Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 66 of 143
Found at i:21528693 original size:21 final size:21
Alignment explanation
Indices: 21528626--21528698 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
21528616 CTATAACCTT
*
21528626 TAATTTAAAATACCCTAAACCC
1 TAATTTAAAATACCCTAAA-AC
*
21528648 TTATTTAAAATA-CC-AAAACC
1 TAATTTAAAATACCCTAAAA-C
*
21528668 TTAATTTAAAAAACCCTAAAAC
1 -TAATTTAAAATACCCTAAAAC
21528690 TAA-TTAAAA
1 TAATTTAAAA
21528699 CAAAAACACC
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
20 10 0.23
21 15 0.35
22 14 0.33
23 4 0.09
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (21 bp):
TAATTTAAAATACCCTAAAAC
Found at i:21530189 original size:237 final size:237
Alignment explanation
Indices: 21529751--21530454 Score: 975
Period size: 237 Copynumber: 3.0 Consensus size: 237
21529741 ACTTCTATTG
* * * * *
21529751 TTTTCTGACTCGGTGGGTTGGATCCGGG-TCAAA-AGGAACACT-AGATTTGGACTCAAATTGTC
1 TTTTTTGACTCGGTGGGTTGGATCTGGGTTGAAACA-G-ACA-TGAGATTTGGACTCAAACTGTT
* * *
21529813 GGTGGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTGAAATACTTCTCTTCGCCGCGTA
63 GGTGGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCTTCGCCGCGTA
* * * ** *
21529878 TG-CGGATCTTGACTTGATCATTGACGAGATTCTTGGCCAGAGCTTTAAGGCGATCAAAAGTCGG
128 TGAC-GATCTTGACTTGACCAATGACGAGATTCTTGGCCAGAGCTTTAAGGCGATCGATGGTGGG
*
21529942 CCGAGAAGGAGGGGAGGTGTTGGGAGAACGCTTCTTCCTTTCGCTA
192 CCGAGAAGGAGGGGAGGTGTTGGGAGAACGCTTCTTACTTTCGCTA
*
21529988 TTTTTTGACTCGGTGGGTTGGATCTGGGTTGGAACAGACATGAGATTTGGACTCAAACTGTTGGT
1 TTTTTTGACTCGGTGGGTTGGATCTGGGTTGAAACAGACATGAGATTTGGACTCAAACTGTTGGT
* * * *
21530053 GGGACCTAGATTTACATCAACGTTTTTCTTTTCGAACCTCACATGCTTCTCTTTGCTGTGTATGA
66 GGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCTTCGCCGCGTATGA
* * * * *
21530118 CGATCTTGACTTGACCAATGACGAGATTATTAGCCAGAGCTTTAGGGCAATCGATGGTGGGCCGG
131 CGATCTTGACTTGACCAATGACGAGATTCTTGGCCAGAGCTTTAAGGCGATCGATGGTGGGCCGA
* *
21530183 GAAGGAGGGGAGGTGTTGGGAGAACGCTTCTTACTTTCGTTG
196 GAAGGAGGGGAGGTGTTGGGAGAACGCTTCTTACTTTCGCTA
* * * * *
21530225 TTTTTAGACTTGGTGGGTTGGATCTGGGTCGAAACAGACACGAGATTTGGACTCAAACTGTTAGT
1 TTTTTTGACTCGGTGGGTTGGATCTGGGTTGAAACAGACATGAGATTTGGACTCAAACTGTTGGT
* * * *
21530290 GGGACCTAGATTTGCATCAATGTTTTCCTTTTTGAACCTCACATGCTTCTCTTCACCGCGTATGA
66 GGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCTTCGCCGCGTATGA
* * *
21530355 CGATCTTGACTTGACCAATGATGAGATTCTTGGCCGGAGCTTTAAGGCGATCGATGGTGGGACGA
131 CGATCTTGACTTGACCAATGACGAGATTCTTGGCCAGAGCTTTAAGGCGATCGATGGTGGGCCGA
* *
21530420 GAAAGAGGGGAGGTGTTGGGAGAATGCTTCTTACT
196 GAAGGAGGGGAGGTGTTGGGAGAACGCTTCTTACT
21530455 GTTTCCTTGT
Statistics
Matches: 412, Mismatches: 51, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
236 1 0.00
237 405 0.98
238 5 0.01
