 66626782--66626874 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
66626772 CCCAACTACT
*
66626782 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
66626800 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
*
66626818 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
66626836 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
66626854 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
66626872 GTA
1 GTA
66626875 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:66626834 original size:36 final size:36
Alignment explanation
Indices: 66626782--66626874 Score: 159
Period size: 36 Copynumber: 2.6 Consensus size: 36
66626772 CCCAACTACT
*
66626782 GTATACGTGAACAGTACCGTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
* *
66626818 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
66626854 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
66626875 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
Found at i:66634150 original size:21 final size:21
Alignment explanation
Indices: 66634124--66634165 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
66634114 ATCTGCTCAA
* *
66634124 ACTCCACCTGTTTTGGAGTAT
1 ACTCCACCTGCTGTGGAGTAT
66634145 ACTCCACCTGCTGTGGAGTAT
1 ACTCCACCTGCTGTGGAGTAT
66634166 TGCTCGTCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.33
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAT
Found at i:66637547 original size:24 final size:24
Alignment explanation
Indices: 66637495--66637560 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
66637485 ATTTGAGCCT
*
66637495 TATAATTATAATTAAATATAAACACA
1 TATAATTAT-ATT-TATATAAACACA
* *
66637521 TATAA-TATTATTTATATAAATATA
1 TATAATTA-TATTTATATAAACACA
*
66637545 TATTATTATATTTATA
1 TATAATTATATTTATA
66637561 CGTTTTATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 21 0.62
25 7 0.21
26 6 0.18
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (24 bp):
TATAATTATATTTATATAAACACA
Found at i:66642777 original size:23 final size:23
Alignment explanation
Indices: 66642725--66642787 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
66642715 ATTTTAAATA
* *
66642725 ATAAAA-AAATAAAAT-TTAATT
1 ATAAAATATATAAAATATTAACT
66642746 ATAAAATATATAAAATATTAACT
1 ATAAAATATATAAAATATTAACT
* *
66642769 A-AAATATATTTATAATATT
1 ATAAA-ATATATAAAATATT
66642788 TTATTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 6 0.17
22 11 0.31
23 18 0.51
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAAAATATATAAAATATTAACT
Found at i:66644019 original size:28 final size:28
Alignment explanation
Indices: 66643988--66644044 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
66643978 AAAAACAAAG
66643988 GTTAAAAGTTAGATTGGAGACTTAAATT
1 GTTAAAAGTTAGATTGGAGACTTAAATT
66644016 GTTAAAAGTTAGATTGGAGACTTAAATT
1 GTTAAAAGTTAGATTGGAGACTTAAATT
66644044 G
1 G
66644045 AGTAATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.35
Consensus pattern (28 bp):
GTTAAAAGTTAGATTGGAGACTTAAATT
Found at i:66644391 original size:11 final size:11
Alignment explanation
Indices: 66644371--66644400 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
66644361 ATAAACACCA
66644371 AAAAATTATTTT
1 AAAAA-TATTTT
66644383 AAAAATATTTT
1 AAAAATATTTT
66644394 AAAAATA
1 AAAAATA
66644401 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:66645107 original size:13 final size:14
Alignment explanation
Indices: 66645080--66645116 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
66645070 CTTTATCAAA
*
66645080 TTTTTTAAAAGCAC
1 TTTTGTAAAAGCAC
66645094 TTTTGTAAAA-CAC
1 TTTTGTAAAAGCAC
66645107 TTTTGTAAAA
1 TTTTGTAAAA
66645117 TATTTTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (14 bp):
TTTTGTAAAAGCAC
Found at i:66645936 original size:28 final size:28
Alignment explanation
Indices: 66645904--66645978 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
66645894 TATAATACAA
* * *
66645904 AGGCGATAGGGCAGACCATATATTATTC
1 AGGCGACAGAGCAGACCATATATCATTC
* *
66645932 AGGCGGCAGAGCTGACCATATATCATTC
1 AGGCGACAGAGCAGACCATATATCATTC
*
66645960 AGGCGACAGAGCTGACCAT
1 AGGCGACAGAGCAGACCAT
66645979 TTATAGAAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.20
Consensus pattern (28 bp):
AGGCGACAGAGCAGACCATATATCATTC
Found at i:66651070 original size:26 final size:26
Alignment explanation
Indices: 66651040--66651097 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
66651030 TGAAAGCCTT
66651040 AAATTTGGGATTTTGACTTG-GGTTTC
1 AAATTTGGG-TTTTGACTTGTGGTTTC
* ** *
66651066 AAATTAGGGTTTTGGTTTGTGGTTTT
1 AAATTTGGGTTTTGACTTGTGGTTTC
66651092 AAATTT
1 AAATTT
66651098 AGATTTGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.21, C:0.03, G:0.26, T:0.50
Consensus pattern (26 bp):
AAATTTGGGTTTTGACTTGTGGTTTC
Found at i:66658992 original size:52 final size:52
Alignment explanation
Indices: 66658930--66659140 Score: 257
Period size: 52 Copynumber: 4.1 Consensus size: 52
66658920 CAAACTTGGT
* * * * *
66658930 AAATAGATTCTAATCATTAGCATACCTCTGGT-GATCGTCGATCTAGTTTTCC
1 AAATAGATTCTAATCATTAGCGTACTTCTGATCG-TTGTCGATCTAGTTTTTC
* *
66658982 AAATAGATTCTAATCATTGGCGTGCTTCTGATCGTTGTCGATCTAGTTTTTC
1 AAATAGATTCTAATCATTAGCGTACTTCTGATCGTTGTCGATCTAGTTTTTC
* * * *
66659034 AAATAGATTCTAA-CTATTAACGTACTTTTGATCGTTGTCGACCTAGTTTTTG
1 AAATAGATTCTAATC-ATTAGCGTACTTCTGATCGTTGTCGATCTAGTTTTTC
