Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 55 of 78
Found at i:10900155 original size:66 final size:65
Alignment explanation
Indices: 10899982--10900183 Score: 280
Period size: 66 Copynumber: 3.1 Consensus size: 65
10899972 CCTTGAAACA
** ** *
10899982 AAACAAACATCTTTGAGATCATTTCCCTTGAAATGAATTTTGTCTCTCATGAGACAGTTTCTCTT
1 AAAC-AACATCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
*
10900047 T
65 C
* * *
10900048 AAACATCATCTTTGAG-TTGTTTCCCTTGAAACAAATTTTGTCTCACTTGAGACATTTTCTCTTC
1 AAACAACATCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTC
*
10900112 AAACACACACCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
1 AAACA-ACATCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
*
10900177 G
65 C
10900178 AAACAA
1 AAACAA
10900184 ATCCCTAAAG
Statistics
Matches: 120, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
64 45 0.38
65 21 0.17
66 54 0.45
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (65 bp):
AAACAACATCTTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTC
Found at i:10900172 original size:36 final size:36
Alignment explanation
Indices: 10900066--10900185 Score: 108
Period size: 36 Copynumber: 3.5 Consensus size: 36
10900056 TCTTTGAGTT
*
10900066 GTTTCCCTTGAAACAAATTTTGTCTCACTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * * * ** **
10900102 TTTTCTCTTCAAACACA----CAC-CT-TTGAGATT
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
10900132 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
10900168 GTTTCTCTTGAAACAAAT
1 GTTTCCCTTGAAACAAAT
10900186 CCCTAAAGAT
Statistics
Matches: 60, Mismatches: 18, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
30 19 0.32
31 1 0.02
32 1 0.02
34 1 0.02
35 2 0.03
36 36 0.60
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:10900434 original size:131 final size:131
Alignment explanation
Indices: 10900205--10900446 Score: 335
Period size: 131 Copynumber: 1.8 Consensus size: 131
10900195 TGACTTGTTT
* * * * *
10900205 TCCTCATCGCGTAGGAATCGTGTCATCCCCCGACCAGATCTCCTCATCACGTAGGAGCCATGTCA
1 TCCTCATCACATAGGAATCGTGTCATCCACCAACCAGACCTCCTCATCACGTAGGAGCCATGTCA
* * * * **
10900270 CCCTTAGATAACCAGTCGTCTACATCACGTAGGAACTGTGTTATCATCCCTAAAGATGGTATGTC
66 CCCCTAAATAACCAGTCATCTACATCACATAGGAACCATGTTATCATCCCTAAAGATGGTATGTC
10900335 A
131 A
*
10900336 TCCTCATCACATAGGAA-CTGTGTCATCCACCAACCAGACCTCCTCATCATGTAGGAGCCATGTC
1 TCCTCATCACATAGGAATC-GTGTCATCCACCAACCAGACCTCCTCATCACGTAGGAGCCATGTC
*
10900400 ACCCCTAAATAACCAGTCATCCT-CATTACATAGGAACCATGTTATCA
65 ACCCCTAAATAACCAGTCAT-CTACATCACATAGGAACCATGTTATCA
10900447 ACATTCCCTA
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
130 1 0.01
131 93 0.97
132 2 0.02
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (131 bp):
TCCTCATCACATAGGAATCGTGTCATCCACCAACCAGACCTCCTCATCACGTAGGAGCCATGTCA
CCCCTAAATAACCAGTCATCTACATCACATAGGAACCATGTTATCATCCCTAAAGATGGTATGTC
A
Found at i:10902036 original size:14 final size:15
Alignment explanation
Indices: 10902009--10902037 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10901999 GTTTTAGTCC
10902009 TGTTATTATTTGTTA
1 TGTTATTATTTGTTA
10902024 TGTTATT-TTTGTTA
1 TGTTATTATTTGTTA
10902038 ATATTCAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (15 bp):
TGTTATTATTTGTTA
Found at i:10904031 original size:6 final size:6
Alignment explanation
Indices: 10904020--10904048 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
10904010 GGATGTTGAG
10904020 GATGGT GATGGT GATGGT GATGGT GATGG
1 GATGGT GATGGT GATGGT GATGGT GATGG
10904049 GATTTTTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.52, T:0.31
Consensus pattern (6 bp):
GATGGT
Found at i:10909386 original size:2 final size:2
Alignment explanation
Indices: 10909375--10909405 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
10909365 TCATTTCATC
10909375 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10909406 GGAAGATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:10918646 original size:30 final size:30
Alignment explanation
Indices: 10918593--10918654 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
10918583 CAAATGAGTA
* *
10918593 TACTCTTACAAGGGTATTAAATATTGGTAC
1 TACTCTTACAAGAGTATTAAATATTGGGAC
*
10918623 TACTCTTACAAGTAGTA-TCAATATTGGGAC
1 TACTCTTACAAG-AGTATTAAATATTGGGAC
10918653 TA
1 TA
10918655 GTATCGGTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 25 0.89
31 3 0.11
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (30 bp):
TACTCTTACAAGAGTATTAAATATTGGGAC
Found at i:10922322 original size:3 final size:3
Alignment explanation
Indices: 10922314--10922342 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10922304 TATAATAGTA
10922314 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10922343 AGGTCAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10922880 original size:18 final size:18
Alignment explanation
Indices: 10922853--10922891 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
10922843 GATAGAGAGA
* *
10922853 AAAACGGAGAAAAAAAGG
1 AAAACAGAGAAAAAAAAG
10922871 AAAACAGAGAAAAAAAAG
1 AAAACAGAGAAAAAAAAG
10922889 AAA
1 AAA
10922892 TTAAACAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAACAGAGAAAAAAAAG
Found at i:10925958 original size:18 final size:17
Alignment explanation
Indices: 10925904--10925952 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
10925894 TTGGACTCCT
* *
10925904 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
10925922 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
10925940 AGTGCATTCGATG
1 AGTGCA-TCGATG
10925953 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:10926058 original size:19 final size:19
Alignment explanation
Indices: 10926030--10926087 Score: 98
Period size: 19 Copynumber: 3.1 Consensus size: 19
10926020 TAATTAAATC
10926030 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
10926049 AGAGTTCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
10926068 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
10926087 A
1 A
10926088 ATGCATTCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.26, C:0.16, G:0.36, T:0.22
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:10926059 original size:64 final size:61
Alignment explanation
Indices: 10925904--10926065 Score: 164
Period size: 64 Copynumber: 2.5 Consensus size: 61
10925894 TTGGACTCCT
* * * *
10925904 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAAAAATAGCC
1 AGTGCATCGATGCA-TGAGAGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAG-C
* ** *
10925967 TGGTGCATCGATGCATGACTTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCAG
1 -AGTGCATCGATGCATGA-GAGTGCATCGATGCATCAAATGCATTCGATGTTTGAA--AAAT-AG
10926032 -
61 C
*
10926032 AGTGCATCGATGCATGGAGAGTTCATCGATGCAT
1 AGTGCATCGATGCAT-GAGAGTGCATCGATGCAT
10926066 GGAGAGTGCA
Statistics
Matches: 81, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
63 2 0.02
64 71 0.88
65 2 0.02
66 4 0.05
67 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (61 bp):
AGTGCATCGATGCATGAGAGTGCATCGATGCATCAAATGCATTCGATGTTTGAAAAATAGC
Found at i:10926139 original size:21 final size:21
Alignment explanation
Indices: 10926113--10926152 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10926103 CAATTTATTC
10926113 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
10926134 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
10926153 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:10928817 original size:44 final size:42
Alignment explanation
Indices: 10928702--10928824 Score: 104
Period size: 44 Copynumber: 2.8 Consensus size: 42
10928692 AAAACCCAAC
* * *
10928702 GGATGCATCGATGCGTGGTCTTGTGCATCGATGCACATTCAAG
1 GGATGCATCGATGCATTGT-TAGTGCATCGATGCACATTCAAG
* * ** *
10928745 GCATGCATCGGTGCATCATG-CGGATGCATTGATGCACATTCAAAG
1 GGATGCATCGATGCAT--TGTTAG-TGCATCGATGCACATTC-AAG
*
10928790 GGATGCATCGATGCATTGTTAAGTGCATCGGTGCA
1 GGATGCATCGATGCATTGTT-AGTGCATCGATGCA
10928825 TTAAGCACAA
Statistics
Matches: 61, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
43 16 0.26
44 26 0.43
45 19 0.31
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (42 bp):
GGATGCATCGATGCATTGTTAGTGCATCGATGCACATTCAAG
Found at i:10934593 original size:18 final size:17
Alignment explanation
Indices: 10934539--10934587 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
10934529 TTGGACTCCT
* *
10934539 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
10934557 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
10934575 AGTGCATTCGATG
1 AGTGCA-TCGATG
10934588 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:10934653 original size:45 final size:44
Alignment explanation
Indices: 10934558--10934662 Score: 140
Period size: 45 Copynumber: 2.3 Consensus size: 44
10934548 GTGCACTAAG
* *
10934558 AGTGCATCGATGCATGAAGTGCATTCGATGTTTGAAAAATAGCCT
1 AGTGCATCGATGCATCAAGTGCATTCGATGTTTGAAAAATA-CAT
* *
10934603 GGTGCATCGATGCATCAAGTGCATTCGATGTTTTAATTAAAT-CAT
1 AGTGCATCGATGCATCAAGTGCATTCGATGTTTGAA--AAATACAT
10934648 AGTGCATCGATGCAT
1 AGTGCATCGATGCAT
10934663 GGAGAGTGTA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
45 49 0.92
47 4 0.08
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (44 bp):
AGTGCATCGATGCATCAAGTGCATTCGATGTTTGAAAAATACAT
Found at i:10934675 original size:19 final size:19
Alignment explanation
Indices: 10934648--10934684 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10934638 ATTAAATCAT
10934648 AGTGCATCGATGCATGGAG
1 AGTGCATCGATGCATGGAG
* *
10934667 AGTGTATCGGTGCATGGA
1 AGTGCATCGATGCATGGA
10934685 ATGCATTCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.14, G:0.38, T:0.24
Consensus pattern (19 bp):
AGTGCATCGATGCATGGAG
Found at i:10934736 original size:21 final size:21
Alignment explanation
Indices: 10934710--10934749 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10934700 CAATTTATTC
10934710 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
10934731 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
10934750 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:10941485 original size:29 final size:29
Alignment explanation
Indices: 10941452--10941514 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
10941442 AGAGCTTTAA
*
10941452 TTTGACTACCT-TGTGAAGAGGAGTCAATC
1 TTTGACTACCTAT-TGAAGAGAAGTCAATC
* *
10941481 TTTGATTTCCTCATTGAAGAGAAGTCAATC
1 TTTGACTACCT-ATTGAAGAGAAGTCAATC
10941511 TTTG
1 TTTG
10941515 TTATCTATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 9 0.31
30 19 0.66
31 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.37
Consensus pattern (29 bp):
TTTGACTACCTATTGAAGAGAAGTCAATC
Found at i:10941572 original size:68 final size:66
Alignment explanation
Indices: 10941466--10941653 Score: 225
Period size: 68 Copynumber: 2.8 Consensus size: 66
10941456 ACTACCTTGT
10941466 GAAGAGGAGTCAATCTTTGA-TTTCCTCATTGAAGAGAAGTCAATCTTTGTTATCTATGACTCCC
1 GAAGAGGAGTCAATCTTTGACTTT-CTCA-TGAAGAGAAGTCAATCTTTGTTATCT-TGACTCCC
10941530 TCGC
63 TCGC
* * * *
10941534 GAAGAGGAGTCAATCTTTAACTTTCTCATGAAAAAGAAGTCAACCTTTGTTATTCTTTACTCCCT
1 GAAGAGGAGTCAATCTTTGACTTTCTCATG-AAGAGAAGTCAATCTTTGTTA-TCTTGACTCCCT
*
10941599 CGT
64 CGC
* ** * * *
10941602 GAAGAGAAACCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTAT
1 GAAGAGGAGTCAATCTTTGACTTTCTCATGAAGAGAAGTCAATCTTTGTTAT
10941654 TCCTAAGGAG
Statistics
Matches: 103, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
66 1 0.01
67 21 0.20
68 75 0.73
69 6 0.06
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (66 bp):
GAAGAGGAGTCAATCTTTGACTTTCTCATGAAGAGAAGTCAATCTTTGTTATCTTGACTCCCTCG
C
Found at i:10941933 original size:42 final size:42
Alignment explanation
Indices: 10941874--10942022 Score: 138
Period size: 42 Copynumber: 3.4 Consensus size: 42
10941864 GTTTTCCTAA
10941874 AAGAGTAGCGAAGCAAATCAATCTTGAGTCTGGTCTCCCCGG
1 AAGAGTAGCGAAGCAAATCAATCTTGAGTCTGGTCTCCCCGG
* * * * * *
10941916 AAGAGTAGTGGAGCAAATTC-ATCTTATTTTAGATTTGGTCTTCCCGA
1 AAGAGTAGCGAAGCAAA-TCAATC----TTGAG-TCTGGTCTCCCCGG
* * * *
10941963 AAGAGTAGCAAAGTAAATCAATCTCGAGTCTGATCTCCCCGG
1 AAGAGTAGCGAAGCAAATCAATCTTGAGTCTGGTCTCCCCGG
*
10942005 AAGAGTAGCGAAGAAAAT
1 AAGAGTAGCGAAGCAAAT
10942023 TCTTCTTATT
Statistics
Matches: 82, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
42 44 0.54
43 5 0.06
46 6 0.07
47 27 0.33
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (42 bp):
AAGAGTAGCGAAGCAAATCAATCTTGAGTCTGGTCTCCCCGG
Found at i:10942338 original size:355 final size:352
Alignment explanation
Indices: 10941671--10943617 Score: 2180
Period size: 355 Copynumber: 5.5 Consensus size: 352
10941661 GAGGAGTCAA
* * * * *
10941671 TATTTCAGATTTGGTCTTCCTGAAGAAGCAGCGAAGCAAATCAATCTCGAGTATGATCTCCCTGG
1 TATTTCAGATTTGGTCTTCCCGAAAAAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTAG
* * * * *
10941736 AATAGTAGTAGAG-AGGATTCTTCTTGTTTCTTATATTTGGTCTTCCTGAAAGAGTAGCGAAGAA
66 AAGAGTAGTAGAGCA-GATTCTTCTTATTTC--AGATTTGGTCTTCCCGAAAGAGTAGCGAAGCA
* * * *
10941800 AATAAATCTTGAGTCTGATCTCCTCGAAAGAGTAGTGCAGCAGATTCTTCTTATTTCAGATTTGG
128 AATCAATCTCGAGTCTGATCTCCTAG-AAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTTGG
* * * *
10941865 TTTTCCTAAAAGAGTAGCGAAGC-AAATCAATCTTGAGTCTGGTCTCCCCGGAAGAGTAGTGGAG
192 TTTTCC-GAAAGAGTAGC-AAACTAAATCAATCTCGAGTCTGATCT-CCCGGAAGAGTAGTGGA-
* * * * * *
10941929 CAAATTCATCTTATTTTAGATTTGGTCTTCCCGAAAGAGTAGCAAAGTAAATCAATCTCGAGTCT