239 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (237 bp):
TTTTTTGACTCGGTGGGTTGGATCTGGGTTGAAACAGACATGAGATTTGGACTCAAACTGTTGGT
GGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCTTCGCCGCGTATGA
CGATCTTGACTTGACCAATGACGAGATTCTTGGCCAGAGCTTTAAGGCGATCGATGGTGGGCCGA
GAAGGAGGGGAGGTGTTGGGAGAACGCTTCTTACTTTCGCTA
Found at i:21530960 original size:67 final size:66
Alignment explanation
Indices: 21530883--21531105 Score: 200
Period size: 67 Copynumber: 3.3 Consensus size: 66
21530873 ATTATATTAA
* *
21530883 TTAATATTAAACTTAATCTAATATTTATATTGATATATCATATTAATTTAATATTAAGATGATTA
1 TTAATATTAAACTTAATTTAATATTAATATTGATATATCATATTAATTTAATATTAA-ATGATTA
21530948 TC
65 TC
* * * * * * * * * *
21530950 TTAATATTAAATTTAATTTAAT-TCAATATTTATCT-TGTAGATAAATATT-CTATTAATTTAAT
1 TTAATATTAAACTTAATTTAATATTAATATTGATATAT-CATATTAAT-TTAATATTAA-ATGAT
* **
21531012 AAGA
63 TATC
* * *
21531016 TTGAATATTATACTTAATTTAATATTAATCTTGATATATCATATTAATTTATTATTAAAGTGATT
1 TT-AATATTAAACTTAATTTAATATTAATATTGATATATCATATTAATTTAATATTAAA-TGATT
21531081 ATC
64 ATC
*
21531084 TTAATATTAAATTTAATTTAAT
1 TTAATATTAAACTTAATTTAAT
21531106 TCAATGTTTA
Statistics
Matches: 116, Mismatches: 33, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
65 1 0.01
66 27 0.23
67 60 0.52
68 27 0.23
69 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.49
Consensus pattern (66 bp):
TTAATATTAAACTTAATTTAATATTAATATTGATATATCATATTAATTTAATATTAAATGATTAT
C
Found at i:21530998 original size:72 final size:71
Alignment explanation
Indices: 21530922--21531132 Score: 201
Period size: 72 Copynumber: 3.1 Consensus size: 71
21530912 TTGATATATC
21530922 ATATTAATTTAATATTAAGATGATTATCTTAATATTAAATTTAATTTAATTCAATATTTATCTTG
1 ATATTAATTTAATATTAA-ATGATTATCTTAATATTAAATTTAATTTAATTCAATATTTATCTTG
*
21530987 TAGATAA
65 TAAATAA
* ** * * * *
21530994 ATATT-CTATTAAT-TT-AAT-AAGAT-TGAATATT--A--T-ACTTAATTTAATATTAATCTTG
1 ATATTAAT-TTAATATTAAATGATTATCTTAATATTAAATTTAATTTAATTCAATATTTATCTTG
* *
21531049 -ATATATC
65 TAAATA-A
* *
21531056 ATATTAATTTATTATTAAAGTGATTATCTTAATATTAAATTTAATTTAATTCAATGTTTATCTTG
1 ATATTAATTTAATATTAAA-TGATTATCTTAATATTAAATTTAATTTAATTCAATATTTATCTTG
21531121 TAAATAA
65 TAAATAA
21531128 ATATT
1 ATATT
21531133 CTATTAATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
61 4 0.04
62 28 0.27
63 4 0.04
64 2 0.02
65 2 0.02
66 3 0.03
67 14 0.13
68 3 0.03
69 3 0.03
70 1 0.01
71 4 0.04
72 33 0.31
73 4 0.04
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (71 bp):
ATATTAATTTAATATTAAATGATTATCTTAATATTAAATTTAATTTAATTCAATATTTATCTTGT
AAATAA
Found at i:21531040 original size:134 final size:134
Alignment explanation
Indices: 21530885--21531217 Score: 526
Period size: 134 Copynumber: 2.5 Consensus size: 134
21530875 TATATTAATT
* *
21530885 AATATTAAACTTAATCTAATATTTATATTGATATATCATATTAATTTAATATT-AAGATGATTAT