* *
66659086 AAATAGATTCTAATCATT-GACGTGCCTCTGATCGTTGTCGATCTAGTTTTTC
1 AAATAGATTCTAATCATTAG-CGTACTTCTGATCGTTGTCGATCTAGTTTTTC
66659138 AAA
1 AAA
66659141 CTTCTAAAAG
Statistics
Matches: 136, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
51 1 0.01
52 133 0.98
53 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.40
Consensus pattern (52 bp):
AAATAGATTCTAATCATTAGCGTACTTCTGATCGTTGTCGATCTAGTTTTTC
Found at i:66659187 original size:61 final size:61
Alignment explanation
Indices: 66659090--66659206 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 61
66659080 TTTTTGAAAT
* *
66659090 AGATTCTAATCATTGACGTGCCTCTGATCGTTGTCGATCTAGTTTTTCAAACTTCTAAAAG
1 AGATTCTAATCATTGACGTACCTCTGATCGTAGTCGATCTAGTTTTTCAAACTTCTAAAAG
* *
66659151 AGATTTTAATCATTGACGTACCTTTGATCGTAGTCGATCTAGTTTTTCAAACTTCT
1 AGATTCTAATCATTGACGTACCTCTGATCGTAGTCGATCTAGTTTTTCAAACTTCT
66659207 CTCCTACTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (61 bp):
AGATTCTAATCATTGACGTACCTCTGATCGTAGTCGATCTAGTTTTTCAAACTTCTAAAAG
Found at i:66659470 original size:5 final size:5
Alignment explanation
Indices: 66659460--66659485 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
66659450 AAAAACCGGA
66659460 TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC T
66659486 CCTAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:66661818 original size:40 final size:39
Alignment explanation
Indices: 66661768--66661843 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
66661758 TTATCAATAT
* *
66661768 CAGTGTCATGCTTTT-CATGCAACCAATATATACAATAAAA
1 CAGTGACATGCTTTTACATGCAAACAATA-A-ACAATAAAA
66661808 CAGTGACATGCTTTTACATGCAAACAATAAACAATA
1 CAGTGACATGCTTTTACATGCAAACAATAAACAATA
66661844 TCAATCAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 6 0.18
40 15 0.45
41 12 0.36
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.28
Consensus pattern (39 bp):
CAGTGACATGCTTTTACATGCAAACAATAAACAATAAAA
Found at i:66667185 original size:22 final size:22
Alignment explanation
Indices: 66667157--66667201 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
66667147 TATAAACTTT
66667157 TTACTGGCAGTTTAACCGCAAA
1 TTACTGGCAGTTTAACCGCAAA
* * *
66667179 TTACTGGTAGTTTATCTGCAAA
1 TTACTGGCAGTTTAACCGCAAA
66667201 T
1 T
66667202 ATTTACTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (22 bp):
TTACTGGCAGTTTAACCGCAAA
Found at i:66667385 original size:25 final size:25
Alignment explanation
Indices: 66667344--66667391 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
66667334 GACATATACG
*
66667344 TTCTGAGAACTCTGTGATTCTGTATA
1 TTCTGAGAACACTGTGA-TCTGTATA
66667370 TTCTGA-AACACTGTGATCTGTA
1 TTCTGAGAACACTGTGATCTGTA
66667392 ACATTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 9 0.43
26 6 0.29
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (25 bp):
TTCTGAGAACACTGTGATCTGTATA
Found at i:66678353 original size:23 final size:25
Alignment explanation
Indices: 66678296--66678353 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 25
66678286 TGCCCCGAGG
* *
66678296 CCCAATTATAAAAACAAACCCCAAAG
1 CCCAATTA-CAAAACAAACCCCAAAC
*
66678322 CCC-ACTACAAAAC-AA-CCCAAAC
1 CCCAATTACAAAACAAACCCCAAAC
66678344 CCCAATTACA
1 CCCAATTACA
66678354 TGCCAAAGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
22 9 0.33
23 7 0.26
24 5 0.19
25 3 0.11
26 3 0.11
ACGTcount: A:0.50, C:0.38, G:0.02, T:0.10
Consensus pattern (25 bp):
CCCAATTACAAAACAAACCCCAAAC
Found at i:66679932 original size:26 final size:26
Alignment explanation
Indices: 66679901--66679956 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
66679891 TATACATACT
* *
66679901 TATATTTTTATATCTT-ATAATTTATA
1 TATATTTTCACATCTTCATAATTT-TA
*
66679927 TATATTTTCACATTTTCATAATTTTA
1 TATATTTTCACATCTTCATAATTTTA
66679953 TATA
1 TATA
66679957 CATACATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (26 bp):
TATATTTTCACATCTTCATAATTTTA
Found at i:66680168 original size:21 final size:20
Alignment explanation
Indices: 66680135--66680182 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
66680125 TCGTTTTTGT
*
66680135 TCATATTTTTTATTCACATCA
1 TCATATTTATTATTC-CATCA
*
66680156 TCATGTTTATTATTCCATCA
1 TCATATTTATTATTCCATCA
66680176 TGCATAT
1 T-CATAT
66680183 AAATATCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.27, C:0.19, G:0.04, T:0.50
Consensus pattern (20 bp):
TCATATTTATTATTCCATCA
Found at i:66680406 original size:109 final size:109
Alignment explanation
Indices: 66680237--66680518 Score: 469
Period size: 109 Copynumber: 2.6 Consensus size: 109
66680227 GCAATATTTG
* *
66680237 GCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTTGATTTTTCTCGTTCAACCAAA
1 GCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTGTTGATTTTTCTCGTTCAACCAAA
*
66680302 TGGCTTAATATCCTTTTCAAAAATTTCAAAATAAGGCAATGTTCT
65 TGGCTTAATATCCTTTTCAAAAATTACAAAATAAGGCAATGTTCT
* *
66680347 GCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAAT
1 GCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTGTTGATTTTTCTCGTTCAACCAAAT
*
66680412 GGCTTAATATCCTTTTCAAAAATTACAAAATAAGGCAATGTTTT
66 GGCTTAATATCCTTTTCAAAAATTACAAAATAAGGCAATGTTCT
* *
66680456 GCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTTGA--TTTCTCGTTTAACCAAAT
1 GCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTGTTGATTTTTCTCGTTCAACCAAAT
66680519 TGCCAAATAT
