Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 130 of 250
Found at i:42008092 original size:47 final size:47
Alignment explanation
Indices: 42008039--42008257 Score: 384
Period size: 47 Copynumber: 4.7 Consensus size: 47
42008029 ACAAGATATG
*
42008039 TATATGTGACAAGGCCTAATGGCCAATGTGATGATTGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
42008086 TATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
42008133 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
42008180 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
42008227 TATATGTGACAAGGCCTAATGGCCAATGTGA
1 TATATGTGACAAGGCCTAATGGCCAATGTGA
42008258 CAGCCCTAAA
Statistics
Matches: 161, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 161 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:42010264 original size:40 final size:40
Alignment explanation
Indices: 42010068--42010250 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
42010058 GAATGATGTT
* * * * *
42010068 CGGGCTATGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAAC
* * *
42010108 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-AC
*
42010148 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
*
42010187 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
*
42010227 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
42010251 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
Found at i:42010272 original size:79 final size:78
Alignment explanation
Indices: 42010068--42010283 Score: 217
Period size: 79 Copynumber: 2.7 Consensus size: 78
42010058 GAATGATGTT
* * *
42010068 CGGGCTATGTCCCGAAGGC-TTTGTGCTAAGT-GACCATATCCGGACTAAGATCCGAAGGCATTT
1 CGGGCTATGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATTT
*
42010131 GTGCGAGATACTAATTC
62 GTGCGAGATACTAATAC
* * *
42010148 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 CGGGCTATGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTTG
*
42010211 TGCGAGTTACT-ATAAC
63 TGCGAGATACTAAT-AC
** *
42010227 CGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CGGGCTATGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
42010284 TACGTGATTT
Statistics
Matches: 113, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
78 3 0.03
79 66 0.58
80 44 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (78 bp):
CGGGCTATGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTGC
GAGATACTAATAC
Found at i:42011907 original size:47 final size:47
Alignment explanation
Indices: 42011634--42011896 Score: 436
Period size: 47 Copynumber: 5.6 Consensus size: 47
42011624 GGGTGTTACA
42011634 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* *
42011681 GCCAATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCTAATG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
*
42011728 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* * *
42011775 GCCAATGTGATGAATGTGAAAGTGTATATATGAGATAAGACCTAATG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* * *
42011822 GCCGATGTGATGGATGTGAAGGTGTATATATGTGATAAGGCCGAATG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
*
42011869 GCCAATGTGATGGATGTGAAAGTGTATA
1 GCCAATGTGATGAATGTGAAAGTGTATA
42011897 AATACGATAA
Statistics
Matches: 199, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 199 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
Found at i:42013900 original size:38 final size:38
Alignment explanation
Indices: 42013855--42013967 Score: 154
Period size: 38 Copynumber: 3.0 Consensus size: 38
42013845 AATCCGGGCT
** *
42013855 TAAAGACCCGATGACTATAAGTAGAGATTGTGTCCGGG
1 TAAAGACCCGATGACTATGTGTAGAGATTATGTCCGGG
* *
42013893 TAAAGACCCGATGACTATGTGTGGAGATTATGCCCGGG
1 TAAAGACCCGATGACTATGTGTAGAGATTATGTCCGGG
* * *
42013931 TAAAGATCCGATGGCTATGTGCAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATGTGTAGAGATTATGTCCGG
42013968 ATTAAAATTC
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (38 bp):
TAAAGACCCGATGACTATGTGTAGAGATTATGTCCGGG
Found at i:42013996 original size:38 final size:38
Alignment explanation
Indices: 42013855--42013997 Score: 126
Period size: 38 Copynumber: 3.8 Consensus size: 38
42013845 AATCCGGGCT
* * ** * * *
42013855 TAAAGACCCGATGACTATAAGTAGAGATTGTGTCCGGG
1 TAAAGATCCGATGGCTATGTGTGGAGATTATGCCCGGG
* *
42013893 TAAAGACCCGATGACTATGTGTGGAGATTATGCCCGGG
1 TAAAGATCCGATGGCTATGTGTGGAGATTATGCCCGGG
** * *
42013931 TAAAGATCCGATGGCTATGTGCAGAGATTATGTCCGGAT
1 TAAAGATCCGATGGCTATGTGTGGAGATTATGCCCGG-G
* * *
42013970 TAAA-ATTCGCTGGCTTTGTGTGGAGATT
1 TAAAGATCCGATGGCTATGTGTGGAGATT
42013998 TCATCCGAGC
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 84 0.95
39 4 0.05
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (38 bp):
TAAAGATCCGATGGCTATGTGTGGAGATTATGCCCGGG
Found at i:42014080 original size:40 final size:40
Alignment explanation
Indices: 42014025--42014215 Score: 301
Period size: 40 Copynumber: 4.8 Consensus size: 40
42014015 CTCGATGATG
* * *
42014025 ATCCGGGTTAAGTCCCAAAGAGCATTTGTGCTGGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
42014065 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
42014105 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
*
42014145 ATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
* * * * *
42014185 ATCCGAGATAAGTCCTGAAGGGCTTTCGTGC
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
42014216 CGATGATGTG
Statistics
Matches: 141, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAC
Found at i:42014426 original size:25 final size:25
Alignment explanation
Indices: 42014384--42014436 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
42014374 TGTGTAATAA
*
42014384 CGAATGAATATAGGCACTATGTGTG
1 CGAATGAATATAGACACTATGTGTG
*
42014409 CGAATGAAT-TGAGACACTGTGTGTG
1 CGAATGAATAT-AGACACTATGTGTG
42014434 CGA
1 CGA
42014437 GATCGGTCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.26
Consensus pattern (25 bp):
CGAATGAATATAGACACTATGTGTG
Found at i:42014457 original size:28 final size:28
Alignment explanation
Indices: 42014421--42014519 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
42014411 AATGAATTGA
42014421 GACACTGTGTGTGCGAGATCGGTCAGTG
1 GACACTGTGTGTGCGAGATCGGTCAGTG
* * ***
42014449 GACACTGTGTGTGCGA-ATTC-TTTAACC
1 GACACTGTGTGTGCGAGA-TCGGTCAGTG
*
42014476 GAGCACTATGTGTGCGAGATCGGTCAGTG
1 GA-CACTGTGTGTGCGAGATCGGTCAGTG
*
42014505 GGCACTGTGTGTGCG
1 GACACTGTGTGTGCG
42014520 GATTTCATTT
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
27 5 0.09
28 45 0.83
29 4 0.07
ACGTcount: A:0.18, C:0.19, G:0.35, T:0.27
Consensus pattern (28 bp):
GACACTGTGTGTGCGAGATCGGTCAGTG
Found at i:42017630 original size:47 final size:47
Alignment explanation
Indices: 42017577--42017943 Score: 626
Period size: 47 Copynumber: 7.8 Consensus size: 47
42017567 ACAAGATATG
*
42017577 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
42017624 TATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
42017671 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
42017718 TATATGTGATAAGGCCGAATGGCCAATGTGATGAACGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
42017765 TATATGTGACAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
42017812 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
42017859 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
42017906 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGT
42017944 TGTTGGTCAT
Statistics
Matches: 298, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 298 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:42017689 original size:94 final size:94
Alignment explanation
Indices: 42017577--42017943 Score: 698
Period size: 94 Copynumber: 3.9 Consensus size: 94
42017567 ACAAGATATG
42017577 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
1 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
*
42017642 GTGGCCAATGTGATGAATGTGAAAGTGTA
66 ATGGCCAATGTGATGAATGTGAAAGTGTA
42017671 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
1 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
*
42017736 ATGGCCAATGTGATGAACGTGAAAGTGTA
66 ATGGCCAATGTGATGAATGTGAAAGTGTA
*
42017765 TATATGTGACAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATATATGTGATAAGGCCGA
1 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
42017830 ATGGCCAATGTGATGAATGTGAAAGTGTA
66 ATGGCCAATGTGATGAATGTGAAAGTGTA
*
42017859 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
1 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
42017924 ATGGCCAATGTGATGAATGT
66 ATGGCCAATGTGATGAATGT
42017944 TGTTGGTCAT
Statistics
Matches: 267, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 267 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (94 bp):
TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
ATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:42019099 original size:47 final size:47
Alignment explanation
Indices: 42018826--42019088 Score: 427
Period size: 47 Copynumber: 5.6 Consensus size: 47
42018816 GGGTGTTACA
42018826 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* *
42018873 GCCAATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCTAATG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
*
42018920 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* * *
42018967 GCCAATGTGATGAATGTGAAAGTGTATATATGAGATAAGACCTAATG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* * * *
42019014 GCCGACGTGATGGATGTGAAGGTGTATATATGTGATAAGGCCGAATG
1 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
*
42019061 GCCAATGTGATGGATGTGAAAGTGTATA
1 GCCAATGTGATGAATGTGAAAGTGTATA
42019089 AATACGATAA
Statistics
Matches: 197, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 197 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
Found at i:42028978 original size:17 final size:19
Alignment explanation
Indices: 42028956--42029001 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
42028946 AAATAATTAA
42028956 AATAAATAAA-A-TAAAAT
1 AATAAATAAAGACTAAAAT
*
42028973 AATAAATGAAAGACTACAAT
1 AATAAAT-AAAGACTAAAAT
42028993 AATAAATAA
1 AATAAATAA
42029002 GAAAATAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 7 0.28
18 3 0.12
19 3 0.12
20 12 0.48
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.22