1 AATATTAAACTTAATTTAATATTTATCTTGATATATCATATTAATTTAATATTAAAG-TGATTAT
*
21530949 CTTAATATTAAATTTAATTTAATTCAATATTTATCTTGTAGATAAATATTCTATTAATTTAATAA
65 CTTAATATTAAATTTAATTTAATTCAATATTTATCTTGTAAATAAATATTCTATTAATTTAATAA
21531014 GATTG
130 GATTG
* * *
21531019 AATATTATACTTAATTTAATATTAATCTTGATATATCATATTAATTTATTATTAAAGTGATTATC
1 AATATTAAACTTAATTTAATATTTATCTTGATATATCATATTAATTTAATATTAAAGTGATTATC
*
21531084 TTAATATTAAATTTAATTTAATTCAATGTTTATCTTGTAAATAAATATTCTATTAATTTAATAAG
66 TTAATATTAAATTTAATTTAATTCAATATTTATCTTGTAAATAAATATTCTATTAATTTAATAAG
*
21531149 ATTT
131 ATTG
* *
21531153 AATATTAAACTT-GTTCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGATT
1 AATATTAAACTTAATT-TAATATTTATCTTGAT-A-TATCATATTAATTTAATATTAAAGTGATT
21531217 A
63 A
21531218 AGTTTAATAA
Statistics
Matches: 182, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
133 2 0.01
134 148 0.81
135 4 0.02
136 28 0.15
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (134 bp):
AATATTAAACTTAATTTAATATTTATCTTGATATATCATATTAATTTAATATTAAAGTGATTATC
TTAATATTAAATTTAATTTAATTCAATATTTATCTTGTAAATAAATATTCTATTAATTTAATAAG
ATTG
Found at i:21531065 original size:30 final size:30
Alignment explanation
Indices: 21531016--21531073 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
21531006 TTTAATAAGA
*
21531016 TTGAATATTATACTTAATTTAATATTAATC
1 TTGAATATCATACTTAATTTAATATTAATC
*
21531046 TTGATATATCATA-TTAATTTATTATTAA
1 TTGA-ATATCATACTTAATTTAATATTAA
21531074 AGTGATTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (30 bp):
TTGAATATCATACTTAATTTAATATTAATC
Found at i:21531808 original size:31 final size:30
Alignment explanation
Indices: 21531763--21531832 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
21531753 TTTTTAACAA
* * *
21531763 ATTTAAA-GTCTAAAATTTCAAAATTAATAT
1 ATTTAAATTTCTAAAAATTCAAAA-GAATAT
21531793 ATTTAAATTTCTAAAAATTCAAAAGAATAT
1 ATTTAAATTTCTAAAAATTCAAAAGAATAT
*
21531823 ATCTAAATTT
1 ATTTAAATTT
21531833 TGCATTTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 21 0.60
31 14 0.40
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (30 bp):
ATTTAAATTTCTAAAAATTCAAAAGAATAT
Found at i:21531831 original size:30 final size:31
Alignment explanation
Indices: 21531771--21531832 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
21531761 AAATTTAAAG
* * *
21531771 TCTAAAATTTCAAAATTAATATATTTAAATT
1 TCTAAAAATTCAAAATGAATATATCTAAATT
21531802 TCTAAAAATTCAAAA-GAATATATCTAAATT
1 TCTAAAAATTCAAAATGAATATATCTAAATT
21531832 T
1 T
21531833 TGCATTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (31 bp):
TCTAAAAATTCAAAATGAATATATCTAAATT
Found at i:21532281 original size:22 final size:22
Alignment explanation
Indices: 21532256--21532300 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
21532246 ATTTCGATTT
* * *