Statistics
Matches: 162, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
107 17 0.10
109 129 0.80
110 16 0.10
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.33
Consensus pattern (109 bp):
GCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTGTTGATTTTTCTCGTTCAACCAAAT
GGCTTAATATCCTTTTCAAAAATTACAAAATAAGGCAATGTTCT
Found at i:66681926 original size:19 final size:20
Alignment explanation
Indices: 66681886--66681929 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
66681876 GTCTCTTTAG
* *
66681886 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
66681905 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
66681924 GCATTA
1 GCATTA
66681930 GATTTTCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:66682450 original size:17 final size:18
Alignment explanation
Indices: 66682428--66682464 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
66682418 TTATTCTTTT
66682428 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
66682445 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
66682463 AT
1 AT
66682465 ACTGTGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:66683194 original size:8 final size:8
Alignment explanation
Indices: 66683181--66683255 Score: 86
Period size: 8 Copynumber: 9.5 Consensus size: 8
66683171 GTTCAGACTA
66683181 AAAAAATC
1 AAAAAATC
66683189 AAAAAAATC
1 -AAAAAATC
66683198 AAAAAATC
1 AAAAAATC
66683206 AAAAAATC
1 AAAAAATC
66683214 AAAAAATC
1 AAAAAATC
66683222 AAAAAAAT-
1 -AAAAAATC
66683230 AAAAAA--
1 AAAAAATC
*
66683236 AAATCAATC
1 AAA-AAATC
66683245 AAAAAAT-
1 AAAAAATC
66683252 AAAA
1 AAAA
66683256 GTCAAAAATA
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
6 3 0.05
7 12 0.20
8 27 0.45
9 18 0.30
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATC
Found at i:66683194 original size:9 final size:9
Alignment explanation
Indices: 66683180--66683242 Score: 87
Period size: 8 Copynumber: 7.2 Consensus size: 9
66683170 GGTTCAGACT
66683180 AAAAAAATC
1 AAAAAAATC
66683189 AAAAAAATC
1 AAAAAAATC
66683198 -AAAAAATC
1 AAAAAAATC
66683206 -AAAAAATC
1 AAAAAAATC
66683214 -AAAAAATC
1 AAAAAAATC
*
66683222 AAAAAAATAA
1 AAAAAAAT-C
66683232 AAAAAAATC
1 AAAAAAATC
66683241 AA
1 AA
66683243 TCAAAAAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
8 24 0.48
9 18 0.36
10 8 0.16
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAATC
Found at i:66683203 original size:17 final size:17
Alignment explanation
Indices: 66683181--66683255 Score: 97
Period size: 16 Copynumber: 4.7 Consensus size: 17
66683171 GTTCAGACTA
66683181 AAAAAATCAAAAAAATC
1 AAAAAATCAAAAAAATC
66683198 AAAAAATC-AAAAAATC
1 AAAAAATCAAAAAAATC
66683214 AAAAAATCAAAAAAAT-
1 AAAAAATCAAAAAAATC
**
66683230 AAAAAA--AAATCAATC
1 AAAAAATCAAAAAAATC
66683245 AAAAAAT-AAAA
1 AAAAAATCAAAA
66683256 GTCAAAAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
14 6 0.12
15 6 0.12
16 25 0.48
17 15 0.29
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAATCAAAAAAATC
Found at i:66683215 original size:25 final size:24
Alignment explanation
Indices: 66683181--66683263 Score: 93
Period size: 25 Copynumber: 3.5 Consensus size: 24
66683171 GTTCAGACTA
66683181 AAAAAATCAAAAAAATCAAAAAAT
1 AAAAAATCAAAAAAATCAAAAAAT
66683205 CAAAAAATC-AAAAAATCAAAAAAAT
1 -AAAAAATCAAAAAAATC-AAAAAAT
**
66683230 AAAAAA--AAATCAATCAAAAAAT
1 AAAAAATCAAAAAAATCAAAAAAT
*
66683252 -AAAAGTCAAAAA
1 AAAAAATCAAAAA
66683264 TAGGAGAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
21 4 0.08
22 7 0.14
23 9 0.18
24 14 0.29
25 15 0.31
ACGTcount: A:0.77, C:0.10, G:0.01, T:0.12
Consensus pattern (24 bp):
AAAAAATCAAAAAAATCAAAAAAT
Found at i:66683264 original size:25 final size:25
Alignment explanation
Indices: 66683182--66683264 Score: 74
Period size: 24 Copynumber: 3.5 Consensus size: 25
66683172 TTCAGACTAA
66683182 AAAAATCAAAAA--AATCAAAAAAT
1 AAAAATCAAAAATCAATCAAAAAAT
66683205 CAAAAAATC-AAAA--AATCAAAAAA-
1 --AAAAATCAAAAATCAATCAAAAAAT
66683228 ATAAAA--AAAAATCAATCAAAAAAT
1 A-AAAATCAAAAATCAATCAAAAAAT
*
66683252 AAAAGTCAAAAAT
1 AAAAATCAAAAAT
66683265 AGGAGAAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 14
0.77 0.02 0.22
Matches are distributed among these distances:
21 5 0.10
22 4 0.08
23 13 0.26
24 15 0.30
25 13 0.26
ACGTcount: A:0.76, C:0.10, G:0.01, T:0.13
Consensus pattern (25 bp):
AAAAATCAAAAATCAATCAAAAAAT
Found at i:66683279 original size:6 final size:6
Alignment explanation
Indices: 66683268--66683311 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
66683258 CAAAAATAGG
* *
66683268 AGAAAA AGAAAAA AGAAAA A-AGAA ATAAAA AGAAAA AGAAAA AG
1 AGAAAA AG-AAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AG
66683312 GAGAGGTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
5 4 0.12
6 23 0.70
7 6 0.18
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (6 bp):
AGAAAA
Found at i:66683280 original size:7 final size:7
Alignment explanation
Indices: 66683270--66683310 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
66683260 AAAATAGGAG
66683270 AAAAAGA
1 AAAAAGA
66683277 AAAAAGA
1 AAAAAGA
66683284 AAAAAGA
1 AAAAAGA
*
66683291 AATAAAAA
1 AA-AAAGA
66683299 GAAAAAGA
1 -AAAAAGA
66683307 AAAA
1 AAAA
66683311 GGAGAGGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 20 0.67
8 8 0.27
9 2 0.07