Consensus pattern (19 bp):
AATAAATAAAGACTAAAAT
Found at i:42036741 original size:48 final size:48
Alignment explanation
Indices: 42036670--42036818 Score: 217
Period size: 48 Copynumber: 3.1 Consensus size: 48
42036660 CATTAGGGTT
*
42036670 ATATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATTG
1 ATATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCG
* * * *
42036718 ATATGTGATCCCACGAAAGACCATGTCTGGGACATGGCATTGGCATCC
1 ATATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCG
* * **
42036766 ATATGTGATCCCATGTAAGACCATTTTTGGGATGTGGCATTGGCATCG
1 ATATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCG
42036814 ATATG
1 ATATG
42036819 GGACATCGTG
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 89 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (48 bp):
ATATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCG
Found at i:42036834 original size:96 final size:94
Alignment explanation
Indices: 42036670--42036903 Score: 246
Period size: 96 Copynumber: 2.5 Consensus size: 94
42036660 CATTAGGGTT
* * * *
42036670 ATATGTGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATTGATATGTGATCCCACGAA
1 ATATGTGATCCCATGTAAGACCATATATGGGATATGGCATTGGCATCGATATGGGATCCCACGAA
* *
42036735 AGACCAT-GTCTGGGAC-ATGGCATTGGCATCC
66 AGACCATAG-CTGGG-CTATCGCATTCG-A-CC
* * * * ** *
42036766 ATATGTGATCCCATGTAAGACCATTTTTGGGATGTGGCATTGGCATCGATATGGGA-CATCGTGT
1 ATATGTGATCCCATGTAAGACCATATATGGGATATGGCATTGGCATCGATATGGGATC-CCACGA
*
42036830 AAGACCATAGCTGGGCTATCGCCTTCGACC
65 AAGACCATAGCTGGGCTATCGCATTCGACC
*
42036860 ---TGTGATCCCATGTAAGACCATATATGGGATATGGCATTGACATC
1 ATATGTGATCCCATGTAAGACCATATATGGGATATGGCATTGGCATC
42036904 TTACTATGTA
Statistics
Matches: 118, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
91 40 0.34
94 2 0.02
95 3 0.03
96 72 0.61
97 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (94 bp):
ATATGTGATCCCATGTAAGACCATATATGGGATATGGCATTGGCATCGATATGGGATCCCACGAA
AGACCATAGCTGGGCTATCGCATTCGACC
Found at i:42040136 original size:25 final size:26
Alignment explanation
Indices: 42040089--42040146 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
42040079 TGTACGATAG
*
42040089 AATTACTGAAATACCCTTAGTTTGCA
1 AATTACTGAAATACCCTTAGTTTACA
* *
42040115 AATTACTG-AATACCTTTGGTTTACA
1 AATTACTGAAATACCCTTAGTTTACA
42040140 AAGTTAC
1 AA-TTAC
42040147 CAACATACCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (26 bp):
AATTACTGAAATACCCTTAGTTTACA
Found at i:42040401 original size:27 final size:27
Alignment explanation
Indices: 42040089--42040511 Score: 282
Period size: 27 Copynumber: 15.7 Consensus size: 27
42040079 TGTACGATAG
* *
42040089 AATTACTGAAATACCCTT-AGTTTG-CA
1 AATTACCGAAATACCCTTGA-TTTGTAA
* * * **
42040115 AATTACTG-AATACCTTTGGTTTACAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * **
42040141 AGTTACC-AACATACCCTCGATTACTAA
1 AATTACCGAA-ATACCCTTGATTTGTAA
* * *
42040168 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
* *
42040195 AATTACCAAAATATCCC-TGATTTGTGA
1 AATTACCGAAATA-CCCTTGATTTGTAA
* **
42040222 AATTACCGAAATACCCTCGACCTGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
* ** * *
42040249 AATTACCAAAATACCCTCAACTTATAA
1 AATTACCGAAATACCCTTGATTTGTAA
** *
42040276 AATTACCGAAATACCCTCAACTTGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * * * *
42040303 AATTATCGAAATTCTCTTGACTTGCAA
1 AATTACCGAAATACCCTTGATTTGTAA
** *
42040330 AATTACTAAAATACCCTCGATTTGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
*
42040357 AATTACCGAAATACCCTTGATTTGAAA
1 AATTACCGAAATACCCTTGATTTGTAA
** **
42040384 AATTACAAAAATACCCTTGATTTACAA
1 AATTACCGAAATACCCTTGATTTGTAA
** *
42040411 AATTATAGAAATAGCCTTGACTTT-TAAA
1 AATTACCGAAATACCCTTGA-TTTGT-AA
** * * *
42040439 AATTATAGAAATACCATTGGTTTGCAA
1 AATTACCGAAATACCCTTGATTTGTAA
* *
42040466 AATTACCGAAATACCCTTGGTTTGTAG
1 AATTACCGAAATACCCTTGATTTGTAA
* * *
42040493 ATTTACCAAAACACCCTTG
1 AATTACCGAAATACCCTTG
42040512 TAGGGTGAAA
Statistics
Matches: 318, Mismatches: 69, Indels: 19
0.78 0.17 0.05
Matches are distributed among these distances:
25 11 0.03
26 18 0.06
27 262 0.82
28 27 0.08
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGATTTGTAA
Found at i:42041921 original size:43 final size:43
Alignment explanation
Indices: 42041874--42041981 Score: 162
Period size: 43 Copynumber: 2.5 Consensus size: 43
42041864 GTGTTGCAGT
* *
42041874 AAGGATTTAGCCTAGACGGGTAATCCGTTGATCCCATGTATAA
1 AAGGATCTAGCCCAGACGGGTAATCCGTTGATCCCATGTATAA
* * * *
42041917 AAGGATCTAGCCCGGACGGGTAATCTGTTGATCTCATTTATAA
1 AAGGATCTAGCCCAGACGGGTAATCCGTTGATCCCATGTATAA
42041960 AAGGATCTAGCCCAGACGGGTA
1 AAGGATCTAGCCCAGACGGGTA
42041982 TTCCTTCAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (43 bp):
AAGGATCTAGCCCAGACGGGTAATCCGTTGATCCCATGTATAA
Found at i:42042331 original size:17 final size:17
Alignment explanation
Indices: 42042309--42042342 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
42042299 AAGATTAATG
42042309 TGACATATATATACAAA
1 TGACATATATATACAAA
42042326 TGACATATATATACAAA
1 TGACATATATATACAAA
42042343 CTTTCATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (17 bp):
TGACATATATATACAAA
Found at i:42043730 original size:41 final size:41
Alignment explanation
Indices: 42043608--42043719 Score: 170
Period size: 41 Copynumber: 2.7 Consensus size: 41
42043598 CAGAGGAAGA
* *
42043608 AATTGAGGATCACATGGTTGCTTGACGACCGTAGATTCACC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTAGATCCACC
* *
42043649 GATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTAGATCCACC
* *
42043690 AATTAAGGATCGCATGGTAGCTTGACGACC
1 AATTGAGGATCGCATGGTTGCTTGACGACC
42043720 ATTTATCCAC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
AATTGAGGATCGCATGGTTGCTTGACGACCGTAGATCCACC
Found at i:42046994 original size:26 final size:27
Alignment explanation
Indices: 42046944--42047015 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
42046934 CCTGTAGGGT
42046944 AGAATTACTGAAATACCCTTAGTTTA-A
1 AGAATTACT-AAATACCCTTAGTTTACA
* *
42046971 AGAATTACTAAATACCTTTGGTTTACA
1 AGAATTACTAAATACCCTTAGTTTACA
*
42046998 A-AATTACCAAAATACCCT
1 AGAATTA-CTAAATACCCT
42047016 CAAATAGTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 19 0.49
27 20 0.51
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (27 bp):
AGAATTACTAAATACCCTTAGTTTACA
Found at i:42047264 original size:27 final size:27
Alignment explanation
Indices: 42046997--42047395 Score: 274
Period size: 27 Copynumber: 14.7 Consensus size: 27
42046987 TTTGGTTTAC
** * *
42046997 AAAATTACCAAAATACCCTCAAATAGT
1 AAAATTACCAAAATACCCTTGATTTGT
*
42047024 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCTTGA-TTTGT
* * *
42047051 AAAAATACCAAAATACCCCTGATTTTT
1 AAAATTACCAAAATACCCTTGATTTGT
* * * ** *
42047078 GAAATTACTAAAATACCCTCGACCTAT
1 AAAATTACCAAAATACCCTTGATTTGT
*
42047105 AAAATTACCAAAATA-CCTCTAATTTGT
1 AAAATTACCAAAATACCCT-TGATTTGT
* ** * *
42047132 GAAATTACTGAAATACCCTCG-TCCTGT
1 AAAATTACCAAAATACCCTTGAT-TTGT
*
42047159 AAAATTA-CAGAAATACCCTTGACTTGT
1 AAAATTACCA-AAATACCCTTGATTTGT
* * *
42047186 AAAATTACCGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
* **
42047213 AAAATTAACAAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
*
42047240 AAAATTACCAAAATACCCTTGATTTGG
1 AAAATTACCAAAATACCCTTGATTTGT
* * **
42047267 AAATTTA-CAGAAATACCCCTGATTTAC
1 AAAATTACCA-AAATACCCTTGATTTGT
*
42047294 AAAATTA-TAGAAATACCCTTGACTTT-T
1 AAAATTACCA-AAATACCCTTGA-TTTGT
* * * *
42047321 AAAAATTA-TAGAAATACCATTGGTTTGC
1 -AAAATTACCA-AAATACCCTTGATTTGT
* * *
42047349 AAAATTATCGAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
* * *
42047376 AGATTTACCAAAACACCCTT
1 AAAATTACCAAAATACCCTT
42047396 ATAGGGTGAA
Statistics
Matches: 296, Mismatches: 63, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
26 7 0.02
27 261 0.88
28 28 0.09
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTGT
Found at i:42048543 original size:41 final size:41
Alignment explanation
Indices: 42048498--42048699 Score: 296
Period size: 41 Copynumber: 4.9 Consensus size: 41
42048488 GGAGGAAGAA
*
42048498 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * *
42048539 ATTGAGGATCACATGGTTGCTTGACGACCATGGATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * *
42048580 ATTGAGGATTGCATGGTTGCTTGACAACCGTGGATCCATCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * *
42048621 ATTGAGGATCGTATGGTTACTTGATGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
42048662 ATTAAGGATCGCATGGTTGCTTGACGATCGTGGATCCA
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCA
42048700 TCGGTGGCTT
Statistics
Matches: 140, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 140 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:42049136 original size:22 final size:22
Alignment explanation
Indices: 42049111--42049158 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
42049101 ATTGCTGCGA
* * *
42049111 TGTTTACGGCTTTGTGCTATCC
1 TGTTTACAGCCTTGAGCTATCC
*
42049133 TGTTTACAGCCTTGAGCTGTCC
1 TGTTTACAGCCTTGAGCTATCC
42049155 TGTT
1 TGTT
42049159 GAAGTAGTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.44
Consensus pattern (22 bp):
TGTTTACAGCCTTGAGCTATCC
Found at i:42065299 original size:20 final size:20
Alignment explanation
Indices: 42065258--42065299 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
42065248 ATATATACTA
**
42065258 ATAAAATAATAAAATATCAT
1 ATAAAATAATAAAATAAAAT
42065278 ATAAAA-AATAAAATTAAAAT
1 ATAAAATAATAAAA-TAAAAT
42065298 AT
1 AT
42065300 TAATAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAAAATAATAAAATAAAAT
Found at i:42066935 original size:47 final size:47
Alignment explanation
Indices: 42066839--42067006 Score: 243
Period size: 47 Copynumber: 3.6 Consensus size: 47
42066829 ATCCATAAGT
*
42066839 GAACTCGGACTCAACTCAAC--GTTCGGATGCCT-AGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGA-TTATATCTCAC
* *
42066884 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTGATTATATCTCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
* *
42066931 GAACTCAGACTCAACTCAACGAGTTCAGATGCCTGATTATATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
* *
42066978 AAACTCGGACTCAACTCAACGATTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