21532256 TATTATTGAGAAATTAATTAAA
1 TATTATTAAAAAAATAATTAAA
21532278 TATTATTAAAAAAATAATTAAA
1 TATTATTAAAAAAATAATTAAA
21532300 T
1 T
21532301 TATAAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
TATTATTAAAAAAATAATTAAA
Found at i:21532320 original size:20 final size:20
Alignment explanation
Indices: 21532274--21532320 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
21532264 AGAAATTAAT
*
21532274 TAAATATTATTAAAAAAATAA
1 TAAA-ATTATTAAAAAAAAAA
*
21532295 TTAAATTA-TAAAAATAAAAA
1 TAAAATTATTAAAAA-AAAAA
21532315 TAAAAT
1 TAAAAT
21532321 AACTAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 6 0.27
20 13 0.59
21 3 0.14
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAATTATTAAAAAAAAAA
Found at i:21532555 original size:21 final size:22
Alignment explanation
Indices: 21532513--21532565 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 22
21532503 CTATAGCTTT
*
21532513 TAATTTAAAATACCCTAAACCC
1 TAATTTAAAATACCCAAAACCC
*
21532535 TAATTTAAAATA-TCAAAACCC
1 TAATTTAAAATACCCAAAACCC
21532556 TAATTTAAAA
1 TAATTTAAAA
21532566 AAAATCCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (22 bp):
TAATTTAAAATACCCAAAACCC
Found at i:21534059 original size:237 final size:235
Alignment explanation
Indices: 21533635--21534351 Score: 976
Period size: 237 Copynumber: 3.0 Consensus size: 235
21533625 TCGGAACAAC
* * * *
21533635 CTTACTTCCGTTGTTTTCTAACTCGATGGGTTGGATCCGGGTCGAAACGAACACTG-GATTTGGA
1 CTTACTTTCGTTGTTTTCTGACTCGGTGGGTTGGATCTGGGTCGAAACG-ACAC-GAGATTTGGA
* * * *
21533699 CTCAAATTGTCGGTGGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTGAAATACTTCTC
64 CTCAAACTGTCGGTGGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTC
* * * * *
21533764 TTCGTCGTGTATGCA-AATCTTGACTTGATCATTGACGAGATTCTTGG-TCGGTGCTTTAGGGTG
129 TTCG-CCTGTATG-ATGATCTTGACTTGACCAATGACGAGATTCTTGGCT-GGAGCTTTAGGGTG
21533827 ATCGAAAGTGGGCCGAGAAGGAGGGGAGGTGTTGGGAGAACGCTT
191 ATCGAAAGTGGGCCGAGAAGGAGGGGAGGTGTTGGGAGAACGCTT
*
21533872 CTTACTTTCGCTGTTTTCTGACTCGGTGGGTTGGATCTGGGTCGAAACAGACACGAGATTTGGAC
1 CTTACTTTCGTTGTTTTCTGACTCGGTGGGTTGGATCTGGGTCGAAAC-GACACGAGATTTGGAC
*
21533937 TCAAACTGTCGGTGGGACCTAGATTTACATCAACGTTTTTCTTTTCGAACCTCACATGCTTCTCT
65 TCAAACTGTCGGTGGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCT
* * * * *
21534002 TCGCCTAGTATGATGATCTTGACTTGACCAATGATGAGACTATTGGCTAGAGCTTTAGGGCGATC
130 TCGCCT-GTATGATGATCTTGACTTGACCAATGACGAGATTCTTGGCTGGAGCTTTAGGGTGATC
** * *
21534067 GATGGTGGACCGAGAAAGAGGGGAGGTGTTGGGAGAACGCTT
194 GAAAGTGGGCCGAGAAGGAGGGGAGGTGTTGGGAGAACGCTT
* * * * *
21534109 CTTACTTTCGTTGTTTTCAGACTCGGTCGGTTGGATTTGGATCGAAATGGACACGAGATTTGGAC
1 CTTACTTTCGTTGTTTTCTGACTCGGTGGGTTGGATCTGGGTCGAAA-CGACACGAGATTTGGAC
*
21534174 TCAAACTGTCAGTGGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCT
65 TCAAACTGTCGGTGGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCT
* *
21534239 TCGTCGC-GTATGATGATCTTGACTTGACCAATGACGAGATTCTTGGCCGGAGCTTTAAGGTGAT
130 TCG-C-CTGTATGATGATCTTGACTTGACCAATGACGAGATTCTTGGCTGGAGCTTTAGGGTGAT
* * * *
21534303 CG-ACGATGGGACGAGAAGGAGGGGAGGTGTTAGGAGAATGCTT
193 CGAAAG-TGGGCCGAGAAGGAGGGGAGGTGTTGGGAGAACGCTT
21534346 CTTACT
1 CTTACT
21534352 GTTCCCTTGT
Statistics
Matches: 425, Mismatches: 46, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
236 5 0.01
237 416 0.98
238 3 0.01
239 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (235 bp):
CTTACTTTCGTTGTTTTCTGACTCGGTGGGTTGGATCTGGGTCGAAACGACACGAGATTTGGACT
CAAACTGTCGGTGGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCTT
CGCCTGTATGATGATCTTGACTTGACCAATGACGAGATTCTTGGCTGGAGCTTTAGGGTGATCGA
AAGTGGGCCGAGAAGGAGGGGAGGTGTTGGGAGAACGCTT
Found at i:21534898 original size:134 final size:136
Alignment explanation
Indices: 21534692--21534986 Score: 477
Period size: 134 Copynumber: 2.2 Consensus size: 136
21534682 AATAATATTT
* * * *
21534692 TATTAATTTAATATTAAAATAATTATCTTAATATTAAATTTAATTTAATTCAATGTTTATCTTAT
1 TATTAATTTAATATTAAAGTGATTATCTTAACATTAAATTTAATTTAATTCAACGTTTATCTTAT
* * *
21534757 AGATAAATATTTTATCAATTTAATAATATTTAATATTAAACTTAATCTAATATTTATCTTGAT-A
66 AGATAAATATTCTATCAATTTAAGAAGATTTAATATTAAACTTAATCTAATATTTATCTTGATGA
21534821 -TATCA
131 GTATCA
*
21534826 TATTAATTTAATATTAAAGTGATTATCTTAACATTAAATTTAATTTAATTCAACGTTTATCTTGT
1 TATTAATTTAATATTAAAGTGATTATCTTAACATTAAATTTAATTTAATTCAACGTTTATCTTAT
* * *
21534891 AGTTAAATATTCTATTAATTTAAGAAGATTTAATATTAAACTTATTCTAATATTTATCTTGATGA
66 AGATAAATATTCTATCAATTTAAGAAGATTTAATATTAAACTTAATCTAATATTTATCTTGATGA
21534956 GTATCA
131 GTATCA
21534962 TATTAATTTAATATTAAAGTGATTA
1 TATTAATTTAATATTAAAGTGATTA
21534987 AATTTAATAA
Statistics
Matches: 148, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
134 117 0.79
135 1 0.01
136 30 0.20
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (136 bp):
TATTAATTTAATATTAAAGTGATTATCTTAACATTAAATTTAATTTAATTCAACGTTTATCTTAT
AGATAAATATTCTATCAATTTAAGAAGATTTAATATTAAACTTAATCTAATATTTATCTTGATGA
GTATCA
Found at i:21535955 original size:63 final size:68
Alignment explanation
Indices: 21535883--21536010 Score: 185
Period size: 69 Copynumber: 1.9 Consensus size: 68
21535873 TTAGAAAATA
* *
21535883 AATATTAAATTTAA-T-A-A-TTATCTTAAT-AGTATTTTATTTATTTAATATTAAAGTGATTAT
1 AATATTAAATTTAACTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGATTAT
21535943 TTT
66 TTT
*
21535946 AATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGATTA
1 AATATTAAATTTAA-CTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGATTA
21536011 AGTTAAACAA
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
63 14 0.25
65 1 0.02
66 1 0.02
67 1 0.02
68 9 0.16
69 30 0.54