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.02
Consensus pattern (7 bp):
AAAAAGA
Found at i:66683286 original size:23 final size:21
Alignment explanation
Indices: 66683260--66683315 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 21
66683250 ATAAAAGTCA
66683260 AAAATAGGAGAAAAAGAAAAAAG
1 AAAA-AGGAGAAAAAG-AAAAAG
* *
66683283 AAAAAAGAAATAAAAAGAAAAAG
1 -AAAAAG-GAGAAAAAGAAAAAG
66683306 AAAAAGGAGA
1 AAAAAGGAGA
66683316 GGTCAAGGCG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
21 2 0.07
22 6 0.22
23 8 0.30
24 11 0.41
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.04
Consensus pattern (21 bp):
AAAAAGGAGAAAAAGAAAAAG
Found at i:66685385 original size:46 final size:46
Alignment explanation
Indices: 66685281--66685386 Score: 131
Period size: 46 Copynumber: 2.3 Consensus size: 46
66685271 AACAAATAAA
* * * *
66685281 TGAAGATAGCATATCTTATCTTCTTGTATTTGGCAGTGGAGGAGAT
1 TGAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGTGAAAGAGAT
* * * *
66685327 CGAAAATAGCAGATCTTATCTTCCTGTATTTGGCAGTGAAATAGGT
1 TGAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGTGAAAGAGAT
*
66685373 TGAAGATTGCAGAT
1 TGAAGATAGCAGAT
66685387 TCTGTCACCC
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (46 bp):
TGAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGTGAAAGAGAT
Found at i:66685423 original size:44 final size:43
Alignment explanation
Indices: 66685374--66685819 Score: 163
Period size: 44 Copynumber: 10.1 Consensus size: 43
66685364 GAAATAGGTT
*
66685374 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATC
1 GAAGATTG-AGATTCTATCACCCTAATCAGTAGTGGAGCAGATC
* * * * * * * *
66685418 GAAGATGGTGAATCTTATCTTCCC-AATACAGTGGAGAAGCAGATT
1 GAAGATTGAGATTC-TATC-ACCCTAAT-CAGTAGTGGAGCAGATC
* * * * * *
66685463 TAAGCCATT-TG-TCCTATCACCCTAAACAGTAGTGGAGTAGGTC
1 GAAG--ATTGAGATTCTATCACCCTAATCAGTAGTGGAGCAGATC
** *
66685506 GAAGATCACAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATC
1 GAAGAT-TGAGATTCTATCACCCTAATCAGTAGTGGAGCAGATC
* * * * * * * * * *
66685550 AAAGATGGTGAATCTTATCTTCCC-AATACAGTGGAGAAGTAGATT
1 GAAGATTGAGATTC-TATC-ACCCTAAT-CAGTAGTGGAGCAGATC
* * * * * * *
66685595 TAAGCCATT-AG-TCCTATCACCTTAAGCAGTAGTGGAGTAGGTT
1 GAAG--ATTGAGATTCTATCACCCTAATCAGTAGTGGAGCAGATC
*
66685638 GAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATC
1 GAAGATTG-AGATTCTATCACCCTAATCAGTAGTGGAGCAGATC
* * * * * * * * *
66685682 AAAGATGGTGAATCTTATCTTCCC-AATACAGTGGAGAAGCAGATT
1 GAAGATTGAGATTC-TATC-ACCCTAAT-CAGTAGTGGAGCAGATC
* * * * * *
66685727 TAAGCCATT-AG-TCCTATCACCCTAAGCAGTAGTGGAGTAGGTT
1 GAAG--ATTGAGATTCTATCACCCTAATCAGTAGTGGAGCAGATC
* * * *
66685770 GAAGATTGTAGATTTTGTTACCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATTG-AGATTCTATCACCCTAATCAGTAGTGGAGCAGATC
66685814 GAAGAT
1 GAAGAT
66685820 GGTGAATCTT
Statistics
Matches: 284, Mismatches: 91, Indels: 54
0.66 0.21 0.13
Matches are distributed among these distances:
41 8 0.03
43 70 0.25
44 137 0.48
45 59 0.21
46 4 0.01
47 6 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (43 bp):
GAAGATTGAGATTCTATCACCCTAATCAGTAGTGGAGCAGATC
Found at i:66685518 original size:132 final size:132
Alignment explanation
Indices: 66685368--66685895 Score: 930
Period size: 132 Copynumber: 4.0 Consensus size: 132
66685358 GGCAGTGAAA
*
66685368 TAGGTTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCGAAGATGGTGAATCT
1 TAGGTTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCT
* *
66685433 TATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTTGTCCTATCACCCTAAACAGTAGTGG
66 TATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGG
66685498 AG
131 AG
* **
66685500 TAGGTCGAAGATCACAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCT
1 TAGGTTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCT
* *
66685565 TATCTTCCCAATACAGTGGAGAAGTAGATTTAAGCCATTAGTCCTATCACCTTAAGCAGTAGTGG
66 TATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGG
66685630 AG
131 AG
*
66685632 TAGGTTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCT
1 TAGGTTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCT
66685697 TATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGG
66 TATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGG
66685762 AG
131 AG
* * * * *
66685764 TAGGTTGAAGATTGTAGATTTTGTTACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCT
1 TAGGTTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCT
66685829 TATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGG
66 TATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGG
66685894 AG
131 AG
66685896 CAGACAGAAG
Statistics
Matches: 378, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 378 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
TAGGTTGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCT
TATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGG
AG
Found at i:66686472 original size:23 final size:25
Alignment explanation
Indices: 66686415--66686472 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 25
66686405 TTCCCCGGGG
* *
66686415 CCCAATTATAAAAACAAACCCCAAAG
1 CCCAATTA-CAAAACAAACCCCAAAC
*
66686441 CCC-ACTACAAAAC-AA-CCCAAAC
1 CCCAATTACAAAACAAACCCCAAAC
66686463 CCCAATTACA
1 CCCAATTACA
66686473 TGCCAAAGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
22 9 0.33
23 7 0.26
24 5 0.19