42067007 ACTCAAATAT
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
45 20 0.18
47 88 0.81
48 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
Found at i:42069837 original size:20 final size:20
Alignment explanation
Indices: 42069796--42069837 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
42069786 ATATATACTA
**
42069796 ATAAAATAATAAAATATCAT
1 ATAAAATAATAAAATAAAAT
42069816 ATAAAA-AATAAAATTAAAAT
1 ATAAAATAATAAAA-TAAAAT
42069836 AT
1 AT
42069838 TAATAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAAAATAATAAAATAAAAT
Found at i:42071469 original size:47 final size:47
Alignment explanation
Indices: 42071373--42071540 Score: 243
Period size: 47 Copynumber: 3.6 Consensus size: 47
42071363 ATCCATAAGT
*
42071373 GAACTCGGACTCAACTCAAC--GTTCGGATGCCT-AGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGA-TTATATCTCAC
* *
42071418 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTGATTATATCTCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
* *
42071465 GAACTCAGACTCAACTCAACGAGTTCAGATGCCTGATTATATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
* *
42071512 AAACTCGGACTCAACTCAACGATTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
42071541 ACTCAAATAT
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
45 20 0.18
47 88 0.81
48 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
Found at i:42074371 original size:20 final size:20
Alignment explanation
Indices: 42074330--42074371 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
42074320 ATATATACTA
**
42074330 ATAAAATAATAAAATATCAT
1 ATAAAATAATAAAATAAAAT
42074350 ATAAAA-AATAAAATTAAAAT
1 ATAAAATAATAAAA-TAAAAT
42074370 AT
1 AT
42074372 TAATAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAAAATAATAAAATAAAAT
Found at i:42076006 original size:47 final size:47
Alignment explanation
Indices: 42075910--42076077 Score: 243
Period size: 47 Copynumber: 3.6 Consensus size: 47
42075900 ATCCATAAGT
*
42075910 GAACTCGGACTCAACTCAAC--GTTCGGATGCCT-AGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGA-TTATATCTCAC
* *
42075955 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTGATTATATCTCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
* *
42076002 GAACTCAGACTCAACTCAACGAGTTCAGATGCCTGATTATATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
* *
42076049 AAACTCGGACTCAACTCAACGATTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
42076078 ACTCAAATAT
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
45 20 0.18
47 88 0.81
48 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
Found at i:42078915 original size:20 final size:20
Alignment explanation
Indices: 42078874--42078915 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
42078864 ATATATACTA
**
42078874 ATAAAATAATAAAATATCAT
1 ATAAAATAATAAAATAAAAT
42078894 ATAAAA-AATAAAATTAAAAT
1 ATAAAATAATAAAA-TAAAAT
42078914 AT
1 AT
42078916 TAATAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAAAATAATAAAATAAAAT
Found at i:42080552 original size:47 final size:47
Alignment explanation
Indices: 42080456--42080623 Score: 243
Period size: 47 Copynumber: 3.6 Consensus size: 47
42080446 ATCCATAAGT
*
42080456 GAACTCGGACTCAACTCAAC--GTTCGGATGCCT-AGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGA-TTATATCTCAC
* *
42080501 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTGATTATATCTCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
* *
42080548 GAACTCAGACTCAACTCAACGAGTTCAGATGCCTGATTATATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
* *
42080595 AAACTCGGACTCAACTCAACGATTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
42080624 ACTCAAATAT
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
45 20 0.18
47 88 0.81
48 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
Found at i:42083453 original size:20 final size:20
Alignment explanation
Indices: 42083412--42083453 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
42083402 ATATATACTA
**
42083412 ATAAAATAATAAAATATCAT
1 ATAAAATAATAAAATAAAAT
42083432 ATAAAA-AATAAAATTAAAAT
1 ATAAAATAATAAAA-TAAAAT
42083452 AT
1 AT
42083454 TAATAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAAAATAATAAAATAAAAT
Found at i:42085084 original size:47 final size:47
Alignment explanation
Indices: 42084988--42085155 Score: 243
Period size: 47 Copynumber: 3.6 Consensus size: 47
42084978 ATCCATAAGT
*
42084988 GAACTCGGACTCAACTCAAC--GTTCGGATGCCT-AGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGA-TTATATCTCAC
* *
42085033 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTGATTATATCTCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
* *
42085080 GAACTCAGACTCAACTCAACGAGTTCAGATGCCTGATTATATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
* *
42085127 AAACTCGGACTCAACTCAACGATTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
42085156 ACTCAAATAT
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
45 20 0.18
47 88 0.81
48 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTGATTATATCTCAC
Found at i:42092018 original size:48 final size:48
Alignment explanation
Indices: 42091949--42092138 Score: 308
Period size: 48 Copynumber: 4.0 Consensus size: 48
42091939 TAGGGTTATG
42091949 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
*
42091997 TGTGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* *
42092045 TGTGATCCTATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * * *
42092093 TGTGATCCCATATAAGACCATATTTGGGATACGGCATTGGCATCGA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
42092139 AATGAGAAAT
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 133 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:42092157 original size:48 final size:48
Alignment explanation
Indices: 42091956--42092162 Score: 182
Period size: 48 Copynumber: 4.3 Consensus size: 48
42091946 ATGTGTGATC
* * * * * **
42091956 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATC
1 CCATGTAAGACCATATTTGGGACACGGCATTGGCATCGAAATGAGAAA
*** * * * *
42092004 CCATGTAAGACCATGCCTGGGACATGGCATTGGCATCGATATGTG-AT
1 CCATGTAAGACCATATTTGGGACACGGCATTGGCATCGAAATGAGAAA
* * * * **
42092051 CCTATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATC
1 CC-ATGTAAGACCATATTTGGGACACGGCATTGGCATCGAAATGAGAAA
* *
42092100 CCATATAAGACCATATTTGGGATACGGCATTGGCATCGAAATGAGAAA
1 CCATGTAAGACCATATTTGGGACACGGCATTGGCATCGAAATGAGAAA
* *
42092148 TCGTGTAAGACCATA
1 CCATGTAAGACCATA
42092163 GCTGGGCTAT
Statistics
Matches: 139, Mismatches: 18, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
47 2 0.01
48 135 0.97
49 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (48 bp):
CCATGTAAGACCATATTTGGGACACGGCATTGGCATCGAAATGAGAAA
Found at i:42096120 original size:26 final size:26
Alignment explanation
Indices: 42096075--42096172 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
42096065 CTCTTTTAAT
*
42096075 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
42096100 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
42096126 AACTGGGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
42096152 AACTGGGGGATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
42096173 TCACTTCCTC
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
25 10 0.15
26 58 0.85
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:42096247 original size:20 final size:21
Alignment explanation
Indices: 42096222--42096278 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
42096212 TTATGATTAC
*
42096222 ATCATGTGCATTTCATA-CAT
1 ATCATGTGCATATCATATCAT
42096242 ATCATGTGCATATCATATCAT
1 ATCATGTGCATATCATATCAT
42096263 -TCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
42096279 CCACGTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 22 0.63
21 3 0.09
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAT
Found at i:42097682 original size:16 final size:17
Alignment explanation
Indices: 42097651--42097683 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
42097641 CGGCACAAGT
*
42097651 GAAAAGAAAGAAGAGAA
1 GAAAAGAAAAAAGAGAA
42097668 GAAAA-AAAAAAGAGAA
1 GAAAAGAAAAAAGAGAA
42097684 AAATGCCACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
GAAAAGAAAAAAGAGAA
Found at i:42104400 original size:26 final size:26
Alignment explanation
Indices: 42104355--42104426 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
42104345 CTCTTTTAAT
42104355 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
42104380 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
42104406 AACTTGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
42104427 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
25 10 0.22
26 35 0.78
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:42104501 original size:20 final size:20
Alignment explanation
Indices: 42104476--42104550 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
42104466 TTATGATTAC
*
42104476 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
42104496 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
42104516 ATCAGGTGCATATCATATCAT
1 ATCATGTGCATATCATA-CAT
42104537 -TCATGT--ATATCATA
1 ATCATGTGCATATCATA
42104551 TCCCACGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 8 0.16
20 40 0.78
21 3 0.06
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:42104608 original size:25 final size:25
Alignment explanation
Indices: 42104578--42104625 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
42104568 ATAATTAAAC
* * *
42104578 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
42104603 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
42104626 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:42107130 original size:54 final size:53
Alignment explanation
Indices: 42107020--42107132 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 53
42107010 CACATGGGCA
* * * *
42107020 TGTGTGGCAACTCAGAGAGTTACACGGCCTAGCACACGGCTTGGCACACAAGCG
1 TGTGTGGCAACTCAGAGAGTTACACGG-CTAGCACACAGATTGGAACACAACCG
* *
42107074 TGTGTGGCAACTCAGTGAGTTACACAGG-TGATG-ACACAGATTGGAACACGACCG
1 TGTGTGGCAACTCAGAGAGTTACAC-GGCT-A-GCACACAGATTGGAACACAACCG
42107128 TGTGT
1 TGTGT