253 TAGATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCT
*
10941994 GATCTCCCCGGAAGAGTAGCGAAGAAAATTCTTCT
318 GATCTCCCCGGAAGAGTAGCGGAGAAAATTCTTCT
* * *
10942029 TATTTCAGATTTGGTCTTCCCGAAAAAGTAGCGAAGCAGATCAATCTTGAGTCTGATCT-CATCA
1 TATTTCAGATTTGGTCTTCCCGAAAAAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCT-A
* * * * * *
10942093 GAAGAGTAATAGAGCATATTCTTCTTATTTCAGAGTTGATCTTCCCGAACGAGTAGCAAAGCAAA
65 GAAGAGTAGTAGAGCAGATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAA
* *
10942158 TCAATCTCGAGTCTGATCTACCTAGAACAGTAGTGGAG-GGATTCTTCTTATTTCAGATTTGGTC
130 TCAATCTCGAGTCTGATCT-CCTAGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTTGGT-
* * * * * * * *
10942222 TTTCCGAAAGAGCAACAAACAAAATAAATCTCGAGTCTAATCTGCCCAGAAGAGAAGTGGATCAT
193 TTTCCGAAAGAGTAGCAAACTAAATCAATCTCGAGTCTGATCT-CCCGGAAGAGTAGTGGAT-AG
* * * *
10942287 ATTCTTCTTATTTCAGATGTGGTCTTCTCGAAAGAGTAACGAAGCAAATCAATCTCGAGTCTGGT
256 ATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGAT
* * * *
10942352 CTCTCCC-GAAGAATAGTGGAGTATATTCTTCT
321 CTC-CCCGGAAGAGTAGCGGAGAAAATTCTTCT
*
10942384 TATTTAAGATTTGGTCTTCCC-AAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTA
1 TATTTCAGATTTGGTCTTCCCGAAAA-AGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTA
* * * *
10942448 GAAGAGTAGTGGAGCATATTCTTCTTATTTTAGATTTGGTCTTCCCGAAAGAGTACCGAAGCAAA
65 GAAGAGTAGTAGAGCAGATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAA
** * *
10942513 TCAATCTCGAGTCTGATCTTCCCGGAAGAGTAGTGGAGCAGATTATTCTTATTTCATATTTGGTA
130 TCAATCTCGAGTCTGATC-TCCTAGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTTGGT-
* * * *
10942578 TTCCCGAAAGAGTAGCAAAGTAAATCAATCTCGAGTCAGATCTCCCCGGAAGAGTAGTGGAGTGG
193 TTTCCGAAAGAGTAGCAAACTAAATCAATCTCGAGTCTGATCT-CCCGGAAGAGTAGTGGA-TAG
* * * * **
10942643 ATTCTTCTTATTTCAGATTTGGTATT-CCAAAACAGTAGCGAAGTAAATCAATCTCGAGTCAAAT
256 ATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGAT
** * *
10942707 CTCCCCGGAAGAGTAGTAGAGTAGATTCTTCT
321 CTCCCCGGAAGAGTAGCGGAGAAAATTCTTCT
* * * * * *
10942739 TATTTTATATTTGGTTTTCCCGAAAGAGTAGTGAAGCAAATCAATCTCGAGTCTGATCT-CCTCG
1 TATTTCAGATTTGGTCTTCCCGAAAAAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCT-A
* * * *
10942803 GAAGAGTAGTGGAGCATATTCTT-TCTATTTCAGATTTGGTCTTCCCGAAAGAGTAACGAAGAAA
65 GAAGAGTAGTAGAGCAGATTCTTCT-TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAA
* * ** * * *
10942867 ATCAATCTCGAGTCTAATCTTCCCAGAAGAGTAGTATAGCATATTCTTCTTATTTCAAATTTTGT
129 ATCAATCTCGAGTCTGATC-TCCTAGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTTGGT
* * *
10942932 TTTCCCGAAAGAGTAG-AGAAGTAAATCAATCTCAAGTCTGATCTCCCTGGAAGAGTAGTGGGAA
193 TTT-CCGAAAGAGTAGCA-AACTAAATCAATCTCGAGTCTGATCTCCC-GGAAGAGTAGT-GGAT
* * ** * * * *
10942996 AGATTCTTCTTATTTAAAATTTGGTCTTTTCGAAAAAGTGGCGAAGAAAATCAATCTCGAGTATG
254 AGATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTG
* *
10943061 ATCTCCCCAGAAGAGTAGCGGAGCAAATT-TTCT
319 ATCTCCCCGGAAGAGTAGCGGAGAAAATTCTTCT
* * * * * * *
10943094 TATTTTATATTTGGTCTTACCGATAGAGTAACGAAGCAGATCAATCTCGAGTCTGATCTCCCTAG
1 TATTTCAGATTTGGTCTTCCCGAAAAAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTAG
* *
10943159 AAGAGTAGTAGAGAAGATTCTTCTTATTAT-AGATTTGGTCTTCCTGAAAGAGTAGCGAAGCAAA
66 AAGAGTAGTAGAGCAGATTCTTCTTATT-TCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAA
* * * * *
10943223 TCAATCTCGAGTCTGATCTCCTCGGAAGAGCAATGGAGGAGATTCTTCTTATTTCAGATTTGGTC
130 TCAATCTCGAGTCTGATCTCCT-AGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTTGGTT
* * * ** * *
10943288 TTCTTGAAAGAGTAGCGAACTAAATCAATCTTGAGTCTGATCTCATTGGAAGAGTAGTGAAGTAT
194 TTC-CGAAAGAGTAGCAAACTAAATCAATCTCGAGTCTGATCTC-CCGGAAGAGTAGTGGA-TAG
* * *
10943353 ATTCTTCTTATTTCATATTTGGTCATCCCGAAAGAGTAGC-AAACAAATCAATCTCGAGTCTGAT
256 ATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGAT
* * *
10943417 CTCCCCGGAAGAGTAGTGGAGAAGATTCTTGT
321 CTCCCCGGAAGAGTAGCGGAGAAAATTCTTCT
*
10943449 TATTTCAGATTTGGTCTTCCCGAAACAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTAG
1 TATTTCAGATTTGGTCTTCCCGAAAAAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTAG
* * * * * *
10943514 AAGAGTAGTGGAGCAGATTCTTTTTATTTCAAATTTGGTTTTCCTC--AAGAAGCAACGAAGCAA
66 AAGAGTAGTAGAGCAGATTCTTCTTATTTCAGATTTGGTCTTCC-CGAAAG-AGTAGCGAAGCAA
* * * *
10943577 ATCAAT-TCTGAGTCTTATCTCCCTAAAAGAATAGTAGAGCA
129 ATCAATCTC-GAGTCTGATCT-CCTAGAAGAGTAGTGGAGCA
10943618 AACCCGTCTT
Statistics
Matches: 1347, Mismatches: 207, Indels: 73
0.83 0.13 0.04
Matches are distributed among these distances:
354 76 0.06
355 957 0.71
356 228 0.17
357 7 0.01
358 78 0.06
359 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (352 bp):
TATTTCAGATTTGGTCTTCCCGAAAAAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTAG
AAGAGTAGTAGAGCAGATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAAT
CAATCTCGAGTCTGATCTCCTAGAAGAGTAGTGGAGCAGATTCTTCTTATTTCAGATTTGGTTTT
CCGAAAGAGTAGCAAACTAAATCAATCTCGAGTCTGATCTCCCGGAAGAGTAGTGGATAGATTCT
TCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCC
CGGAAGAGTAGCGGAGAAAATTCTTCT
Found at i:10942605 original size:444 final size:443
Alignment explanation
Indices: 10941671--10943557 Score: 2210
Period size: 444 Copynumber: 4.2 Consensus size: 443
10941661 GAGGAGTCAA
* * * *
10941671 TATTTCAGATTTGGTCTTCCTG-AAGAAGCAGCGAAGCAAATCAATCTCGAGTATGATCTCCCTG
1 TATTTCAGATTTGGTCTTCCCGAAAG-AGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTA
* * * * * * * *
10941735 GAATAGTAGTAGAGAGGATTCTTCTTGTTTCTTATATTTGGTC-TTCCTGAAAGAGTAGCGAAGA
65 GAAGAGTAGTGGAGCGGATTCTTCTTATTTC--AGATTTGGTCTTTCC-GAAAGAGTAACAAACA
* *
10941799 AAATAAATCTTGAGTCTGATCTCCTC-GAAAGAGTAGT-GCAGCAGATTCTTCTTATTTCAGATT
127 AAATAAATCTCGAGTCTAATCTCC-CAG-AAGAGTAGTAG-AGCAGATTCTTCTTATTTCAGATT
* * * *
10941862 TGGTTTTCCTAAAAGAGTAGCGAAGCAAATCAATCTTGAGTCTGGTCTCC-CCGGAAGAGTAGTG
189 TGGTCTTCCTGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCTCC-GAAGAGTAGTG
* * * * *
10941926 GAGCAAATTCATCTTATTTTAGATTTGGTCTTCCCGAAAGAGTAGCAAAGTAAATCAATCTCGAG
253 GAGCATATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAG
** * * * *
10941991 TCTGATCTCCCCGGAAGAGTAGCGAAGAAAATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAAA
318 TCTGATCTCCCTAGAAGAGTAGTGAAGCATATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAGA
* * * * * * * *
10942056 GTAGCGAAGCAGATCAATCTTGAGTCTGATCTCATCAGAAGAGTAATAGAGCATATTCTTCT
383 GTAGCGAAGCAAATCAATCTCGAGTCTGATCTC-CCGGAAGAGTAGTGGAGAAGATTCTTCT
* * * * *
10942118 TATTTCAGAGTTGATCTTCCCGAACGAGTAGCAAAGCAAATCAATCTCGAGTCTGATCTACCTAG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTAG
* *
10942183 AACAGTAGTGGAG-GGATTCTTCTTATTTCAGATTTGGTCTTTCCGAAAGAGCAACAAACAAAAT
66 AAGAGTAGTGGAGCGGATTCTTCTTATTTCAGATTTGGTCTTTCCGAAAGAGTAACAAACAAAAT
* * * * *
10942247 AAATCTCGAGTCTAATCTGCCCAGAAGAGAAGTGGATCATATTCTTCTTATTTCAGATGTGGTCT
131 AAATCTCGAGTCTAATCT-CCCAGAAGAGTAGTAGAGCAGATTCTTCTTATTTCAGATTTGGTCT
* * * *
10942312 T-CTCGAAAGAGTAACGAAGCAAATCAATCTCGAGTCTGGTCT-CTCCCGAAGAATAGTGGAGTA
195 TCCT-GAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCT-CCGAAGAGTAGTGGAGCA
* *
10942375 TATTCTTCTTATTTAAGATTTGGTCTTCCCAAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGA
258 TATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGA
* * *
10942440 TCTCCCTAGAAGAGTAGTGGAGCATATTCTTCTTATTTTAGATTTGGTCTTCCCGAAAGAGTACC
323 TCTCCCTAGAAGAGTAGTGAAGCATATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGC
* *
10942505 GAAGCAAATCAATCTCGAGTCTGATCTTCCCGGAAGAGTAGTGGAGCAGATTATTCT
388 GAAGCAAATCAATCTCGAGTCTGATC-TCCCGGAAGAGTAGTGGAGAAGATTCTTCT
* * * * * **
10942562 TATTTCATATTTGGTATTCCCGAAAGAGTAGCAAAGTAAATCAATCTCGAGTCAGATCTCCCCGG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTAG
* * * * * * **
10942627 AAGAGTAGTGGAGTGGATTCTTCTTATTTCAGATTTGGT-ATTCCAAAACAGTAGCGAAGTAAAT
66 AAGAGTAGTGGAGCGGATTCTTCTTATTTCAGATTTGGTCTTTCCGAAAGAGTAACAAACAAAAT
* * * * * * *
10942691 CAATCTCGAGTCAAATCTCCCCGGAAGAGTAGTAGAGTAGATTCTTCTTATTTTATATTTGGTTT
131 AAATCTCGAGTCTAATCT-CCCAGAAGAGTAGTAGAGCAGATTCTTCTTATTTCAGATTTGGTCT
* * *
10942756 TCCCGAAAGAGTAGTGAAGCAAATCAATCTCGAGTCTGATCTCCTCGGAAGAGTAGTGGAGCATA
195 TCCTGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCTCCGAAGAGTAGTGGAGCATA
* * *
10942821 TTCTT-TCTATTTCAGATTTGGTCTTCCCGAAAGAGTAACGAAGAAAATCAATCTCGAGTCTAAT
260 TTCTTCT-TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGAT
* * *
10942885 CTTCCC-AGAAGAGTAGT-ATAGCATATTCTTCTTATTTCAAATTTTGTTTTCCCGAAAGAGTAG
324 C-TCCCTAGAAGAGTAGTGA-AGCATATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAG
* * *
10942948 AGAAGTAAATCAATCTCAAGTCTGATCTCCCTGGAAGAGTAGTGG-GAAAGATTCTTCT
387 CGAAGCAAATCAATCTCGAGTCTGATCTCCC-GGAAGAGTAGTGGAG-AAGATTCTTCT
* * ** * * * * *
10943006 TATTTAAAATTTGGTCTTTTCGAAAAAGTGGCGAAGAAAATCAATCTCGAGTATGATCTCCCCAG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTAG
* ** * * * * * *
10943071 AAGAGTAGCGGAGCAAATT-TTCTTATTTTATATTTGGTCTTACCGATAGAGTAACGAAGC-AGA
66 AAGAGTAGTGGAGCGGATTCTTCTTATTTCAGATTTGGTCTTTCCGAAAGAGTAAC-AAACAAAA
* * *
10943134 TCAATCTCGAGTCTGATCTCCCTAGAAGAGTAGTAGAGAAGATTCTTCTTATTAT-AGATTTGGT
130 TAAATCTCGAGTCTAATCTCCC-AGAAGAGTAGTAGAGCAGATTCTTCTTATT-TCAGATTTGGT
* * * *
10943198 CTTCCTGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCTCGGAAGAGCAATGGAGGA
193 CTTCCTGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCTCCGAAGAGTAGTGGAGCA
* ** *
10943263 GATTCTTCTTATTTCAGATTTGGTCTTCTTGAAAGAGTAGCGAA-CTAAATCAATCTTGAGTCTG
258 TATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGC-AAATCAATCTCGAGTCTG
** * * * *
10943327 ATCTCATTGGAAGAGTAGTGAAGTATATTCTTCTTATTTCATATTTGGTCATCCCGAAAGAGTAG
322 ATCTCCCTAGAAGAGTAGTGAAGCATATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAG
* *
10943392 C-AAACAAATCAATCTCGAGTCTGATCTCCCCGGAAGAGTAGTGGAGAAGATTCTTGT
387 CGAAGCAAATCAATCTCGAGTCTGATCT-CCCGGAAGAGTAGTGGAGAAGATTCTTCT
*
10943449 TATTTCAGATTTGGTCTTCCCGAAACAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTAG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTAG
* * *
10943514 AAGAGTAGTGGAGCAGATTCTTTTTATTTCAAATTTGGT-TTTCC
66 AAGAGTAGTGGAGCGGATTCTTCTTATTTCAGATTTGGTCTTTCC
10943558 TCAAGAAGCA
Statistics
Matches: 1231, Mismatches: 181, Indels: 60
0.84 0.12 0.04
Matches are distributed among these distances:
443 154 0.13
444 948 0.77
445 48 0.04
446 15 0.01
447 64 0.05
448 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (443 bp):
TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTAG
AAGAGTAGTGGAGCGGATTCTTCTTATTTCAGATTTGGTCTTTCCGAAAGAGTAACAAACAAAAT
AAATCTCGAGTCTAATCTCCCAGAAGAGTAGTAGAGCAGATTCTTCTTATTTCAGATTTGGTCTT
CCTGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCTCCGAAGAGTAGTGGAGCATAT
TCTTCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCT
CCCTAGAAGAGTAGTGAAGCATATTCTTCTTATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAA
GCAAATCAATCTCGAGTCTGATCTCCCGGAAGAGTAGTGGAGAAGATTCTTCT
Found at i:10943617 original size:89 final size:89
Alignment explanation
Indices: 10941671--10943600 Score: 2149
Period size: 89 Copynumber: 21.7 Consensus size: 89
10941661 GAGGAGTCAA
* * *
10941671 TATTTCAGATTTGGTCTTCCTG-AAGAAGCAGCGAAGCAAATCAATCTCGAGTATGATCTCCCTG
1 TATTTCAGATTTGGTCTTCCCGAAAG-AGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTG
* *
10941735 GAATAGTAGTAGAG-AGGATTCTTCT
65 GAAGAGTAGTGGAGCA-GATTCTTCT
* * * * * *
10941760 TGTTTCTTATATTTGGTCTTCCTGAAAGAGTAGCGAAGAAAATAAATCTTGAGTCTGATCT-CCT
1 TATTTC--AGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCT
* *
10941824 CGAAAGAGTAGTGCAGCAGATTCTTCT
64 -GGAAGAGTAGTGGAGCAGATTCTTCT
* ** * * *
10941851 TATTTCAGATTTGGTTTTCCTAAAAGAGTAGCGAAGCAAATCAATCTTGAGTCTGGTCTCCCCGG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTGG
* *
10941916 AAGAGTAGTGGAGCAAATTCATCT
66 AAGAGTAGTGGAGCAGATTCTTCT
* * * *
10941940 TATTTTAGATTTGGTCTTCCCGAAAGAGTAGCAAAGTAAATCAATCTCGAGTCTGATCTCCCCGG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTGG
* * * *
10942005 AAGAGTAGCGAAGAAAATTCTTCT
66 AAGAGTAGTGGAGCAGATTCTTCT
* * * * *
10942029 TATTTCAGATTTGGTCTTCCCGAAAAAGTAGCGAAGCAGATCAATCTTGAGTCTGATCT-CATCA
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCT-G
* * *
10942093 GAAGAGTAATAGAGCATATTCTTCT
65 GAAGAGTAGTGGAGCAGATTCTTCT
* * * * * *
10942118 TATTTCAGAGTTGATCTTCCCGAACGAGTAGCAAAGCAAATCAATCTCGAGTCTGATCTACCTAG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTGG
* *
10942183 AACAGTAGTGGAG-GGATTCTTCT
66 AAGAGTAGTGGAGCAGATTCTTCT
* * * * * *
10942206 TATTTCAGATTTGGTCTTTCCGAAAGAGCAAC-AAACAAAATAAATCTCGAGTCTAATCTGCCC-
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGC-AAATCAATCTCGAGTCTGATCT-CCCT
* * * *
10942269 AGAAGAGAAGTGGATCATATTCTTCT
64 GGAAGAGTAGTGGAGCAGATTCTTCT
* * * * *
10942295 TATTTCAGATGTGGTCTTCTCGAAAGAGTAACGAAGCAAATCAATCTCGAGTCTGGTCTCTCC-C
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTC-CCTG
* * *
10942359 GAAGAATAGTGGAGTATATTCTTCT
65 GAAGAGTAGTGGAGCAGATTCTTCT
* * *
10942384 TATTTAAGATTTGGTCTTCCCAAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTAG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTGG
*
10942449 AAGAGTAGTGGAGCATATTCTTCT
66 AAGAGTAGTGGAGCAGATTCTTCT
* *
10942473 TATTTTAGATTTGGTCTTCCCGAAAGAGTACCGAAGCAAATCAATCTCGAGTCTGATCTTCCC-G
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATC-TCCCTG
*
10942537 GAAGAGTAGTGGAGCAGATTATTCT
65 GAAGAGTAGTGGAGCAGATTCTTCT
* * * * * *
10942562 TATTTCATATTTGGTATTCCCGAAAGAGTAGCAAAGTAAATCAATCTCGAGTCAGATCTCCCCGG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTGG
**
10942627 AAGAGTAGTGGAGTGGATTCTTCT
66 AAGAGTAGTGGAGCAGATTCTTCT
* * * * ** *
10942651 TATTTCAGATTTGGTATT-CCAAAACAGTAGCGAAGTAAATCAATCTCGAGTCAAATCTCCCCGG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTGG
* *
10942715 AAGAGTAGTAGAGTAGATTCTTCT
66 AAGAGTAGTGGAGCAGATTCTTCT
* * * *
10942739 TATTTTATATTTGGTTTTCCCGAAAGAGTAGTGAAGCAAATCAATCTCGAGTCTGATCT-CCTCG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCT-G
*
10942803 GAAGAGTAGTGGAGCATATTCTT-T
65 GAAGAGTAGTGGAGCAGATTCTTCT
* * *
10942827 CTATTTCAGATTTGGTCTTCCCGAAAGAGTAACGAAGAAAATCAATCTCGAGTCTAATCTTCCC-
1 -TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATC-TCCCT
* ** *
10942891 AGAAGAGTAGTATAGCATATTCTTCT
64 GGAAGAGTAGTGGAGCAGATTCTTCT
* * * * * *
10942917 TATTTCAAATTTTGTTTTCCCGAAAGAGTAGAGAAGTAAATCAATCTCAAGTCTGATCTCCCTGG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTGG
*
10942982 AAGAGTAGTGG-GAAAGATTCTTCT
66 AAGAGTAGTGGAG-CAGATTCTTCT
* * ** * * * * **
10943006 TATTTAAAATTTGGTCTTTTCGAAAAAGTGGCGAAGAAAATCAATCTCGAGTATGATCTCCCCAG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTGG
* *
10943071 AAGAGTAGCGGAGCAAATT-TTCT
66 AAGAGTAGTGGAGCAGATTCTTCT
* * * * * * *
10943094 TATTTTATATTTGGTCTTACCGATAGAGTAACGAAGCAGATCAATCTCGAGTCTGATCTCCCTAG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTGG
* *
10943159 AAGAGTAGTAGAGAAGATTCTTCT
66 AAGAGTAGTGGAGCAGATTCTTCT
*
10943183 TATTAT-AGATTTGGTCTTCCTGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCT-CCTC
1 TATT-TCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCT-
* * *
10943246 GGAAGAGCAATGGAGGAGATTCTTCT
64 GGAAGAGTAGTGGAGCAGATTCTTCT
** * **
10943272 TATTTCAGATTTGGTCTTCTTGAAAGAGTAGCGAA-CTAAATCAATCTTGAGTCTGATCTCATTG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGC-AAATCAATCTCGAGTCTGATCTCCCTG
* * *
10943336 GAAGAGTAGTGAAGTATATTCTTCT
65 GAAGAGTAGTGGAGCAGATTCTTCT
* * * *
10943361 TATTTCATATTTGGTCATCCCGAAAGAGTAGC-AAACAAATCAATCTCGAGTCTGATCTCCCCGG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTGG
* *
10943425 AAGAGTAGTGGAGAAGATTCTTGT
66 AAGAGTAGTGGAGCAGATTCTTCT
* *
10943449 TATTTCAGATTTGGTCTTCCCGAAACAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTAG
1 TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTGG
*
10943514 AAGAGTAGTGGAGCAGATTCTTTT
66 AAGAGTAGTGGAGCAGATTCTTCT
* * * * *
10943538 TATTTCAAATTTGGTTTTCCTC--AAGAAGCAACGAAGCAAATCAAT-TCTGAGTCTTATCTCCC
1 TATTTCAGATTTGGTCTTCC-CGAAAG-AGTAGCGAAGCAAATCAATCTC-GAGTCTGATCTCCC
10943600 T
63 T
10943601 AAAAGAATAG
Statistics
Matches: 1568, Mismatches: 237, Indels: 72
0.84 0.13 0.04
Matches are distributed among these distances:
87 3 0.00
88 317 0.20
89 1154 0.74
90 20 0.01
91 70 0.04
92 4 0.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (89 bp):
TATTTCAGATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATCTCGAGTCTGATCTCCCTGG
AAGAGTAGTGGAGCAGATTCTTCT
Found at i:10943809 original size:109 final size:109
Alignment explanation
Indices: 10943616--10943881 Score: 329
Period size: 109 Copynumber: 2.4 Consensus size: 109
10943606 AATAGTAGAG
* *
10943616 CAAACCCGTCTTCCAAAGATTTTCAGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCTGACCCGTC
1 CAAACCCGTCTTCCAAAGATTTTCAGAGTCTTATCTCCCTGAAAGAAGAGTAGAGCAGACCCGTC
*
10943681 TTCCAAAGATATTTTGAGTCTTATCTCTCCGAAGTAGAGTGGAA
66 TTCCAAAGATATTTCGAGTCTTATCTCTCCGAAGTAGAGTGGAA
* * * *
10943725 CAAACTCGTCTTCCAAAGATTTTCCGAGTCTTATTTCCTTGAAAGAAGAGTAGAGCAGACCCGTC
1 CAAACCCGTCTTCCAAAGATTTTCAGAGTCTTATCTCCCTGAAAGAAGAGTAGAGCAGACCCGTC
* * * * * * *
10943790 TTCCACAGAT-TTCTCGAGTCTTATCTCGCTGAAAGAATAGAGGAG
66 TTCCAAAGATATT-TCGAGTCTTATCTCTCCG-AAGTAGAGTGGAA
* * * *
10943835 CAGACCAGTATTCCAAGGATTTCTC-GAGTCTTATCTCCCTGAAAGAA
1 CAAACCCGTCTTCCAAAGATTT-TCAGAGTCTTATCTCCCTGAAAGAA
10943882 TAGTGGATTA
Statistics
Matches: 133, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
108 2 0.02
109 83 0.62
110 46 0.35
111 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (109 bp):
CAAACCCGTCTTCCAAAGATTTTCAGAGTCTTATCTCCCTGAAAGAAGAGTAGAGCAGACCCGTC
TTCCAAAGATATTTCGAGTCTTATCTCTCCGAAGTAGAGTGGAA
Found at i:10943904 original size:55 final size:54
Alignment explanation
Indices: 10943586--10943907 Score: 351
Period size: 55 Copynumber: 5.9 Consensus size: 54
10943576 AATCAATTCT
* * * *
10943586 GAGTCTTATCTCCCTAAAAGAATAGTAGAGCAAACCCGTCTTCCAAAGATTTTC
1 GAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCTTCCAAAGATTTTC
* *
10943640 AGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCTGACCCGTCTTCCAAAGATATTTT
1 -GAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCTTCCAAAGAT-TTTC
* * * *
10943696 GAGTCTTATCTCTCC-G-AAGTAGAGTGGAACAAACTCGTCTTCCAAAGATTTTCC
1 GAGTCTTATCTC-CCTGAAAGAAGAGTGGAGCAGACCCGTCTTCCAAAGATTTT-C
* * * *
10943750 GAGTCTTATTTCCTTGAAAGAAGAGTAGAGCAGACCCGTCTTCCACAGATTTCTC
1 GAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCTTCCAAAGATTT-TC
* * * * * *
10943805 GAGTCTTATCTCGCTGAAAGAATAGAGGAGCAGACCAGTATTCCAAGGATTTCTC
1 GAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCTTCCAAAGATTT-TC
* ** **
10943860 GAGTCTTATCTCCCTGAAAGAATAGTGGATTAGACTTGTCTTCCAAAG
1 GAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCTTCCAAAG
10943908 TTGATATGAC
Statistics
Matches: 223, Mismatches: 38, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
53 4 0.02
54 40 0.18
55 173 0.78
56 6 0.03
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (54 bp):
GAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCTTCCAAAGATTTTC
Found at i:10944741 original size:14 final size:14
Alignment explanation
Indices: 10944724--10944759 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
10944714 AAAAGATAGA
10944724 AAATTAAA-GTATTG
1 AAATTAAACG-ATTG
10944738 AAATTAAACGATTG
1 AAATTAAACGATTG
10944752 AAATTAAA
1 AAATTAAA
10944760 TAAATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 20 0.95
15 1 0.05
ACGTcount: A:0.56, C:0.03, G:0.11, T:0.31
Consensus pattern (14 bp):
AAATTAAACGATTG
Found at i:10946262 original size:80 final size:81
Alignment explanation
Indices: 10946109--10946293 Score: 234
Period size: 80 Copynumber: 2.3 Consensus size: 81
10946099 ACTTTGGACG
* * *
10946109 AGTTCTTCTCATTATGAAC-TCTTCCACTGGGAATGTTGATCTATCTCTTTATGTGATAGAATAT
1 AGTTCTTCTCATTATGAACTTCTTCCACTGGAAATGTTGATCTATCTCTTTATGTAATAGAATAG
*
10946173 AGCAAAAGGTCGAACA
66 AACAAAAGGTCGAACA
* *
10946189 AGTTCTTCTCATTATGAACTTCTTCCATTGGAAATGTTGAT-TCATCTCCTTT-TGTAATGGAAT
1 AGTTCTTCTCATTATGAACTTCTTCCACTGGAAATGTTGATCT-ATCT-CTTTATGTAATAGAAT
* * *
10946252 CGAAC-TAAGGTTGAACA
64 AGAACAAAAGGTCGAACA
*
10946269 CGTTCTTCTCATTATGAACTTCTTC
1 AGTTCTTCTCATTATGAACTTCTTC
10946294 TTCCTCTTTG
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
80 54 0.59
81 34 0.37
82 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (81 bp):
AGTTCTTCTCATTATGAACTTCTTCCACTGGAAATGTTGATCTATCTCTTTATGTAATAGAATAG
AACAAAAGGTCGAACA
Found at i:10946363 original size:118 final size:115
Alignment explanation
Indices: 10946189--10946492 Score: 446
Period size: 118 Copynumber: 2.6 Consensus size: 115
10946179 AGGTCGAACA
* *
10946189 AGTTCTTCTCATTATGAACTTCTTCCATTGGAAATGTTGATTCATCTCCTTTTGTAATGGAATCG
1 AGTTCTTCTCATTATGAAC-TCTTCCATTGGAAATGTTGATCCATCTCCTTCTGTAATGGAATCG
* * * * *
10946254 AACTAAGGTTGAACACGTTCTTCTCATTATGAACTTCTTCTTCCTCTTTGGATG
65 AACTAAGGTTGAACAAGTTCTTATAATTATGAACTTCTTCTT--T-TTCGGACG
* * * *
10946308 AGTTCTTCCCATTATAAACTCTTTCGTTGGAAATGTTGATCCATCTCCTTCTGTAATGGAATCGA
1 AGTTCTTCTCATTATGAACTCTTCCATTGGAAATGTTGATCCATCTCCTTCTGTAATGGAATCGA
10946373 ACTAAGGTTGAACAAGTTCTTATAATTATGAACTTCTTCTTTTTCGGACG
66 ACTAAGGTTGAACAAGTTCTTATAATTATGAACTTCTTCTTTTTCGGACG
* * *
10946423 AGTTCTTCTCATTATGAACTCTTCCATTGGAAATGTTGATCAATCTCCTTCTATGATGGAATCGA
1 AGTTCTTCTCATTATGAACTCTTCCATTGGAAATGTTGATCCATCTCCTTCTGTAATGGAATCGA
10946488 ACTAA
66 ACTAA
10946493 ATGTTTATGT
Statistics
Matches: 167, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
115 69 0.41
116 1 0.01
118 80 0.48
119 17 0.10
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (115 bp):
AGTTCTTCTCATTATGAACTCTTCCATTGGAAATGTTGATCCATCTCCTTCTGTAATGGAATCGA
ACTAAGGTTGAACAAGTTCTTATAATTATGAACTTCTTCTTTTTCGGACG
Found at i:10946617 original size:3 final size:3
Alignment explanation
Indices: 10946564--10946603 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
10946554 TCATTATGAA
10946564 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
10946604 GGACGAGTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:10946757 original size:17 final size:17
Alignment explanation
Indices: 10946735--10946799 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 17
10946725 GTTGAACAAG
10946735 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
* *
10946752 TTCTTCTCCCTTATCAGACGAG
1 TTCTTCT-CATTAT--GA--AC
10946774 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
10946791 -TCTT-TCATT
1 TTCTTCTCATT
10946800 GAAAATATTG
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
15 5 0.13
16 4 0.10
17 8 0.21
18 5 0.13
19 2 0.05
20 2 0.05
21 5 0.13
22 8 0.21
ACGTcount: A:0.20, C:0.26, G:0.08, T:0.46
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:10946871 original size:119 final size:120
Alignment explanation
Indices: 10946609--10946911 Score: 348
Period size: 119 Copynumber: 2.5 Consensus size: 120
10946599 TCTTCGGACG
* * * *
10946609 AGTTCTTCTCATTATAAAATTCCTCCTCCTCTT-TGGACGAGTTCTTCTCATTATGAACTCTTCA
1 AGTTCTTCTCATTATGAACTT-CTTCTCC-CTTATCGACGAGTTCTTCTCATTATGAACTCTTCA
* * *
10946673 TTGGAAATGTTGATGCTGACCTATCTCCTTCTGCAATAGAGTCAAGAAAAAGGTTGAACA
64 TTGAAAATATTGA--CT-ACCTATCTCCTTCTGCAATAGAATCAAGAAAAAGGTTGAACA
10946733 AGTTCTTCTCATTATGAACTTCTTCTCCCTTATCAGACGAGTTCTTCTCATTATGAACTCTTTCA
1 AGTTCTTCTCATTATGAACTTCTTCTCCCTTATC-GACGAGTTCTTCTCATTATGAACTC-TTCA
** * * * *
10946798 TTGAAAATATTGA-T-CC-ATCTCCTTCTGTGATGGAATCTAGCACAAGGTTGAACA
64 TTGAAAATATTGACTACCTATCTCCTTCTGCAATAGAATCAAGAAAAAGGTTGAACA
*
10946852 AGTTCTTCTCATTATGAACTTC-TCATCCCTCTA-CGAATGAGTTCTTCTCATTATGAACTC
1 AGTTCTTCTCATTATGAACTTCTTC-TCCCT-TATCG-ACGAGTTCTTCTCATTATGAACTC
10946912 CCCATTAGAA
Statistics
Matches: 159, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
118 3 0.02
119 82 0.52
120 4 0.03
122 4 0.03
123 7 0.04
124 44 0.28
125 15 0.09
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (120 bp):
AGTTCTTCTCATTATGAACTTCTTCTCCCTTATCGACGAGTTCTTCTCATTATGAACTCTTCATT
GAAAATATTGACTACCTATCTCCTTCTGCAATAGAATCAAGAAAAAGGTTGAACA
Found at i:10947007 original size:139 final size:139
Alignment explanation
Indices: 10946841--10947342 Score: 779
Period size: 139 Copynumber: 3.7 Consensus size: 139
10946831 AATCTAGCAC
10946841 AAGGTTGAACAAGTTCTTCTCATTATGAACTTC-TCATCCCTC-TACGAATGAGTTCTTCTCATT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCCTCAT-CGAATGAGTTCTTCTCATT
* * *
10946904 ATGAACTCCCCATTAGAAATGTTGATCCCTCAAGTGAGGGGTCACTAATTCAACTCTATATGCGA
64 ATGAACTCTCCATTAGAAATGTTGATCCCTCAAGTGAGGGGTCACTGATTCAACTCCATATGCGA
10946969 TGAATCGAGCT
129 TGAATCGAGCT
*
10946980 AAGGTTGAACAAGTTCTTCTCAATATGAACTTCTTCTCCCTCATC-AGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGA-ATGAGTTCTTCTCATTA
*
10947044 TGAACTCTCTATTAGAAATG-TGATCCCTCAAGTGAGGGGTCACTGATTCAACTCCATATGCGAT
65 TGAACTCTCCATTAGAAATGTTGATCCCTCAAGTGAGGGGTCACTGATTCAACTCCATATGCGAT
10947108 GAATCGAGCT
130 GAATCGAGCT
*
10947118 AAGGTTGAACAAG---TTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGAATGAGTTCTTCTCATTAT
* * ** * *
10947180 GAACTCTCCATTGGAAATGTTGATCCCTCGAGTGAGGGGTCGTTGATTCAACTCCATATGCAAGG
66 GAACTCTCCATTAGAAATGTTGATCCCTCAAGTGAGGGGTCACTGATTCAACTCCATATGCGATG
10947245 AATCGAGCT
131 AATCGAGCT
*
10947254 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGAATGAGTTCTTCTCATTAT
* *
10947319 GAACTCTTC--TAGAAATGATGATCC
66 GAACTCTCCATTAGAAATGTTGATCC
10947343 ACCTCCTTCT
Statistics
Matches: 338, Mismatches: 17, Indels: 18
0.91 0.05 0.05
Matches are distributed among these distances:
135 63 0.19
136 62 0.18
137 13 0.04
138 66 0.20
139 131 0.39
140 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (139 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGAATGAGTTCTTCTCATTAT
GAACTCTCCATTAGAAATGTTGATCCCTCAAGTGAGGGGTCACTGATTCAACTCCATATGCGATG
AATCGAGCT
Found at i:10947180 original size:274 final size:274
Alignment explanation
Indices: 10946841--10947342 Score: 805
Period size: 274 Copynumber: 1.8 Consensus size: 274
10946831 AATCTAGCAC
10946841 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTCATCCCTCTACGAATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAG-T-TTCTCATTATGAACTTCTCATCCCTCTACGAATGAGTTCTTCTCATTAT
* * *
10946906 GAACTCCCCATTAGAAATGTTGATCCCTCAAGTGAGGGGTCACTAATTCAACTCTATATGCGATG
64 GAACTCCCCATTAGAAATGTTGATCCCTCAAGTGAGGGGTCACTAATTCAACTCCATATGCAAGG
10946971 AATCGAGCTAAGGTTGAACAAGTTCTTCTCAATATGAACTTCTTCTCCCTCATCAGATGAGTTCT
129 AATCGAGCTAAGGTTGAACAAGTTCTTCTCAATATGAACTTCTTCTCCCTCATCAGATGAGTTCT
*
10947036 TCTCATTATGAACTCTCTATTAGAAATG-TGATCCCTCAAGTGAGGGGTCACTGATTCAACTCCA
194 TCTCATTATGAACTCT-T-CTAGAAATGATGATCCCTCAAGTGAGGGGTCACTGATTCAACTCCA
10947100 TATGCGATGAATCGAGCT
257 TATGCGATGAATCGAGCT
*
10947118 AAGGTTGAACAAG-TTCTCATTATGAACTTCTTC-TCCCTC-ATCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTTCTCATTATGAACTTC-TCATCCCTCTA-CGAATGAGTTCTTCTCATTAT
* * * ** *
10947180 GAACTCTCCATTGGAAATGTTGATCCCTCGAGTGAGGGGTCGTTGATTCAACTCCATATGCAAGG