25 3 0.11
26 3 0.11
ACGTcount: A:0.50, C:0.38, G:0.02, T:0.10
Consensus pattern (25 bp):
CCCAATTACAAAACAAACCCCAAAC
Found at i:66688047 original size:26 final size:26
Alignment explanation
Indices: 66688016--66688071 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
66688006 TATACATACT
* *
66688016 TATATTTTTATATCTT-ATAATTTATA
1 TATATTTTCACATCTTCATAATTT-TA
*
66688042 TATATTTTCACATTTTCATAATTTTA
1 TATATTTTCACATCTTCATAATTTTA
66688068 TATA
1 TATA
66688072 CATACATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (26 bp):
TATATTTTCACATCTTCATAATTTTA
Found at i:66688282 original size:21 final size:20
Alignment explanation
Indices: 66688249--66688296 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
66688239 TCGTTTTTGT
*
66688249 TCATATTTTTTATTCACATCA
1 TCATATTTATTATTC-CATCA
*
66688270 TCATGTTTATTATTCCATCA
1 TCATATTTATTATTCCATCA
66688290 TGCATAT
1 T-CATAT
66688297 AAATATCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.27, C:0.19, G:0.04, T:0.50
Consensus pattern (20 bp):
TCATATTTATTATTCCATCA
Found at i:66688515 original size:102 final size:103
Alignment explanation
Indices: 66688339--66688734 Score: 548
Period size: 109 Copynumber: 3.7 Consensus size: 103
66688329 TTTCTAATTG
* *
66688339 AGGCAATATTTGGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTTGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAG-AAACATGCCCTAAGGTGCTGGGTGTTGATTTTTCT
66688404 CGTTCAACCAAATGGCTTAATATCCTTTTC-A-AAAATA
65 CGTTCAACCAAATGGCTTAATATCCTTTTCAATAAAATA
*
66688441 AGGCAATGTTCTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTTGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAG-AAACATGCCCTAAGGTGCTGGGTGTTGATTTTTCT
66688506 CGTTCAACCAAATGGCTTAATATCCTTTTCAAAAATTTCAAAATA
65 CGTTCAACCAAATGGCTTAATATCCTTTTC---AA--T-AAAATA
* * *
66688551 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCTC
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTTGATTTTTCTC
66688616 GTTCAACCAAATGGCTTAATATCCTTTTCAAAAATTACAAAATA
66 GTTCAACCAAATGGCTTAATATCCTTTTC---AA-T--AAAATA
* * *
66688660 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTTGA--TTTCTC
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTTGATTTTTCTC
*
66688723 GTTTAACCAAAT
66 GTTCAACCAAAT
66688735 TGCCAAATAT
Statistics
Matches: 275, Mismatches: 10, Indels: 13
0.92 0.03 0.04
Matches are distributed among these distances:
102 92 0.33
106 1 0.00
107 17 0.06
108 2 0.01
109 129 0.47
110 34 0.12
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (103 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTTGATTTTTCTC
GTTCAACCAAATGGCTTAATATCCTTTTCAATAAAATA
Found at i:66691822 original size:5 final size:5
Alignment explanation
Indices: 66691812--66691837 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
66691802 GAGATAGAAT
66691812 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
66691838 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:66692520 original size:30 final size:31
Alignment explanation
Indices: 66692481--66692540 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
66692471 GGAGGTGAGA
*
66692481 TGGGAAGGGAATAAAATTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
66692512 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
66692541 TAAAATGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:66692712 original size:30 final size:30
Alignment explanation
Indices: 66692653--66692715 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
66692643 GGGAAGAGGA
* * ***
66692653 GTAAAAGTTTTGGGGGGAAAGTGGGAAGGT
1 GTAAAAGTTTTGAGGGAAAAGTAAAAAGGT
66692683 GTAAAAGTTTTGAGGGAAAAGTAAAAAGGT
1 GTAAAAGTTTTGAGGGAAAAGTAAAAAGGT
66692713 GTA
1 GTA
66692716 GGAGTTTAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.24
Consensus pattern (30 bp):
GTAAAAGTTTTGAGGGAAAAGTAAAAAGGT
Found at i:66692722 original size:30 final size:30
Alignment explanation
Indices: 66692678--66692738 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
66692668 GGAAAGTGGG
66692678 AAGGTGTAAAAGTTTTGAGGG-AAAA-GTAAA
1 AAGGTGTAAAAG-TTT-AGGGTAAAATGTAAA
**
66692708 AAGGTGTAGGAGTTTAGGGTAAAATGTAAA
1 AAGGTGTAAAAGTTTAGGGTAAAATGTAAA
66692738 A
1 A
66692739 TATTATAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 4 0.15
29 7 0.26
30 16 0.59
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (30 bp):
AAGGTGTAAAAGTTTAGGGTAAAATGTAAA
Found at i:66692770 original size:9 final size:9
Alignment explanation
Indices: 66692752--66692788 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
66692742 TATAGTTTGA
*
66692752 TATTCAAAT
1 TATTCGAAT
66692761 TATTCGAAT
1 TATTCGAAT
*
66692770 TATTCGAGT
1 TATTCGAAT
66692779 TATTCGAAT
1 TATTCGAAT
66692788 T
1 T
66692789 CAAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:66697895 original size:102 final size:103
Alignment explanation
Indices: 66697656--66698024 Score: 364
Period size: 102 Copynumber: 3.4 Consensus size: 103
66697646 CTCAAATACC
* * * * *
66697656 TTAGTGGCGC-TTCTAAATAAAAGCCGCAAAAGTCAAGCATTAGCGACGCTTTCTCAAAAGCGCC
1 TTAGTGGCGCTTTCCAAA-AAACGCCGCAGAAGTCAAGCATTAGCGACACTTT-T-----G-TCC
*
66697720 GCAAAGGTTTTAACAAACGACGTTTTTTTGTTGAGGTTTAGACACA
58 GCAAAGGTTTTAACAAACCACGTTTTTTTGTTGAGGTTTAGACACA
66697766 TTAGTGGCGCTTTCCAAAAAACGCCGCAGAAGTCAAGCATTAGCGACACTTTTGTCCGCAAAGGT
1 TTAGTGGCGCTTTCCAAAAAACGCCGCAGAAGTCAAGCATTAGCGACACTTTTGTCCGCAAAGGT