42107133 CCCTTGTTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
53 1 0.02
54 46 0.92
55 3 0.06
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (53 bp):
TGTGTGGCAACTCAGAGAGTTACACGGCTAGCACACAGATTGGAACACAACCG
Found at i:42107425 original size:16 final size:17
Alignment explanation
Indices: 42107382--42107425 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
42107372 TAGGAGTGTT
*
42107382 ACAACTATAGACTATGA
1 ACAACTATAGACTAAGA
* *
42107399 AAAAATATAGACTAAG-
1 ACAACTATAGACTAAGA
42107415 ACAACTATAGA
1 ACAACTATAGA
42107426 TTGTGAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.55, C:0.14, G:0.11, T:0.20
Consensus pattern (17 bp):
ACAACTATAGACTAAGA
Found at i:42115770 original size:40 final size:40
Alignment explanation
Indices: 42115715--42115923 Score: 210
Period size: 40 Copynumber: 5.5 Consensus size: 40
42115705 CGGATGATAA
42115715 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATA-T
*
42115755 CCGGGCTAAGTCCCGAAGGCA--T-T--T-GTG---ATAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
* *
42115786 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
* * * *
42115826 CCGGGCTAGGTCCCAAAGGCATTTGTG-TGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACTATAT
* *
42115866 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGA-CTATAT
*
42115906 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
42115924 TACTTGGTTT
Statistics
Matches: 142, Mismatches: 14, Indels: 27
0.78 0.08 0.15
Matches are distributed among these distances:
31 22 0.15
32 1 0.01
33 1 0.01
34 4 0.03
35 1 0.01
37 3 0.02
38 1 0.01
39 16 0.11
40 93 0.65
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
Found at i:42115829 original size:71 final size:73
Alignment explanation
Indices: 42115709--42115923 Score: 251
Period size: 71 Copynumber: 2.9 Consensus size: 73
42115699 AATATTCGGA
* *
42115709 TGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAG
1 TGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAG
42115773 GCA-TT-TG
65 GCATTTGTG
* * *
42115780 TGATAGCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAGGTCCCAAAGG
1 TGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
42115845 CATTTGTG
66 CATTTGTG
* *
42115853 TGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGCTAAAT
1 T--G-----ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGT
42115916 CCCGAAGG
58 CCCGAAGG
42115924 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 10, Indels: 14
0.84 0.07 0.10
Matches are distributed among these distances:
71 60 0.49
72 3 0.02
73 3 0.02
75 1 0.01
79 15 0.12
80 41 0.33
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (73 bp):
TGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
CATTTGTG
Found at i:42126386 original size:22 final size:22
Alignment explanation
Indices: 42126361--42126405 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
42126351 ATTATGATGA
42126361 TTGATATGT-TGAGATTGATATT
1 TTGATATGTATGAGATT-ATATT
42126383 TTGATATGTATGAGATTATATT
1 TTGATATGTATGAGATTATATT
42126405 T
1 T
42126406 GTAATGATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (22 bp):
TTGATATGTATGAGATTATATT
Found at i:42127767 original size:17 final size:17
Alignment explanation
Indices: 42127736--42127773 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
42127726 CCATAGAATA
42127736 TTTTTTT-TATTTTTCT
1 TTTTTTTGTATTTTTCT
42127752 TCTTTTTTGTA-TTTTCT
1 T-TTTTTTGTATTTTTCT
42127769 TTTTT
1 TTTTT
42127774 ATGACTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.25
17 13 0.65
18 2 0.10
ACGTcount: A:0.05, C:0.08, G:0.03, T:0.84
Consensus pattern (17 bp):
TTTTTTTGTATTTTTCT
Found at i:42128052 original size:50 final size:50
Alignment explanation
Indices: 42127972--42128076 Score: 192
Period size: 50 Copynumber: 2.1 Consensus size: 50
42127962 CACAAAAAAA
42127972 GAACATAAAACGCTCAAATATAATACCAAATAATAACAATGAGTGTGGAT
1 GAACATAAAACGCTCAAATATAATACCAAATAATAACAATGAGTGTGGAT
* *
42128022 GAACGTAAAACGCTCAAATATAATACCAAATAATACCAATGAGTGTGGAT
1 GAACATAAAACGCTCAAATATAATACCAAATAATAACAATGAGTGTGGAT
42128072 GAACA
1 GAACA
42128077 CAGAAGCAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (50 bp):
GAACATAAAACGCTCAAATATAATACCAAATAATAACAATGAGTGTGGAT
Found at i:42128209 original size:13 final size:13
Alignment explanation
Indices: 42128191--42128237 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
42128181 AAGTCAGATA
*
42128191 AAATAATTAAAAT
1 AAATAAATAAAAT
* *
42128204 AAATAACTAAGAT
1 AAATAAATAAAAT
42128217 AAATAAAATAAAAT
1 AAAT-AAATAAAAT
42128231 -AATAAAT
1 AAATAAAT
42128238 CAAGGACTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 4 0.14
13 18 0.62
14 7 0.24
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:42130183 original size:60 final size:60
Alignment explanation
Indices: 42130090--42130210 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
42130080 TTAACACAGT
42130090 CATGTCGCCAGGCCATGCAACAAACTAAAACCATGTGAAAGAAAGTCACATGGTTGTGTC
1 CATGTCGCCAGGCCATGCAACAAACTAAAACCATGTGAAAGAAAGTCACATGGTTGTGTC
*
42130150 CATGTCGCCAGGCCATGCAACAAACTACAACCATGTGAAAGAAAGTCACATGGTTGTGTC
1 CATGTCGCCAGGCCATGCAACAAACTAAAACCATGTGAAAGAAAGTCACATGGTTGTGTC
42130210 C
1 C
42130211 TTAGATTGTG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (60 bp):
CATGTCGCCAGGCCATGCAACAAACTAAAACCATGTGAAAGAAAGTCACATGGTTGTGTC
Found at i:42132533 original size:46 final size:46
Alignment explanation
Indices: 42132480--42132698 Score: 273
Period size: 46 Copynumber: 4.7 Consensus size: 46
42132470 TGGTTGAGCA
42132480 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* ** *
42132526 TCTGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGAAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
42132572 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
42132617 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
42132665 CCCGAGCTCGTTGAGTTGAGTCCGAGTACACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
42132699 GGGGCGGGTT
Statistics
Matches: 149, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
43 6 0.04
45 4 0.03
46 100 0.67
47 30 0.20
48 4 0.03
50 5 0.03
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:42132653 original size:93 final size:91
Alignment explanation
Indices: 42132480--42132696 Score: 267
Period size: 93 Copynumber: 2.4 Consensus size: 91
42132470 TGGTTGAGCA
* * *
42132480 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGTTGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAGGTCCGAACTCGTTGAGTTGA
** *
42132545 GTTTGAGTTCACTTATGGATGAAAATG
65 GTCCGAGTTCACTTATGGATGAAAACG
*
42132572 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA-GATGTAACTAGGCATCCGAACTCGTTGAGT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA--AGG--TCCGAACTCGTTGAGT
**
42132635 TGAGTCCGAGTTCACTTATGGATGCGAACG
62 TGAGTCCGAGTTCACTTATGGATGAAAACG
* * *
42132665 CCCGAGCTCGTTGAGTTGAGTCCGAGTACACT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
42132697 TAGGGGCGGG
Statistics
Matches: 108, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
89 6 0.06
91 4 0.04
92 30 0.28
93 67 0.62
94 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (91 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAAGGTCCGAACTCGTTGAGTTGAG
TCCGAGTTCACTTATGGATGAAAACG
Found at i:42138548 original size:46 final size:46
Alignment explanation
Indices: 42138498--42138669 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
42138488 TGGTTGAGCA
*
42138498 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
42138544 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
42138591 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
42138637 CCCGAGCTCGTTGAGTTGAGT-CGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
42138670 GGGCGGGTTA
Statistics
Matches: 107, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
43 6 0.06
45 15 0.14
46 49 0.46
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:42138654 original size:93 final size:92
Alignment explanation
Indices: 42138495--42138664 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 92
42138485 GGATGGTTGA
* *
42138495 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
42138560 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGT-CGAGTTCGTGAGATGTAACTAG
* *
42138588 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
42138653 TGAGTCGAGTTC
66 TGAGTCGAGTTC
42138665 ACTTAGGGCG
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 7 0.10
93 66 0.90
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCGAGTTCGTGAGATGTAACTAG
Found at i:42160940 original size:26 final size:26
Alignment explanation
Indices: 42160911--42160961 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
42160901 CAATTGGGCG
42160911 ACTTTCTCCTTTAGGCTTTATATTAC
1 ACTTTCTCCTTTAGGCTTTATATTAC
42160937 ACTTTCTCCTTTAGGCTTTATATTA
1 ACTTTCTCCTTTAGGCTTTATATTA
42160962 ATTTTTAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.20, C:0.22, G:0.08, T:0.51
Consensus pattern (26 bp):
ACTTTCTCCTTTAGGCTTTATATTAC
Found at i:42162646 original size:11 final size:10
Alignment explanation
Indices: 42162625--42162658 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
42162615 AACAACCTAC
42162625 AAAAA-TAAA
1 AAAAATTAAA
42162634 AAGAAATTAAA
1 AA-AAATTAAA
42162645 AAAAATTAAA
1 AAAAATTAAA
42162655 AAAA
1 AAAA
42162659 TCGTATCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 2 0.09
10 15 0.65
11 6 0.26
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (10 bp):
AAAAATTAAA
Found at i:42167996 original size:68 final size:68
Alignment explanation
Indices: 42167848--42168005 Score: 151
Period size: 68 Copynumber: 2.3 Consensus size: 68
42167838 CTAGCCGATT
* * * * * *
42167848 TATCTCATAGCTCTCTTGTCTACATGGTATCCTTCACTTGGAATCACTCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGGATACATCAC-TCGAATCACACATGCGACCTAGCTACA
*
42167913 TTTA
65 TATA
* * *
42167917 TCTCTTACGTAGCTCTCTTGTCTACATGGGATACATC-C-CGTATCACACATGTGACCTAGCTAC
1 TATC-T-CGTAGCTCTCTTGTCTACATGGGATACATCACTCGAATCACACATGCGACCTAGCTAC
42167980 TATATA
64 -ATATA
42167986 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
42168006 GCACATGATG
Statistics
