Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 102 of 311
Found at i:33442449 original size:30 final size:28
Alignment explanation
Indices: 33442396--33442451 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
33442386 TTCTTCCACG
* *
33442396 CTTTCTTTTTGCTCACTCTCTTTTTCAA
1 CTTTCTTTTTGCACACACTCTTTTTCAA
33442424 CTTTACTTTCTTGCACACACTCTTTTTC
1 CTTT-CTTT-TTGCACACACTCTTTTTC
33442452 TTTTTCGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.12, C:0.30, G:0.04, T:0.54
Consensus pattern (28 bp):
CTTTCTTTTTGCACACACTCTTTTTCAA
Found at i:33443516 original size:18 final size:19
Alignment explanation
Indices: 33443474--33443514 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
33443464 TATGTTCAAA
33443474 TTTTCAGATTTTGTTTTTT
1 TTTTCAGATTTTGTTTTTT
33443493 TTTTCAGATTTTGTTTTTT
1 TTTTCAGATTTTGTTTTTT
33443512 TTT
1 TTT
33443515 CAAAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.10, C:0.05, G:0.10, T:0.76
Consensus pattern (19 bp):
TTTTCAGATTTTGTTTTTT
Found at i:33443524 original size:20 final size:18
Alignment explanation
Indices: 33443474--33443528 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
33443464 TATGTTCAAA
*
33443474 TTTTCAGATTTTGTTTTTT
1 TTTTCAAATTTTG-TTTTT
*
33443493 TTTTCAGATTTTGTTTTT
1 TTTTCAAATTTTGTTTTT
33443511 TTTTCAAAATTTTTGTTT
1 TTTTC-AAA-TTTTGTTT
33443529 GAAATTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 10 0.30
19 15 0.45
20 8 0.24
ACGTcount: A:0.15, C:0.05, G:0.09, T:0.71
Consensus pattern (18 bp):
TTTTCAAATTTTGTTTTT
Found at i:33443841 original size:29 final size:29
Alignment explanation
Indices: 33443775--33443831 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
33443765 GATTCAAAGA
*
33443775 TGGGTTTATGGAGATGAAGTTTATGTAGT
1 TGGGTTTATGGAGATAAAGTTTATGTAGT
* *
33443804 TGGGTTTATGGATATAAAGTTTTTGTAG
1 TGGGTTTATGGAGATAAAGTTTATGTAG
33443832 GTTTGGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.44
Consensus pattern (29 bp):
TGGGTTTATGGAGATAAAGTTTATGTAGT
Found at i:33446500 original size:20 final size:20
Alignment explanation
Indices: 33446482--33446519 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
33446472 AAACGAGCTC
33446482 ATTGAGCTACAAACAAGCTAA
1 ATTGAGCT-CAAACAAGCTAA
33446503 ATTGAGCTC-AACAAGCT
1 ATTGAGCTCAAACAAGCT
33446520 GGAACCGAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 1 0.06
21 8 0.47
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (20 bp):
ATTGAGCTCAAACAAGCTAA
Found at i:33450423 original size:22 final size:21
Alignment explanation
Indices: 33450397--33450450 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 21
33450387 ACATACAAGG
*
33450397 GGAGCATTATTCTTC-ATTAAAA
1 GGAGCATTA-TCATCAATT-AAA
33450419 GGAGCTATTATCATCAATTAAA
1 GGAGC-ATTATCATCAATTAAA
33450441 GAGAGCATTA
1 G-GAGCATTA
33450451 CACATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (21 bp):
GGAGCATTATCATCAATTAAA
Found at i:33451309 original size:14 final size:14
Alignment explanation
Indices: 33451262--33451309 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
33451252 GTACGAATGG
33451262 AATGGTAGGAACAA
1 AATGGTAGGAACAA
*
33451276 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
33451290 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
33451304 ATTGGT
1 AATGGT
33451310 CGGTTTAGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.46, C:0.06, G:0.29, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:33457229 original size:23 final size:22
Alignment explanation
Indices: 33457178--33457229 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
33457168 CCTCATCCTT
*
33457178 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
33457200 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
33457223 TTCTTTT
1 TTCTTTT
33457230 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:33457244 original size:18 final size:18
Alignment explanation
Indices: 33457223--33457306 Score: 55
Period size: 18 Copynumber: 4.5 Consensus size: 18
33457213 TTTCTTCAAC
33457223 TTCTTTTTCAATTTTCTT
1 TTCTTTTTCAATTTTCTT
* *
33457241 TTCTGTTTCACA-TTCCTT
1 TTCTTTTTCA-ATTTTCTT
* * *
33457259 TTCTCTCTCAATCTTTTTT
1 TTCTTTTTCAAT-TTTCTT
*
33457278 TGCTCTTTTTC-ATTCTCTTT
1 T--TCTTTTTCAATTTTC-TT
33457298 TTCTTTTTC
1 TTCTTTTTC
33457307 CTCACTTGTT
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
17 1 0.02
18 30 0.60
19 8 0.16
20 5 0.10
21 6 0.12
ACGTcount: A:0.08, C:0.24, G:0.02, T:0.65
Consensus pattern (18 bp):
TTCTTTTTCAATTTTCTT
Found at i:33463901 original size:14 final size:14
Alignment explanation
Indices: 33463854--33463901 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
33463844 GTACGAATGG
*
33463854 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
33463868 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
33463882 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
33463896 ATTGGT
1 AATGGT
33463902 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:33465789 original size:30 final size:30
Alignment explanation
Indices: 33465755--33465849 Score: 102
Period size: 30 Copynumber: 3.2 Consensus size: 30
33465745 AGCTCACTCC
33465755 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
33465785 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
33465815 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
33465845 TAGCT
1 TAGCT
33465850 AATTTTAGTT
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:33471618 original size:12 final size:13
Alignment explanation
Indices: 33471603--33471631 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
33471593 TATTTTTATT
33471603 TTTATTTACTTA-
1 TTTATTTACTTAG
33471615 TTTATTTACTTAG
1 TTTATTTACTTAG
33471628 TTTA
1 TTTA
33471632 AATTTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.66
Consensus pattern (13 bp):
TTTATTTACTTAG
Found at i:33475406 original size:11 final size:11
Alignment explanation
Indices: 33475379--33475413 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
33475369 GTTGTAAAGT
33475379 TTTATT-TTTA
1 TTTATTATTTA
33475389 TTT-TTATTTA
1 TTTATTATTTA
33475399 TTTATTATTTA
1 TTTATTATTTA
33475410 TTTA
1 TTTA
33475414 CTTAGTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.09
10 10 0.43
11 11 0.48
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:33492636 original size:21 final size:20
Alignment explanation
Indices: 33492600--33492648 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
33492590 ATCAGCTCAC
* *
33492600 TTGAGCTCGTTTTAGCTTGT
1 TTGAGCTCGATTTAGCTCGT
33492620 TTGAGCTCGAATTTAGCTCGT
1 TTGAGCTCG-ATTTAGCTCGT
*
33492641 TTCAGCTC
1 TTGAGCTC
33492649 ATTCCTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.14, C:0.20, G:0.22, T:0.43
Consensus pattern (20 bp):
TTGAGCTCGATTTAGCTCGT
Found at i:33492891 original size:13 final size:13
Alignment explanation
Indices: 33492873--33492901 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
33492863 AATAGTTGTG
33492873 TGTTATTTAATTA
1 TGTTATTTAATTA
33492886 TGTTATTTAATTA
1 TGTTATTTAATTA
33492899 TGT
1 TGT
33492902 AGGTTAGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:33499380 original size:13 final size:13
Alignment explanation
Indices: 33499362--33499390 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
33499352 AATAGTTGTG
33499362 TGTTATTTAATTA
1 TGTTATTTAATTA
33499375 TGTTATTTAATTA
1 TGTTATTTAATTA
33499388 TGT
1 TGT
33499391 AGGTTAGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:33503840 original size:16 final size:16
Alignment explanation
Indices: 33503819--33503855 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
33503809 TTAAAAAAAT
33503819 ATAATCATGTGGATTG
1 ATAATCATGTGGATTG
33503835 ATAATCATGTGGATTG
1 ATAATCATGTGGATTG
33503851 ATAAT
1 ATAAT
33503856 AGCGATTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (16 bp):
ATAATCATGTGGATTG
Found at i:33508989 original size:29 final size:29
Alignment explanation
Indices: 33508956--33509012 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
33508946 ATAACCAAAC
*
33508956 CTACAAAAACTTTATATCCATAAACCCAA
1 CTACAAAAACTTCATATCCATAAACCCAA
*
33508985 CTACATAAACTTCATATCCATAAACCCA
1 CTACAAAAACTTCATATCCATAAACCCA
33509013 TCTTTGAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.25
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAA
Found at i:33513348 original size:20 final size:20
Alignment explanation
Indices: 33513325--33513372 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
33513315 AGCTCCGTCC
33513325 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
33513345 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
33513365 AGCTCAAC
1 AGCTCAAC
33513373 CGAGCTTGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:33513557 original size:22 final size:21
Alignment explanation
Indices: 33513526--33513570 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
33513516 TTATGTCTAA
*
33513526 ATTTAATTATTGCTTTTAAATT
1 ATTTAATTATT-ATTTTAAATT
*
33513548 ATTTAGTTATTATTTTAAATT
1 ATTTAATTATTATTTTAAATT
33513569 AT
1 AT
33513571 AATTATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
ATTTAATTATTATTTTAAATT
Found at i:33515722 original size:46 final size:45
Alignment explanation
Indices: 33515669--33515843 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
33515659 TGTTTGGGCA
33515669 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-ATGCGAATG
* * * *
33515715 TCCGAACTCGTTGAGTTGAGTCCGTGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAA-T--G
* * *
33515760 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATG
* * *
33515808 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
33515844 GGCGGGTTAC
Statistics
Matches: 106, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 59 0.56
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAATG
Found at i:33515824 original size:93 final size:93
Alignment explanation
Indices: 33515665--33515837 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
33515655 AGGATGTTTG
* * * *
33515665 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGAATACGAACGCCCGAACTCGTTGAG
*