*
66697831 TTTAACAAACCA-TTTTTTTTGTTGAGGTTTAGACACA
66 TTTAACAAACCACGTTTTTTTGTTGAGGTTTAGACACA
* * * *
66697868 TTAGTGGGGCTTTCCAAAAAACGCCGCAGAAGTCAAGCATTAGCGGCGCCTTCTCATTAGTGCCA
1 TTAGTGGCGCTTTCCAAAAAACGCCGCAGAAGTCAAGCATTAGCGAC-AC-T-T--TT-GT-CCG
* * * * * * *
66697933 CAAAAGTTTCTAAGCAAACAATGTCATTTTTGTTGAGCTTTACAGACA
59 CAAAGGTTT-TAA-CAAACCACGT-TTTTTTGTTGAGGTTTAGACACA
* ** *
66697981 GTAGTGGCGCTTTCTGAAAAACGCCGCAGAAGTCAATCATTAGC
1 TTAGTGGCGCTTTCCAAAAAACGCCGCAGAAGTCAAGCATTAGC
66698025 AGCGCTTTTT
Statistics
Matches: 224, Mismatches: 23, Indels: 21
0.84 0.09 0.08
Matches are distributed among these distances:
102 69 0.31
103 22 0.10
104 2 0.01
105 1 0.00
107 2 0.01
108 2 0.01
109 11 0.05
110 44 0.20
111 12 0.05
112 1 0.00
113 58 0.26
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (103 bp):
TTAGTGGCGCTTTCCAAAAAACGCCGCAGAAGTCAAGCATTAGCGACACTTTTGTCCGCAAAGGT
TTTAACAAACCACGTTTTTTTGTTGAGGTTTAGACACA
Found at i:66698049 original size:113 final size:110
Alignment explanation
Indices: 66697824--66698368 Score: 420
Period size: 114 Copynumber: 4.8 Consensus size: 110
66697814 CTTTTGTCCG
* * * * * * *
66697824 CAAAGGTTTTAA-CAAACCAT-TTTTTTTGTTGAGGTTTAGACACATTAGTGGGGCTTTCCAAAA
1 CAAAAGTTTTAAGCAAACAATGTCTTTTTGTTGAGGTTTACAGACATTAGTGGCGCTTT-CTAAA
* ** **
66697887 AACGCCGCAGAAGTCAAGCATTAGCGGCGCCTTCTCATTAGTGCCA
65 AACGCCGCAGAAGTCAAGCATTAGCGGCGCTTTCTCAGAAGCACCA
* *
66697933 CAAAAGTTTCTAAGCAAACAATGTCATTTTTGTTGAGCTTTACAGACAGTAGTGGCGCTTTCTGA
1 CAAAAGTTT-TAAGCAAACAATGTC-TTTTTGTTGAGGTTTACAGACATTAGTGGCGCTTTCT-A
* * * *
66697998 AAAACGCCGCAGAAGTCAATCATTAGCAGCGCTTTTTCAAAAGC-CCTA
63 AAAACGCCGCAGAAGTCAAGCATTAGCGGCGCTTTCTCAGAAGCACC-A
* * * * * * *
66698046 CAAAAGTTTGAAGCAAACGACGTCGTTTGTTTTTTCAGTTTTAGAGACATTAGTGGCGCTTTCCT
1 CAAAAGTTTTAAGCAAACAATGTC--TT-TTTGTTGAGGTTTACAGACATTAGTGGCGCTTT-CT
* * * * * * * *
66698111 AAAAACACCGCAAAAGTCAGGAATTAGCCGCGCTTTCACAGTAGCACCG
62 AAAAACGCCGCAGAAGTCAAGCATTAGCGGCGCTTTCTCAGAAGCACCA
*
66698160 CAAAAGTTTATAAGCAAACGACAATGT-TTTTTGTTGAGGTTTACAGACATTAGTGGCGCTTTTA
1 CAAAAGTTT-TAAGC-AA--ACAATGTCTTTTTGTTGAGGTTTACAGACATTAGTGGCGC-TTTC
* * * * * *
66698224 TAAAAACGCCGCAGAGGTCAAGTATTAGCGGCGCTTTTTTAGAAGCGCCG
61 TAAAAACGCCGCAGAAGTCAAGCATTAGCGGCGCTTTCTCAGAAGCACCA
* * * ** * *
66698274 CAAAAATTTTAAGCAAACAGCT-TCATTTTTTGTTAAGCATTACA-ATCATTAGCGGCGTTTTAC
1 CAAAAGTTTTAAGCAAACA-ATGTC--TTTTTGTTGAGGTTTACAGA-CATTAGTGGCGCTTT-C
* *
66698337 -AAAAAGCGCCGTAAAAGTCAAGCATTAGCGGC
61 TAAAAA-CGCCGCAGAAGTCAAGCATTAGCGGC
66698369 AATTTTTGAA
Statistics
Matches: 347, Mismatches: 67, Indels: 40
0.76 0.15 0.09
Matches are distributed among these distances:
109 8 0.02
110 7 0.02
111 8 0.02
112 27 0.08
113 132 0.38
114 145 0.42
115 13 0.04
116 2 0.01
118 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (110 bp):
CAAAAGTTTTAAGCAAACAATGTCTTTTTGTTGAGGTTTACAGACATTAGTGGCGCTTTCTAAAA
ACGCCGCAGAAGTCAAGCATTAGCGGCGCTTTCTCAGAAGCACCA
Found at i:66698129 original size:114 final size:113
Alignment explanation
Indices: 66697619--66698368 Score: 526
Period size: 113 Copynumber: 6.7 Consensus size: 113
66697609 AAAGGGTAAG
* * * * * * * *
66697619 GCAAACGATGCCGTTTTCTTGTTGAGCCTCAAATACCTTAGTGGCGC-TT-CTAAATAAAAGCCG
1 GCAAACGACGTCGTTTT-TTGTTGAGCTTTACAGACATTAGTGGCGCTTTCCT-AA-AAACGCCG
* * * * *
66697682 CAAAAGTCAAGCATTAGCGACGCTTTCTCAAAAGCGCCGCAAAGGTTT-TAA
63 CAGAAGTCAAGCATTAGCGGCGCTTTCTCAATAGC-CCACAAAAGTTTATAA
* * * *
66697733 -CAAACGACGT--TTTTTTGTTGAGGTTTAGACACATTAGTGGCGCTTTCCAAAAAACGCCGCAG
1 GCAAACGACGTCGTTTTTTGTTGAGCTTTACAGACATTAGTGGCGCTTTCCTAAAAACGCCGCAG
* * * * *
66697795 AAGTCAAGCATTAGCGACAC-TT-T---T-GTCCGCAAAGGTTT-TAA
66 AAGTCAAGCATTAGCGGCGCTTTCTCAATAGCCCACAAAAGTTTATAA
* * * * * * *
66697836 -CAAAC--CAT-TTTTTTTGTTGAGGTTTAGACACATTAGTGGGGCTTTCCAAAAAACGCCGCAG
1 GCAAACGACGTCGTTTTTTGTTGAGCTTTACAGACATTAGTGGCGCTTTCCTAAAAACGCCGCAG
* * * *
66697897 AAGTCAAGCATTAGCGGCGCCTTCTCATTAGTGCCACAAAAGTTTCTAA
66 AAGTCAAGCATTAGCGGCGCTTTCTCAATAG-CCCACAAAAGTTTATAA
* * * *
66697946 GCAAACAATGTC-ATTTTTGTTGAGCTTTACAGACAGTAGTGGCGCTTT-CTGAAAAACGCCGCA
1 GCAAACGACGTCGTTTTTTGTTGAGCTTTACAGACATTAGTGGCGCTTTCCT-AAAAACGCCGCA
* * * * *
66698009 GAAGTCAATCATTAGCAGCGCTTTTTCAAAAGCCCTACAAAAGTTT-GAA
65 GAAGTCAAGCATTAGCGGCGCTTTCTCAATAGCCC-ACAAAAGTTTATAA
* * * * *
66698058 GCAAACGACGTCGTTTGTTTTTTCAGTTTTAGAGACATTAGTGGCGCTTTCCTAAAAACACCGCA
1 GCAAACGACGTCGTTT-TTTGTTGAGCTTTACAGACATTAGTGGCGCTTTCCTAAAAACGCCGCA
* * * * * * *
66698123 AAAGTCAGGAATTAGCCGCGCTTTCACAGTAGCACCGCAAAAGTTTATAA
65 GAAGTCAAGCATTAGCGGCGCTTTCTCAATAGC-CCACAAAAGTTTATAA
* * **
66698173 GCAAACGACAAT-GTTTTTTGTTGAGGTTTACAGACATTAGTGGCGCTTTTATAAAAACGCCGCA
1 GCAAACGAC-GTCGTTTTTTGTTGAGCTTTACAGACATTAGTGGCGCTTTCCTAAAAACGCCGCA
* * * * * *
66698237 GAGGTCAAGTATTAGCGGCGCTTTTTTAGA-AGCGCCGCAAAAATTT-TAA
65 GAAGTCAAGCATTAGCGGCGCTTTCTCA-ATAGC-CCACAAAAGTTTATAA
* * * * * * *
66698286 GCAAAC-AGCTTCATTTTTTGTTAAGCATTACA-ATCATTAGCGGCGTTTTAC-AAAAAGCGCCG
1 GCAAACGA-CGTCGTTTTTTGTTGAGCTTTACAGA-CATTAGTGGCGCTTTCCTAAAAA-CGCCG
* *
66698348 TAAAAGTCAAGCATTAGCGGC
63 CAGAAGTCAAGCATTAGCGGC
66698369 AATTTTTGAA
Statistics
Matches: 518, Mismatches: 90, Indels: 57
0.78 0.14 0.09
Matches are distributed among these distances:
101 2 0.00
102 69 0.13
103 22 0.04
104 2 0.00
107 1 0.00
108 2 0.00
109 12 0.02