Matches: 73, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 8 0.11
70 5 0.07
71 26 0.36
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGGATACATCACTCGAATCACACATGCGACCTAGCTACAT
ATA
Found at i:42175477 original size:68 final size:68
Alignment explanation
Indices: 42175328--42175485 Score: 153
Period size: 68 Copynumber: 2.3 Consensus size: 68
42175318 CTAGCCGATT
* * * *
42175328 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACTCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
*
42175393 TTTA
65 TATA
* * *
42175397 TCTCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
42175459 CTATATA
63 C-ATATA
42175466 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
42175486 ACACATGATG
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 8 0.11
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAT
ATA
Found at i:42187380 original size:12 final size:13
Alignment explanation
Indices: 42187344--42187381 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
42187334 AAATATTTGA
42187344 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
42187357 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
42187371 CTTG-TCTTAAT
1 CTTGTTCTTAAT
42187382 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:42206272 original size:40 final size:40
Alignment explanation
Indices: 42206189--42206294 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 40
42206179 TCCGAGCTTG
42206189 GTTTCGAAGGGCCTTTGAGCCAGTGCTAATAACCAAACTTA
1 GTTTCGAAGGG-CTTTGAGCCAGTGCTAATAACCAAACTTA
* * **
42206230 GTTTCGAAGGGTTTTAGAGCCAGTG-TCATAACCGGACTTA
1 GTTTCGAAGGGCTTT-GAGCCAGTGCTAATAACCAAACTTA
*
42206270 G-TTCTGAAGGGCCTTCGAGCCAGTG
1 GTTTC-GAAGGG-CTTTGAGCCAGTG
42206295 GTCTAATCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
39 3 0.05
40 31 0.55
41 22 0.39
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
GTTTCGAAGGGCTTTGAGCCAGTGCTAATAACCAAACTTA
Found at i:42214501 original size:41 final size:40
Alignment explanation
Indices: 42214431--42214590 Score: 155
Period size: 41 Copynumber: 3.9 Consensus size: 40
42214421 GGGTTTAAAT
* *
42214431 CCGAGCTTGGTTTCGAAGGGCCTTTGAGCCAGTGCTAATAA
1 CCGAACTTAGTTTCGAAGGG-CTTTGAGCCAGTGCTAATAA
*
42214472 CCGAACTTAGTTTCGAAGGGCTTTAGAGCCAGTG-TCATAA
1 CCGAACTTAGTTTCGAAGGGCTTT-GAGCCAGTGCTAATAA
* * *
42214512 CCGGACTTAGTTCCGAAGGGCCTTCGAGCCAGTGGTCTAAT--
1 CCGAACTTAGTTTCGAAGGG-CTTTGAGCCAGT-G-CTAATAA
* * * *
42214553 CCGAGCTTGGTCTCGAACGGCTTTTGAGCCAGTGCTAA
1 CCGAACTTAGTTTCGAAGGGC-TTTGAGCCAGTGCTAA
42214591 GAATCGGGCT
Statistics
Matches: 99, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
39 4 0.04
40 37 0.37
41 55 0.56
43 3 0.03
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAACTTAGTTTCGAAGGGCTTTGAGCCAGTGCTAATAA
Found at i:42219764 original size:18 final size:18
Alignment explanation
Indices: 42219741--42219778 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
42219731 ATTCATCAAC
42219741 TTGACTAACTCGAAATTT
1 TTGACTAACTCGAAATTT
42219759 TTGACTAACTCGAAATTT
1 TTGACTAACTCGAAATTT
42219777 TT
1 TT
42219779 TTACTCGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (18 bp):
TTGACTAACTCGAAATTT
Found at i:42220111 original size:13 final size:13
Alignment explanation
Indices: 42220093--42220119 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42220083 TTAGTAATAC
42220093 TTTTAAAAAGTGT
1 TTTTAAAAAGTGT
42220106 TTTTAAAAAGTGT
1 TTTTAAAAAGTGT
42220119 T
1 T
42220120 GTGGAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TTTTAAAAAGTGT
Found at i:42220332 original size:21 final size:21
Alignment explanation
Indices: 42220308--42220349 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
42220298 GAATATAGAA
*
42220308 AATAATTTATTATAACTTGTT
1 AATAATTTAATATAACTTGTT
* *
42220329 AATATTTTAATATATCTTGTT
1 AATAATTTAATATAACTTGTT
42220350 GTTAATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (21 bp):
AATAATTTAATATAACTTGTT
Found at i:42220978 original size:7 final size:7
Alignment explanation
Indices: 42220933--42220988 Score: 55
Period size: 7 Copynumber: 8.3 Consensus size: 7
42220923 GAGGAAATAT
42220933 TATC-TA
1 TATCTTA
*
42220939 TATTTTA
1 TATCTTA
42220946 TATC-TA
1 TATCTTA
*
42220952 TGT-TTA
1 TATCTTA
*
42220958 TATCCTA
1 TATCTTA
42220965 TTATCTTA
1 -TATCTTA
42220973 TATCTTA
1 TATCTTA
42220980 TATCTTA
1 TATCTTA
42220987 TA
1 TA
42220989 CTATCTACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
6 11 0.28
7 23 0.57
8 6 0.15
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.57
Consensus pattern (7 bp):
TATCTTA
Found at i:42221916 original size:132 final size:132
Alignment explanation
Indices: 42221679--42221918 Score: 354
Period size: 132 Copynumber: 1.8 Consensus size: 132
42221669 TCTCGCTTTG
* * * * * *
42221679 GAAAACGTGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTGCAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
* * * *
42221744 GCACGATAGGGCACGATTCCTCGAATTGCCGAACGTCGAACATTTCCTTCGTTTTAAAATTTTTT
66 GCACGATAGGGCACGATTCCCCAAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAATTTTTT
42221809 TA
131 TA
* **
42221811 GAAAACATGAACGAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGCAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
*
42221876 GCACGATAGGGCACGATTCCCCAAATTGCTAAACATCGAACAT
66 GCACGATAGGGCACGATTCCCCAAATTGCCAAACATCGAACAT
42221919 CGTCTCCGTT
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
132 94 1.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (132 bp):
GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCA
GCACGATAGGGCACGATTCCCCAAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAATTTTTT
TA
Found at i:42222232 original size:3 final size:3
Alignment explanation
Indices: 42222219--42222263 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
42222209 ACAAACAATG
* *
42222219 ATA AAA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATTA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA AT
42222264 GCAATGATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:42222907 original size:3 final size:3
Alignment explanation
Indices: 42222899--42222923 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
42222889 ATATATTAGG
42222899 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
42222924 GTAAAATCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:42223862 original size:27 final size:27
Alignment explanation
Indices: 42223823--42223892 Score: 115
Period size: 26 Copynumber: 2.6 Consensus size: 27
42223813 AAAAAAAAAA
*
42223823 AACTTTCCTTTTTTTTATTCCATTACC
1 AACTTTCCCTTTTTTTATTCCATTACC
42223850 AACTTTCCC-TTTTTTATTCCATTACC
1 AACTTTCCCTTTTTTTATTCCATTACC
42223876 AACTTTCCCCTTTTTTT
1 AACTTT-CCCTTTTTTT
42223893 TATTTTTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 23 0.57
27 11 0.28
28 6 0.15
ACGTcount: A:0.17, C:0.29, G:0.00, T:0.54
Consensus pattern (27 bp):
AACTTTCCCTTTTTTTATTCCATTACC
Found at i:42225252 original size:89 final size:89
Alignment explanation
Indices: 42225134--42225308 Score: 307
Period size: 89 Copynumber: 2.0 Consensus size: 89
42225124 AAGACTAGTG
42225134 ATTTTCAGCCTATTACCCTATCGCTTAGGGGATTAAGGCTTAGTGGCTTGAATCTGCTTCACTGC
1 ATTTTCAGCCTATTACCCTATCGCTTAGGGGATTAAGGCTTAGTGGCTTGAATCTGCTTCACTGC
42225199 AACTTCAGGAAGGCAAGATTTGTA
66 AACTTCAGGAAGGCAAGATTTGTA
* * *
42225223 ATTTTCAGCCTATTACCCTA-CTTCTTAGGGGATTAAGGCTTGGTGGCTTGAATCTGTTTCACTG
1 ATTTTCAGCCTATTACCCTATC-GCTTAGGGGATTAAGGCTTAGTGGCTTGAATCTGCTTCACTG
42225287 CAACTTCAGGAAGGCAAGATTT
65 CAACTTCAGGAAGGCAAGATTT
42225309 ACCGTCTTCA
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
88 1 0.01
89 81 0.99
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (89 bp):
ATTTTCAGCCTATTACCCTATCGCTTAGGGGATTAAGGCTTAGTGGCTTGAATCTGCTTCACTGC
AACTTCAGGAAGGCAAGATTTGTA
Found at i:42225498 original size:90 final size:87
Alignment explanation
Indices: 42225313--42225498 Score: 203
Period size: 90 Copynumber: 2.1 Consensus size: 87
42225303 AGATTTACCG
* ** * *
42225313 TCTTCAATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTATTTTGATCTGTTCTACTGCAATT
1 TCTTCAATCTGTTCCACTGCAACTTCAGGGAAACAAGATCTATTTTGATCTACTCCACTGCAATC
* * **
42225378 TCAGAGAGATAAGATCTGTAATT
66 TCAGAGAAACAAGATCTACAA-T
*
42225401 TAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATATTTGATCTACTCCACT
1 T--CTTCAATCTGTTCCACTGCAACTTCAGGGAAACAAGA--T-CTAT-TTTGATCTACTCCACT
*
42225466 GCAATCTCAGGGAAACAAGATCTACAA-
60 GCAATCTCAGAGAAACAAGATCTACAAT
42225493 TCTTCA
1 TCTTCA
42225499 GCCTACTCCA
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
88 1 0.01
90 40 0.49
92 2 0.02
93 4 0.05
94 34 0.42
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (87 bp):
TCTTCAATCTGTTCCACTGCAACTTCAGGGAAACAAGATCTATTTTGATCTACTCCACTGCAATC
TCAGAGAAACAAGATCTACAAT
Found at i:42229219 original size:47 final size:47
Alignment explanation
Indices: 42229132--42229299 Score: 255
Period size: 47 Copynumber: 3.6 Consensus size: 47
42229122 CCCTTCGGGA
* * * * * *
42229132 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
42229179 CCTGTTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42229226 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42229273 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
42229300 ACCAACCCTT
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 109 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42229554 original size:40 final size:39
Alignment explanation
Indices: 42229524--42229615 Score: 114
Period size: 39 Copynumber: 2.3 Consensus size: 39
42229514 GCTACTCGTT
42229524 CAAATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCAGTTATAGTAACTCGCA
* ** * *
42229564 CAAATGCCTTCGGGCTTAGCCC-GGAATTAGTATCTTGCA
1 CAAATGCCTTCGGGCATAGCCCAGTTA-TAGTAACTCGCA
42229603 CAAATGCCTTCGG
1 CAAATGCCTTCGG
42229616 ATCTTAGTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.04
39 30 0.65
40 14 0.30
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCAGTTATAGTAACTCGCA
Found at i:42229595 original size:39 final size:40
Alignment explanation
Indices: 42229524--42229668 Score: 118
Period size: 40 Copynumber: 3.6 Consensus size: 40
42229514 GCTACTCGTT
*