64 GAACTCCCCATTAGAAATGTTGATCCCTCAAGTGAGGGGTCACTAATTCAACTCCATATGCAAGG
* *
10947245 AATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCT
129 AATCGAGCTAAGGTTGAACAAGTTCTTCTCAATATGAACTTCTTCTCCCTCATCAGATGAGTTCT
10947310 TCTCATTATGAACTCTTCTAGAAATGATGATCC
194 TCTCATTATGAACTCTTCTAGAAATGATGATCC
10947343 ACCTCCTTCT
Statistics
Matches: 209, Mismatches: 13, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
272 8 0.04
273 8 0.04
274 178 0.85
275 2 0.01
277 13 0.06
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (274 bp):
AAGGTTGAACAAGTTTCTCATTATGAACTTCTCATCCCTCTACGAATGAGTTCTTCTCATTATGA
ACTCCCCATTAGAAATGTTGATCCCTCAAGTGAGGGGTCACTAATTCAACTCCATATGCAAGGAA
TCGAGCTAAGGTTGAACAAGTTCTTCTCAATATGAACTTCTTCTCCCTCATCAGATGAGTTCTTC
TCATTATGAACTCTTCTAGAAATGATGATCCCTCAAGTGAGGGGTCACTGATTCAACTCCATATG
CGATGAATCGAGCT
Found at i:10949226 original size:10 final size:10
Alignment explanation
Indices: 10949203--10949269 Score: 55
Period size: 10 Copynumber: 6.6 Consensus size: 10
10949193 ATTCTCTTTA
*
10949203 TCTTTTTCTTT
1 TCTTTTT-TCT
10949214 TCTTTTTTCT
1 TCTTTTTTCT
* *
10949224 TCTCTTCTCT
1 TCTTTTTTCT
* **
10949234 TTTTTTTTAA
1 TCTTTTTTCT
10949244 TCTTTTTTCT
1 TCTTTTTTCT
10949254 TCTTTTATT-T
1 TCTTTT-TTCT
10949264 TCTTTT
1 TCTTTT
10949270 ATTTTCATTT
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
10 35 0.80
11 9 0.20
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (10 bp):
TCTTTTTTCT
Found at i:10949247 original size:23 final size:21
Alignment explanation
Indices: 10949203--10949268 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 21
10949193 ATTCTCTTTA
*
10949203 TCTTTTTCTTTTCTTTTTTCTT
1 TCTTCTTCTTTT-TTTTTTCTT
10949225 CTCTTC-TCTTTTTTTTTAATCTT
1 -TCTTCTTCTTTTTTTTT--TCTT
* *
10949248 TTTTCTTC-TTTTATTTTCTT
1 TCTTCTTCTTTTTTTTTTCTT
10949268 T
1 T
10949269 TATTTTCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 5 0.14
21 5 0.14
22 17 0.46
23 10 0.27
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (21 bp):
TCTTCTTCTTTTTTTTTTCTT
Found at i:10949254 original size:20 final size:18
Alignment explanation
Indices: 10949205--10949269 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 18
10949195 TCTCTTTATC
10949205 TTTTTCTTTTCTTTTTTCT
1 TTTTTCTTTT-TTTTTTCT
10949224 TCTCTTCTCTTTTTTTTTAATCT
1 T-T-TT-TCTTTTTTTTT--TCT
10949247 TTTTTCTTCTTTTATTTTCT
1 TTTTTCTT-TTTT-TTTTCT
10949267 TTT
1 TTT
10949270 ATTTTCATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
19 1 0.03
20 11 0.28
21 13 0.33
22 10 0.26
23 4 0.10
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTTTTTTTTCT
Found at i:10949270 original size:10 final size:10
Alignment explanation
Indices: 10949244--10949297 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
10949234 TTTTTTTTAA
10949244 TCTTTT-TTCT
1 TCTTTTATT-T
10949254 TCTTTTATTT
1 TCTTTTATTT
10949264 TCTTTTATTT
1 TCTTTTATTT
*
10949274 TCATTTATTT
1 TCTTTTATTT
10949284 T-TATTT-TTT
1 TCT-TTTATTT
10949293 TCTTT
1 TCTTT
10949298 AAAAGAGCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
9 6 0.15
10 31 0.79
11 2 0.05
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (10 bp):
TCTTTTATTT
Found at i:10956726 original size:17 final size:16
Alignment explanation
Indices: 10956701--10956737 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
10956691 GGGGGGGAAA
*
10956701 ATGAAAAATTTTACTT
1 ATGAAAAAATTTACTT
*
10956717 GTGAAAAAATTTACTT
1 ATGAAAAAATTTACTT
10956733 ATGAA
1 ATGAA
10956738 TTTTTTTTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (16 bp):
ATGAAAAAATTTACTT
Found at i:10963857 original size:14 final size:14
Alignment explanation
Indices: 10963835--10963871 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
10963825 CCTTTTGAAG
*
10963835 AACTTTATTCGTCC
1 AACTCTATTCGTCC
10963849 AACTCTATTCGTCC
1 AACTCTATTCGTCC
10963863 AACTCTATT
1 AACTCTATT
10963872 GTCGAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.24, C:0.30, G:0.05, T:0.41
Consensus pattern (14 bp):
AACTCTATTCGTCC
Found at i:10965205 original size:46 final size:46
Alignment explanation
Indices: 10965152--10965243 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
10965142 TTTTGTACTA
*
10965152 CAAAAGGCAAAGTTTTTTTTATCTTATTTCAATTTCATCTCTATTT
1 CAAAAGGCAAAGTTTTTTTTATCTTATTTCAATGTCATCTCTATTT
*
10965198 CAAAAGGCAAAGTTTTTTTTATCTTATTTCAATGTCATCTTTATTT
1 CAAAAGGCAAAGTTTTTTTTATCTTATTTCAATGTCATCTCTATTT
10965244 TCATCCTCGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (46 bp):
CAAAAGGCAAAGTTTTTTTTATCTTATTTCAATGTCATCTCTATTT
Found at i:10977169 original size:43 final size:44
Alignment explanation
Indices: 10977072--10977199 Score: 129
Period size: 43 Copynumber: 3.0 Consensus size: 44
10977062 ACGAAGAGGT
* * **
10977072 CATCCACGATTTCAATTCCACGA-CGGAGGATATCGTACCCACG
1 CATCCACGATTTCAACTCCACGATCGGAGGATATCGTGCCCATA
* * *
10977115 GATTCATGATTT-ATACTCCAC-ATCGGAGGATATCGTGCCCATA
1 CATCCACGATTTCA-ACTCCACGATCGGAGGATATCGTGCCCATA
* * *
10977158 CATCCACGATTTCAACTTCACGAT-GAAGGATTTCGTGCCCAT
1 CATCCACGATTTCAACTCCACGATCGGAGGATATCGTGCCCAT
10977200 CAACAACATT
Statistics
Matches: 68, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
42 2 0.03
43 63 0.93
44 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (44 bp):
CATCCACGATTTCAACTCCACGATCGGAGGATATCGTGCCCATA
Found at i:10988875 original size:18 final size:17
Alignment explanation
Indices: 10988848--10989077 Score: 153
Period size: 16 Copynumber: 14.5 Consensus size: 17
10988838 GTCCCACTTT
10988848 TATA-ATATATATA-TA
1 TATATATATATATATTA
10988863 TATATATATATATA-TA
1 TATATATATATATATTA
10988879 TATATATATATATA-T-
1 TATATATATATATATTA
10988894 TAT-TATATA-ATATTA
1 TATATATATATATATTA
* *
10988909 TATTGTATATTTATATTA
1 TA-TATATATATATATTA
*
10988927 TATAGTGTATATATATTA
1 TATA-TATATATATATTA
10988945 T-TAT-TATATAGTATTA
1 TATATATATATA-TATTA
*
10988961 TAT-TATATTTATATTA
1 TATATATATATATATTA
* *
10988977 TGTATGT-TATATA-TA
1 TATATATATATATATTA
*
10988992 TCATA-GTATATAT-TTA
1 T-ATATATATATATATTA
* *
10989008 TATAT-TATATTTTTTA
1 TATATATATATATATTA
*
10989024 TAT-TAGAGTATATATTA
1 TATATATA-TATATATTA
10989041 T-TA-ATAT-TAT-TTA
1 TATATATATATATATTA
*
10989054 TATAT-TAT-TATATTT
1 TATATATATATATATTA
*
10989069 TATACATAT
1 TATATATAT
10989078 TAATAAAGTC
Statistics
Matches: 176, Mismatches: 16, Indels: 45
0.74 0.07 0.19
Matches are distributed among these distances:
13 7 0.04
14 18 0.10
15 37 0.21
16 70 0.40
17 24 0.14
18 20 0.11
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (17 bp):
TATATATATATATATTA
Found at i:10989037 original size:2 final size:2
Alignment explanation
Indices: 10988848--10989017 Score: 136
Period size: 2 Copynumber: 90.5 Consensus size: 2
10988838 GTCCCACTTT
10988848 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
10988889 TA TA T- TA T- TA TA TA -A TA T- TA TA T- TG TA TA TT TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
10988925 TA TA TA GTG TA TA TA TA T- TA T- TA T- TA TA TA GTA T- TA TA T-
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * *
10988964 TA TA TT TA TA T- TA TG TA TG T- TA TA TA TA TCA TA GTA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA -TA TA TA TA
10989006 TA TA TA T- TA TA T
1 TA TA TA TA TA TA T
10989018 TTTTTATATT
Statistics
Matches: 137, Mismatches: 12, Indels: 38
0.73 0.06 0.20
Matches are distributed among these distances:
1 15 0.11
2 115 0.84
3 7 0.05
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (2 bp):
TA
Found at i:10989056 original size:64 final size:64
Alignment explanation
Indices: 10988852--10989072 Score: 185
Period size: 64 Copynumber: 3.5 Consensus size: 64
10988842 CACTTTTATA
* *
10988852 ATATATATATATATATATA-TATATATATATATATATATATATTATTATA-TA-ATAT-TA-TAT
1 ATAT-TATATATATAT-TAGTATATATTTATATAT-TATATAGTATTATATTAGATATATATTA-
10988912 TGT
62 TGT
* * *
10988915 ATATTTATATTATATAGT-GTATATATATTAT-TATTATATAGTATTATATTATATTTATATTAT
1 ATA-TTATA-TATATATTAGTATATAT-TTATATATTATATAGTATTATATTAGATATATATTAT
10988978 GT
63 GT
* * *
10988980 ATGTTATATATATCA-TAGTATATATTTATATATTATAT-TTTTTATATTAGAGTATATATTAT-
1 ATATTATATATAT-ATTAGTATATATTTATATATTATATAGTATTATATTAGA-TATATATTATG
10989042 T
64 T
* *
10989043 AATATTATTTATATATTATTATAT-TTTATA
1 -ATATTATATATATATTAGTATATATTTATA
10989073 CATATTAATA
Statistics
Matches: 132, Mismatches: 12, Indels: 28
0.77 0.07 0.16
Matches are distributed among these distances:
62 13 0.10
63 48 0.36
64 62 0.47
65 7 0.05
66 2 0.02
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (64 bp):
ATATTATATATATATTAGTATATATTTATATATTATATAGTATTATATTAGATATATATTATGT
Found at i:10989057 original size:20 final size:19
Alignment explanation
Indices: 10988847--10989079 Score: 160
Period size: 20 Copynumber: 12.0 Consensus size: 19
10988837 CGTCCCACTT
*
10988847 TTATAATATATATATA-TA
1 TTATATTATATATATATTA
10988865 TATATATATATATATATATATA
1 T-TATAT-TATATATATAT-TA
*
10988887 TATATATTAT-TATATAATA
1 T-TATATTATATATATATTA
* *
10988906 TTATATTGTATATTTA-TA
1 TTATATTATATATATATTA
*
10988924 TTATA-TAGTGTATATA-TA
1 TTATATTA-TATATATATTA
*
10988942 -T-TATTAT-TATATAGTA
1 TTATATTATATATATATTA
*
10988958 TTATATTATATTTATATTA
1 TTATATTATATATATATTA
*
10988977 TGTATGTTATATATATCA-TA
1 T-TATATTATATATAT-ATTA
*
10988997 GTATATATTTATATATTATATTTT
1 -T-TATA-TTATATA-TATA-TTA
*
10989021 TTATATTAGAGTATATATTA
1 TTATATTATA-TATATATTA
*
10989041 TTAATATTATTTATATATTA
1 TT-ATATTATATATATATTA
* *
10989061 TTATATTTTATACATATTA
1 TTATATTATATATATATTA
10989080 ATAAAGTCAA
Statistics
Matches: 174, Mismatches: 21, Indels: 39
0.74 0.09 0.17
Matches are distributed among these distances:
15 6 0.03
16 5 0.03
17 5 0.03
18 29 0.17
19 34 0.20
20 45 0.26
21 22 0.13
22 23 0.13
23 4 0.02
24 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (19 bp):
TTATATTATATATATATTA
Found at i:10989153 original size:38 final size:38
Alignment explanation
Indices: 10989102--10989221 Score: 222
Period size: 38 Copynumber: 3.2 Consensus size: 38
10989092 GTACAGAAAC
10989102 GGAGCCTAACCGGGTAGCCTGACCCAATAAACCCGGCG
1 GGAGCCTAACCGGGTAGCCTGACCCAATAAACCCGGCG
*
10989140 GGAGCCTAACCGGGTAGCCTGACCCAATAAACTCGGCG
1 GGAGCCTAACCGGGTAGCCTGACCCAATAAACCCGGCG
10989178 GGAGCCTAACCGGGTAGCCTGACCCAATAAACCCGGCG
1 GGAGCCTAACCGGGTAGCCTGACCCAATAAACCCGGCG
*
10989216 AGAGCC
1 GGAGCC
10989222 CAACAGTTCG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 79 1.00
ACGTcount: A:0.27, C:0.33, G:0.29, T:0.11
Consensus pattern (38 bp):
GGAGCCTAACCGGGTAGCCTGACCCAATAAACCCGGCG
Found at i:10990441 original size:17 final size:16
Alignment explanation
Indices: 10990419--10990450 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10990409 TTAATCATTC
10990419 TTTAATATTTCTTTTAA
1 TTTAATATTT-TTTTAA
10990436 TTTAATATTTTTTTA
1 TTTAATATTTTTTTA
10990451 TTATTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTAATATTTTTTTAA
Found at i:10991528 original size:12 final size:12
Alignment explanation
Indices: 10991488--10991521 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10991478 TGGGGTAGGA
10991488 ATTTTTATTTTC
1 ATTTTTATTTTC
* *
10991500 ATTATTATTTTG
1 ATTTTTATTTTC
10991512 ATTTTTATTT
1 ATTTTTATTT
10991522 ATATTTTACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (12 bp):
ATTTTTATTTTC
Found at i:10995432 original size:201 final size:198
Alignment explanation
Indices: 10995121--10995643 Score: 584
Period size: 201 Copynumber: 2.6 Consensus size: 198
10995111 TCTACCAATG
* * * * * * *
10995121 AAAACATTT-GAGTTTAATTCCATTCAGCTCAAAGGCGTATCAATCGTATGGTAGCAACAAGGAA
1 AAAAC-TTTCGAGTTCAATTCAATTCAGCTCAAGGGTGTATCAACCGCATGGTAGCAACGAGGAA
* * * * *
10995185 CTAATTTCTGGTTGAATTTTAAA-TCGAGGTCTTTAAGTCAAGAAGAAGACCTAGGTTGGTTGCG
65 CTACTTT-TAGTTGAATTTTAAACT-GAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTAGATGCG
* * *
10995249 ATTTAGCAATAAAGAACTATCTCCCAACCTAATTTACAACATAGCTCAAG-GGGAGAAGGACTAC
128 ATTTAGCAACAAAGAACTATCTCCCAACCTAATTTACAACATAGCTCAAGTGAGAAAAGGACTA-
10995313 CTGTCAAC
192 -TGTCAAC
* * * * * * * *
10995321 AAAAACTTTCGATTTCGATTCCATTTAGCTCAAGGGTGTATTAACCTCATTGTAGCAGCGAGGAA
1 -AAAACTTTCGAGTTCAATTCAATTCAGCTCAAGGGTGTATCAACCGCATGGTAGCAACGAGGAA
*
10995386 CTACTTTTCAGTTGAATTTTAAACTGAGGACTTTAAGCCAAGAAGAAGACCTAGGTTAGATGCGA
65 CTACTTTT-AGTTGAATTTTAAACTGAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTAGATGCGA
* * * * ***
10995451 TTTAGCAACAAGGAACTATCTCCCAGCCTAATTTACAGCATAGCTTAAGTTGAGAAAAGTTGTAT
129 TTTAGCAACAAAGAACTATCTCCCAACCTAATTTACAACATAGCTCAAG-TGAGAAAAGGACTAT
10995516 GTCAAC
193 GTCAAC
* * *
10995522 GAAACTTTCGAGTTCAATTCAATTCAGCTCGAGGGTGTATCAACCGCATGGTAGCAACGATGAAC
1 AAAACTTTCGAGTTCAATTCAATTCAGCTCAAGGGTGTATCAACCGCATGGTAGCAACGAGGAAC
* * * * * *
10995587 TACTTTTTGTTTGAATTTTAAACCGATGTCTTTAAGCCAAGAATAATACCAAGGTTA
66 TACTTTTAG-TTGAATTTTAAACTGAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTA
10995644 ACTACGATTT
Statistics
Matches: 269, Mismatches: 47, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
199 1 0.00
200 106 0.39
201 153 0.57
202 1 0.00
203 8 0.03
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (198 bp):
AAAACTTTCGAGTTCAATTCAATTCAGCTCAAGGGTGTATCAACCGCATGGTAGCAACGAGGAAC
TACTTTTAGTTGAATTTTAAACTGAGGTCTTTAAGCCAAGAAGAAGACCTAGGTTAGATGCGATT
TAGCAACAAAGAACTATCTCCCAACCTAATTTACAACATAGCTCAAGTGAGAAAAGGACTATGTC
AAC
Found at i:10996073 original size:2 final size:2
Alignment explanation
Indices: 10996068--10996307 Score: 150
Period size: 2 Copynumber: 127.5 Consensus size: 2