33515730 TTGAGTCCGTGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
33515758 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATACGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGAATACGAACGCCCGAACTCGTTGAG
33515823 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
33515838 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGAATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:33519757 original size:30 final size:30
Alignment explanation
Indices: 33519723--33519819 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
33519713 TAAACTAAAA
33519723 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
33519753 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
33519783 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
33519813 TGAGCTA
1 TGAGCTA
33519820 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:33519861 original size:20 final size:21
Alignment explanation
Indices: 33519836--33519880 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
33519826 AGCTTGGTTT
*
33519836 AGCTCAGACAAGATGGA-TTG
1 AGCTCAAACAAGATGGATTTG
* *
33519856 AGCTCAAATAAGCTGGATTTG
1 AGCTCAAACAAGATGGATTTG
33519877 AGCT
1 AGCT
33519881 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (21 bp):
AGCTCAAACAAGATGGATTTG
Found at i:33529989 original size:20 final size:20
Alignment explanation
Indices: 33529951--33529989 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33529941 GAGCTGGAAC
**
33529951 TGAGCTGGATGTGAACTTGT
1 TGAGCTGGAACTGAACTTGT
*
33529971 TGAGCTGGAACTGAGCTTG
1 TGAGCTGGAACTGAACTTG
33529990 CTAAGCTGGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.31
Consensus pattern (20 bp):
TGAGCTGGAACTGAACTTGT
Found at i:33530304 original size:56 final size:55
Alignment explanation
Indices: 33530218--33530367 Score: 228
Period size: 56 Copynumber: 2.7 Consensus size: 55
33530208 GGCCGTATCA
* *
33530218 TTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATAAAACGTGGTC
1 TTACTCGCACACATATAT-AGAGTCACATATCGATGCCAACGTATAAAACATGGTC
*
33530274 TTACTCGCACACATATAGTAGAGTCACATATTGATGCCAACGTATAAAACATGGTC
1 TTACTCGCACACATATA-TAGAGTCACATATCGATGCCAACGTATAAAACATGGTC
* *
33530330 TTACTCGCACACATATATCGAAATCACATATCGATGCC
1 TTACTCGCACACATATATAG-AGTCACATATCGATGCC
33530368 TCATATACAT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
55 2 0.02
56 83 0.97
57 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (55 bp):
TTACTCGCACACATATATAGAGTCACATATCGATGCCAACGTATAAAACATGGTC
Found at i:33534128 original size:27 final size:26
Alignment explanation
Indices: 33534098--33534234 Score: 148
Period size: 27 Copynumber: 5.1 Consensus size: 26
33534088 AGCGTCCTGA
33534098 TGGCTATGCCACAATTATCTGATCTGG
1 TGGCTATGCCAC-ATTATCTGATCTGG
* * *
33534125 TGGCTTTGCCACATATATCTGTTCTGT
1 TGGCTATGCCACAT-TATCTGATCTGG
33534152 TGGCTATGCCACGATTATCTGATCTGG
1 TGGCTATGCCAC-ATTATCTGATCTGG
* * *
33534179 TGGCTCTACCACATATATCTGTTCTGG
1 TGGCTATGCCACAT-TATCTGATCTGG
* * *
33534206 TGGCTCTGCCACAATATCTATATCTGG
1 TGGCTATGCCACATTATCT-GATCTGG
33534233 TG
1 TG
33534235 ACTTCGTCAC
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
26 9 0.10
27 82 0.88
28 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
TGGCTATGCCACATTATCTGATCTGG
Found at i:33534180 original size:54 final size:53
Alignment explanation
Indices: 33534098--33534252 Score: 195
Period size: 54 Copynumber: 2.9 Consensus size: 53
33534088 AGCGTCCTGA
*
33534098 TGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTCTGT
1 TGGCTATGCCAC-ATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTCTGG
* *
33534152 TGGCTATGCCACGATTATCTGATCTGGTGGCTCTACCACATATATCTGTTCTGG
1 TGGCTATGCCAC-ATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTCTGG
* * * * * *
33534206 TGGCTCTGCCACAATATCTATATCTGGTGACTTCGTCACA-ATATCTG
1 TGGCTATGCCACATTATCT-GATCTGGTGGCTTTGCCACATATATCTG
33534253 GCAGCCTCGC
Statistics
Matches: 88, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 13 0.15
54 75 0.85
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (53 bp):
TGGCTATGCCACATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTCTGG
Found at i:33547321 original size:17 final size:19
Alignment explanation
Indices: 33547301--33547338 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
33547291 TAGGGGAAGG
33547301 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
33547318 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
33547337 AA
1 AA
33547339 TTAAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:33556805 original size:74 final size:74
Alignment explanation
Indices: 33556684--33556831 Score: 278
Period size: 74 Copynumber: 2.0 Consensus size: 74
33556674 TACTTCAACC
* *
33556684 AAACTAAATAGCACATAATAGGAAGGAACAAAAAGTTTAGTAGAGAACTCAGAACATTCACCAAA
1 AAACTAAATAGCACATAATAGGAAGAAACAAAAAGTTTAGTAGAGAACTCAAAACATTCACCAAA
33556749 AGCTCAGCT
66 AGCTCAGCT
33556758 AAACTAAATAGCACATAATAGGAAGAAACAAAAAGTTTAGTAGAGAACTCAAAACATTCACCAAA
1 AAACTAAATAGCACATAATAGGAAGAAACAAAAAGTTTAGTAGAGAACTCAAAACATTCACCAAA
33556823 AGCTCAGCT
66 AGCTCAGCT
33556832 TTACACCAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.50, C:0.18, G:0.15, T:0.18
Consensus pattern (74 bp):
AAACTAAATAGCACATAATAGGAAGAAACAAAAAGTTTAGTAGAGAACTCAAAACATTCACCAAA
AGCTCAGCT
Found at i:33559287 original size:2 final size:2
Alignment explanation
Indices: 33559280--33559305 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33559270 TACAAAGTTT
33559280 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
33559306 CAGATTCAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:33571686 original size:23 final size:23
Alignment explanation
Indices: 33571659--33571785 Score: 132
Period size: 23 Copynumber: 5.4 Consensus size: 23
33571649 ATAGCTCGTA
*
33571659 AGAGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCAAT
* * * * *
33571682 GGAGCTTACCGATCCAGCTCAAA
1 AGAGCTTACTGTTTCAGCTCAAT
33571705 AGAGCTTACTG-TTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
33571727 AGAGCTTACCAT-TTTCAGCTCAAT
1 AGAGCTTA-C-TGTTTCAGCTCAAT
*
33571751 AGAGCTTACTGTTTATCAGCTCAGT
1 AGAGCTTACTG-TT-TCAGCTCAAT
33571776 AAGAGCTTAC
1 -AGAGCTTAC
33571786 CGACCATGAC
Statistics
Matches: 86, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
22 18 0.21
23 28 0.33
24 22 0.26
25 9 0.10
26 9 0.10
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:33571746 original size:46 final size:46
Alignment explanation
Indices: 33571658--33571788 Score: 158
Period size: 46 Copynumber: 2.8 Consensus size: 46
33571648 CATAGCTCGT
* *
33571658 AAGAGCTTACTGTTTCAGCTCATTGGAGCTTACCGATCCAGCTCAA
1 AAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGATCCAGCTCAA
*
33571704 AAGAGCTTACTG-TTCAGCTCAATAGAGCTTACC-ATTTTCAGCTCAA
1 AAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGA--TCCAGCTCAA
* *
33571750 TAGAGCTTACTGTTTATCAGCTCAGTAAGAGCTTACCGA
1 AAGAGCTTACTG-TT-TCAGCTCAAT-AGAGCTTACCGA
33571789 CCATGACTTG
Statistics
Matches: 73, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
44 1 0.01
45 19 0.26
46 32 0.44
48 1 0.01
49 9 0.12
50 10 0.14
51 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (46 bp):
AAGAGCTTACTGTTTCAGCTCAATAGAGCTTACCGATCCAGCTCAA
Found at i:33571748 original size:24 final size:24
Alignment explanation
Indices: 33571670--33571786 Score: 107
Period size: 24 Copynumber: 4.9 Consensus size: 24
33571660 GAGCTTACTG
* *
33571670 TTTCAGCTCATTGGAGCTTACCGA-
1 TTTCAGCTCAATAGAGCTTACC-AT
* *
33571694 -TCCAGCTCAAAAGAGCTTA-C-T
1 TTTCAGCTCAATAGAGCTTACCAT
*
33571715 GTTCAGCTCAATAGAGCTTACCAT
1 TTTCAGCTCAATAGAGCTTACCAT
**
33571739 TTTCAGCTCAATAGAGCTTACTGT
1 TTTCAGCTCAATAGAGCTTACCAT
*
33571763 TTATCAGCTCAGTAAGAGCTTACC
1 TT-TCAGCTCAAT-AGAGCTTACC
33571787 GACCATGACT
Statistics
Matches: 76, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
22 18 0.24
23 16 0.21
24 24 0.32
25 9 0.12
26 9 0.12
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (24 bp):
TTTCAGCTCAATAGAGCTTACCAT
Found at i:33580729 original size:19 final size:19
Alignment explanation
Indices: 33580705--33580742 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
33580695 GAAATGATAG
*
33580705 ATAAATGAAAAGTCAAAAT
1 ATAAATGAAAAATCAAAAT
33580724 ATAAATGAAAAATCAAAAT
1 ATAAATGAAAAATCAAAAT
33580743 TTGGGCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (19 bp):
ATAAATGAAAAATCAAAAT
Found at i:33586589 original size:27 final size:27
Alignment explanation
Indices: 33586558--33586609 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
33586548 ACAAGTGAGG
33586558 AAAAAGAAAAAGAGAATGAAAAAGAGC
1 AAAAAGAAAAAGAGAATGAAAAAGAGC
* ** *
33586585 AAAAAGAGATTGAGAGTGAAAAAGA
1 AAAAAGAAAAAGAGAATGAAAAAGA
33586610 ATGTGAAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.65, C:0.02, G:0.25, T:0.08
Consensus pattern (27 bp):
AAAAAGAAAAAGAGAATGAAAAAGAGC
Found at i:33599729 original size:25 final size:25
Alignment explanation
Indices: 33599694--33599741 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
33599684 GGGCGTGTGA
33599694 CCTTAACAGTTTTGAAAGATTTGGT
1 CCTTAACAGTTTTGAAAGATTTGGT
*
33599719 CCTTAATAGTTTTGAAAGATTTG
1 CCTTAACAGTTTTGAAAGATTTG
33599742 ATTAAGTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (25 bp):
CCTTAACAGTTTTGAAAGATTTGGT
Found at i:33606562 original size:39 final size:40
Alignment explanation
Indices: 33606485--33606591 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
33606475 TAGCTCCTCG
* * *
33606485 TTCAAGTGCCTTCGGGACATAGCCC-GATTATATTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATATAAACTCA
* *
33606525 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
**
33606564 CACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
33606592 ATTAGTATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 23 0.40
40 35 0.60
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
Found at i:33606630 original size:80 final size:80
Alignment explanation
Indices: 33606531--33606711 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
33606521 CTCATTCAAT
* * *
33606531 GCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-A