42229524 CAAATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCAGATATAGTAACTCGCA
* * * *
42229564 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTTGCA
1 CAAATGCCTTCGGGACATAGCCCAGATA-TAGTAACTCGCA
* * * * * *
42229603 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAGCCCAGATATAGTAAC-TCGCA
* *
42229644 CAAA-GCCTTCAGGACTTAGCCCAGA
1 CAAATGCCTTCGGGACATAGCCCAGA
42229669 CATCATTCAA
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
38 3 0.03
39 29 0.33
40 43 0.49
41 12 0.14
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGCCCAGATATAGTAACTCGCA
Found at i:42243085 original size:40 final size:40
Alignment explanation
Indices: 42243015--42243232 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
42243005 AAGCCAGGTA
* * * *
42243015 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
42243054 CCTTCGGGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42243094 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
42243134 CCTTCGGGGCTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
42243174 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
42243214 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
42243233 TTATCATCCG
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 13 0.08
40 148 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42245366 original size:132 final size:132
Alignment explanation
Indices: 42245129--42245370 Score: 326
Period size: 132 Copynumber: 1.8 Consensus size: 132
42245119 AACGTGAATG
* * * * * *
42245129 AAATTCCAAAGGGATATTCGATTATTTTGCACAAACGAGAAATTGCAACCTAGCACGATAGGGCA
1 AAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCAGCACGATAGGACA
* * * * *
42245194 CGATTCCTCGAATTGTCGAACGTCGAACATTTCCTTCGTTTTAAAATTTTTTTAGAAAACATGAA
66 CGATTCCCCGAATTGTCAAACATCGAACATGTCCTCCGTTTTAAAATTTTTTTAGAAAACATGAA
42245259 CA
131 CA
* **
42245261 AAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGCAACCCAGCACGATAGGACA
1 AAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCAGCACGATAGGACA
42245326 CGATTCCCCGAATTG-CTAAACATCGAACATCGT-CTCCGTTTTAAA
66 CGATTCCCCGAATTGTC-AAACATCGAACAT-GTCCTCCGTTTTAAA
42245371 GAATTTTTAA
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
131 1 0.01
132 92 0.98
133 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (132 bp):
AAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGCAACCCAGCACGATAGGACA
CGATTCCCCGAATTGTCAAACATCGAACATGTCCTCCGTTTTAAAATTTTTTTAGAAAACATGAA
CA
Found at i:42245662 original size:15 final size:15
Alignment explanation
Indices: 42245642--42245689 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
42245632 TAAATAAATA
42245642 AATAACACA-AACAAT
1 AATAACA-ATAACAAT
*
42245657 AATAACAATAATAAT
1 AATAACAATAACAAT
*
42245672 AATAACAATAATAAT
1 AATAACAATAACAAT
42245687 AAT
1 AAT
42245690 TAATAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 1 0.03
15 30 0.97
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAACAATAACAAT
Found at i:42245669 original size:3 final size:3
Alignment explanation
Indices: 42245654--42245699 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
42245644 TAACACAAAC
* *
42245654 AAT AAT AAC AAT AAT AAT AAT AAC AAT AAT AAT AATT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
42245700 GCAATGATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:42247295 original size:27 final size:27
Alignment explanation
Indices: 42247265--42247335 Score: 108
Period size: 26 Copynumber: 2.6 Consensus size: 27
42247255 AAAAAAAAAG
42247265 TTTCCTTTTTTTTATTCCATTACCAAC
1 TTTCCTTTTTTTTATTCCATTACCAAC
*
42247292 TTTCC-CTTTTTTATTCCATTACCAAC
1 TTTCCTTTTTTTTATTCCATTACCAAC
42247318 TTTCCCCTTTTTTTTATT
1 TTT--CCTTTTTTTTATT
42247336 TTTTATTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 23 0.59
27 5 0.13
28 2 0.05
29 9 0.23
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTCCTTTTTTTTATTCCATTACCAAC
Found at i:42247308 original size:26 final size:27
Alignment explanation
Indices: 42247272--42247330 Score: 111
Period size: 26 Copynumber: 2.2 Consensus size: 27
42247262 AAGTTTCCTT
42247272 TTTTTTATTCCATTACCAACTTT-CCC
1 TTTTTTATTCCATTACCAACTTTCCCC
42247298 TTTTTTATTCCATTACCAACTTTCCCC
1 TTTTTTATTCCATTACCAACTTTCCCC
42247325 TTTTTT
1 TTTTTT
42247331 TTATTTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 23 0.72
27 9 0.28
ACGTcount: A:0.17, C:0.29, G:0.00, T:0.54
Consensus pattern (27 bp):
TTTTTTATTCCATTACCAACTTTCCCC
Found at i:42248736 original size:30 final size:30
Alignment explanation
Indices: 42248681--42248737 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
42248671 TATCCATTTC
*
42248681 TCTTAAATTGATATTTTAAAATTTTTTTTA
1 TCTTAAATTGATATTTGAAAATTTTTTTTA
*
42248711 TCTTATATTGATATTTG--AATTTTTTTT
1 TCTTAAATTGATATTTGAAAATTTTTTTT
42248738 CATTAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.40
30 15 0.60
ACGTcount: A:0.28, C:0.04, G:0.05, T:0.63
Consensus pattern (30 bp):
TCTTAAATTGATATTTGAAAATTTTTTTTA
Found at i:42249594 original size:30 final size:30
Alignment explanation
Indices: 42249560--42249620 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
42249550 TTTAGGATTG
* * * *
42249560 ATGGGTTTTGTTTGTTATGTTAATTTTTTT
1 ATGGGTTCTGTTTGTGATGCTAAATTTTTT
42249590 ATGGGTTCTGTTTGTGATGCTAAATTTTTT
1 ATGGGTTCTGTTTGTGATGCTAAATTTTTT
42249620 A
1 A
42249621 ATGAATTGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.16, C:0.03, G:0.21, T:0.59
Consensus pattern (30 bp):
ATGGGTTCTGTTTGTGATGCTAAATTTTTT
Found at i:42249777 original size:12 final size:13
Alignment explanation
Indices: 42249762--42249794 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
42249752 GCAACCAATG
42249762 AAAGGAAAA-AAA
1 AAAGGAAAAGAAA
42249774 AAAGGAAAAGAAA
1 AAAGGAAAAGAAA
*
42249787 AAATGAAA
1 AAAGGAAA
42249795 CAGATAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (13 bp):
AAAGGAAAAGAAA
Found at i:42251961 original size:3 final size:3
Alignment explanation
Indices: 42251955--42251981 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
42251945 TCTACTACTG
42251955 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
42251982 GAAAAACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:42256375 original size:27 final size:27
Alignment explanation
Indices: 42256345--42256522 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
42256335 ATATTGAGTC
* * * *
42256345 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
42256372 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42256399 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
42256427 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
42256454 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
42256481 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42256508 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42256523 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:42256484 original size:82 final size:81
Alignment explanation
Indices: 42256366--42256521 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
42256356 TGCTATATAA
* *
42256366 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
42256431 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
42256448 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
42256512 CACTTAGTGC
65 CACTTAGTGC
42256522 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:42264653 original size:40 final size:40
Alignment explanation
Indices: 42264555--42264817 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
42264545 TCCTCGTTCA
* * * * *
42264555 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
42264594 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
42264634 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
42264674 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
42264714 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
42264754 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
42264794 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
42264818 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:42284591 original size:46 final size:46
Alignment explanation
Indices: 42284524--42284698 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
42284514 TGTAACCCGC
*
42284524 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
42284570 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
42284620 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
42284663 CCAAAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
42284699 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 62 0.57
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:42284643 original size:93 final size:93
Alignment explanation
Indices: 42284531--42284702 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
42284521 CGCCCATAAG
* * *
42284531 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAAAAGTGAACTCGGACTCAACTCA
42284596 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
42284624 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAAAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAAAAGTGAACTCGGACTCAACTCA
42284689 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
42284703 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCAAAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:42296251 original size:4 final size:4
Alignment explanation
Indices: 42296242--42296269 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
42296232 AAGTTTTATT
42296242 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
42296270 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:42298167 original size:93 final size:93
Alignment explanation
Indices: 42298055--42298226 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
42298045 CGCCCATAAG
* *
42298055 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCACATCCATAAGTGAACTCGGACTCAACTC
*
42298119 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCAGATGCCTAGTTACATCTCA
*
42298148 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
42298213 ACGAGTTCAGATGC
66 ACGAGTTCAGATGC
42298227 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:42298170 original size:47 final size:49
Alignment explanation