10996058 CTTTTTTGTT
*
10996068 TA TA TA TA TA TA TA GTA TA TA TA GTG TA TA T- TA TA TA TA T- TA
1 TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
*
10996110 TA -A TA AA T- TA TA -A TA TA T- TA TA TA GTA T- TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* *
10996147 TA GTA CTA TA T- TA TT TA GTG TA TA TA TA TA T- TA TA T- TA T-
1 TA -TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* *
10996186 TA T- TA TG TA -A TA T- TA TA T- TA TA TA TT TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
10996223 -A TA TA TA TA TA T- TA TA TA TA GTA T- TA TA T- TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* *
10996262 T- TA TG TA TA T- TA TA TA TA TCA TA GTA TA TA TT TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA T-A TA -TA TA TA TA TA TA TA TA TA
10996303 TA TA T
1 TA TA T
10996308 TTTTTTATAT
Statistics
Matches: 187, Mismatches: 19, Indels: 64
0.69 0.07 0.24
Matches are distributed among these distances:
1 24 0.13
2 147 0.79
3 16 0.09
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.53
Consensus pattern (2 bp):
TA
Found at i:10996106 original size:20 final size:19
Alignment explanation
Indices: 10996068--10996307 Score: 196
Period size: 20 Copynumber: 12.5 Consensus size: 19
10996058 CTTTTTTGTT
10996068 TATATATATA-TATAGTATA
1 TATATATATATTATA-TATA
*
10996087 TATAGTGTATATTATATATA
1 TATA-TATATATTATATATA
*
10996107 T-TATAATAAATTATA-ATA
1 TATAT-ATATATTATATATA
10996125 TATTATATAGTATTATAT-TA
1 TA-TATATA-TATTATATATA
* *
10996145 TATAGTACTATATTATTTAGTG
1 TATA-TA-TATATTATATA-TA
10996167 TATATATATATTATAT-TA
1 TATATATATATTATATATA
*
10996185 TTATTATGTAATATTATAT-TA
1 -TA-TATAT-ATATTATATATA
*
10996206 TATATTTATATTATATA-A
1 TATATATATATTATATATA
10996224 TATATATATATTATATATA
1 TATATATATATTATATATA
* *
10996243 -GTAT-TATATTATATTTA
1 TATATATATATTATATATA
*
10996260 TATTATGTATATTATATATA
1 TA-TATATATATTATATATA
10996280 TCATAGTATATATT-TATATA
1 T-ATA-TATATATTATATATA
10996300 TAT-TATAT
1 TATATATAT
10996308 TTTTTTATAT
Statistics
Matches: 184, Mismatches: 16, Indels: 44
0.75 0.07 0.18
Matches are distributed among these distances:
17 17 0.09
18 35 0.19
19 31 0.17
20 69 0.38
21 27 0.15
22 5 0.03
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.53
Consensus pattern (19 bp):
TATATATATATTATATATA
Found at i:10996186 original size:28 final size:27
Alignment explanation
Indices: 10996067--10996341 Score: 126
Period size: 25 Copynumber: 10.3 Consensus size: 27
10996057 ACTTTTTTGT
* * *
10996067 TTATATATATATATAGTATATATAGTGTA
1 TTAT-TATATATGTA-TATATATATTATA
* *
10996096 -TATTATATATAT-TATAATAAATTATAA
1 TTATTATATATGTATAT-ATATATTAT-A
10996123 TATATTATATA-GTAT-TATATTATATAGTA
1 T-TATTATATATGTATATATA-TAT-TA-TA
*
10996152 CTATATTATTTAGTGTATATATATATTATA
1 -T-TATTATATA-TGTATATATATATTATA
10996182 TTATTAT-TATGTA-ATATTATATTATA
1 TTATTATATATGTATATA-TATATTATA
10996208 -TATT-TATAT-TATATA-ATA-TATA
1 TTATTATATATGTATATATATATTATA
10996230 TATATTATATA--TAGTAT-TATATTATA
1 T-TATTATATATGTA-TATATATATTATA
10996256 -T-TTATATTATGTATAT-TATATATATCA
1 TTATTATA-TATGTATATATATAT-TAT-A
* *
10996283 -TAGTATATATTTATAT--ATATTATA
1 TTATTATATATGTATATATATATTATA
* * *
10996307 TTTTTTTATAT-TAGACTATATATTAT-
1 TTATTATATATGTATA-TATATATTATA
*
10996333 TTACTATAT
1 TTATTATAT
10996342 TATTTATTTA
Statistics
Matches: 200, Mismatches: 15, Indels: 65
0.71 0.05 0.23
Matches are distributed among these distances:
22 4 0.02
23 8 0.04
24 16 0.08
25 45 0.22
26 38 0.19
27 32 0.16
28 17 0.09
29 14 0.07
30 13 0.06
31 2 0.01
32 7 0.04
33 4 0.02
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (27 bp):
TTATTATATATGTATATATATATTATA
Found at i:10996203 original size:46 final size:47
Alignment explanation
Indices: 10996118--10996333 Score: 160
Period size: 46 Copynumber: 4.5 Consensus size: 47
10996108 TATAATAAAT
* * * *
10996118 TATAATATATTATATAGTATTA-TATTATATAGTACTATATTATTTAGTG
1 TATATTATA-TATATA-TATTATTATTATGTAATATTATATTATTTA-TG
* *
10996167 TATA-TATATAT-TATATTATTATTATGTAATATTATATTATATATT
1 TATATTATATATATATATTATTATTATGTAATATTATATTATTTATG
10996212 TATATTATATAATATATATATATTATATATAGTATTATATTATATTTATATTATG
1 TATATTATAT-ATATATAT-TATTAT-TAT-GTA--ATATTATA-TTAT-TTATG
* *
10996267 TATATTATATATATCATAGTATATATT-TATATATATTATATT-TTT-T-
1 TATATTATATATAT-ATATTAT-TATTATGTA-ATATTATATTATTTATG
* *
10996313 TATATTAGA-CTATATATTATT
1 TATATTATATATATATATTATT
10996334 TACTATATTA
Statistics
Matches: 142, Mismatches: 12, Indels: 32
0.76 0.06 0.17
Matches are distributed among these distances:
43 1 0.01
44 6 0.04
45 13 0.09
46 35 0.25
47 6 0.04
48 11 0.08
49 11 0.08
50 5 0.04
51 12 0.08
52 2 0.01
53 9 0.06
54 12 0.08
55 19 0.13
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (47 bp):
TATATTATATATATATATTATTATTATGTAATATTATATTATTTATG
Found at i:10996254 original size:66 final size:68
Alignment explanation
Indices: 10996070--10996307 Score: 201
Period size: 68 Copynumber: 3.5 Consensus size: 68
10996060 TTTTTGTTTA
* * * * * *
10996070 TATATATAT-ATAGTATATATA-GTGTATATTATATATATTATAATAAATTATA-ATATATTATA
1 TATATATATCATAGTATATATATATATATATTATATATAGTAT-AT-TATTATATGTATATTATG
10996132 TAGTAT
64 TA-TAT
* * *
10996138 TATAT-TAT-ATAGTACTATAT-TATTTAGTGTATATATATATTATATTATTATTATGTA-A-TA
1 TATATATATCATAGTA-TATATATATATA-TAT-TATATATAGTATATTATTA-TATGTATATTA
10996198 T-TATAT
62 TGTATAT
* * *
10996204 TATATAT-TTATATTATATAATATATATATATTATATATAGTAT-TATATTATATTTATATTATG
1 TATATATATCATAGTATAT-ATATATATATATTATATATAGTATAT-TATTATATGTATATTATG
10996267 TATAT
64 TATAT
*
10996272 TATATATATCATAGTATATATTTATATATATTATAT
1 TATATATATCATAGTATATATATATATATATTATAT
10996308 TTTTTTATAT
Statistics
Matches: 142, Mismatches: 13, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
65 6 0.04
66 29 0.20
67 24 0.17
68 53 0.37
69 16 0.11
70 14 0.10
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.53
Consensus pattern (68 bp):
TATATATATCATAGTATATATATATATATATTATATATAGTATATTATTATATGTATATTATGTA
TAT
Found at i:10996316 original size:66 final size:65
Alignment explanation
Indices: 10996067--10996319 Score: 218
Period size: 66 Copynumber: 3.9 Consensus size: 65
10996057 ACTTTTTTGT
* * ** *
10996067 TTATATATATATATAGTATATATAGTGTATA-TTATATATATTATAATAAATTATAATATATTAT
1 TTATATATAT-TATA-TATATATAGTATATATTTATATATATTATATTTTATTATATTATATT-T
10996131 ATA
63 ATA
* * * * *
10996134 GTAT-TATATTATATAGTACTATATTATTTAGTGTATATATATATTATATTATTATTATGTAATA
1 TTATATATATTATATA-TA-TATAGTATATA-T-T-TATATATATTATATT-TTATTATATTATA
10996198 -TTATA
60 TTTATA
* **
10996203 TTATATAT-TTATAT-TATATA--ATATATATATAT-TA-TATATAGTATTATATTATATTTATA
1 TTATATATATTATATATATATAGTATATATTTATATATATTATATTTTATTATATTATATTTATA
* *
10996262 TTATGTATATTATATATATCATAGTATATATTTATATATATTATATTTTTTTATATTA
1 TTATATATATTATATATAT-ATAGTATATATTTATATATATTATATTTTATTATATTA
10996320 GACTATATAT
Statistics
Matches: 148, Mismatches: 22, Indels: 33
0.73 0.11 0.16
Matches are distributed among these distances:
58 10 0.07
59 17 0.11
60 8 0.05
61 8 0.05
62 3 0.02
63 1 0.01
64 17 0.11
65 8 0.05
66 31 0.21
67 5 0.03
69 14 0.09
70 18 0.12
71 8 0.05
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (65 bp):
TTATATATATTATATATATATAGTATATATTTATATATATTATATTTTATTATATTATATTTATA
Found at i:10996341 original size:51 final size:55
Alignment explanation
Indices: 10996068--10996364 Score: 168
Period size: 55 Copynumber: 5.5 Consensus size: 55
10996058 CTTTTTTGTT
* * * * * * *
10996068 TATATATATATATAGTATATATAGTGTATATTATATATATTATAATAAATTATA--A
1 TATATTTATATATATTATATTTA-TTTATATTATGTATATTAT-ATATATCATACTA
* * *
10996123 TATA-TTATATAGTATTATATTATATAGTACTATATTAT-T-TAGTGTATATAT-ATATTA
1 TATATTTATATA-TATTATATT-TAT--T--TATATTATGTATATTATATATATCATACTA
* * *
10996180 TAT-TATTAT-TATGTAATA-TTATATTATA-TATTTATATTATATA-AT-ATA-TA
1 TATAT-TTATATATATTATATTTAT-TTATATTATGTATATTATATATATCATACTA
*
10996230 TATATTATATATAGTATTATATTATATTTATATTATGTATATTATATATATCATAGTA
1 TATATT-TATATA-TATTATATT-TATTTATATTATGTATATTATATATATCATACTA
* *
10996288 TATATTTATATATATTATATTTTTTTATATTA-G-ACTA-TATAT-TAT-TTACTA
1 TATATTTATATATATTATATTTATTTATATTATGTA-TATTATATATATCATACTA
10996339 TATTATTTAT-T-TATT-TATTTATTTAT
1 TA-TATTTATATATATTATATTTATTTAT
10996365 TCAGGTATAA
Statistics
Matches: 199, Mismatches: 19, Indels: 54
0.73 0.07 0.20
Matches are distributed among these distances:
49 10 0.05
50 13 0.07
51 21 0.11
52 19 0.10
53 12 0.06
54 18 0.09
55 43 0.22
56 23 0.12
57 19 0.10
58 13 0.07
59 8 0.04
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (55 bp):
TATATTTATATATATTATATTTATTTATATTATGTATATTATATATATCATACTA
Found at i:10996350 original size:4 final size:4
Alignment explanation
Indices: 10996341--10996365 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
10996331 ATTTACTATA
10996341 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
10996366 CAGGTATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:10996350 original size:16 final size:16
Alignment explanation
Indices: 10996321--10996365 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
10996311 TTTATATTAG
10996321 ACTATA-TA-TTATTT
1 ACTATATTATTTATTT
10996335 ACTATATTATTTATTT
1 ACTATATTATTTATTT
*
10996351 A-TTTATTTATTTATT
1 ACTATA-TTATTTATT
10996366 CAGGTATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 6 0.22
15 5 0.19
16 16 0.59
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (16 bp):
ACTATATTATTTATTT
Found at i:10998553 original size:2 final size:2
Alignment explanation
Indices: 10998546--10998576 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10998536 AACATTTTAA
10998546 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10998577 GTTTTGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10998571 original size:49 final size:50
Alignment explanation
Indices: 10998504--10998615 Score: 144
Period size: 47 Copynumber: 2.3 Consensus size: 50
10998494 TTCGTCCCAT
*
10998504 TATATATATATATATATAT-TATACAG-TTTAAAAACAT-TTT-AAATATA
1 TATATATATATATATATATATATACAGTTTTAAAAACATGTTTGAAA-ACA
* *
10998551 TATATATATATATATATATATATATAGTTTTGAAAACATGTTTGAAAACA
1 TATATATATATATATATATATATACAGTTTTAAAAACATGTTTGAAAACA
*
10998601 TTTATATAT-TATATA
1 TATATATATATATATA
10998616 GTTTTTAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
47 19 0.33
48 6 0.11
49 16 0.28
50 13 0.23
51 3 0.05
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (50 bp):
TATATATATATATATATATATATACAGTTTTAAAAACATGTTTGAAAACA
Found at i:10998644 original size:36 final size:36
Alignment explanation
Indices: 10998560--10998882 Score: 355
Period size: 36 Copynumber: 9.0 Consensus size: 36
10998550 ATATATATAT
*
10998560 ATATATATATATATATAGTTTTGAAAACATGTTTGAAAA
1 ATATATATAT-TATATAGTTTTTAAAACAT-TTTG-AAA
*
10998599 CATTTATATATTATATAGTTTTTAAAACATTTTGAAA
1 -ATATATATATTATATAGTTTTTAAAACATTTTGAAA
* * * *
10998636 ATAAATATAATATATGGTTTTTAAAACATTTTTAAA
1 ATATATATATTATATAGTTTTTAAAACATTTTGAAA
*
10998672 A-ATATATATTATATAATTTTTAAAACATTTTGAAA
1 ATATATATATTATATAGTTTTTAAAACATTTTGAAA
* *
10998707 ATAAATATAATATATAGTTTTTAAAACATTTTTGAAA
1 ATATATATATTATATAGTTTTTAAAACA-TTTTGAAA
*
10998744 ATATATATATTATATAATTTTT-AAACATTTTG---
1 ATATATATATTATATAGTTTTTAAAACATTTTGAAA
10998776 A-A-A-ATA-TATATAGTTTTTAAAAACATTTTGAAAAA
1 ATATATATATTATATAGTTTTT-AAAACATTTTG--AAA
* *
10998811 CATATATATATTATATAGTTTTGAAATCATTTTGAAA
1 -ATATATATATTATATAGTTTTTAAAACATTTTGAAA
*
10998848 ACT-TATA-A-TATATAGTTTTAAAAACATTTTGAAA
1 A-TATATATATTATATAGTTTTTAAAACATTTTGAAA
10998882 A
1 A
10998883 CTTACATAGT
Statistics
Matches: 245, Mismatches: 23, Indels: 36
0.81 0.08 0.12
Matches are distributed among these distances:
28 11 0.04
29 3 0.01
30 11 0.04
31 1 0.00
32 1 0.00
34 25 0.10
35 36 0.15
36 66 0.27
37 35 0.14
38 5 0.02
39 31 0.13
40 20 0.08
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (36 bp):
ATATATATATTATATAGTTTTTAAAACATTTTGAAA
Found at i:10998692 original size:71 final size:72
Alignment explanation
Indices: 10998564--10998882 Score: 383
Period size: 71 Copynumber: 4.5 Consensus size: 72
10998554 ATATATATAT
* * *
10998564 ATATATATATATAGTTTTGAAAACATGTTTGAAAACATTTATATATTATATAGTTTTTAAAACAT
1 ATATA-ATATATAGTTTTTAAAACAT-TTTG-AAA-ATATATATATTATATAATTTTTAAAACAT
10998629 TTTGAAAATAA
62 TTTGAAAATAA
* *
10998640 ATATAATATATGGTTTTTAAAACATTTTTAAAA-ATATATATTATATAATTTTTAAAACATTTTG
1 ATATAATATATAGTTTTTAAAACATTTTGAAAATATATATATTATATAATTTTTAAAACATTTTG
10998704 AAAATAA
66 AAAATAA
10998711 ATATAATATATAGTTTTTAAAACATTTTTGAAAATATATATATTATATAATTTTT-AAACATTTT
1 ATATAATATATAGTTTTTAAAACA-TTTTGAAAATATATATATTATATAATTTTTAAAACATTTT
10998775 G-----AA
65 GAAAATAA
* * *
10998778 A-AT-ATATATAGTTTTTAAAAACATTTTGAAAAACATATATATATTATATAGTTTTGAAATCAT
1 ATATAATATATAGTTTTT-AAAACATTTTG--AAA-ATATATATATTATATAATTTTTAAAACAT
10998841 TTTGAAAACT--
62 TTTGAAAA-TAA
*
10998851 -TATAATATATAGTTTTAAAAACATTTTGAAAA
1 ATATAATATATAGTTTTTAAAACATTTTGAAAA
10998883 CTTACATAGT
Statistics
Matches: 217, Mismatches: 11, Indels: 36
0.82 0.04 0.14
Matches are distributed among these distances:
65 18 0.08
66 8 0.04
67 6 0.03
68 20 0.09
69 9 0.04
70 1 0.00
71 62 0.29
72 19 0.09
73 36 0.17
74 15 0.07
75 18 0.08
76 5 0.02
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (72 bp):
ATATAATATATAGTTTTTAAAACATTTTGAAAATATATATATTATATAATTTTTAAAACATTTTG
AAAATAA
Found at i:10998892 original size:103 final size:103
Alignment explanation
Indices: 10998568--10998917 Score: 315