1 GCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA
*
33606593 TTAGT-A-TCTCGCACAAA
64 -TAGTCACT-TAGCACAAA
**
33606610 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATAT
1 -GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAACCCGGATAT
33606675 AGTCACTTAGCACAAA
65 AGTCACTTAGCACAAA
*
33606691 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
33606712 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:33606671 original size:40 final size:40
Alignment explanation
Indices: 33606528--33606711 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
33606518 TAACTCATTC
* *
33606528 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
33606568 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
33606608 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
33606648 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
33606689 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33606712 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:33612530 original size:43 final size:45
Alignment explanation
Indices: 33612399--33612544 Score: 130
Period size: 43 Copynumber: 3.4 Consensus size: 45
33612389 CAATGCCGAC
* * * *
33612399 GTCCCGGACGTGGTC-T-TACATGTAAT-TCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTATACATGAAATCTC-ATATCGATGCCTGT
* *
33612442 GTCCCAGACATGGTC-T-TACATGAAATCTGATAT-GATG-TTGAT
1 GTCCCAGACATGGTCTTATACATGAAATCTCATATCGATGCCTG-T
*
33612484 GTCCCAGACATGGTCTTATACAT-AAATCTCA-ATCGAGGCCTGT
1 GTCCCAGACATGGTCTTATACATGAAATCTCATATCGATGCCTGT
* *
33612527 GTCCTAGACACGGTCTTA
1 GTCCCAGACATGGTCTTA
33612545 CACGATGTCT
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 22 0.26
43 55 0.64
44 8 0.09
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (45 bp):
GTCCCAGACATGGTCTTATACATGAAATCTCATATCGATGCCTGT
Found at i:33616139 original size:30 final size:30
Alignment explanation
Indices: 33616103--33616162 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
33616093 GGACAATTCA
33616103 AGAGTCATTTTTCAAGAATTTACGGTCATT
1 AGAGTCATTTTTCAAGAATTTACGGTCATT
*
33616133 AGAGTCATTTTTCAAGCATTTACGGTCATT
1 AGAGTCATTTTTCAAGAATTTACGGTCATT
33616163 CATTCAGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (30 bp):
AGAGTCATTTTTCAAGAATTTACGGTCATT
Found at i:33620706 original size:35 final size:35
Alignment explanation
Indices: 33620668--33620831 Score: 188
Period size: 35 Copynumber: 4.7 Consensus size: 35
33620658 TCCATGGCAA
* *
33620668 AGTTGTGAAACGTAGGTATGGTATCATCCATACTA
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
*
33620703 AGTTGTGAAA-GATAGGTATGGTATTAACCATACTG
1 AGTTGTGAAACG-TAGGTATGGTATTATCCATACTG
* *
33620738 AGTTTTGAAACATAGGTATGGTATTATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
** * * * *
33620773 AGTTAAGAAATGTAGGTATGGCATT-CCCATACCG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
* *
33620807 AGTTGTTAAATGTAGGTATGGTATT
1 AGTTGTGAAACGTAGGTATGGTATT
33620832 TCAATGAGGA
Statistics
Matches: 110, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
34 29 0.26
35 81 0.74
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (35 bp):
AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
Found at i:33622795 original size:24 final size:24
Alignment explanation
Indices: 33622768--33622835 Score: 118
Period size: 24 Copynumber: 2.8 Consensus size: 24
33622758 CATAATCGGA
33622768 AAGTTCACAAAGAACCATATCGAG
1 AAGTTCACAAAGAACCATATCGAG
* *
33622792 AAGTTCACAAAGAATCATATCGGG
1 AAGTTCACAAAGAACCATATCGAG
33622816 AAGTTCACAAAGAACCATAT
1 AAGTTCACAAAGAACCATAT
33622836 TGGCAAACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.19
Consensus pattern (24 bp):
AAGTTCACAAAGAACCATATCGAG
Found at i:33625806 original size:33 final size:33
Alignment explanation
Indices: 33625768--33625830 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
33625758 GATTACTCAC
33625768 TTCACTCG-TTTCTTTT-ACAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
33625801 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
33625831 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:33625857 original size:21 final size:21
Alignment explanation
Indices: 33625828--33625883 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
33625818 CAAGCTCTCT
*
33625828 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
33625849 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
33625870 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
33625884 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:33625870 original size:18 final size:18
Alignment explanation
Indices: 33625845--33625983 Score: 116
Period size: 18 Copynumber: 7.4 Consensus size: 18
33625835 TCTTTTTTCG
33625845 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTCAA-TTT
* **
33625864 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCAATTT
* ** *
33625884 CTCTCACTTTTTCGATTT
1 CTTTTTCTTTTTCAATTT
*
33625902 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCAATTT
*
33625920 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCAATTT
**
33625938 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCAATTT
*
33625956 CTTTTTGTTTTCTTTCAATTT
1 C-TTTT-TCTT-TTTCAATTT
33625977 CTTTTTC
1 CTTTTTC
33625984 AATCTCTTTC
Statistics
Matches: 94, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
18 56 0.60
19 8 0.09
20 14 0.15
21 16 0.17
ACGTcount: A:0.08, C:0.19, G:0.04, T:0.70
Consensus pattern (18 bp):
CTTTTTCTTTTTCAATTT
Found at i:33625876 original size:14 final size:14
Alignment explanation
Indices: 33625827--33625883 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
33625817 TCAAGCTCTC
33625827 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
33625840 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
33625854 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
33625868 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
33625882 TT
1 TT
33625884 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:33625983 original size:6 final size:6
Alignment explanation
Indices: 33625845--33625970 Score: 83
Period size: 6 Copynumber: 20.7 Consensus size: 6
33625835 TCTTTTTTCG
* * * **
33625845 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** * **
33625896 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTG CAATTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
* *
33625944 CTTTTT CGTTTT CTTTTT -GTTTT CTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTT
33625971 CAATTTCTTT
Statistics
Matches: 86, Mismatches: 31, Indels: 6
0.70 0.25 0.05
Matches are distributed among these distances:
5 4 0.05
6 70 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:33634343 original size:17 final size:16
Alignment explanation
Indices: 33634317--33634348 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
33634307 TGTAAAAGTG
33634317 GAGTTCTAATAGCTAA
1 GAGTTCTAATAGCTAA
33634333 GAGTATCTAATAGCTA
1 GAGT-TCTAATAGCTA
33634349 TAGAACCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (16 bp):
GAGTTCTAATAGCTAA
Found at i:33635738 original size:19 final size:20
Alignment explanation
Indices: 33635707--33635744 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
33635697 TTTGTAGTTA
33635707 ATGTGTACATGGTT-TTTTC
1 ATGTGTACATGGTTATTTTC
33635726 ATGTGTA-ATTGGTTATTTT
1 ATGTGTACA-TGGTTATTTT
33635745 ACATTTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.06
19 12 0.71
20 4 0.24
ACGTcount: A:0.18, C:0.05, G:0.21, T:0.55
Consensus pattern (20 bp):
ATGTGTACATGGTTATTTTC
Found at i:33639869 original size:66 final size:66
Alignment explanation
Indices: 33639763--33639891 Score: 249
Period size: 66 Copynumber: 2.0 Consensus size: 66
33639753 GTGTGTCTAG
33639763 ACCGTGTCAAACCTGTAGTGTATATTGACTTAATTTGAAAGGGTACCCCAAGGGACACAAGGCTA
1 ACCGTGTCAAACCTGTAGTGTATATTGACTTAATTTGAAAGGGTACCCCAAGGGACACAAGGCTA
33639828 C
66 C
*
33639829 ACCGTGTCAAACCTGTAGTGTATATTGACTTAATTTGAAAGGGTACCCCAGGGGACACAAGGC
1 ACCGTGTCAAACCTGTAGTGTATATTGACTTAATTTGAAAGGGTACCCCAAGGGACACAAGGC
33639892 CATGTAGCAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (66 bp):
ACCGTGTCAAACCTGTAGTGTATATTGACTTAATTTGAAAGGGTACCCCAAGGGACACAAGGCTA
C
Found at i:33647341 original size:79 final size:77
Alignment explanation
Indices: 33647241--33647464 Score: 236
Period size: 79 Copynumber: 2.8 Consensus size: 77
33647231 GCTACTCATT
* * *
33647241 CAAACGCCTTCGGGACATAGCCCGATTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGA-TATAGTAACTCGCACAA-TGCCTTCGGGACTTAGCCCGG
*
33647306 ATTTAGTAACTAGCA
63 AATTAGTAACTAGCA
*
33647321 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCC-GATA-TAGTAACTCGCAC-AATGCCTTCGGGACTTAGCCCGG
* *
33647384 AATTAGTATCTCGCA
63 AATTAGTAACTAGCA
* * * * * *
33647399 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGG-GCTTAG-CCCGATATAGTAAC-TCGCACAATGCCTTCGGGACTTAGCCCGG
33647464 A
63 A
33647465 CATCATTCAA
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
78 35 0.29
79 51 0.42
80 36 0.30
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGATATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGAAT
TAGTAACTAGCA
Found at i:33647361 original size:39 final size:40
Alignment explanation
Indices: 33647241--33647464 Score: 253
Period size: 39 Copynumber: 5.7 Consensus size: 40
33647231 GCTACTCATT
* * *
33647241 CAAACGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * * *
33647281 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
33647321 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
33647360 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
33647399 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
33647440 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33647465 CATCATTCAA
Statistics
Matches: 161, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 73 0.45
40 71 0.44
41 15 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:33651113 original size:18 final size:17
Alignment explanation
Indices: 33651090--33651144 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 17
33651080 AATAACTCAT
*
33651090 TTATTAATCTAATATGAG