Indices: 42298048--42298226 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 49
42298038 TGTAACCCGC
* * * *
42298048 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC--A-GGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
42298094 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
*
42298144 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
* *
42298187 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
42298227 TCAACCATCC
Statistics
Matches: 111, Mismatches: 10, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 2 0.02
45 2 0.02
46 60 0.54
47 29 0.26
48 3 0.03
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:42305428 original size:43 final size:43
Alignment explanation
Indices: 42305376--42305461 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
42305366 AAATTGGAAG
42305376 GATAATTTATAAATAGACAAATCATTAAAACTAAGCTGAGGAT
1 GATAATTTATAAATAGACAAATCATTAAAACTAAGCTGAGGAT
42305419 GATAATTTATAAATAGACAAATCATTAAAACTAAGCTGAGGAT
1 GATAATTTATAAATAGACAAATCATTAAAACTAAGCTGAGGAT
42305462 TGAAATAGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.28
Consensus pattern (43 bp):
GATAATTTATAAATAGACAAATCATTAAAACTAAGCTGAGGAT
Found at i:42323778 original size:48 final size:48
Alignment explanation
Indices: 42323726--42323837 Score: 143
Period size: 48 Copynumber: 2.3 Consensus size: 48
42323716 GGTATAGGGT
* * * *
42323726 ATATATAATATTATTTGTTGATTTCACCAACCAGTGTTTGGCACACAC
1 ATATATAATATTATTTGTCGATTTCACCAACCAGTGCTAGACACACAC
* ***
42323774 ATATATAATATTATTTGTCGGTTTCACCAGGTAGTGCTAGACACACAC
1 ATATATAATATTATTTGTCGATTTCACCAACCAGTGCTAGACACACAC
42323822 ATATATAATACTTATT
1 ATATATAATA-TTATT
42323838 GGTTTTGCCA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 50 0.91
49 5 0.09
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (48 bp):
ATATATAATATTATTTGTCGATTTCACCAACCAGTGCTAGACACACAC
Found at i:42328230 original size:48 final size:48
Alignment explanation
Indices: 42328174--42328320 Score: 195
Period size: 48 Copynumber: 3.1 Consensus size: 48
42328164 CACCCTCATC
*
42328174 TCAATGCCGATGCCATGTCCCATACATGGTCTTACACTAGCACACATA
1 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATA
* * * * * * *
42328222 TCAATGCCGATGCCATGTCCCAGACATGGTCGTGCGCTGGCTCTCATA
1 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATA
* * *
42328270 ACATTGCCGATGCCATGTTCCAAACATGGTCTTACACTAGCACACATA
1 TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATA
42328318 TCA
1 TCA
42328321 CCCAATGTCA
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.25
Consensus pattern (48 bp):
TCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATA
Found at i:42340185 original size:15 final size:13
Alignment explanation
Indices: 42340164--42340202 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
42340154 GTGTAACGTG
42340164 ACCGTGTGTCGCA
1 ACCGTGTGTCGCA
42340177 ACCGTGTGTCGCA
1 ACCGTGTGTCGCA
42340190 ACCGTGTGTCGCA
1 ACCGTGTGTCGCA
42340203 CATGGGTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
ACCGTGTGTCGCA
Found at i:42346794 original size:34 final size:34
Alignment explanation
Indices: 42346746--42346817 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
42346736 GCATTTCTGT
* *
42346746 TACTGTTACTGTAATGGGCTAAGGCCC-ACACTGA
1 TACTATTACTGTAATAGGCTAAGGCCCTA-ACTGA
*
42346780 TACTATTACTGTAATAGGCTATGGCCCTAACTGA
1 TACTATTACTGTAATAGGCTAAGGCCCTAACTGA
42346814 TACT
1 TACT
42346818 GGATTGTCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (34 bp):
TACTATTACTGTAATAGGCTAAGGCCCTAACTGA
Found at i:42348503 original size:17 final size:17
Alignment explanation
Indices: 42348481--42348523 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
42348471 TCCAAAACAT
*
42348481 TTATTTGTGTGAAATTG
1 TTATTTGTGTAAAATTG
42348498 TTATTT-TCGTAAAATTG
1 TTATTTGT-GTAAAATTG
*
42348515 TTTTTTGTG
1 TTATTTGTG
42348524 CTTCACGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.05
17 20 0.91
18 1 0.05
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.58
Consensus pattern (17 bp):
TTATTTGTGTAAAATTG
Found at i:42355534 original size:6 final size:6
Alignment explanation
Indices: 42355523--42355549 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
42355513 AAAACTTAAT
42355523 CAAAAC CAAAAC CAAAAC CAAAAC CAA
1 CAAAAC CAAAAC CAAAAC CAAAAC CAA
42355550 CAGTAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAC
Found at i:42362135 original size:5 final size:5
Alignment explanation
Indices: 42362125--42362165 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
42362115 GGAATTTGAT
42362125 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
42362166 ATATTTGTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (5 bp):
TCGAA
Found at i:42370868 original size:36 final size:36
Alignment explanation
Indices: 42370821--42370892 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
42370811 TTCTACCAAT
42370821 GGATACATCTATGCCTGAAGTCAACTACTTCGATAG
1 GGATACATCTATGCCTGAAGTCAACTACTTCGATAG
42370857 GGATACATCTATGCCTGAAGTCAACTACTTCGATAG
1 GGATACATCTATGCCTGAAGTCAACTACTTCGATAG
42370893 CCAGGACTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (36 bp):
GGATACATCTATGCCTGAAGTCAACTACTTCGATAG
Found at i:42371149 original size:16 final size:16
Alignment explanation
Indices: 42371128--42371161 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
42371118 CTATGCATGC
*
42371128 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
*
42371144 AAAATACAAAAGATAA
1 AAAATACAAAAGACAA
42371160 AA
1 AA
42371162 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:42385500 original size:12 final size:12
Alignment explanation
Indices: 42385485--42385514 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
42385475 CATTGATCCA
42385485 CTCCTCAAATCT
1 CTCCTCAAATCT
*
42385497 CTCCCCAAATCT
1 CTCCTCAAATCT
42385509 CTCCTC
1 CTCCTC
42385515 TAACAAATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.20, C:0.50, G:0.00, T:0.30
Consensus pattern (12 bp):
CTCCTCAAATCT
Found at i:42398948 original size:42 final size:42
Alignment explanation
Indices: 42398838--42398984 Score: 145
Period size: 44 Copynumber: 3.4 Consensus size: 42
42398828 TTTTGATATG
* **
42398838 TGATTT-TGTGTAAGACCACGTCTGGGATGTTGGCATCG-ATT
1 TGATTTCT-TGTAAGACCATGTCTGGGACATTGGCATCGTATT
* *
42398879 TGAAATTTATGTGTAAGACCATGTCTGGGGCATTGGCATCGTATT
1 TG--ATTTCT-TGTAAGACCATGTCTGGGACATTGGCATCGTATT
* *
42398924 TGATTTCTTGTAAGACCCTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCTTGTAAGACCATGTCTGGGACATTGGCATCG-TATT
* * *
42398967 TGGTTACATGTAAGACCA
1 TGATTTCTTGTAAGACCA
42398985 AGTTTAGGAC
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.02
42 27 0.30
43 27 0.30
44 28 0.31
45 5 0.06
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (42 bp):
TGATTTCTTGTAAGACCATGTCTGGGACATTGGCATCGTATT
Found at i:42398981 original size:43 final size:42
Alignment explanation
Indices: 42398846--42398984 Score: 129
Period size: 42 Copynumber: 3.2 Consensus size: 42
42398836 TGTGATTTTG
* * **
42398846 TGTAAGACCACGTCTGGGA-TGTTGGCATCG-ATTTGAAATTTATG
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGTATTTG--A-TTACA
* * * *
42398890 TGTAAGACCATGTCTGGGGCATTGGCATCGTATTTGATTTCT
1 TGTAAGACCATGTCTGGGACAGTGGCATCGTATTTGATTACA
* *
42398932 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGGTTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCG-TATTTGATTACA
42398975 TGTAAGACCA
1 TGTAAGACCA
42398985 AGTTTAGGAC
Statistics
Matches: 78, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 29 0.37
43 19 0.24
44 25 0.32
45 5 0.06
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGTATTTGATTACA
Found at i:42407887 original size:41 final size:42
Alignment explanation
Indices: 42407824--42407908 Score: 127
Period size: 41 Copynumber: 2.0 Consensus size: 42
42407814 TAATTATGAG
*
42407824 CACTTAGTGTGCGAAATCGAGATAGCATTGGTTATATAT-TA
1 CACTTAGTGTGCGAAATCGAGATAGCATTGGCTATATATATA
* * *
42407865 CACTTAGTGTGCGAGATTGAGATAGCTTTGGCTATATATATA
1 CACTTAGTGTGCGAAATCGAGATAGCATTGGCTATATATATA
42407907 CA
1 CA
42407909 TTGGCACTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 35 0.90
42 4 0.10
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (42 bp):
CACTTAGTGTGCGAAATCGAGATAGCATTGGCTATATATATA
Found at i:42409708 original size:40 final size:40
Alignment explanation
Indices: 42409621--42409763 Score: 180
Period size: 40 Copynumber: 3.5 Consensus size: 40
42409611 CTCGAATGAT
* *
42409621 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTAC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACTAA
*
42409662 ATCCGGGCTAAGAT-CTGAAGGCATTTGTGCTAGCGACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACTAA
* * * *
42409702 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTAA
* *
42409742 ATCCGGGTTAAGACCCGAAGGC
1 ATCCGGGCTAAGTCCCGAAGGC
42409764 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTAA
Found at i:42422876 original size:24 final size:24
Alignment explanation
Indices: 42422832--42422878 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
42422822 ATATTTACAT
*
42422832 ATGGATGTTTCGGTTATGGAGTAC
1 ATGGATGTTGCGGTTATGGAGTAC
*
42422856 ATGGATGTGTGCGTTTA-GGAGTA
1 ATGGATGT-TGCGGTTATGGAGTA
42422879 TAATATGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.21, C:0.06, G:0.36, T:0.36
Consensus pattern (24 bp):
ATGGATGTTGCGGTTATGGAGTAC
Found at i:42426840 original size:40 final size:40
Alignment explanation
Indices: 42426750--42427012 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
42426740 TTGAATGCTG
* * * * * *
42426750 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
42426790 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
42426830 TCCAGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
42426870 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
42426910 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
42426950 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
42426989 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42427013 TGAACGAGGA
Statistics
Matches: 197, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.18
40 154 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:42427032 original size:79 final size:80