110 54 0.10
111 13 0.03
112 24 0.05
113 150 0.29
114 147 0.28
115 19 0.04
116 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (113 bp):
GCAAACGACGTCGTTTTTTGTTGAGCTTTACAGACATTAGTGGCGCTTTCCTAAAAACGCCGCAG
AAGTCAAGCATTAGCGGCGCTTTCTCAATAGCCCACAAAAGTTTATAA
Found at i:66698618 original size:21 final size:21
Alignment explanation
Indices: 66698592--66698645 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
66698582 TTGAGATTAT
*
66698592 GGTTTAAGGGTTGGGGTTTAA
1 GGTTTAAGGGTTGGGGGTTAA
66698613 GGTTT-AGGTGTTGGGGGTTAA
1 GGTTTAAGG-GTTGGGGGTTAA
* *
66698634 GGGTTAGGGGTT
1 GGTTTAAGGGTT
66698646 TAAGGTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 3 0.11
21 23 0.82
22 2 0.07
ACGTcount: A:0.15, C:0.00, G:0.48, T:0.37
Consensus pattern (21 bp):
GGTTTAAGGGTTGGGGGTTAA
Found at i:66698800 original size:14 final size:14
Alignment explanation
Indices: 66698783--66698809 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
66698773 AAGCATTAGA
66698783 GGTTTAGGGTTTAT
1 GGTTTAGGGTTTAT
66698797 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
66698810 GATTAAGTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (14 bp):
GGTTTAGGGTTTAT
Found at i:66698875 original size:18 final size:18
Alignment explanation
Indices: 66698852--66698889 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
66698842 GACTTCATAG
*
66698852 AATAATTAAATTTTATAA
1 AATAATTAAATTTTAGAA
66698870 AATAATTAAATTTTAGAA
1 AATAATTAAATTTTAGAA
66698888 AA
1 AA
66698890 ATTTTAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AATAATTAAATTTTAGAA
Found at i:66699576 original size:13 final size:13
Alignment explanation
Indices: 66699558--66699582 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66699548 GGGTTTTTGC
66699558 GAAATTACTCGTG
1 GAAATTACTCGTG
66699571 GAAATTACTCGT
1 GAAATTACTCGT
66699583 TTGAATCGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
GAAATTACTCGTG
Found at i:66701768 original size:121 final size:121
Alignment explanation
Indices: 66701619--66702113 Score: 642
Period size: 121 Copynumber: 4.1 Consensus size: 121
66701609 TTAATCAAAT
* * * * *
66701619 ATATAACCTATATTTCAGATTCATTACTAATTACTTTTTAATTTTTAAAAATATTTA-TAACTAG
1 ATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAAAATAATTATTAA-TAT
* *
66701683 TATA-TTTTAAATATGTTTAAA-CTATATTGTTAATATATAACCTATATTAGTATGTGA
65 TATATTTTTAAATA--TTAAAACCTATATTGTTAATATATAACCTATATTAGTATGGGA
* * * * * *
66701740 CTATAACCTATATTTCAGATTCATTACTAATTATTTTTTAAATTTTAAAAATATTTATAAATATT
1 ATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAAAATAATTATTAATATT
* *
66701805 ATA-TTTTAAATATGTTTAAA-CTTTATTGTTAATATATAACCTATATTAGTATGGGA
66 ATATTTTTAAATA--TTAAAACCTATATTGTTAATATATAACCTATATTAGTATGGGA
* * * *
66701861 ATATAACCTATATTTCAAATTCATTACTAACAACTTTTTAAATTTTAAACATAATTATTTATTTT
1 ATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAAAATAATTATTAATATT
* *
66701926 ATATTTTTAAATATTAAAACCTATATTTTTAATATATCACCTATATTAGTATGGGA
66 ATATTTTTAAATATTAAAACCTATATTGTTAATATATAACCTATATTAGTATGGGA
* * *
66701982 ATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAACATAATTATTTATTTT
1 ATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAAAATAATTATTAATATT
* * *
66702047 ATATTTTTAAATATTAAAATCTATATTTTTAATATATCACCTATATTAGTAT-GGA
66 ATATTTTTAAATATTAAAACCTATATTGTTAATATATAACCTATATTAGTATGGGA
*
66702102 TATATTACCTAT
1 -ATATAACCTAT
66702114 TTTATGTGTA
Statistics
Matches: 346, Mismatches: 24, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
120 8 0.02
121 327 0.95
122 11 0.03
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.47
Consensus pattern (121 bp):
ATATAACCTATATTTCAAATTCATTACTAATAACTTTTTAAATTTTAAAAATAATTATTAATATT
ATATTTTTAAATATTAAAACCTATATTGTTAATATATAACCTATATTAGTATGGGA
Found at i:66702283 original size:9 final size:9
Alignment explanation
Indices: 66702266--66702724 Score: 304
Period size: 9 Copynumber: 54.2 Consensus size: 9
66702256 ATCATAACTC
66702266 AACTTACAT
1 AACTTACAT
*
66702275 AACTCACAT
1 AACTTACAT
66702284 AACTTACAT
1 AACTTACAT
66702293 AA--TACAT
1 AACTTACAT
*
66702300 AA--TACAC
1 AACTTACAT
66702307 AACTTACAT
1 AACTTACAT
*
66702316 ACCTTACAT
1 AACTTACAT
66702325 AA--TACAT
1 AACTTACAT
*
66702332 AA--TACAC
1 AACTTACAT
*
66702339 AGCTTACAT
1 AACTTACAT
*
66702348 AACTTTCAT
1 AACTTACAT
*
66702357 AA--TATAT
1 AACTTACAT
*
66702364 AACTTATAT
1 AACTTACAT
66702373 AA--TACACT
1 AACTTACA-T
66702381 -ACTTACAT
1 AACTTACAT
*
66702389 AACTTTCAT
1 AACTTACAT
66702398 AA--TACACT
1 AACTTACA-T
66702406 -ACTTACAT
1 AACTTACAT
66702414 AACTTACAT
1 AACTTACAT
66702423 AA--TACAT
1 AACTTACAT
66702430 AACTTACAT
1 AACTTACAT
*
66702439 AACTTAAAT
1 AACTTACAT
66702448 AACTTACAT
1 AACTTACAT
66702457 AA--TACAT
1 AACTTACAT
* *
66702464 AGCCTACAT
1 AACTTACAT
*
66702473 AACTTACGT
1 AACTTACAT
66702482 AACTTACAT
1 AACTTACAT
*
66702491 AA--TACAC
1 AACTTACAT
*
66702498 AACTTATAT
1 AACTTACAT
*
66702507 AACTTTCAT
1 AACTTACAT
66702516 AA--TACACT
1 AACTTACA-T
66702524 -ACTTACAT
1 AACTTACAT
*
66702532 AACTTGCAT
1 AACTTACAT
66702541 AA--TACAT
1 AACTTACAT
*
66702548 AGCTTACAT
1 AACTTACAT
*
66702557 AACTTAAAT
1 AACTTACAT
66702566 AACTTACAT
1 AACTTACAT
* *
66702575 AA--AATAT
1 AACTTACAT
* *
66702582 AGCCTACAT
1 AACTTACAT
*
66702591 AACTTACGT
1 AACTTACAT
66702600 AACTTACAT
1 AACTTACAT
*
66702609 AA--AACAT