1 TTATTAA-CTAAGATGAG
*
33651108 TTATTAACTAAGATGAAC
1 TTATTAACTAAGATG-AG
*
33651126 TCAATTAACTAAGATGAG
1 T-TATTAACTAAGATGAG
33651144 T
1 T
33651145 AATTTATTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 7 0.23
18 11 0.35
19 13 0.42
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (17 bp):
TTATTAACTAAGATGAG
Found at i:33651559 original size:17 final size:17
Alignment explanation
Indices: 33651529--33651583 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 17
33651519 AATAACTCAC
33651529 TTATTAATCTAAGATGAG
1 TTATTAA-CTAAGATGAG
*
33651547 TTATTAACTAAGATGAAC
1 TTATTAACTAAGATG-AG
*
33651565 TCAATTAACTAAGATGAG
1 T-TATTAACTAAGATGAG
33651583 T
1 T
33651584 AATTTATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 8 0.25
18 11 0.34
19 13 0.41
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.35
Consensus pattern (17 bp):
TTATTAACTAAGATGAG
Found at i:33651686 original size:439 final size:439
Alignment explanation
Indices: 33650868--33652188 Score: 2462
Period size: 439 Copynumber: 3.0 Consensus size: 439
33650858 AATAAACACA
*
33650868 TTAAAATGAACTTATTAAACAAAATTAACACTAATTAAACTCAAACACATTAAACACTTAACTTC
1 TTAAAATGAACTTATTAAACAAAATTAACACTAATAAAACTCAAACACATTAAACACTTAACTTC
33650933 AATAAATGAACTAAAACTTATTCATCAATTATTCCAGCAACTAGTTTAATTATATGAAACATAAT
66 AATAAATGAACTAAAACTTATTCATCAATTATTCCAGCAACTAGTTTAATTATATGAAACATAAT
33650998 TAATTAAACTTAAACTCATGCATCAATAAATTATCCTAGTAACTAGATTAATTAAAGAAACATCT
131 TAATTAAACTTAAACTCATGCATCAATAAATTATCCTAGTAACTAGATTAATTAAAGAAACATCT
*
33651063 ATTAAATGAAGTTCAATAATAACTCATTTATTAATCTAATATGAGTTATTAACTAAGATGAACTC
196 ATTAAATGAAGTTCAATAATAACTCATTTATTAATCTAAGATGAGTTATTAACTAAGATGAACTC
* *
33651128 AATTAACTAAGATGAGTAATTTATTCAAGCAACTTCATTAAAAATAAAGTCCACCAACTCCATTT
261 AATTAACTAAGATGAGTAATTTATTCAAGCAACTTAATTAAAAATAAAGTCCACCAACTCAATTT
33651193 ATTAACAAACTGAAATTAAACGTCTCATTTTGCACTTGGCCCCTCGAGTTTAGGCCAATCTCGAT
326 ATTAACAAACTGAAATTAAACGTCTCATTTTGCACTTGGCCCCTCGAGTTTAGGCCAATCTCGAT
33651258 GTCGTCAAGATGTATCGAAACATGATGCGACCGGGATCGCATCATCAAT
391 GTCGTCAAGATGTATCGAAACATGATGCGACCGGGATCGCATCATCAAT
* *
33651307 TTAAAATGAACTTATTAAACATAATTAACACTAATAAAACTCAAACACATTAAACACTTAACTTT
1 TTAAAATGAACTTATTAAACAAAATTAACACTAATAAAACTCAAACACATTAAACACTTAACTTC
*
33651372 AATAAATGAACTAAAACTTATTCATCAATTATTCCAACAACTAGTTTAATTATATGAAACATAAT
66 AATAAATGAACTAAAACTTATTCATCAATTATTCCAGCAACTAGTTTAATTATATGAAACATAAT
33651437 TAATTAAACTTAAACTCATGCATCAATAAATTATCCTAGTAACTAGATTAATTAAAGAAACATCT
131 TAATTAAACTTAAACTCATGCATCAATAAATTATCCTAGTAACTAGATTAATTAAAGAAACATCT
*
33651502 ATTAAATGAAGTTCAATAATAACTCACTTATTAATCTAAGATGAGTTATTAACTAAGATGAACTC
196 ATTAAATGAAGTTCAATAATAACTCATTTATTAATCTAAGATGAGTTATTAACTAAGATGAACTC
*
33651567 AATTAACTAAGATGAGTAATTTATTCAAGCAACTTAATTAAAAATAAAGTCCACCAAATCAATTT
261 AATTAACTAAGATGAGTAATTTATTCAAGCAACTTAATTAAAAATAAAGTCCACCAACTCAATTT
33651632 ATTAACAAACTGAAATTAAACGTCTCATTTTGCACTTGGCCCCTCGAGTTTAGGCCAATCTCGAT
326 ATTAACAAACTGAAATTAAACGTCTCATTTTGCACTTGGCCCCTCGAGTTTAGGCCAATCTCGAT
33651697 GTCGTCAAGATGTATCGAAACATGATGCGACCGGGATCGCATCATCAAT
391 GTCGTCAAGATGTATCGAAACATGATGCGACCGGGATCGCATCATCAAT
33651746 TTAAAATGAACTTATTAAACAAAATTAACACTAATAAAACTCAAACACATTAAACACTTAACTTC
1 TTAAAATGAACTTATTAAACAAAATTAACACTAATAAAACTCAAACACATTAAACACTTAACTTC
* *
33651811 AATAAATGAAATAAAACTTATTCATCAATTATTCCAGCAACTAGTTTAATTAAATGAAACATAAT
66 AATAAATGAACTAAAACTTATTCATCAATTATTCCAGCAACTAGTTTAATTATATGAAACATAAT
*
33651876 TAATTAAACTTAAACTCATGCATCAATAAATTATCCTAGTAACTAGATTAATTAAAGAAAAATCT
131 TAATTAAACTTAAACTCATGCATCAATAAATTATCCTAGTAACTAGATTAATTAAAGAAACATCT
33651941 ATTAAATGAAGTTCAATAATAACTCATTTATTAATCTAAGATGAGTTATTAACTAAGATGAACTC
196 ATTAAATGAAGTTCAATAATAACTCATTTATTAATCTAAGATGAGTTATTAACTAAGATGAACTC
* * *
33652006 AATTAACTAAGATGAGTAATTTATTCAAGCAACTCAATTAAAAATAATGTCCAACAACTCAATTT
261 AATTAACTAAGATGAGTAATTTATTCAAGCAACTTAATTAAAAATAAAGTCCACCAACTCAATTT
* *
33652071 ATTAACAAAATAAAATTAAACGTCTCATTTTGCACTTGGTCCCCTCGAGTTTAGGCCAATCTCGA
326 ATTAACAAACTGAAATTAAACGTCTCATTTTGCACTTGG-CCCCTCGAGTTTAGGCCAATCTCGA
* *
33652136 TGTCATCGAGATGTATCGAAACATGATGCGACCGGGATCGCATCATCAAT
390 TGTCGTCAAGATGTATCGAAACATGATGCGACCGGGATCGCATCATCAAT
33652186 TTA
1 TTA
33652189 CCAAAATAAC
Statistics
Matches: 857, Mismatches: 24, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
439 781 0.91
440 76 0.09
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (439 bp):
TTAAAATGAACTTATTAAACAAAATTAACACTAATAAAACTCAAACACATTAAACACTTAACTTC
AATAAATGAACTAAAACTTATTCATCAATTATTCCAGCAACTAGTTTAATTATATGAAACATAAT
TAATTAAACTTAAACTCATGCATCAATAAATTATCCTAGTAACTAGATTAATTAAAGAAACATCT
ATTAAATGAAGTTCAATAATAACTCATTTATTAATCTAAGATGAGTTATTAACTAAGATGAACTC
AATTAACTAAGATGAGTAATTTATTCAAGCAACTTAATTAAAAATAAAGTCCACCAACTCAATTT
ATTAACAAACTGAAATTAAACGTCTCATTTTGCACTTGGCCCCTCGAGTTTAGGCCAATCTCGAT
GTCGTCAAGATGTATCGAAACATGATGCGACCGGGATCGCATCATCAAT
Found at i:33651998 original size:17 final size:17
Alignment explanation
Indices: 33651968--33652022 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 17
33651958 AATAACTCAT
33651968 TTATTAATCTAAGATGAG
1 TTATTAA-CTAAGATGAG
*
33651986 TTATTAACTAAGATGAAC
1 TTATTAACTAAGATG-AG
*
33652004 TCAATTAACTAAGATGAG
1 T-TATTAACTAAGATGAG
33652022 T
1 T
33652023 AATTTATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 8 0.25
18 11 0.34
19 13 0.41
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.35
Consensus pattern (17 bp):
TTATTAACTAAGATGAG
Found at i:33653065 original size:31 final size:31
Alignment explanation
Indices: 33653030--33653089 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
33653020 GATTCAAAGA
*
33653030 TGCTTTCAGACTATCACAGATTTCTTTTAGC
1 TGCTTTCAGACTATCACAGATTACTTTTAGC
33653061 TGCTTTCAGACTATCACAGATTACTTTTA
1 TGCTTTCAGACTATCACAGATTACTTTTA
33653090 CTTTCTCTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.42
Consensus pattern (31 bp):
TGCTTTCAGACTATCACAGATTACTTTTAGC
Found at i:33661323 original size:40 final size:40
Alignment explanation
Indices: 33661229--33661459 Score: 304
Period size: 40 Copynumber: 5.8 Consensus size: 40
33661219 TGGATGAAAA
* ** * *
33661229 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
33661268 CCGGGCTAAGTCCCGAAGGCATCTGTGCGAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
33661308 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAATTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
33661348 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * * *
33661388 CCGGGCTAAGTCCCGAAGGGAATTGTGCAAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
33661428 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
33661460 AGTTATATCC
Statistics
Matches: 170, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 32 0.19
40 136 0.80
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:33664389 original size:30 final size:30
Alignment explanation
Indices: 33664355--33664411 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
33664345 CGAGCCTAGA
*
33664355 GGCAAAAGTGTAATTATGCAAAAGTTTAGG
1 GGCAAAAATGTAATTATGCAAAAGTTTAGG
* *
33664385 GGCAAAAATGTAATTTTGCCAAAGTTT
1 GGCAAAAATGTAATTATGCAAAAGTTT
33664412 GTATTAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (30 bp):
GGCAAAAATGTAATTATGCAAAAGTTTAGG
Found at i:33672836 original size:48 final size:48
Alignment explanation
Indices: 33672760--33672885 Score: 191
Period size: 48 Copynumber: 2.6 Consensus size: 48
33672750 ACCACGATTA
* *
33672760 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGAT
1 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAT
33672808 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAT
1 ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAT
* * *
33672856 ATG-TGTGTCAGTGTAAGACCATATCTGGGA
1 ATGAT-AGCCAGTGTAAGACCATGTCTGGGA
33672886 TATCGCCTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
47 1 0.01
48 71 0.99
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (48 bp):
ATGATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAT
Found at i:33672907 original size:48 final size:49
Alignment explanation
Indices: 33672768--33672941 Score: 149
Period size: 48 Copynumber: 3.6 Consensus size: 49
33672758 TAATGAGAGC
* * * ** * *
33672768 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATA--TGATAGC
1 CAGTGTAAGACCATATCTGGGATATCGCATCGGCATCGATATGTGAT-GT
* * * * *
33672816 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGATATGTG-TGT
1 CAGTGTAAGACCATATCTGGGATATCGCATCGGCATCGATATGTGATGT
* * * *
33672864 CAGTGTAAGACCATATCTGGGATATCGCCTCGGCCTCGGTATGTGATTT
1 CAGTGTAAGACCATATCTGGGATATCGCATCGGCATCGATATGTGATGT
* *
33672913 CA-TGTAAGACCATATCCGGGATATGGCAT
1 CAGTGTAAGACCATATCTGGGATATCGCAT
33672942 TGATATGAGA
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
48 102 0.94
49 5 0.05
50 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (49 bp):
CAGTGTAAGACCATATCTGGGATATCGCATCGGCATCGATATGTGATGT
Found at i:33673002 original size:42 final size:42
Alignment explanation
Indices: 33672915--33673113 Score: 159
Period size: 42 Copynumber: 4.6 Consensus size: 42
33672905 TGTGATTTCA
* * * *
33672915 TGTAAGACCATATCCGGGATATGGCATTGATATGAGATTTCG
1 TGTAAGACCATGTCTGGGACATGGCATTGATATGAGATCTCG
* *
33672957 TGTAAGACCATGTCTGGGACATGGCATTGATGTGAGGTC-CTG
1 TGTAAGACCATGTCTGGGACATGGCATTGATATGAGATCTC-G
* * *
33672999 TGTAAGACCATGTCTGGGACATCGCATTTGCACCGATGTGAGATTTCG
1 TGTAAGACCATGTCTGGGACATGGCA-TT-----GATATGAGATCTCG
* * ** * * * *
33673047 TATAAGACCATATCTGGGATTTGGCATCGATATGTA-AGCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGATATG-AGATCTCG
33673089 TGTAAGACCATGTCTGGGACATGGC
1 TGTAAGACCATGTCTGGGACATGGC
33673114 TTTGGAATAC
Statistics
Matches: 124, Mismatches: 24, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
41 1 0.01
42 87 0.70
43 3 0.02
47 1 0.01
48 31 0.25
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATTGATATGAGATCTCG
Found at i:33673041 original size:90 final size:90
Alignment explanation
Indices: 33672947--33673110 Score: 231
Period size: 90 Copynumber: 1.8 Consensus size: 90
33672937 GGCATTGATA
* * * * * **