Alignment explanation
Indices: 42426789--42427047 Score: 229
Period size: 80 Copynumber: 3.3 Consensus size: 80
42426779 AAGTGAATAT
* * * * * * * *
42426789 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCAGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
42426853 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
42426869 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
42426934 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
42426949 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
42427013 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
42427028 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
42427048 TACGTGATTT
Statistics
Matches: 153, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 92 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:42429934 original size:47 final size:47
Alignment explanation
Indices: 42429740--42430045 Score: 202
Period size: 47 Copynumber: 6.5 Consensus size: 47
42429730 TGTCGATGTA
* * *
42429740 ATGTCCCAGACATGGTCTCACACAGGCTA-TCATCATCGAGGTCGATGCC
1 ATGTCCCAGACAT-GTCTTACACTGGC-ACTCATCATCGAGGCCGATG-C
* * * * * **
42429789 ATGTCCCAGACATGGTCCTATACTAGCTCTCGTAT-ATACGTGTTC-ATGC
1 ATGTCCCAGACAT-GTCTTACACTGGCACTC--ATCAT-CGAGGCCGATGC
* * * * *
42429838 ATGT-CCTGAACATGTCTTACACTAGCA-TGA-C-TCTTA-GCCAATGC
1 ATGTCCCAG-ACATGTCTTACACTGGCACTCATCATC-GAGGCCGATGC
*
42429882 ATGTCCCAGACACGTCTTACACTGGCTA-TCATCATCGAGGCCGATGC
1 ATGTCCCAGACATGTCTTACACTGGC-ACTCATCATCGAGGCCGATGC
* * * *
42429929 ATGTCCCAGACATGTCTTACACTTGCACTCATC-TCTACGCTGATGCC
1 ATGTCCCAGACATGTCTTACACTGGCACTCATCATCGAGGCCGATG-C
* * *
42429976 ATGTCCCAGACATGGTCTTACACTGGCACTCATAAT-GTGGCCGATTC
1 ATGTCCCAGACAT-GTCTTACACTGGCACTCATCATCGAGGCCGATGC
* *
42430023 ATGTCCTAGACATTTCTTACACT
1 ATGTCCCAGACATGTCTTACACT
42430046 AGCATACAAG
Statistics
Matches: 203, Mismatches: 37, Indels: 37
0.73 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 24 0.12
45 7 0.03
46 21 0.10
47 66 0.33
48 37 0.18
49 34 0.17
50 5 0.02
51 7 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
ATGTCCCAGACATGTCTTACACTGGCACTCATCATCGAGGCCGATGC
Found at i:42436218 original size:102 final size:102
Alignment explanation
Indices: 42436075--42436351 Score: 500
Period size: 102 Copynumber: 2.7 Consensus size: 102
42436065 TTCTAGCAGG
* *
42436075 ATTCTTGCTACCAACCCCAACTTCAACATTCTTCTGAGGTCTTCCACTAAAATTGGTGCCACTTG
1 ATTCTTGCTACCAACCCCAACTCCAACATTCTTCTGAGGTCTTCCATTAAAATTGGTGCCACTTG
*
42436140 GCCTTGTATCAAACCTTACGGTATTGTCTCTCGTCAC
66 GCCTTGTATCAAACCTTACGGTAGTGTCTCTCGTCAC
*
42436177 ATTCTTGCTACCAACCCCAACTCCAACATTCTTTTGAGGTCTTCCATTAAAATTGGTGCCACTTG
1 ATTCTTGCTACCAACCCCAACTCCAACATTCTTCTGAGGTCTTCCATTAAAATTGGTGCCACTTG
42436242 GCCTTGTATCAAACCTTACGGTAGTGTCTCTCGTCAC
66 GCCTTGTATCAAACCTTACGGTAGTGTCTCTCGTCAC
* *
42436279 ATTCTTGCTACCAACCCAAACTCCAACATTCTTCTGAGGTCTTCCATTAAAATTGGTGCCGCTTG
1 ATTCTTGCTACCAACCCCAACTCCAACATTCTTCTGAGGTCTTCCATTAAAATTGGTGCCACTTG
42436344 GCCTTGTA
66 GCCTTGTA
42436352 CTCTGAAATT
Statistics
Matches: 168, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 168 1.00
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (102 bp):
ATTCTTGCTACCAACCCCAACTCCAACATTCTTCTGAGGTCTTCCATTAAAATTGGTGCCACTTG
GCCTTGTATCAAACCTTACGGTAGTGTCTCTCGTCAC
Found at i:42445209 original size:152 final size:146
Alignment explanation
Indices: 42444828--42445307 Score: 508
Period size: 149 Copynumber: 3.2 Consensus size: 146
42444818 TTTTAATAAA
** * *
42444828 AAAATGAGAAAGTTTAGATTTTGGAAAAATAAATGTATATTTTTTTT-GTTAATTTAAAGGAAAG
1 AAAATGAG-AAGTTTAGATTTT-GAAAAA-AAAAATATGTTTTTTTTAGTTATTTTAAAGGAAAG
** * * * *
42444892 TTTAAATTTTTAAAACAAAGTTTTGATTGTTTTTTCAACT-CTTTTAAAGTCAAAGCTTTAATCT
63 TTTAAATTTTTAAAACAAAGTTTTGATT-TTTTTT-AACTAC-TCCAAAATAAAAACTTTAATAT
*
42444956 TTAAGAAAAATAGTATTTTTTT
125 TTAAGAAAAATAATATTTTTTT
*
42444978 AAAA-AAGACAGTTTAGATTTTGAAAAAACAAAAATATG-TTTTTTTAGTTATTTTAAAGGAAAG
1 AAAATGAGA-AGTTTAGATTTTG-AAAAA-AAAAATATGTTTTTTTTAGTTATTTTAAAGGAAAG
* * *
42445041 CTTAAATTTTTAAAACAAAGATTTGATTTTTTTTAACTACTCCAAAATAAAAACTTTATTATTTA
63 TTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTAACTACTCCAAAATAAAAACTTTAATATTTA
42445106 AGAAAGTAATAATAATTTTTTT
128 AGAAA--AATAAT-ATTTTTTT
* *
42445128 AAAATGAGAATGTTTAGATTTTGAAAAAGAAAAATCTGTTTTTTTTAAGTCATTTTAAAGGAAAG
1 AAAATGAGAA-GTTTAGATTTTGAAAAA-AAAAATATGTTTTTTTT-AGTTATTTTAAAGGAAAG
* * ** * *
42445193 TTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTAACTATTCCGAAAT-AAAGTTTTGATTTTTA
63 TTTAAATTTTTAAAACAAAGTTTTGATTTTTTTTAACTACTCCAAAATAAAAACTTTAATATTTA
* *
42445257 AGAAAAGTAATTATTCTTTCT
128 AGAAAAATAA-TATT-TTTTT
* *
42445278 -AAA-GA-AAATTTTGATTTTGAAAAAAAAAAT
1 AAAATGAGAAGTTTAGATTTTGAAAAAAAAAAT
42445308 CCACACCGAA
Statistics
Matches: 284, Mismatches: 33, Indels: 31
0.82 0.09 0.09
Matches are distributed among these distances:
145 6 0.02
146 15 0.05
147 29 0.10
148 18 0.06
149 82 0.29
150 35 0.12
151 38 0.13
152 61 0.21
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (146 bp):
AAAATGAGAAGTTTAGATTTTGAAAAAAAAAATATGTTTTTTTTAGTTATTTTAAAGGAAAGTTT
AAATTTTTAAAACAAAGTTTTGATTTTTTTTAACTACTCCAAAATAAAAACTTTAATATTTAAGA
AAAATAATATTTTTTT
Found at i:42450185 original size:47 final size:46
Alignment explanation
Indices: 42450120--42450342 Score: 231
Period size: 47 Copynumber: 4.8 Consensus size: 46
42450110 ACATTAAGAG
* *
42450120 AGCCAGTGTAAGACCATGTCTGGTACATGGCATCGGCATTGAGACTAA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAGA-TAA
* * *
42450168 AGCTACTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTCGAGACGT-A
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAGA--TAA
*
42450214 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAGAT-AA
* ** * * *
42450260 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCTACTTGGGATAGG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATA-A
42450307 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
42450343 TACCTTACCC
Statistics
Matches: 148, Mismatches: 19, Indels: 17
0.80 0.10 0.09
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 61 0.41
47 66 0.45
48 18 0.12
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAGATAA
Found at i:42450227 original size:46 final size:47
Alignment explanation
Indices: 42450120--42450342 Score: 210
Period size: 46 Copynumber: 4.7 Consensus size: 47
42450110 ACATTAAGAG
* * *
42450120 AGCCAGTGTAAGACCATGTCTGGTACATGGCATCGGCATTGAGAC-TAA
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGACGT-A
* * *
42450168 AGCTACTGTAAGA-CATGTCTGGGACATGCATTGGCCTCGAGACGTA
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGTA
*
42450214 AGCCAGTGTAAGA-CATGTCTGGGACATGCATCGG-CTACGAGATG-A
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGACGTA
* ** * *
42450259 TAGTCAGTGTAAGACCATGTCTGGGACATGGCATC-TACTTGGGA--TA
1 -AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGACGTA
42450305 GGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 --AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGG
42450343 TACCTTACCC
Statistics
Matches: 149, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
45 3 0.02
46 64 0.43
47 64 0.43
48 18 0.12
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGTA
Found at i:42456016 original size:46 final size:46
Alignment explanation
Indices: 42455920--42456080 Score: 148
Period size: 46 Copynumber: 3.5 Consensus size: 46
42455910 TGTGAGCTAA
* * * ** * * *
42455920 TGTAAGACATGTCTGGGACATGCATTGACCACA-TTATGAGAGCTAC
1 TGTAAGACATGTCTGGGACATGCATCGGCTA-AGACATGATAGCCAG
*
42455966 TGTAAGACATGTTTGGGACATGCATCGGCCTCAAGACAT-A-AGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGG-CT-AAGACATGATAGCCAG
* * * *
42456012 TGTAAGACATGCCTGGGACATGCATCGGCTACGAGATGATAGTCAG
1 TGTAAGACATGTCTGGGACATGCATCGGCTAAGACATGATAGCCAG
42456058 TGTAAGACCATGTCTGGGACATG
1 TGTAAGA-CATGTCTGGGACATG
42456081 GTATCAACAC
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
44 5 0.05
45 3 0.03
46 67 0.71
47 17 0.18
48 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCTAAGACATGATAGCCAG
Found at i:42458812 original size:27 final size:27
Alignment explanation
Indices: 42458731--42458806 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
42458721 TTACCACCTA
* *
42458731 ATCCTCGTATTTACCATCTCATTGGACT
1 ATCC-CGTATTTAACATCCCATTGGACT
* * *
42458759 AACCCGTGTTTAACGTCCCATTGGACT
1 ATCCCGTATTTAACATCCCATTGGACT
42458786 ATCCCGTATTTAACATCCCAT
1 ATCCCGTATTTAACATCCCAT
42458807 CAGACTGTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 37 0.93
28 3 0.08
ACGTcount: A:0.24, C:0.30, G:0.12, T:0.34
Consensus pattern (27 bp):
ATCCCGTATTTAACATCCCATTGGACT
Found at i:42470353 original size:37 final size:37
Alignment explanation
Indices: 42470303--42470381 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
42470293 TTATTACGAA
* *
42470303 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
42470340 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
42470377 GTCTT
1 GTCTT
42470382 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:42470578 original size:47 final size:47
Alignment explanation
Indices: 42470500--42471019 Score: 887
Period size: 47 Copynumber: 10.9 Consensus size: 47
42470490 CCCTTCGGGA
* * * * * *
42470500 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42470547 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42470594 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42470641 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42470690 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42470737 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42470784 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42470833 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42470880 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42470929 CTTATCACATAAATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42470976 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
42471020 CGCCATACTA
Statistics
Matches: 451, Mismatches: 16, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
47 312 0.69
49 139 0.31
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Done.