Period size: 103 Copynumber: 3.3 Consensus size: 103
10998558 ATATATATAT
* * * *
10998568 ATATATATAG-TTTTGAAAACATGTTTG-AAAACATTTATATATTATATAGTTTTTAAAACA-TT
1 ATATACATAGTTTTTAAAAACAT-TTTGAAAAACA--TATATAATATATAGTTTTGAAAACATTT
* * ** *
10998630 TTGAAAATAAATATAATATATGGTTTTTAAAACATTTTTAAAA
63 TTGAAAATATATATATTATAT-AATTTTAAAACA-TTTTGAAA
* * * *
10998673 ATATATATTATATAATTTTTAAAACATTTTGAAAATA-A-ATATAATATATAGTTTTTAAAACAT
1 ATATACA-TA-GT--TTTTAAAAACATTTTGAAAA-ACATATATAATATATAGTTTTGAAAACAT
*
10998736 TTTTGAAAATATATATATTATATAATTTTTAAACATTTTGAAA
61 TTTTGAAAATATATATATTATATAATTTTAAAACATTTTGAAA
* *
10998779 ATATATATAGTTTTTAAAAACATTTTGAAAAACATATATATATTATATAGTTTTGAAATCA-TTT
1 ATATACATAGTTTTTAAAAACATTTTGAAAAACATATATA-A-TATATAGTTTTGAAAACATTTT
*
10998843 TGAAAACT-TATA-A-TATATAGTTTTAAAAACATTTTGAAA
64 TGAAAA-TATATATATTATATAATTTT-AAAACATTTTGAAA
* *
10998882 ACT-TACATAGTTTTTAAAAATATTTTTAGAAAACAT
1 A-TATACATAGTTTTTAAAAACATTTTGA-AAAACAT
10998918 TTTTAAAAAC
Statistics
Matches: 211, Mismatches: 18, Indels: 33
0.81 0.07 0.13
Matches are distributed among these distances:
101 1 0.00
102 30 0.14
103 42 0.20
104 23 0.11
105 26 0.12
106 16 0.08
107 32 0.15
108 21 0.10
109 4 0.02
110 15 0.07
111 1 0.00
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (103 bp):
ATATACATAGTTTTTAAAAACATTTTGAAAAACATATATAATATATAGTTTTGAAAACATTTTTG
AAAATATATATATTATATAATTTTAAAACATTTTGAAA
Found at i:10998914 original size:13 final size:12
Alignment explanation
Indices: 10998892--10998936 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
10998882 ACTTACATAG
*
10998892 TTTTTAAAAATA
1 TTTTTAAAAACA
10998904 TTTTTAGAAAACA
1 TTTTTA-AAAACA
10998917 TTTTTAAAAACA
1 TTTTTAAAAACA
*
10998929 TTTATAAA
1 TTTTTAAA
10998937 TATGTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 19 0.63
13 11 0.37
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (12 bp):
TTTTTAAAAACA
Found at i:10999021 original size:13 final size:13
Alignment explanation
Indices: 10999005--10999052 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
10998995 ATAATATATA
*
10999005 TATTTGTTTTTAT
1 TATTTATTTTTAT
10999018 TATTTATTTTTAT
1 TATTTATTTTTAT
*
10999031 T-TTTATTATTCAT
1 TATTTATT-TTTAT
*
10999044 TTTTTATTT
1 TATTTATTT
10999053 ATTTTGTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 6 0.19
13 19 0.61
14 6 0.19
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (13 bp):
TATTTATTTTTAT
Found at i:10999031 original size:6 final size:6
Alignment explanation
Indices: 10999011--10999057 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
10999001 TATATATTTG
* *
10999011 TTTTTA TTATTTA TTTTTA TTTTTA TTATTCA TTTTT- TATTTA TTTT
1 TTTTTA TT-TTTA TTTTTA TTTTTA TT-TTTA TTTTTA TTTTTA TTTT
10999058 GTTTTGTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 4 0.12
6 19 0.56
7 11 0.32
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:10999035 original size:19 final size:20
Alignment explanation
Indices: 10999011--10999052 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
10999001 TATATATTTG
*
10999011 TTTTTATTATTTA-TTTTTA
1 TTTTTATTATTCATTTTTTA
10999030 TTTTTATTATTCATTTTTTA
1 TTTTTATTATTCATTTTTTA
10999050 TTT
1 TTT
10999053 ATTTTGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTATTATTCATTTTTTA
Found at i:11000374 original size:2 final size:2
Alignment explanation
Indices: 11000369--11000397 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11000359 TTATTTTTAT
11000369 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11000398 TACTTCTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11000640 original size:16 final size:16
Alignment explanation
Indices: 11000603--11000641 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
11000593 ATTATTATAT
11000603 TTTTA-TATATTTTAC
1 TTTTATTATATTTTAC
*
11000618 TTCTTATTATATTTTTC
1 TT-TTATTATATTTTAC
11000635 TTTTATT
1 TTTTATT
11000642 TTTATCCTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 8 0.38
17 11 0.52
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTATATTTTAC
Found at i:11000739 original size:23 final size:21
Alignment explanation
Indices: 11000698--11000803 Score: 56
Period size: 23 Copynumber: 4.6 Consensus size: 21
11000688 CTATTATTTG
11000698 TATTTTTTTAATTTATACTTTGATT
1 TATTTTTTT-A-TT-TACTTT-ATT
11000723 TATTTTTATTATTTAC-TTATTT
1 TATTTTT-TTATTTACTTTA-TT
*
11000745 TCATTTTTTTCTTT-CTTTTGATT
1 T-ATTTTTTTATTTAC-TTT-ATT
*
11000768 TATTTAGTAGTTATTTA-TTTATT
1 TATTT--T-TTTATTTACTTTATT
*
11000791 TATTTATTTATTT
1 TATTTTTTTATTT
11000804 TCTCTAACAT
Statistics
Matches: 66, Mismatches: 5, Indels: 25
0.69 0.05 0.26
Matches are distributed among these distances:
20 6 0.09
21 2 0.03
22 14 0.21
23 22 0.33
24 7 0.11
25 13 0.20
26 2 0.03
ACGTcount: A:0.21, C:0.05, G:0.04, T:0.71
Consensus pattern (21 bp):
TATTTTTTTATTTACTTTATT
Found at i:11000772 original size:4 final size:4
Alignment explanation
Indices: 11000765--11000803 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
11000755 CTTTCTTTTG
* *
11000765 ATTT ATTT A-GT AGTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
11000804 TCTCTAACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
3 2 0.06
4 29 0.94
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:11001358 original size:17 final size:17
Alignment explanation
Indices: 11001334--11001375 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
11001324 TTTGTGTTAT
*
11001334 ATTT-TTTTTTGAAAAA
1 ATTTATTTTTTAAAAAA
*
11001350 TTTTATTTTTTAAAAAA
1 ATTTATTTTTTAAAAAA
11001367 ATTTATTTT
1 ATTTATTTT
11001376 CACCCTTCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
ATTTATTTTTTAAAAAA
Found at i:11001588 original size:24 final size:23
Alignment explanation
Indices: 11001552--11001621 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 23
11001542 AGTCAAAGGG
11001552 ATTTAAGAAATTTTAGGGATTTGAA
1 ATTTAAG--ATTTTAGGGATTTGAA
* *
11001577 TATTTGAGATTTTAAGGATTT-AA
1 -ATTTAAGATTTTAGGGATTTGAA
*
11001600 ATTTAAGAATTTAGGGGATTTG
1 ATTTAAGATTTTA-GGGATTTG
11001622 GACGACAGCC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
22 11 0.30
23 8 0.22
24 12 0.32
26 6 0.16
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (23 bp):
ATTTAAGATTTTAGGGATTTGAA
Found at i:11002584 original size:205 final size:205
Alignment explanation
Indices: 11002219--11002624 Score: 688
Period size: 205 Copynumber: 2.0 Consensus size: 205
11002209 ATTCACAGAT
11002219 TGATAGTCGTGGTATTAGGGATTGAAAGTTTCAATTTGGGGTTAGAATATAGAAAACAAAATAGA
1 TGATAGTCGTGGTATTAGGGATTGAAAGTTTCAATTTGGGGTTAGAATATAGAAAACAAAATAGA
*
11002284 TTGTTGAGAAGAATGGGCCCCTGCTTTTCTTGGATAAGTGATTTTGTGCTTTGGGAAGTTAAAAA
66 TTGTTGAGAAGAATGGGCCCCTGCTTTTCCTGGATAAGTGATTTTGTGCTTTGGGAAGTTAAAAA
* *
11002349 TATTTGGGGAAAATAGGCCCCTCTAAACCTGGGCCCTAGGCGGTCGCCCTCCACGCCTGGGCTCA
131 TATTTGGGGAAAATAGGCCCCTCCAAACCTGGGCCCTAGGCGGTCGCCCTCCACGCCTGGACTCA
11002414 AGGCCGACCC
196 AGGCCGACCC
* * * *
11002424 TGATAGTCGTGGTGTTAGGGATTGAAAGTTTTAATTTGGGGTTAGAATATGGAAAACAAGATAGA
1 TGATAGTCGTGGTATTAGGGATTGAAAGTTTCAATTTGGGGTTAGAATATAGAAAACAAAATAGA
*
11002489 TTGTTGAGAAGAATGGGCCCCTGCTTTTCCTGGATACGTGATTTTGTGCTTTGGGAAGTTAAAAA
66 TTGTTGAGAAGAATGGGCCCCTGCTTTTCCTGGATAAGTGATTTTGTGCTTTGGGAAGTTAAAAA
* * *
11002554 TATTTGGGGAAAAT-GAGTCCCTCCAAACCTGGGCCCTAGGCGGTCGCCCTCTACGTCTGGACTC
131 TATTTGGGGAAAATAG-GCCCCTCCAAACCTGGGCCCTAGGCGGTCGCCCTCCACGCCTGGACTC
*
11002618 AGGGCCG
195 AAGGCCG
11002625 GCTCTGGCAG
Statistics
Matches: 188, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
204 1 0.01
205 187 0.99
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (205 bp):
TGATAGTCGTGGTATTAGGGATTGAAAGTTTCAATTTGGGGTTAGAATATAGAAAACAAAATAGA
TTGTTGAGAAGAATGGGCCCCTGCTTTTCCTGGATAAGTGATTTTGTGCTTTGGGAAGTTAAAAA
TATTTGGGGAAAATAGGCCCCTCCAAACCTGGGCCCTAGGCGGTCGCCCTCCACGCCTGGACTCA
AGGCCGACCC
Found at i:11002686 original size:2 final size:2
Alignment explanation
Indices: 11002679--11002721 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
11002669 GTAGTTTGTT
11002679 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11002721 T
1 T
11002722 TTGAGAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11002770 original size:27 final size:27
Alignment explanation
Indices: 11002720--11002772 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
11002710 ATATATATAT
11002720 ATTTGAGAAAAATTAGGGATTTTTTTG
1 ATTTGAGAAAAATTAGGGATTTTTTTG
* *
11002747 ATTTGAGAAAAGTTTGAGGATTTTTT
1 ATTTGAGAAAAATTAG-GGATTTTTT
11002773 AAAAGTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (27 bp):
ATTTGAGAAAAATTAGGGATTTTTTTG
Found at i:11004203 original size:37 final size:37
Alignment explanation
Indices: 11004156--11004228 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
11004146 CATCATAATC
***
11004156 TAACACCTCATTGGGTTGGATTTAATATTTTATTTGT
1 TAACACCTCATTGGCAGGGATTTAATATTTTATTTGT
* *
11004193 TAACATCTCATTGGCAGGGATTTAATGTTTTATTTG
1 TAACACCTCATTGGCAGGGATTTAATATTTTATTTG
11004229 AGAGAACATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.47
Consensus pattern (37 bp):
TAACACCTCATTGGCAGGGATTTAATATTTTATTTGT
Found at i:11004805 original size:23 final size:23
Alignment explanation
Indices: 11004756--11004818 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
11004746 AATATTGTAT
* * * *
11004756 TTTAACTAAATTACATTTAGATT
1 TTTAACTAATTTATAATTAGATG
*
11004779 TTTAACTAATTTATAATTATATG
1 TTTAACTAATTTATAATTAGATG
*
11004802 TTTAA-TATTTTATAATT
1 TTTAACTAATTTATAATT
11004819 TAACGTTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 11 0.32
23 23 0.68
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (23 bp):
TTTAACTAATTTATAATTAGATG
Found at i:11004826 original size:22 final size:23
Alignment explanation
Indices: 11004779--11004826 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
11004769 CATTTAGATT
*
11004779 TTTAACTAATTTATAATTATATG
1 TTTAACTAATTTATAATTATACG
*
11004802 TTTAA-TATTTTATAATT-TAACG
1 TTTAACTAATTTATAATTAT-ACG
11004824 TTT
1 TTT
11004827 TATAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 1 0.05
22 16 0.73
23 5 0.23
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTAACTAATTTATAATTATACG
Found at i:11004935 original size:26 final size:26
Alignment explanation
Indices: 11004906--11004956 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
11004896 TCTTATTTTA
11004906 TTTATA-AATCATATTT-TTTGTATTAG
1 TTTATATAAT-ATATTTATTT-TATTAG
11004932 TTTATATAATATATTTATTTTATTA
1 TTTATATAATATATTTATTTTATTA
11004957 ATATGTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTATATAATATATTTATTTTATTAG
Found at i:11005898 original size:14 final size:14
Alignment explanation
Indices: 11005876--11005917 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
11005866 AACGTAAACG
*
11005876 AACACAAACGAACA
1 AACATAAACGAACA
11005890 AACATAAACGAACA
1 AACATAAACGAACA
* *
11005904 TA-ATAAATGAACA
1 AACATAAACGAACA
11005917 A
1 A
11005918 CACAAACACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.64, C:0.19, G:0.07, T:0.10
Consensus pattern (14 bp):
AACATAAACGAACA
Found at i:11006196 original size:14 final size:14
Alignment explanation
Indices: 11006177--11006229 Score: 106
Period size: 14 Copynumber: 3.8 Consensus size: 14
11006167 CTTCTGTTCG
11006177 AACATAAATGAACA
1 AACATAAATGAACA
11006191 AACATAAATGAACA
1 AACATAAATGAACA
11006205 AACATAAATGAACA
1 AACATAAATGAACA
11006219 AACATAAATGA
1 AACATAAATGA
11006230 GCATAAATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.64, C:0.13, G:0.08, T:0.15
Consensus pattern (14 bp):
AACATAAATGAACA
Found at i:11006248 original size:14 final size:14
Alignment explanation
Indices: 11006175--11006258 Score: 95
Period size: 14 Copynumber: 6.1 Consensus size: 14
11006165 GCCTTCTGTT
11006175 CGAACATAAATGAA
1 CGAACATAAATGAA
*
11006189 CAAACATAAATGAA
1 CGAACATAAATGAA
*
11006203 CAAACATAAATGAA
1 CGAACATAAATGAA
*
11006217 CAAACATAAATG-A
1 CGAACATAAATGAA
11006230 -G--CATAAATGAA
1 CGAACATAAATGAA
11006241 CGAACATATAATCGAA
1 CGAACATA-AAT-GAA
11006257 CG
1 CG
11006259 TTCACGAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
10 8 0.13
11 1 0.02
12 1 0.02
13 1 0.02
14 43 0.69
15 3 0.05
16 5 0.08
ACGTcount: A:0.57, C:0.15, G:0.12, T:0.15
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:11010903 original size:12 final size:12
Alignment explanation
Indices: 11010886--11010910 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11010876 TTTAATTCAT
11010886 TCTCTTTATAAA
1 TCTCTTTATAAA
11010898 TCTCTTTATAAA
1 TCTCTTTATAAA
11010910 T
1 T
11010911 ATACAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TCTCTTTATAAA
Found at i:11015136 original size:57 final size:55
Alignment explanation
Indices: 11015010--11015140 Score: 145
Period size: 57 Copynumber: 2.3 Consensus size: 55
11015000 GCCACACTTA
*
11015010 TGTGACGGTGGTGCTACTAGCAGCTACGTTATACTTAGCACGTGTCTAACATTTG
1 TGTGACGGTGGTGCTACTAGCAGCTACATTATACTTAGCACGTGTCTAACATTTG
* * * ** * * * **
11015065 TGTGACAGTTGTGCTACTAGCAGTTTTATTATACTTATAGCATGTGTTTGATGTTTG
1 TGTGACGGTGGTGCTACTAGCAGCTACATTATAC-T-TAGCACGTGTCTAACATTTG
11015122 TGTGACGGTGGTGCTACTA
1 TGTGACGGTGGTGCTACTA
11015141 TATGAAACTT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
55 28 0.46
56 1 0.02
57 32 0.52
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (55 bp):
TGTGACGGTGGTGCTACTAGCAGCTACATTATACTTAGCACGTGTCTAACATTTG
Found at i:11015154 original size:48 final size:48