33672947 TGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATTGATGTG-AGGTCCTGTGTAAGACCATG
1 TGAGATTTCGTATAAGACCATATCTGGGACATGGCATCGATATGTAAG-CCCATGTAAGACCATG
33673011 TCTGGGACATCGCATTTGCACCGATG
65 TCTGGGACATCGCATTTGCACCGATG
**
33673037 TGAGATTTCGTATAAGACCATATCTGGGATTTGGCATCGATATGTAAGCCCATGTAAGACCATGT
1 TGAGATTTCGTATAAGACCATATCTGGGACATGGCATCGATATGTAAGCCCATGTAAGACCATGT
33673102 CTGGGACAT
66 CTGGGACAT
33673111 GGCTTTGGAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
90 62 0.97
91 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (90 bp):
TGAGATTTCGTATAAGACCATATCTGGGACATGGCATCGATATGTAAGCCCATGTAAGACCATGT
CTGGGACATCGCATTTGCACCGATG
Found at i:33680651 original size:48 final size:48
Alignment explanation
Indices: 33680580--33680679 Score: 182
Period size: 48 Copynumber: 2.1 Consensus size: 48
33680570 GTAATAGCCT
*
33680580 TATATCTCGGAAGTCCCGGGTGACCCTAAGGAGTGCTTAGGATTTGGA
1 TATATCTCGGAAGTCCCGGGTGACCCTAAGGAGTGCTTAGGATTCGGA
*
33680628 TATATCTCGGAAGTCCTGGGTGACCCTAAGGAGTGCTTAGGATTCGGA
1 TATATCTCGGAAGTCCCGGGTGACCCTAAGGAGTGCTTAGGATTCGGA
33680676 TATA
1 TATA
33680680 ATTACACCAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (48 bp):
TATATCTCGGAAGTCCCGGGTGACCCTAAGGAGTGCTTAGGATTCGGA
Found at i:33680878 original size:42 final size:42
Alignment explanation
Indices: 33680826--33680915 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
33680816 TCGGCCTCGG
* *
33680826 TATGTGATTTCATGTAAGACCATATCCGGGATATGGCATTGA
1 TATGAGATTTCATGTAAGACCATATCCGGGACATGGCATTGA
* * *
33680868 TATGAGATTTCGTGTAAGACCATGTCTGGGACATGGCATTGA
1 TATGAGATTTCATGTAAGACCATATCCGGGACATGGCATTGA
*
33680910 TGTGAG
1 TATGAG
33680916 GTCCTGTGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (42 bp):
TATGAGATTTCATGTAAGACCATATCCGGGACATGGCATTGA
Found at i:33680925 original size:42 final size:42
Alignment explanation
Indices: 33680838--33681036 Score: 150
Period size: 42 Copynumber: 4.6 Consensus size: 42
33680828 TGTGATTTCA
* * * *
33680838 TGTAAGACCATATCCGGGATATGGCATTGATATGAGATTTCG
1 TGTAAGACCATGTCTGGGACATGGCATTGATATGAGATCTCG
* *
33680880 TGTAAGACCATGTCTGGGACATGGCATTGATGTGAGGTC-CTG
1 TGTAAGACCATGTCTGGGACATGGCATTGATATGAGATCTC-G
* * * *
33680922 TGTAAGACCATGTCTGGGACATCGCATTTGCACCGATGTGAAATTTCG
1 TGTAAGACCATGTCTGGGACATGGCA-TT-----GATATGAGATCTCG
* * ** * * * *
33680970 TATAAGACCATATCTGGGATTTGGCATCGATATGTA-AGCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGATATG-AGATCTCG
33681012 TGTAAGACCATGTCTGGGACATGGC
1 TGTAAGACCATGTCTGGGACATGGC
33681037 TTTGGAATAC
Statistics
Matches: 123, Mismatches: 25, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
41 1 0.01
42 87 0.71
43 3 0.02
47 1 0.01
48 30 0.24
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATTGATATGAGATCTCG
Found at i:33680946 original size:132 final size:131
Alignment explanation
Indices: 33680789--33681036 Score: 306
Period size: 132 Copynumber: 1.9 Consensus size: 131
33680779 ATGTGTGTCA
* *
33680789 GTGTAAGACCATATCTGGGATATCGC-TTCGGC-CTCGGTATGTG-ATTTCATGTAAGACCATAT
1 GTGTAAGACCATATCTGGGACATCGCATT-GGCAC-C-G-ATGTGAATTTCATATAAGACCATAT
* *** *
33680851 CCGGGATATGGCATTGATATG-AGATTTCGTGTAAGACCATGTCTGGGACATGGCATTGATGTGA
62 CCGGGATATGGCATCGATATGTA-AGCCCATGTAAGACCATGTCTGGGACATGGCATTGATGTGA
33680915 GGTCCT
126 GGTCCT
* * * *
33680921 GTGTAAGACCATGTCTGGGACATCGCATTTGCACCGATGTGAAATTTCGTATAAGACCATATCTG
1 GTGTAAGACCATATCTGGGACATCGCATTGGCACCGATGTG-AATTTCATATAAGACCATATCCG
*
33680986 GGATTTGGCATCGATATGTAAGCCCATGTAAGACCATGTCTGGGACATGGC
65 GGATATGGCATCGATATGTAAGCCCATGTAAGACCATGTCTGGGACATGGC
33681037 TTTGGAATAC
Statistics
Matches: 99, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
130 5 0.05
131 1 0.01
132 89 0.90
133 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (131 bp):
GTGTAAGACCATATCTGGGACATCGCATTGGCACCGATGTGAATTTCATATAAGACCATATCCGG
GATATGGCATCGATATGTAAGCCCATGTAAGACCATGTCTGGGACATGGCATTGATGTGAGGTCC
T
Found at i:33753821 original size:29 final size:29
Alignment explanation
Indices: 33753788--33753861 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
33753778 GTTGTGAGAT
* *
33753788 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
33753817 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
33753846 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
33753862 TGGTTGATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:33761825 original size:29 final size:29
Alignment explanation
Indices: 33761792--33761865 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
33761782 GTTGTGAGAT
* *
33761792 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
33761821 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
33761850 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
33761866 TGGTTGATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:33765625 original size:43 final size:43
Alignment explanation
Indices: 33765463--33765629 Score: 162
Period size: 43 Copynumber: 3.9 Consensus size: 43
33765453 AACTCGTATA
* * ** * *
33765463 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAATG
* * **
33765505 ATGCCGATAG-CCCAG-CTATGGTCTTACACGA-AATCAAATAACA
1 ATGCCAAT-GTCCCAGAC-ATGGTCTTACAC-ATAATCACATAATG
* *
33765548 ATGCCAATGTCCCAGAAATGGTCTTACACGTAATCACATAATG
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAATG
*
33765591 GTGCCAATGTCCCAGACATGGTCTTACACATAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACAT
33765630 CTCGGTAATC
Statistics
Matches: 100, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
42 6 0.06
43 94 0.94
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATAATG
Found at i:33765626 original size:86 final size:85
Alignment explanation
Indices: 33765462--33765619 Score: 212
Period size: 86 Copynumber: 1.8 Consensus size: 85
33765452 TAACTCGTAT
* * * * *
33765462 AATGCCATATCCCAGATATGGTCTTACATGTTATCACATATTGATGCCGATAGCCCAGCTATGGT
1 AATGCCATATCCCAGAAATGGTCTTACACGTAATCACATAATGATGCCAATAGCCCAGCTATGGT
33765527 CTTACACGAAATCAAATAAC
66 CTTACACGAAATCAAATAAC
* *
33765547 AATGCCAATGTCCCAGAAATGGTCTTACACGTAATCACATAATGGTGCCAAT-GTCCCAGAC-AT
1 AATGCC-ATATCCCAGAAATGGTCTTACACGTAATCACATAATGATGCCAATAG-CCCAG-CTAT
33765610 GGTCTTACAC
63 GGTCTTACAC
33765620 ATAATCACAT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
85 7 0.11
86 55 0.87
87 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (85 bp):
AATGCCATATCCCAGAAATGGTCTTACACGTAATCACATAATGATGCCAATAGCCCAGCTATGGT
CTTACACGAAATCAAATAAC
Found at i:33766655 original size:27 final size:26
Alignment explanation
Indices: 33766608--33766658 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
33766598 CGAGGCTGCC
*
33766608 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
33766634 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
33766659 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:33767341 original size:27 final size:27
Alignment explanation
Indices: 33767311--33767479 Score: 196
Period size: 27 Copynumber: 6.3 Consensus size: 27
33767301 GGGCTAAAAT
* * *
33767311 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
33767338 GGTAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
* * *
33767365 AGTATTTCTACCCTACAAGGTTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
33767392 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
33767419 AATAATTCTACCCTACACGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
33767446 GGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
33767473 AGTAATT
1 GGTAATT
33767480 GTACAACTTA
Statistics
Matches: 121, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.02
27 117 0.97
28 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:33767479 original size:54 final size:54
Alignment explanation
Indices: 33767312--33767479 Score: 246
Period size: 54 Copynumber: 3.1 Consensus size: 54
33767302 GGCTAAAATG
* * * *
33767312 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGAGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
33767366 GTATTTCTACCCTACAAGGTTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* * * *
33767420 ATAATTCTACCCTACACGGGTATTTCGGTAATTTTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
33767474 GTAATT
1 GTAATT
33767480 GTACAACTTA
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:33775058 original size:27 final size:27
Alignment explanation
Indices: 33774871--33775068 Score: 202
Period size: 27 Copynumber: 7.4 Consensus size: 27
33774861 GGGAAAAATG
* * * * *
33774871 GTAATTTTACCCCACAAGGGTATCTCT
1 GTAATTCTACCCTACAGGGGTATTTCA
33774898 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
33774924 GTATTTCTACCCTACAAGGATATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
**
33774951 GTAATTCTATGCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
33774977 GATAATTCTACCCTATAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * * * *
33775005 ATAATTCTAACTTATAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
33775032 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
33775059 GTAGTTCTAC
1 GTAATTCTAC
33775069 AACTTATCCA
Statistics
Matches: 142, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
26 24 0.17
27 118 0.83
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:33780927 original size:24 final size:24
Alignment explanation
Indices: 33780900--33781011 Score: 100
Period size: 24 Copynumber: 4.6 Consensus size: 24
33780890 AGAAATTTCA
* *
33780900 GCACTATGTGTGCGAGGTTATACG
1 GCACTATGTGTGCGAGATTACACG
* * * *
33780924 GCACTATGTGTGCAAAAACTACATG
1 GCACTATGTGTGC-GAGATTACACG
* **
33780949 GCACTATGTGTGCGAGATTATATA
1 GCACTATGTGTGCGAGATTACACG
* *
33780973 GCACTATGTGTGTGAGGA-AACACG
1 GCACTATGTGTGCGA-GATTACACG
33780997 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
33781012 ATGAGTAAGA
Statistics
Matches: 69, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
24 49 0.71
25 20 0.29
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (24 bp):
GCACTATGTGTGCGAGATTACACG
Found at i:33780977 original size:49 final size:47
Alignment explanation
Indices: 33780900--33781034 Score: 139
Period size: 49 Copynumber: 2.8 Consensus size: 47
33780890 AGAAATTTCA
* *