1 AACTTACAT
* **
66702616 AGCCCACAT
1 AACTTACAT
*
66702625 AACTTACGT
1 AACTTACAT
66702634 AACTTACAT
1 AACTTACAT
*
66702643 AA--TACAC
1 AACTTACAT
66702650 AACTTACAT
1 AACTTACAT
*
66702659 AACTTAAAT
1 AACTTACAT
* *
66702668 AATATTATACAC
1 -A-ACT-TACAT
66702680 AACTTACAT
1 AACTTACAT
66702689 AA--TACAT
1 AACTTACAT
*
66702696 TACTTACAT
1 AACTTACAT
*
66702705 AACTTACGT
1 AACTTACAT
66702714 AACTTACAT
1 AACTTACAT
66702723 AA
1 AA
66702725 GTCATTTATA
Statistics
Matches: 349, Mismatches: 64, Indels: 74
0.72 0.13 0.15
Matches are distributed among these distances:
7 87 0.25
8 6 0.02
9 247 0.71
10 3 0.01
11 3 0.01
12 3 0.01
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:66702301 original size:25 final size:25
Alignment explanation
Indices: 66702270--66702724 Score: 148
Period size: 25 Copynumber: 18.0 Consensus size: 25
66702260 TAACTCAACT
*
66702270 TACATAACTCACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* *
66702295 TACATAA--TACACAACTTACATACCT
1 TACATAACTTACATAACTTACATA--A
* *
66702320 TACATAATACATAATACACAGCTTACATAA
1 TACAT-A-AC-T--TACATAACTTACATAA
* * * *
66702350 CTTTCAT-A-ATATATAACTTATATAA
1 --TACATAACTTACATAACTTACATAA
*
66702375 TACACT-ACTTACATAACTTTCATAA
1 TACA-TAACTTACATAACTTACATAA
66702400 TACACT-ACTTACATAACTTACATAA
1 TACA-TAACTTACATAACTTACATAA
*
66702425 TACATAACTTACATAACTTAAATAA
1 TACATAACTTACATAACTTACATAA
* *
66702450 CTTACATAA--TACATAGCCTACATAA
1 --TACATAACTTACATAACTTACATAA
* *
66702475 CTTACGTAACTTACATAA--TACACAA
1 --TACATAACTTACATAACTTACATAA
* * *
66702500 CTTATATAACTTTCATAA--TACACTACT
1 --TACATAACTTACATAACTTACA-TA-A
* *
66702527 TACATAACTTGCATAA--TACATAGCT
1 TACATAACTTACATAACTTACATA--A
*
66702552 TACATAACTTAAATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* * * * *
66702577 AATATAGCCTACATAACTTACGTAA
1 TACATAACTTACATAACTTACATAA
* * **
66702602 CTTACATAA--AACATAGCCCACATAA
1 --TACATAACTTACATAACTTACATAA
* *
66702627 CTTACGTAACTTACATAA--TACACAA
1 --TACATAACTTACATAACTTACATAA
* *
66702652 CTTACATAACTTAAATAA--T--ATTA
1 --TACATAACTTACATAACTTACATAA
* *
66702675 TACACAACTTACATAA--TACATTACT
1 TACATAACTTACATAACTTACA-TA-A
*
66702700 TACATAACTTACGTAACTTACATAA
1 TACATAACTTACATAACTTACATAA
66702725 GTCATTTATA
Statistics
Matches: 333, Mismatches: 64, Indels: 66
0.72 0.14 0.14
Matches are distributed among these distances:
21 15 0.05
23 19 0.06
24 6 0.02
25 237 0.71
26 4 0.01
27 33 0.10
29 1 0.00
32 18 0.05
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:66702314 original size:41 final size:42
Alignment explanation
Indices: 66702266--66702610 Score: 246
Period size: 41 Copynumber: 8.5 Consensus size: 42
66702256 ATCATAACTC
* *
66702266 AACTTACATAACTCACATAACTTACATAATACATA-ATACAC
1 AACTTACATAACTTACATAACTTACATAATACATACATACAT
* * *
66702307 AACTTACATACCTTACATAA--TACATAATACACAGCTTACAT
1 AACTTACATAACTTACATAACTTACATAATACATA-CATACAT
* * * *
66702348 AACTTTCATAA--TATATAACTTATATAATACACTACTTACAT
1 AACTTACATAACTTACATAACTTACATAATACA-TACATACAT
*
66702389 AACTTTCATAA--TACACT-ACTTACATAACTTACATA-ATACAT
1 AACTTACATAACTTACA-TAACTTACATAA--TACATACATACAT
* *
66702430 AACTTACATAACTTAAATAACTTACATAATACATAGCCTACAT
1 AACTTACATAACTTACATAACTTACATAATACATA-CATACAT
* * *
66702473 AACTTACGTAACTTACATAA--TAC-----ACA-ACTTATAT
1 AACTTACATAACTTACATAACTTACATAATACATACATACAT
* *
66702507 AACTTTCATAA--TACACT-ACTTACATAACTTGCATA-ATACAT
1 AACTTACATAACTTACA-TAACTTACATAA--TACATACATACAT
* * * * *
66702548 AGCTTACATAACTTAAATAACTTACATAAAATATAGCCTACAT
1 AACTTACATAACTTACATAACTTACATAATACATA-CATACAT
*
66702591 AACTTACGTAACTTACATAA
1 AACTTACATAACTTACATAA
66702611 AACATAGCCC
Statistics
Matches: 240, Mismatches: 35, Indels: 56
0.73 0.11 0.17
Matches are distributed among these distances:
32 5 0.02
33 1 0.00
34 17 0.07
35 1 0.00
36 3 0.01
39 18 0.08
41 113 0.47
42 7 0.03
43 75 0.31
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (42 bp):
AACTTACATAACTTACATAACTTACATAATACATACATACAT
Found at i:66702419 original size:34 final size:33
Alignment explanation
Indices: 66702271--66702576 Score: 214
Period size: 34 Copynumber: 9.5 Consensus size: 33
66702261 AACTCAACTT
* *
66702271 ACATAACTCACATAACTTACATAATACATA-AT
1 ACATAACTTACATAACTTACATAATACATACTT
* * *
66702303 ACACAACTTACATACCTTACATAATACATA-AT
1 ACATAACTTACATAACTTACATAATACATACTT
* * * *
66702335 ACACAGCTTACATAACTTTCATAATATATAACTT
1 ACATAACTTACATAACTTACATAATACAT-ACTT
* * *
66702369 ATATAA--TACACT-ACTTACATAACTTTCATA-AT
1 ACATAACTTACA-TAACTTACATAA--TACATACTT
66702401 ACACT-ACTTACATAACTTACATAATACATAACTT
1 ACA-TAACTTACATAACTTACATAATACAT-ACTT
* *
66702435 ACATAACTTAAATAACTTACATAATACATAGCCT
1 ACATAACTTACATAACTTACATAATACATA-CTT
*
66702469 ACATAACTTACGTAACTTAC---ATA-ATAC--
1 ACATAACTTACATAACTTACATAATACATACTT
* *
66702496 AC--AACTTATATAACTTTCATAATACACTACTT
1 ACATAACTTACATAACTTACATAATACA-TACTT
* *
66702528 ACATAACTTGCATAA--TACATAGCTTACATAACTT
1 ACATAACTTACATAACTTACATA--ATACAT-ACTT
*
66702562 AAATAACTTACATAA
1 ACATAACTTACATAA
66702577 AATATAGCCT
Statistics
Matches: 218, Mismatches: 31, Indels: 48
0.73 0.10 0.16
Matches are distributed among these distances:
25 13 0.06
27 2 0.01
28 3 0.01
29 2 0.01
30 6 0.03
31 3 0.01
32 82 0.38
33 9 0.04
34 98 0.45
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (33 bp):
ACATAACTTACATAACTTACATAATACATACTT
Done.