Alignment explanation
Indices: 11015102--11015281 Score: 236
Period size: 48 Copynumber: 3.8 Consensus size: 48
11015092 ATTATACTTA
* * *
11015102 TAGCATGTGTTTGATGTTTGTGTGACGGTGGTGCTACTATATGAAACT
1 TAGCATGTGTCTGACGTCTGTGTGACGGTGGTGCTACTATATGAAACT
* * * *
11015150 TAGCACGTGTTTGATGTTTGTGTGACGGTGGCT-CTACTATATGAAACT
1 TAGCATGTGTCTGACGTCTGTGTGACGGTGG-TGCTACTATATGAAACT
* *
11015198 TAGCAAGTGTCTGACGTCTGTGTGACGGTGGTGCTACTATATGATACT
1 TAGCATGTGTCTGACGTCTGTGTGACGGTGGTGCTACTATATGAAACT
* * *
11015246 TAGCATGCGGCTGACGTCAGTGTGACGGTGGTGCTA
1 TAGCATGTGTCTGACGTCTGTGTGACGGTGGTGCTA
11015282 AAGTACCAGG
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
47 1 0.01
48 118 0.98
49 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.31, T:0.34
Consensus pattern (48 bp):
TAGCATGTGTCTGACGTCTGTGTGACGGTGGTGCTACTATATGAAACT
Found at i:11015531 original size:30 final size:27
Alignment explanation
Indices: 11015472--11015531 Score: 66
Period size: 30 Copynumber: 2.1 Consensus size: 27
11015462 TAAATAGTAT
** *
11015472 ATGCTATGAAATGAAAGTGAATGATAC
1 ATGCTATGAAATGAAAGTGAAAAACAC
11015499 ATGCTATGAAATGAATAAAGTGAAAAACAC
1 ATGCTATGAAATG---AAAGTGAAAAACAC
11015529 ATG
1 ATG
11015532 ATTGATTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 13 0.48
30 14 0.52
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.23
Consensus pattern (27 bp):
ATGCTATGAAATGAAAGTGAAAAACAC
Found at i:11019284 original size:3 final size:3
Alignment explanation
Indices: 11019265--11019335 Score: 79
Period size: 3 Copynumber: 23.0 Consensus size: 3
11019255 TTGTAATATT
* * *
11019265 TAA TAAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TAC TAC TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
11019312 TAA TTT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
11019336 ATTTAAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
3 52 0.90
4 6 0.10
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:11019592 original size:76 final size:76
Alignment explanation
Indices: 11019466--11021015 Score: 2947
Period size: 76 Copynumber: 20.4 Consensus size: 76
11019456 GAAATGTTGA
* *
11019466 AAACATCATGCACTGAAGGGCTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11019531 AGGCTTTTTGG
66 AGGCTTTTTGG
11019542 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11019607 AGGCTTTTTGG
66 AGGCTTTTTGG
*
11019618 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
11019683 AGGCTTTTTGA
66 AGGCTTTTTGG
* * *
11019694 AAACATCATGCACTGCAGGACTTACAGATGACTCTAAGGCTTTGAAAACATGAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11019759 AGGCTTTTTGG
66 AGGCTTTTTGG
11019770 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
* *
11019835 AGACTTTTTAG
66 AGGCTTTTTGG
11019846 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
**
11019911 AGGCTTTTCAG
66 AGGCTTTTTGG
11019922 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11019987 AGGCTTTTTGG
66 AGGCTTTTTGG
11019998 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11020063 AGGCTTTTTGG
66 AGGCTTTTTGG
11020074 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11020139 AGGCTTTTTGG
66 AGGCTTTTTGG
11020150 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11020215 AGGCTTTTTGG
66 AGGCTTTTTGG
*
11020226 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAACTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11020291 AGGCTTTTTGG
66 AGGCTTTTTGG
11020302 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11020367 AGGCTTTTTGG
66 AGGCTTTTTGG
11020378 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11020443 AGGCTTTTTGG
66 AGGCTTTTTGG
*
11020454 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11020519 AGGCTTTTTGG
66 AGGCTTTTTGG
*
11020530 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11020595 AGGCTTTTTGG
66 AGGCTTTTTGG
11020606 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
11020671 AGGCTTTTTAG
66 AGGCTTTTTGG
*
11020682 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11020747 AGGCTTTTTGG
66 AGGCTTTTTGG
11020758 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11020823 AGGCTTTTTGG
66 AGGCTTTTTGG
11020834 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11020899 AGGCTTTTTGG
66 AGGCTTTTTGG
11020910 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
11020975 AGGCTTTTTGG
66 AGGCTTTTTGG
*
11020986 AAACATCATGCACTGCAGGACTTACAGATG
1 AAACATCATGCACTGTAGGACTTACAGATG
11021016 TGGGAAATAG
Statistics
Matches: 1447, Mismatches: 27, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 1447 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:11021941 original size:22 final size:22
Alignment explanation
Indices: 11021861--11021938 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
11021851 GATAAAGCTT
* *
11021861 TCATCTTTGAAAAGAAAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
11021883 TCATCTTTTAAAAAGAGAATCTA
1 TCATC-TTTGAAAAGAGAATCTA
*
11021906 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
11021928 TCATCTTTGAA
1 TCATCTTTGAA
11021939 GAGTGTAGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
22 31 0.62
23 19 0.38
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:11024555 original size:114 final size:114
Alignment explanation
Indices: 11024355--11024583 Score: 397
Period size: 114 Copynumber: 2.0 Consensus size: 114
11024345 GATCATGCAG
* *
11024355 TTCATCTTTCAATTTCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAATCTCAATGATTGGTTCTGGGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
*
11024420 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAAATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* *
11024469 TTCATCTTTCAAATCT-AATGATTGGTTCTGTGGTTCCTACCAAATCAGATCAGATAACTCAAAG
1 TTCATCTTTC-AATCTCAATGATTGGTTCTGGGGTTCCTACCAAACCAGATCAGATAACTCAAAG
11024533 AACACTTCCAGAAAATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
65 AACACTTCCAGAAAATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
11024583 T
1 T
11024584 GGAACTTGCT
Statistics
Matches: 109, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
114 105 0.96
115 4 0.04
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAATCTCAATGATTGGTTCTGGGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAAATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:11026848 original size:11 final size:11
Alignment explanation
Indices: 11026828--11026872 Score: 72
Period size: 11 Copynumber: 4.0 Consensus size: 11
11026818 CTTGATTTAA
*
11026828 TTTTCCTTTTT
1 TTTTCATTTTT
11026839 TTTTCATTTTT
1 TTTTCATTTTT
11026850 TTTTCATTTTTT
1 TTTTCA-TTTTT
11026862 TTTTCATTTTT
1 TTTTCATTTTT
11026873 CATTTTTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
11 21 0.66
12 11 0.34
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCATTTTT
Found at i:11026851 original size:12 final size:12
Alignment explanation
Indices: 11026834--11026872 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
11026824 TTAATTTTCC
11026834 TTTTTTTTTCA-
1 TTTTTTTTTCAT
11026845 TTTTTTTTTCAT
1 TTTTTTTTTCAT
11026857 TTTTTTTTTCAT
1 TTTTTTTTTCAT
11026869 TTTT
1 TTTT
11026873 CATTTTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 11 0.41
12 16 0.59
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTCAT
Found at i:11026859 original size:19 final size:18
Alignment explanation
Indices: 11026845--11026881 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
11026835 TTTTTTTTCA
11026845 TTTT-TTTTTCATTTTTT
1 TTTTATTTTTCATTTTTT
11026862 TTTTCATTTTTCATTTTTT
1 TTTT-ATTTTTCATTTTTT
11026881 T
1 T
11026882 CCCTTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTATTTTTCATTTTTT
Found at i:11026911 original size:24 final size:23
Alignment explanation
Indices: 11026829--11026911 Score: 82
Period size: 24 Copynumber: 3.6 Consensus size: 23
11026819 TTGATTTAAT
* *
11026829 TTTCCTTTT-TTTTTCATTTTTT
1 TTTCTTTTTCTTTTTCATTTTTC
11026851 TTTCATTTTT-TTTTTCATTTTTC
1 TTTC-TTTTTCTTTTTCATTTTTC
*
11026874 ATTT-TTTTCCCTTTTTCATTTTTC
1 -TTTCTTTT-TCTTTTTCATTTTTC
11026898 TTTCTTCTTTCTTT
1 TTTCTT-TTTCTTT
11026912 GCTGGATGAG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
22 8 0.16
23 19 0.37
24 22 0.43
25 2 0.04
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTCTTTTTCTTTTTCATTTTTC
Found at i:11027212 original size:2 final size:2
Alignment explanation
Indices: 11027205--11027232 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11027195 ACAACAAATG
11027205 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11027233 TAAAGGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11029538 original size:37 final size:36
Alignment explanation
Indices: 11029483--11029552 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
11029473 AGGCAAACAT
*
11029483 AAAAGTATGAATGAAAAATAAAAAATGCAAAGATGTA
1 AAAAGTAAGAATGAAAAAT-AAAAATGCAAAGATGTA
* *
11029520 AAAAGTAAGAAT-ACAAAATGAAAATGCACAGAT
1 AAAAGTAAGAATGA-AAAATAAAAATGCAAAGAT
11029553 ACAAAATGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 13 0.45
37 16 0.55
ACGTcount: A:0.61, C:0.06, G:0.16, T:0.17
Consensus pattern (36 bp):
AAAAGTAAGAATGAAAAATAAAAATGCAAAGATGTA
Found at i:11031905 original size:22 final size:23
Alignment explanation
Indices: 11031877--11031919 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
11031867 AATACCTTAA
*
11031877 AAAAATATTAA-TAAAAAAATAT
1 AAAAATAATAAGTAAAAAAATAT
*
11031899 AAAAATAATAAGTAATAAAAT
1 AAAAATAATAAGTAAAAAAAT
11031920 TTGAAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (23 bp):
AAAAATAATAAGTAAAAAAATAT
Found at i:11034154 original size:3 final size:3
Alignment explanation
Indices: 11034121--11034188 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
11034111 TTGTAATATT
* * *
11034121 TAA TAAA TAA TATA TAA TTA TAA TTA TAA TAA TAA TAC TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
11034168 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
11034189 ATTTAAATAA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
3 47 0.89
4 6 0.11
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:11034180 original size:18 final size:18
Alignment explanation
Indices: 11034114--11034194 Score: 78
Period size: 18 Copynumber: 4.5 Consensus size: 18
11034104 TTGGGCTTTG
11034114 TAATATTTAATAAATAATATA
1 TAAT-TTTAAT-AATAATA-A
* *
11034135 TAATTATAATTATAATAA
1 TAATTTTAATAATAATAA
*
11034153 TAA---TACTAATAATAA
1 TAATTTTAATAATAATAA
11034168 TAATTTTAATAATAATAA
1 TAATTTTAATAATAATAA
*
11034186 TAAATTTAA
1 TAATTTTAA
11034195 ATAAAAAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
15 13 0.25
18 23 0.45
19 6 0.12
20 5 0.10
21 4 0.08
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATTTTAATAATAATAA
Found at i:11035644 original size:11 final size:11
Alignment explanation
Indices: 11035628--11035657 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
11035618 CCATTAAAAT
11035628 AAATTCTTTTA
1 AAATTCTTTTA
11035639 AAATTCTTTTA
1 AAATTCTTTTA
11035650 AAATTCTT
1 AAATTCTT
11035658 CTCAACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (11 bp):
AAATTCTTTTA
Found at i:11036246 original size:32 final size:32
Alignment explanation
Indices: 11036209--11036280 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
11036199 TGCTTAATTT
11036209 CTTCATCAATTATTACAAATTGCATCTTAGTC
1 CTTCATCAATTATTACAAATTGCATCTTAGTC
*
11036241 CTTCATTAATTATTACAAATTGCATCTTAGTC
1 CTTCATCAATTATTACAAATTGCATCTTAGTC
11036273 CTTCATCA
1 CTTCATCA
11036281 TTTTTACTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (32 bp):
CTTCATCAATTATTACAAATTGCATCTTAGTC
Found at i:11037273 original size:30 final size:30
Alignment explanation
Indices: 11037207--11037281 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
11037197 TTTAATACAA
* *
11037207 AATTACCAATTTACCCTTAAAATTGATAAT
1 AATTACTAATTTACCCTTAAAATTCATAAT
** * * *
11037237 CTTTACTAATTTACCCTTGAATTTCATGAT
1 AATTACTAATTTACCCTTAAAATTCATAAT
*
11037267 AATTACTAAATTACC
1 AATTACTAATTTACC
11037282 ATGCTTTCAT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.40
Consensus pattern (30 bp):
AATTACTAATTTACCCTTAAAATTCATAAT
Found at i:11042954 original size:14 final size:14
Alignment explanation
Indices: 11042935--11042973 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
11042925 AGTTAGCAAA
11042935 AAAAAAAAAAAAAC
1 AAAAAAAAAAAAAC
*
11042949 AAAAAACAAAAAAC
1 AAAAAAAAAAAAAC
11042963 AAAAACAAAAA
1 AAAAA-AAAAA
11042974 CAAAACAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:11043223 original size:59 final size:58
Alignment explanation
Indices: 11043087--11043271 Score: 185
Period size: 60 Copynumber: 3.1 Consensus size: 58
11043077 AAATGTACTT
* * * * * * *
11043087 CAAA-TATGACTCTCATTTTAAATTAGTCTTTAAATTTTAAATATTTTAATTTTATCC
1 CAAACTATGACTATCATTCTAAATTAGTCCTAAAATTTTAAACATTTCAATTTCATCC
* * * * *
11043144 CTAAAATATGAATATGATTCTAAATTAATCCTCAAACTTTTAAACATTTCAATTTCATCC
1 C-AAACTATGACTATCATTCTAAATTAGTCCT-AAAATTTTAAACATTTCAATTTCATCC
* *
11043204 CAAACTATGACCT-TCATTCTAAATTGGTCCTTAAAATTTTTGAACATTTCAATTTCATCC
1 CAAACTATGA-CTATCATTCTAAATTAGTCC-TAAAA-TTTTAAACATTTCAATTTCATCC
11043264 CAAACTAT
1 CAAACTAT
11043272 ATGTATACAC
Statistics
Matches: 104, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
57 1 0.01
58 3 0.03
59 45 0.43
60 55 0.53
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.42
Consensus pattern (58 bp):
CAAACTATGACTATCATTCTAAATTAGTCCTAAAATTTTAAACATTTCAATTTCATCC