33780900 GCACTATGTGTGCGAGGTTATACGGCACTATGTGTGCA-AAAACTACATG
1 GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAGAAAAC-AC--G
* * *
33780949 GCACTATGTGTGCGAGATTATATAGCACTATGTGTGTGAGGAAACACG
1 GCACTATGTGTGCGAGATTATACAGCACTATGTGTG-CAGAAAACACG
* *
33780997 GCACTATGTGTGCGA-ATGAGTAAGAGCACTATGTGTGC
1 GCACTATGTGTGCGAGATTA-T-ACAGCACTATGTGTGC
33781035 GGACCTTTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
47 3 0.04
48 17 0.23
49 47 0.64
50 3 0.04
51 4 0.05
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (47 bp):
GCACTATGTGTGCGAGATTATACAGCACTATGTGTGCAGAAAACACG
Found at i:33782646 original size:40 final size:40
Alignment explanation
Indices: 33782585--33782845 Score: 384
Period size: 40 Copynumber: 6.6 Consensus size: 40
33782575 AACCCAAGTA
* * *
33782585 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * * *
33782624 CCTTCGGGTCTTAACCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
33782664 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
33782704 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
33782744 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
33782784 CCTTTGGAACTTAGCCCGGATATAATC-ATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* *
33782823 CCTTCGGAACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
33782846 CATTCGAATA
Statistics
Matches: 203, Mismatches: 17, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
39 44 0.22
40 156 0.77
41 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:33787976 original size:43 final size:43
Alignment explanation
Indices: 33787929--33788080 Score: 157
Period size: 43 Copynumber: 3.5 Consensus size: 43
33787919 TCCTAGACGT
* * *
33787929 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCTAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAG
* ** *
33787972 GGTCTTACACAAAATCAAATA-CGATGCCGGTGTCCCAGACAT
1 GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAG
* *
33788014 GGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTCCCAGACAT
1 GGTCTTACACG-AAATC-AAATATCGATGCC-ACTGTCCCAGACAG
* *
33788058 GGACTTACACGAAATCACATATC
1 GGTCTTACACGAAATCAAATATC
33788081 AGAAATCTTA
Statistics
Matches: 90, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
42 28 0.31
43 32 0.36
44 30 0.33
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAG
Found at i:33788012 original size:42 final size:42
Alignment explanation
Indices: 33787923--33788074 Score: 144
Period size: 44 Copynumber: 3.5 Consensus size: 42
33787913 CCAACATCCT
* *** * *
33787923 AGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCT
1 AGACATGGTCTTACACAAAATCAAATA-CGATGCCAATGTCCC
* **
33787966 AGACAGGGTCTTACACAAAATCAAATACGATGCCGGTGTCCC
1 AGACATGGTCTTACACAAAATCAAATACGATGCCAATGTCCC
* *
33788008 AGACATGGTCTTACACGTAAATCTCAAAT-CGATGCCAACGTCCC
1 AGACATGGTCTTACAC--AAA-ATCAAATACGATGCCAATGTCCC
* *
33788052 AGACATGGACTTACACGAAATCA
1 AGACATGGTCTTACACAAAATCA
33788075 CATATCAGAA
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 3 0.03
42 29 0.32
43 22 0.24
44 30 0.33
45 6 0.07
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (42 bp):
AGACATGGTCTTACACAAAATCAAATACGATGCCAATGTCCC
Found at i:33788054 original size:44 final size:43
Alignment explanation
Indices: 33787910--33788073 Score: 147
Period size: 42 Copynumber: 3.8 Consensus size: 43
33787900 AGCTTGTACA
* * * * * *
33787910 ATGCCAACATCCTAGACGTGGTCTTACATGTAATC-AAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCTCAA-ATCG
* * *
33787953 ATGCC-ACTGTCCTAGACAGGGTCTTACAC-AAA-ATCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCTCAAAT-CG
***
33787995 ATGCCGGTGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCTCAAATCG
*
33788039 ATGCCAACGTCCCAGACATGGACTTACACGAAATC
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATC
33788074 ACATATCAGA
Statistics
Matches: 98, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.02
42 32 0.33
43 27 0.28
44 31 0.32
45 6 0.06
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCTCAAATCG
Found at i:33795641 original size:42 final size:43
Alignment explanation
Indices: 33795539--33795711 Score: 135
Period size: 43 Copynumber: 4.0 Consensus size: 43
33795529 AGCTTGTACA
* *
33795539 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAATATTG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACATGAAATCAAATATCG
*
33795582 ATGCCACTGTCCTAGACAGGGTCTTACATGAAATCAAATA-CG
1 ATGCCACTGTCCCAGACAGGGTCTTACATGAAATCAAATATCG
* * * *
33795624 ATGCTGA-TGTCCCAGACATGGTCTTACACGTAAATCCCAA-ATCG
1 ATGC-CACTGTCCCAGACAGGGTCTTACATG-AAAT-CAAATATCG
* * * *
33795668 ATGCCAAC-ATCCCAGA-TGTGGTCTTACACGAAATCACATATCG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACATGAAATCAAATATCG
33795711 A
1 A
33795712 AAATCCTATG
Statistics
Matches: 106, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 29 0.27
43 48 0.45
44 29 0.27
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGGGTCTTACATGAAATCAAATATCG
Found at i:33799062 original size:41 final size:43
Alignment explanation
Indices: 33798992--33799072 Score: 98
Period size: 42 Copynumber: 1.9 Consensus size: 43
33798982 CATGCATGGC
* *
33798992 CCATTTTATGTCTTAAAAATGTTCAAATAAA-TATAAAATAAG
1 CCATTTTATGTCATAAAAATGTTCAAATAAAGCATAAAATAAG
33799034 CCATTTTATG-CATAAAAAT-TAT-ATAATAAAGCATAAAAT
1 CCATTTTATGTCATAAAAATGT-TCA-AATAAAGCATAAAAT
33799073 CACATTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
40 2 0.06
41 15 0.44
42 17 0.50
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (43 bp):
CCATTTTATGTCATAAAAATGTTCAAATAAAGCATAAAATAAG
Found at i:33802276 original size:40 final size:40
Alignment explanation
Indices: 33802192--33802375 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
33802182 TCGAATGATG
* * * *
33802192 TCCGGGATAAGTCCCGAAGGC-TTTGTGCTAATTGAC-CAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTT-ACTAAT
** *
33802231 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
33802272 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
33802312 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * * *
33802351 AACCAGGCTATGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCATT
33802376 CGAACGAGTA
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 3 0.02
40 111 0.88
41 12 0.10
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:33802396 original size:80 final size:79
Alignment explanation
Indices: 33802245--33802410 Score: 185
Period size: 80 Copynumber: 2.1 Consensus size: 79
33802235 GGACTAAGAT
* * * * **
33802245 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAATACCAGGCTAAGTCCCGAAGGCATTCGAACGAGTTACTA
*
33802310 ATTCCGGGTTAAGTC
66 ATTCC-GGTTAAATC
* *
33802325 CCGAAGGCATTTGTGCGAGTTACT-ATAACCAGGCTATGTCCCGAAGGCATTCGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCAGGCTAAGTCCCGAAGGCATTCGAACGAGTTA-C
*
33802388 T-ATATCCGGTTAAATT
64 TAAT-TCCGGTTAAATC
33802404 CCGAAGG
1 CCGAAGG
33802411 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 20 0.27
80 53 0.73
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCAGGCTAAGTCCCGAAGGCATTCGAACGAGTTACTA
ATTCCGGTTAAATC
Found at i:33809497 original size:32 final size:33
Alignment explanation
Indices: 33809461--33809526 Score: 125
Period size: 32 Copynumber: 2.0 Consensus size: 33
33809451 CTCACGAAGA
33809461 ACCTGAATATCTCTTAACA-TACTGTCCATATG
1 ACCTGAATATCTCTTAACATTACTGTCCATATG
33809493 ACCTGAATATCTCTTAACATTACTGTCCATATG
1 ACCTGAATATCTCTTAACATTACTGTCCATATG
33809526 A
1 A
33809527 TTTCGTTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 19 0.58
33 14 0.42
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (33 bp):
ACCTGAATATCTCTTAACATTACTGTCCATATG
Found at i:33810475 original size:39 final size:40
Alignment explanation
Indices: 33810369--33810591 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
33810359 GCTACTCGTT
*
33810369 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
33810409 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
33810449 CAAATGCCTTC-GGACTTAACCCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
33810487 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
33810526 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
33810567 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33810592 CATCATTCAA
Statistics
Matches: 164, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
38 36 0.22
39 39 0.24
40 76 0.46
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:33810575 original size:117 final size:119
Alignment explanation
Indices: 33810369--33810591 Score: 294
Period size: 117 Copynumber: 1.9 Consensus size: 119
33810359 GCTACTCGTT
*
33810369 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
33810434 ATTTAGTAACTCGCACAAATGCCTTC-GGACTTAACCCGGATTAGTAACTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
* * **
33810487 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
33810549 GGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
33810592 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
116 4 0.04
117 52 0.57
118 35 0.38
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
Found at i:33818357 original size:40 final size:40
Alignment explanation
Indices: 33818320--33818544 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
33818310 GCTACTCGTT
* *
33818320 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
** *
33818360 CAAATGCCTTCGAAACTTAACCCGGATTTAGTAACTCGAA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
33818400 CAAATGCCTTCGGGATTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
33818440 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
33818479 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
33818520 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
33818545 CATCATTCAA
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 112 0.70
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:33818528 original size:119 final size:120
Alignment explanation
Indices: 33818287--33818544 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 120
33818277 AAATCACGTA
* ** *
33818287 CCTTCGGAATTTAA-CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAG
1 CCTTCGGGATTTAACCCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAG
* *
33818351 TAACTCGCACAAATGCCTTCGAAACTTAACCCGGATTTAGTAACTCGAACAAATG
66 TAACTCGCACAAATGCCTTCGAAACTTAACCCGGATATAGTAACTAGAACAAATG
* *
33818406 CCTTCGGGATTTAACCCGGATTTAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGGATTTAACCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACATAGCCCGGATA-T
* * * ** * * *
33818468 AGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
64 AGTAACTCGCACAAATGCCTTCGAAACTTAACCCGGATATAGTAAC-TAGAACAAATG
* *
33818525 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGATTTAACCCGGA
33818545 CATCATTCAA
Statistics
Matches: 117, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
118 1 0.01
119 81 0.69
120 35 0.30
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (120 bp):
CCTTCGGGATTTAACCCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAG
TAACTCGCACAAATGCCTTCGAAACTTAACCCGGATATAGTAACTAGAACAAATG
Found at i:33822484 original size:55 final size:55
Alignment explanation
Indices: 33822397--33822526 Score: 152
Period size: 55 Copynumber: 2.4 Consensus size: 55
33822387 TGGTCATGGG
* * * * * * *
33822397 CGAACCTGCCAAAATAGCACCGGCGTGCGACACGCCCGTGCCTTGAACCTGTGGC
1 CGAACCTGTCAAATTAACACAGGCATGAGACACGCCCGTGCCTAGAACCTGTGGC
* * *
33822452 CGAACCTGTCAAATTAACACAGGCATGAGACACGCCCGTGTCTAGCACCTGTGGT
1 CGAACCTGTCAAATTAACACAGGCATGAGACACGCCCGTGCCTAGAACCTGTGGC
* *
33822507 CGAACCTATTAAATTAACAC
1 CGAACCTGTCAAATTAACAC
33822527 GGGTATGGGC
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 63 1.00
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (55 bp):
CGAACCTGTCAAATTAACACAGGCATGAGACACGCCCGTGCCTAGAACCTGTGGC
Found at i:33842359 original size:49 final size:50
Alignment explanation
Indices: 33842246--33842371 Score: 141
Period size: 49 Copynumber: 2.5 Consensus size: 50
33842236 GGTGTCAGTA
* *
33842246 TAAGACCATGTCTAGGACATGGCATCGGCACGGATATGTGAGAGCTAATG
1 TAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTGAGAGCTAATG
* * *
33842296 TAAGACCATGTCTGGGACATGGCATCGGC-CTCGAT-T-TGAATAGTTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCAC-CGATATGTG-AGAGCTAATG
* * *
33842345 TAAGACCATTTCTGGAACATGACATCG
1 TAAGACCATGTCTGGGACATGGCATCG
33842372 ACTTGATGGA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
48 2 0.03
49 33 0.50
50 31 0.47
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTGAGAGCTAATG
Found at i:33850413 original size:18 final size:20
Alignment explanation
Indices: 33850390--33850429 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
33850380 GAGGTGGAAA
33850390 TTTTTC-TAT-CACTTCAAT
1 TTTTTCTTATCCACTTCAAT
33850408 TTTTTCTTTATCCACTTCAAT
1 TTTTTC-TTATCCACTTCAAT
33850429 T
1 T
33850430 CATCTATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
20 3 0.16
21 10 0.53
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTTCTTATCCACTTCAAT
Found at i:33864952 original size:53 final size:53
Alignment explanation
Indices: 33864872--33864977 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
33864862 ATGACATGAT
33864872 GAAAATCATCATAATGGATAAGTAATTATGCGTAGATTATCAATAATTACGAA
1 GAAAATCATCATAATGGATAAGTAATTATGCGTAGATTATCAATAATTACGAA
*
33864925 GAAAATCATCATAATGGATAAGTAATTATGCGTAGATTATCAATAATTGCGAA
1 GAAAATCATCATAATGGATAAGTAATTATGCGTAGATTATCAATAATTACGAA
33864978 AATGTAGATT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.30
Consensus pattern (53 bp):
GAAAATCATCATAATGGATAAGTAATTATGCGTAGATTATCAATAATTACGAA
Found at i:33874368 original size:85 final size:85
Alignment explanation
Indices: 33874225--33874403 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
33874215 GGCCGGCCAT
33874225 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
33874290 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
33874310 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
33874375 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
33874395 GGGCATGGG
1 GAGCATGGG
33874404 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:33875778 original size:96 final size:94
Alignment explanation
Indices: 33875671--33876077 Score: 581
Period size: 96 Copynumber: 4.3 Consensus size: 94
33875661 TATTTGAATA
* *
33875671 AATGTGAAAGTGTATTTATGAGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTA-TTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATATA
* *
33875736 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
33875767 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTAT-TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-ATATA
33875832 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
33875863 AATGTGAACATGTGTA-TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGA-GT
1 AATGTGAA-A-GTGTATTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGATAT
*
33875925 ATGTGTGATAAGGCCGAATGGCCAATGTGATG
63 ATATGTGATAAGGCCGAATGGCCAATGTGATG
*
33875957 AATGTGAACATGTGTA-TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-TATA
1 AATGTGAA-A-GTGTATTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATA
*
33876020 TATGTGATAAGGCCGAATGGCTAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
33876051 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTAT-TATGTGATAAG
33876078 TCCCGAAGGG
Statistics
Matches: 289, Mismatches: 14, Indels: 18
0.90 0.04 0.06
Matches are distributed among these distances:
92 5 0.02
93 2 0.01
94 135 0.47
95 2 0.01
96 138 0.48
97 2 0.01
98 5 0.02
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGATATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:33875802 original size:47 final size:47
Alignment explanation
Indices: 33875671--33876077 Score: 588
Period size: 47 Copynumber: 8.6 Consensus size: 47
33875661 TATTTGAATA
* * *
33875671 AATGTGAAAGTGTATTTATGAGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
33875718 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
33875767 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
33875814 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
33875863 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
33875910 AATGTGAACA-TG-AGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTA-TATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
33875957 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
33876004 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCTAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
33876051 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
33876078 TCCCGAAGGG
Statistics
Matches: 337, Mismatches: 15, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
46 1 0.00
47 246 0.73
49 89 0.26
50 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:33876049 original size:22 final size:22
Alignment explanation
Indices: 33875975--33876049 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
33875965 CATGTGTATG
*
33875975 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCTAA
* * **
33875997 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCTA-A
33876022 TGTGATAAGGCCGAATGGCTAA
1 TGTGATAAGGCCGAATGGCTAA
33876044 TGTGAT
1 TGTGAT
33876050 GGATGTGGAA
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 14 0.36
23 9 0.23
24 8 0.21
25 8 0.21
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCTAA
Found at i:33878570 original size:38 final size:38
Alignment explanation
Indices: 33878506--33878580 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
33878496 AATCCGAGTT
*
33878506 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGC
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGC
* *
33878544 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
33878581 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGC
Found at i:33878693 original size:40 final size:40
Alignment explanation
Indices: 33878634--33878834 Score: 269
Period size: 40 Copynumber: 5.0 Consensus size: 40
33878624 AGGTCTCGAC
33878634 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
33878673 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
** *
33878713 GATGTATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * ** * *
33878753 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
33878793 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
33878833 GA
1 GA
33878835 CGTGTATTTG
Statistics
Matches: 143, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 4 0.03
40 139 0.97
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:33881612 original size:10 final size:10
Alignment explanation
Indices: 33881596--33881653 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
33881586 CAACTCCGAC
33881596 CAGCTCAATT
1 CAGCTCAATT
* *
33881606 GAGCTCATTT
1 CAGCTCAATT
33881616 CAGCTCAA-T
1 CAGCTCAATT
33881625 CGAGCTCAATT
1 C-AGCTCAATT
*
33881636 TAGCTACAATT
1 CAGCT-CAATT
33881647 CAGCTCA
1 CAGCTCA
33881654 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:33881619 original size:20 final size:20
Alignment explanation
Indices: 33881596--33881656 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
33881586 CAACTCCGAC
33881596 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
33881616 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
33881637 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
33881657 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:33882991 original size:47 final size:47
Alignment explanation
Indices: 33882937--33883437 Score: 717
Period size: 47 Copynumber: 10.6 Consensus size: 47
33882927 TATTTGAATA
*
33882937 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
33882984 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
33883033 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
33883080 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
33883129 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
33883176 AATGTGAACA-TG-AGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTA-TATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