Found at i:11043572 original size:60 final size:60
Alignment explanation
Indices: 11043442--11043556 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
11043432 AGAAAGAGAA
* * ** * * *
11043442 TCATAGTTTAGGGATGAAATTAGAAAATTCAAAAGTTTAACGACTAGTTTAGAATAAAAC
1 TCATAGTTTAAGGATGAAATTAGAAAATTAAAAAAATTAAAGACTAATTTAAAATAAAAC
11043502 TCATAGTTTAAGGATGAAATTA-AAATATTAAAAAAATTAAAGACTAATTTAAAAT
1 TCATAGTTTAAGGATGAAATTAGAAA-ATTAAAAAAATTAAAGACTAATTTAAAAT
11043557 GAGAGTTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
59 3 0.06
60 44 0.94
ACGTcount: A:0.50, C:0.06, G:0.13, T:0.31
Consensus pattern (60 bp):
TCATAGTTTAAGGATGAAATTAGAAAATTAAAAAAATTAAAGACTAATTTAAAATAAAAC
Found at i:11043944 original size:31 final size:31
Alignment explanation
Indices: 11043831--11043960 Score: 145
Period size: 31 Copynumber: 4.2 Consensus size: 31
11043821 GTTTAATATC
**
11043831 TAAACTATTACTTTTATTCCATTTTGATACT
1 TAAACTATTACTTTTATTCTGTTTTGATACT
* * * *
11043862 TAAACTATTACTTTTGTTCAGTTTTGGTACA
1 TAAACTATTACTTTTATTCTGTTTTGATACT
* *
11043893 TAAACTATTACTTTTGTTCTGTTTTGATATT
1 TAAACTATTACTTTTATTCTGTTTTGATACT
* * *
11043924 TAAACTATCATTTTTATTCTGCTTT-AGTACT
1 TAAACTATTACTTTTATTCTGTTTTGA-TACT
11043955 TAAACT
1 TAAACT
11043961 TTATTAAAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
30 1 0.01
31 83 0.99
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.52
Consensus pattern (31 bp):
TAAACTATTACTTTTATTCTGTTTTGATACT
Found at i:11043959 original size:62 final size:62
Alignment explanation
Indices: 11043831--11043960 Score: 161
Period size: 62 Copynumber: 2.1 Consensus size: 62
11043821 GTTTAATATC
* * * *
11043831 TAAACTATTACTTTTATTCCATTTTGATACTTAAACTATTACTTTTGTTCAGTTTTGGTACA
1 TAAACTATTACTTTTATTCCATTTTGATACTTAAACTATCACTTTTATTCAGCTTTAGTACA
* ** * * * *
11043893 TAAACTATTACTTTTGTTCTGTTTTGATATTTAAACTATCATTTTTATTCTGCTTTAGTACT
1 TAAACTATTACTTTTATTCCATTTTGATACTTAAACTATCACTTTTATTCAGCTTTAGTACA
11043955 TAAACT
1 TAAACT
11043961 TTATTAAAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.52
Consensus pattern (62 bp):
TAAACTATTACTTTTATTCCATTTTGATACTTAAACTATCACTTTTATTCAGCTTTAGTACA
Found at i:11044566 original size:31 final size:31
Alignment explanation
Indices: 11044528--11044657 Score: 172
Period size: 31 Copynumber: 4.2 Consensus size: 31
11044518 GTTTAGTATC
*
11044528 TAAACTATTACTTTTATTCCATTTTGATACT
1 TAAACTATTACTTTTATTCCGTTTTGATACT
* *
11044559 TAAACTATTACTTTTGTTCCGTTTTGGTACT
1 TAAACTATTACTTTTATTCCGTTTTGATACT
* *
11044590 TAAACTATTACTTTTGTTCCGTTTTGATATT
1 TAAACTATTACTTTTATTCCGTTTTGATACT
* * *
11044621 TAAACTATCATTTTTATTCCGCTTT-AGTACT
1 TAAACTATTACTTTTATTCCGTTTTGA-TACT
11044652 TAAACT
1 TAAACT
11044658 TTATTAAAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
30 1 0.01
31 87 0.99
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.51
Consensus pattern (31 bp):
TAAACTATTACTTTTATTCCGTTTTGATACT
Found at i:11044604 original size:62 final size:62
Alignment explanation
Indices: 11044519--11044657 Score: 190
Period size: 62 Copynumber: 2.2 Consensus size: 62
11044509 AAATTACATG
* * *
11044519 TTTAGTA-TCTAAACTATTACTTTTATTCCATTTTGATACTTAAACTATTACTTTTGTTCCGT
1 TTTAGTACT-TAAACTATTACTTTTATTCCATTTTGATACTTAAACTATCACTTTTATTCCGC
* * * * *
11044581 TTTGGTACTTAAACTATTACTTTTGTTCCGTTTTGATATTTAAACTATCATTTTTATTCCGC
1 TTTAGTACTTAAACTATTACTTTTATTCCATTTTGATACTTAAACTATCACTTTTATTCCGC
11044643 TTTAGTACTTAAACT
1 TTTAGTACTTAAACT
11044658 TTATTAAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
62 66 0.99
63 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.51
Consensus pattern (62 bp):
TTTAGTACTTAAACTATTACTTTTATTCCATTTTGATACTTAAACTATCACTTTTATTCCGC
Found at i:11045263 original size:698 final size:702
Alignment explanation
Indices: 11043804--11045535 Score: 2780
Period size: 698 Copynumber: 2.5 Consensus size: 702
11043794 TTTAAAAAAA
* *
11043804 AAAAAGATAAACTATACGTTTAATATCTAAACTATTACTTTTATTCCATTTTGATACTTAAACTA
1 AAAAAGATAAACTACACGTTTAGTATCTAAACTATTACTTTTATTCCATTTTGATACTTAAACTA
* * *
11043869 TTACTTTTGTTCAGTTTTGGTACATAAACTATTACTTTTGTTCTGTTTTGATATTTAAACTATCA
66 TTACTTTTGTTCCGTTTTGGTACTTAAACTATTACTTTTGTTCCGTTTTGATATTTAAACTATCA
* * * *
11043934 TTTTTATTCTGCTTTAGTACTTAAACTTTATT---AAAA--AT--CTAATATTTAGTTCAGGCTA
131 TTTTTATTCAGCTTTAGTACTTAAACTTTATTAAAAAAACTATACCTAATATTTAGTTTAGGTTT
* *
11043992 CATTTTGGTACATGCCGTTAAACACTTAATGGAACTATTATACATGACATTTTTATTGGTAATTT
196 CATTTTGGTACATGCCGTTAAAAACTTAATGGAACTATTATACATGACATTTTTATTGGTAACTT
*
11044057 CTCACTTCTATTTTGATTAATGAAGTTAATTTTTTTAATTTAATCACCTAACTTTCAAATTACTC
261 CTCACTTCTATTTTGATCAATGAAGTTAATTTTTTTAATTTAATCACCTAACTTTCAAATTACTC
*
11044122 TTATTTTAATCAGGCTAACTTATTTTATTAATATATGAGAGGTTTGTGATTTAAAGTTTGTGTTA
326 TTATTTTAATCAGGCTAACTTATTTTATTAATATATGAGAGGTTTGTGATTTAAAGTTTATGTTA
11044187 TAATTTTTGGGTTTGGGTATAATTTTAAATTTAGTTTTTATTTTAATTATATATTAATAAAATAA
391 TAATTTTTGGGTTTGGGTATAATTTTAAATTTAGTTTTTATTTTAATTATATATTAATAAAATAA
* * *
11044252 TAATAAAAGATATCGTGTCAAAAAATTAATAAAATAAATTAGAATGATCAAACTGAAATGTTTTA
456 TAATAAAAAAAATCGTGTCAAAAAATTAATAAAATAAATTAGAATGATCAAAATGAAATGTTTTA
11044317 AACTTTAGTGACCAAAAGTGAGAAGATAAATGAGTGATGAATGATGTAATTTACCCATAAAAAAT
521 AACTTTAGTGACCAAAAGTGAGAAGATAAA-GAGTGATG-ATGATGTAATTTACCCATAAAAAAT
* * *
11044382 TTCGTTAAGTTTTTAAAGGTAGAGAATCAAAATGAAACCTAAACTAAATGTTAGACATATAATTT
584 TCCGTTAAGTTTTTAAAGGCAGAGAATCAAAACGAAACCTAAACTAAATGTTAGACATATAATTT
11044447 TAAAAAAATAAAGTTTAGGTACCAAAATGGAATTAAAGTAATAGTTTACGTATT
649 TAAAAAAATAAAGTTTAGGTACCAAAATGGAATTAAAGTAATAGTTTACGTATT
* *
11044501 AAAAAGATAAATTACATGTTTAGTATCTAAACTATTACTTTTATTCCATTTTGATACTTAAACTA
1 AAAAAGATAAACTACACGTTTAGTATCTAAACTATTACTTTTATTCCATTTTGATACTTAAACTA
11044566 TTACTTTTGTTCCGTTTTGGTACTTAAACTATTACTTTTGTTCCGTTTTGATATTTAAACTATCA
66 TTACTTTTGTTCCGTTTTGGTACTTAAACTATTACTTTTGTTCCGTTTTGATATTTAAACTATCA
*
11044631 TTTTTATTCCGCTTTAGTACTTAAACTTTATTAAAAAAACTATACCTAATATTTAGTTTAGGTTT
131 TTTTTATTCAGCTTTAGTACTTAAACTTTATTAAAAAAACTATACCTAATATTTAGTTTAGGTTT
*
11044696 CATTTTGGTACATGCCGTTAAAAACTTAATGAAACTATTATACATGACA-TTTTATTGGTAACTT
196 CATTTTGGTACATGCCGTTAAAAACTTAATGGAACTATTATACATGACATTTTTATTGGTAACTT
*
11044760 CGCACTTCTATTTTGATCAATGAAGTTAATTTTTTTAATTTAATCACCTAACTTTCAAATTACTC
261 CTCACTTCTATTTTGATCAATGAAGTTAATTTTTTTAATTTAATCACCTAACTTTCAAATTACTC
*
11044825 TTATTTTAATCAGGCT-ACTTATTTTATTAATATATGAGGGGTTTGTGATTTAAAGTTTATGTTA
326 TTATTTTAATCAGGCTAACTTATTTTATTAATATATGAGAGGTTTGTGATTTAAAGTTTATGTTA
*
11044889 TAATTTTTGGGTTTGGGTATAATTTT-AATTT-TTTTTTATTTTAATTATATATTAATAAAATAA
391 TAATTTTTGGGTTTGGGTATAATTTTAAATTTAGTTTTTATTTTAATTATATATTAATAAAATAA
* * *
11044952 TAA-AAAAAAAATTGTGTCACAAAAAAATTAATAAAATAAATTAGAATGATCAAAATGAATTTTT
456 TAATAAAAAAAATCGTGT--C-AAAAAATTAATAAAATAAATTAGAATGATCAAAATGAAATGTT
*
11045016 TTAAACTTTAGTGACCAAAAGTTAGAAGAT-AA-A-TGA-G-TGATGTAATTTACCCATAAAAAA
518 TTAAACTTTAGTGACCAAAAGTGAGAAGATAAAGAGTGATGATGATGTAATTTACCCAT--AAAA
* * **
11045076 CAATTCCGTTAAGTTTTTAAAGGCAGAGTATTAAAACGAAACCTAAACTAAATGTTAGGTATGAT
581 -AATTCCGTTAAGTTTTTAAAGGCAGAGAATCAAAACGAAACCTAAACTAAATGTTAGACAT-AT
* *
11045141 AA-TTTAAAAAAATAAAGTTTAGGTACCAAAATGGAATTAAATTAATAGTTTAGGTATT
644 AATTTTAAAAAAATAAAGTTTAGGTACCAAAATGGAATTAAAGTAATAGTTTACGTATT
*
11045199 AAAAAGATAAACTACACGTTTAGTATCTAAACTATTACTTTTATTCCATTTTGTTACTTAAACTA
1 AAAAAGATAAACTACACGTTTAGTATCTAAACTATTACTTTTATTCCATTTTGATACTTAAACTA
*
11045264 TTATTTTTGTTCCGTTTTGGTACTTAAACTATTACTTTTGTTCCGTTTTGATATTTAAACTATCA
66 TTACTTTTGTTCCGTTTTGGTACTTAAACTATTACTTTTGTTCCGTTTTGATATTTAAACTATCA
* * * * *
11045329 TTTTTATTTAGCTTTAATAATTAAACTTTATTAAAAAAACTATACCTAATAATTAATTTAGGTTT
131 TTTTTATTCAGCTTTAGTACTTAAACTTTATTAAAAAAACTATACCTAATATTTAGTTTAGGTTT
* * * * *
11045394 CACTTTGGTACACGTCGTTAAAAACTTAATGGAATTGTTATACATGACATTTTTTATTGGTAACT
196 CATTTTGGTACATGCCGTTAAAAACTTAATGGAACTATTATACATGACA-TTTTTATTGGTAACT
* * *
11045459 TCTCAATTCTATCTTGATCAATGAAGTTAATTTTTTTTAATTTAATCACCTAACATTCAAATTAC
260 TCTCACTTCTATTTTGATCAATGAAGTTAA-TTTTTTTAATTTAATCACCTAACTTTCAAATTAC
11045524 TCTTATTTTAAT
324 TCTTATTTTAAT
11045536 GAGGATAAAT
Statistics
Matches: 963, Mismatches: 55, Indels: 30
0.92 0.05 0.03
Matches are distributed among these distances:
695 17 0.02
697 159 0.17
698 339 0.35
699 16 0.02
700 79 0.08
701 53 0.06
702 143 0.15
703 93 0.10
704 64 0.07
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.42
Consensus pattern (702 bp):
AAAAAGATAAACTACACGTTTAGTATCTAAACTATTACTTTTATTCCATTTTGATACTTAAACTA
TTACTTTTGTTCCGTTTTGGTACTTAAACTATTACTTTTGTTCCGTTTTGATATTTAAACTATCA
TTTTTATTCAGCTTTAGTACTTAAACTTTATTAAAAAAACTATACCTAATATTTAGTTTAGGTTT
CATTTTGGTACATGCCGTTAAAAACTTAATGGAACTATTATACATGACATTTTTATTGGTAACTT
CTCACTTCTATTTTGATCAATGAAGTTAATTTTTTTAATTTAATCACCTAACTTTCAAATTACTC
TTATTTTAATCAGGCTAACTTATTTTATTAATATATGAGAGGTTTGTGATTTAAAGTTTATGTTA
TAATTTTTGGGTTTGGGTATAATTTTAAATTTAGTTTTTATTTTAATTATATATTAATAAAATAA
TAATAAAAAAAATCGTGTCAAAAAATTAATAAAATAAATTAGAATGATCAAAATGAAATGTTTTA
AACTTTAGTGACCAAAAGTGAGAAGATAAAGAGTGATGATGATGTAATTTACCCATAAAAAATTC
CGTTAAGTTTTTAAAGGCAGAGAATCAAAACGAAACCTAAACTAAATGTTAGACATATAATTTTA
AAAAAATAAAGTTTAGGTACCAAAATGGAATTAAAGTAATAGTTTACGTATT
Found at i:11045264 original size:31 final size:31
Alignment explanation
Indices: 11045226--11045336 Score: 141
Period size: 31 Copynumber: 3.6 Consensus size: 31
11045216 GTTTAGTATC
* *
11045226 TAAACTATTACTTTTATTCCATTTTGTTACT
1 TAAACTATTACTTTTATTCCGTTTTGATACT
* * *
11045257 TAAACTATTATTTTTGTTCCGTTTTGGTACT
1 TAAACTATTACTTTTATTCCGTTTTGATACT
* *
11045288 TAAACTATTACTTTTGTTCCGTTTTGATATT
1 TAAACTATTACTTTTATTCCGTTTTGATACT
* *
11045319 TAAACTATCATTTTTATT
1 TAAACTATTACTTTTATT
11045337 TAGCTTTAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.55
Consensus pattern (31 bp):
TAAACTATTACTTTTATTCCGTTTTGATACT
Found at i:11045353 original size:62 final size:62
Alignment explanation
Indices: 11045226--11045355 Score: 152
Period size: 62 Copynumber: 2.1 Consensus size: 62
11045216 GTTTAGTATC
* * * * * ** *
11045226 TAAACTATTACTTTTATTCCATTTTGTTACTTAAACTATTATTTTTGTTCCGTTTTGGTACT
1 TAAACTATTACTTTTATTCCATTTTGATACTTAAACTATCATTTTTATTCAGCTTTAATAAT
* * * *
11045288 TAAACTATTACTTTTGTTCCGTTTTGATATTTAAACTATCATTTTTATTTAGCTTTAATAAT
1 TAAACTATTACTTTTATTCCATTTTGATACTTAAACTATCATTTTTATTCAGCTTTAATAAT
11045350 TAAACT
1 TAAACT
11045356 TTATTAAAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (62 bp):
TAAACTATTACTTTTATTCCATTTTGATACTTAAACTATCATTTTTATTCAGCTTTAATAAT
Found at i:11047691 original size:19 final size:20
Alignment explanation
Indices: 11047648--11047695 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
11047638 TCTAAATCCT
*
11047648 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
11047668 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
11047687 TTTTCAAAA
1 TTTTCAAAA
11047696 GAAAATTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:11048619 original size:34 final size:32
Alignment explanation
Indices: 11048557--11048626 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
11048547 ACCTTACAAC
* *
11048557 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
11048589 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
11048623 TCCC
1 TCCC
11048627 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:11052792 original size:20 final size:21
Alignment explanation
Indices: 11052756--11052796 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11052746 CGTTAGACAA
11052756 GGGGGAATCAGTACCCCCTGG
1 GGGGGAATCAGTACCCCCTGG
*
11052777 GGGGGAATCTGT-CCCCCTGG
1 GGGGGAATCAGTACCCCCTGG
11052797 ACAATCTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.15, C:0.29, G:0.39, T:0.17
Consensus pattern (21 bp):
GGGGGAATCAGTACCCCCTGG
Found at i:11054241 original size:19 final size:20
Alignment explanation
Indices: 11054198--11054245 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
11054188 TCTAAAACCT
*
11054198 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
11054218 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
11054237 TTTTCAAAA
1 TTTTCAAAA
11054246 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:11055575 original size:40 final size:40
Alignment explanation
Indices: 11055521--11055617 Score: 142
Period size: 40 Copynumber: 2.4 Consensus size: 40
11055511 CCGTTAGACA
* *
11055521 GGGGGAATCGGTACCCCTTG-GGGGGAATCTGTTTTCCCTG
1 GGGGGAATCGGTACCCCTTGAGGGGGAATCT-ATTCCCCTG
*
11055561 GGGGGAATCGGTACCCCTTGAGGGGGAATCTATTCCCCTT
1 GGGGGAATCGGTACCCCTTGAGGGGGAATCTATTCCCCTG
*
11055601 GGGGGAATCTGTACCCC
1 GGGGGAATCGGTACCCC
11055618 CTGGACAATC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 42 0.81
41 10 0.19
ACGTcount: A:0.15, C:0.25, G:0.35, T:0.25
Consensus pattern (40 bp):
GGGGGAATCGGTACCCCTTGAGGGGGAATCTATTCCCCTG
Found at i:11055619 original size:20 final size:20
Alignment explanation
Indices: 11055521--11055617 Score: 108
Period size: 20 Copynumber: 4.8 Consensus size: 20
11055511 CCGTTAGACA
*
11055521 GGGGGAATCGGTACCCCTTG
1 GGGGGAATCTGTACCCCTTG
**
11055541 GGGGGAATCTGTTTTCCC-TG
1 GGGGGAATCTG-TACCCCTTG
*
11055561 GGGGGAATCGGTACCCCTTG
1 GGGGGAATCTGTACCCCTTG
* *
11055581 AGGGGGAATCTATTCCCCTT-
1 -GGGGGAATCTGTACCCCTTG
11055601 GGGGGAATCTGTACCCC
1 GGGGGAATCTGTACCCC
11055618 CTGGACAATC
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
19 19 0.30
20 24 0.38
21 20 0.32
ACGTcount: A:0.15, C:0.25, G:0.35, T:0.25
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCTTG
Done.