33883223 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAAGGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
33883270 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
33883317 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
33883364 AATGTGAAAGTGTATATATGTGATAAGGCTGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
33883411 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
33883438 TCCCGAAGGG
Statistics
Matches: 427, Mismatches: 19, Indels: 16
0.92 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 334 0.78
49 91 0.21
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:33883409 original size:22 final size:22
Alignment explanation
Indices: 33883288--33883409 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
33883278 CATGTGTATG
*
33883288 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCTGAATGGCCAA
* *
33883310 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCTG-A-ATGGC-CA-A
* *
33883335 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCTGAATGGCCAA
* ***
33883357 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCTG-AA-TGGCCA-A
33883382 TGTGATAAGGCTGAATGGCCAA
1 TGTGATAAGGCTGAATGGCCAA
33883404 TGTGAT
1 TGTGAT
33883410 GGATGTGGAA
Statistics
Matches: 71, Mismatches: 17, Indels: 24
0.63 0.15 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 16 0.23
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCTGAATGGCCAA
Found at i:33896079 original size:29 final size:29
Alignment explanation
Indices: 33896046--33896119 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
33896036 GTTGTGAGAT
* *
33896046 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
33896075 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
33896104 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
33896120 TGGTTGATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:33904171 original size:29 final size:29
Alignment explanation
Indices: 33904138--33904211 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
33904128 GTTGTGAGAT
* *
33904138 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
33904167 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
33904196 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
33904212 TGGTTGATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:33906147 original size:18 final size:18
Alignment explanation
Indices: 33906111--33906152 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
33906101 TCCTGTTTCC
33906111 TCTAAAAAGAAATGATTT
1 TCTAAAAAGAAATGATTT
33906129 TCCTAAAATAG-AATG-TTT
1 T-CTAAAA-AGAAATGATTT
33906147 TCTAAA
1 TCTAAA
33906153 GCTTCCGCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.23
18 5 0.23
19 10 0.45
20 2 0.09
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (18 bp):
TCTAAAAAGAAATGATTT
Found at i:33918360 original size:50 final size:49
Alignment explanation
Indices: 33918239--33918414 Score: 178
Period size: 50 Copynumber: 3.5 Consensus size: 49
33918229 TGAGGTCGCA
* * * *
33918239 TGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCCGAAAACTG-TGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTA--CATATACC--AGACTGCTGGTCACG
** *
33918290 TGTGTAGTACTAAGTGCAGGCTACTACATATATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATATACCAGACTGCT--GGTCACG
* * * *
33918340 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGCTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATATACCAGACTGCTGGTCACG
33918389 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
33918415 TGCGTACCAG
Statistics
Matches: 107, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
47 2 0.02
48 3 0.03
49 34 0.32
50 39 0.36
51 29 0.27
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATATACCAGACTGCTGGTCACG
Found at i:33918412 original size:49 final size:48
Alignment explanation
Indices: 33918232--33918425 Score: 192
Period size: 49 Copynumber: 3.9 Consensus size: 48
33918222 TCTATTGTGA
* * *
33918232 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC--AGACTGT
* * *** **
33918283 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACATATATTAGA-TGGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GT
* *
33918331 GAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGCT
1 --GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTG-T
* *
33918382 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
33918426 TAGCTTCGGC
Statistics
Matches: 119, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 40 0.34
50 40 0.34
51 34 0.29
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (48 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGT
Found at i:33923724 original size:50 final size:49
Alignment explanation
Indices: 33923607--33923782 Score: 160
Period size: 50 Copynumber: 3.5 Consensus size: 49
33923597 TGAGGTCGCA
* * * *
33923607 TGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCCAAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTA--CATATACC--AGACTGTAGGTCACG
* **
33923658 TGTGCAGTACTAAGTGCAGGCTACTACATATATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATATACCAGACT-GT-AGGTCACG
* * * * * *
33923708 TGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATATACCAGACTGTAGGTCACG
33923757 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
33923783 TGCGTACCAG
Statistics
Matches: 103, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 33 0.32
50 39 0.38
51 26 0.25
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATATACCAGACTGTAGGTCACG
Found at i:33923781 original size:49 final size:49
Alignment explanation
Indices: 33923600--33923793 Score: 176
Period size: 49 Copynumber: 3.9 Consensus size: 49
33923590 TCTATTGTGA
* * *
33923600 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAAAAACTG-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC--AGACTGTT
* * * *** ** *
33923651 GATCACGTGTGCAGTACTAAGTGCAGGCTACTACATATATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GT-T
* * *
33923701 GGTCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
* *
33923750 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
33923794 TAGCTTCGGC
Statistics
Matches: 114, Mismatches: 25, Indels: 10
0.77 0.17 0.07
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 39 0.34
50 39 0.34
51 32 0.28
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
Found at i:33927663 original size:23 final size:23
Alignment explanation
Indices: 33927607--33927664 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
33927597 AGGGTATACT
33927607 TGGTTGTGTTCGAAGGTTACATA
1 TGGTTGTGTTCGAAGGTTACATA
* *
33927630 TAGGGTTGTGTTCGGTAGG-TGCATA
1 T--GGTTGTGTTC-GAAGGTTACATA
33927655 TGGTTGTGTT
1 TGGTTGTGTT
33927665 TGGAGGGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 10 0.33
25 16 0.53
26 4 0.13
ACGTcount: A:0.16, C:0.07, G:0.36, T:0.41
Consensus pattern (23 bp):
TGGTTGTGTTCGAAGGTTACATA
Found at i:33927711 original size:23 final size:22
Alignment explanation
Indices: 33927655--33927712 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
33927645 TAGGTGCATA
33927655 TGGTTGTGTTTGGAGGGTAAAT
1 TGGTTGTGTTTGGAGGGTAAAT
* * * **
33927677 TAGTTGTCTTTGTAGGGTATGTT
1 TGGTTGTGTTTGGAGGGTA-AAT
33927700 TGGTTGTGTTTGG
1 TGGTTGTGTTTGG
33927713 TGGGCTATAG
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.12, C:0.02, G:0.38, T:0.48
Consensus pattern (22 bp):
TGGTTGTGTTTGGAGGGTAAAT
Found at i:33928534 original size:12 final size:13
Alignment explanation
Indices: 33928514--33928554 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
33928504 GATAAAACGG
*
33928514 TTTCCAATAT-CC
1 TTTCAAATATACC
33928526 TTTCAAATATAGCC
1 TTTCAAATATA-CC
33928540 TTTCAAA-ATACC
1 TTTCAAATATACC
33928552 TTT
1 TTT
33928555 TTGCATGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 14 0.54
13 3 0.12
14 9 0.35
ACGTcount: A:0.32, C:0.24, G:0.02, T:0.41
Consensus pattern (13 bp):
TTTCAAATATACC
Found at i:33934301 original size:46 final size:44
Alignment explanation
Indices: 33934239--33934362 Score: 169
Period size: 46 Copynumber: 2.7 Consensus size: 44
33934229 ATCTCGAGGC
*
33934239 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGT-
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AATGTG
* *
33934285 CGATGCATGTCCCAGACATGTCTTAGACTGGCTCTCATAATGTGG
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGT-G
33934330 CCGATGCATGTCCCAGACATGTCTTACACTAGC
1 -CGATGCATGTCCCAGACATGTCTTACACTAGC
33934363 ACACATATCA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
43 5 0.07
44 1 0.01
46 64 0.91
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTG
Found at i:33937582 original size:28 final size:29
Alignment explanation
Indices: 33937534--33937596 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
33937524 GTGACAGAGT
*
33937534 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGATACAGATAATTTGTGGCA-TAGC
33937563 CACCAGA-ACAGATAATTTGTGGCATAGC
1 CACCAGATACAGATAATTTGTGGCATAGC
33937591 CACCAG
1 CACCAG
33937597 GACGCTTCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (29 bp):
CACCAGATACAGATAATTTGTGGCATAGC
Found at i:33937749 original size:28 final size:28
Alignment explanation
Indices: 33937702--33937766 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
33937692 AAATTAACCC
*
33937702 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
33937730 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
33937758 TAGGGGTAT
1 TAGGGGTAT
33937767 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:33941912 original size:43 final size:42
Alignment explanation
Indices: 33941851--33941960 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
33941841 CAATACTGAC
**
33941851 GTCCCAGAC-GTGGTCTTACATGTAATACAG-TATCGATCCCTTT
1 GTCCCAGACAG-GGTCTTACATGTAAT-CAGATA-CGATCCCAGT
*** *
33941894 GTCCCAGACAGGGTCTTACACAAAATCAGATACGATGCCAGT
1 GTCCCAGACAGGGTCTTACATGTAATCAGATACGATCCCAGT
*
33941936 GTCCCAGACATGGTCTTACATGTAA
1 GTCCCAGACAGGGTCTTACATGTAA
33941961 ATCTCAAATC
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 31 0.56
43 23 0.42
44 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACATGTAATCAGATACGATCCCAGT
Done.