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (68 bp):
AATATTAAATTTAACTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGATTAT
TTT
Found at i:21536013 original size:32 final size:32
Alignment explanation
Indices: 21535910--21536013 Score: 75
Period size: 32 Copynumber: 3.1 Consensus size: 32
21535900 TTATCTTAAT
* *
21535910 AGTATTTTATTTATTTAATATTAAAGTGATTA
1 AGTATTATATTAATTTAATATTAAAGTGATTA
* * * ***
21535942 TTTTAATATTAAATTTAATCTAATATTTATCTTGA-TA
1 ----AGTATTATA-TTAATTTAATA-TTAAAGTGATTA
21535979 AGTATTATATTAATTTAATATTAAAGTGATTA
1 AGTATTATATTAATTTAATATTAAAGTGATTA
21536011 AGT
1 AGT
21536014 TAAACAATAA
Statistics
Matches: 51, Mismatches: 14, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
31 6 0.12
32 15 0.29
33 7 0.14
36 6 0.12
37 11 0.22
38 6 0.12
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (32 bp):
AGTATTATATTAATTTAATATTAAAGTGATTA
Found at i:21539865 original size:19 final size:19
Alignment explanation
Indices: 21539827--21539865 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
21539817 TTAATTAAAT
* * *
21539827 ATTATTAAAAAATAATTAA
1 ATTATAAAAAAAAAAATAA
21539846 ATTATAAAAAAAAAAATAA
1 ATTATAAAAAAAAAAATAA
21539865 A
1 A
21539866 ATAATTAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (19 bp):
ATTATAAAAAAAAAAATAA
Found at i:21546275 original size:28 final size:28
Alignment explanation
Indices: 21546238--21546292 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
21546228 ATTGTAAAAG
* *
21546238 CATAAGTACAAGCTGGCGAGCGTAAACA
1 CATAAATACAAGCTGACGAGCGTAAACA
*
21546266 CATAAATACAAGCTGACGAGCTTAAAC
1 CATAAATACAAGCTGACGAGCGTAAAC
21546293 GCAAACTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (28 bp):
CATAAATACAAGCTGACGAGCGTAAACA
Found at i:21550689 original size:14 final size:14
Alignment explanation
Indices: 21550670--21550703 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
21550660 TTTAGCTTTC
21550670 AAATTTAAGTTTTA
1 AAATTTAAGTTTTA
*
21550684 AAATTTAAGTTTTC
1 AAATTTAAGTTTTA
21550698 AAATTT
1 AAATTT
21550704 GTATTACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (14 bp):
AAATTTAAGTTTTA
Found at i:21552934 original size:27 final size:27
Alignment explanation
Indices: 21552904--21552957 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
21552894 TTAAATTTGG
21552904 ACTAAACTCAAGTAAAATATTAACATA
1 ACTAAACTCAAGTAAAATATTAACATA
*
21552931 ACTAAATTCAAGTAAAATATTAACATA
1 ACTAAACTCAAGTAAAATATTAACATA
21552958 CTTTGTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.28
Consensus pattern (27 bp):
ACTAAACTCAAGTAAAATATTAACATA
Found at i:21555667 original size:27 final size:29
Alignment explanation
Indices: 21555629--21555702 Score: 98
Period size: 27 Copynumber: 2.6 Consensus size: 29
21555619 CACCCTCAAA
*
21555629 TTATATTTTAATCACTTATGTTT-AAA-G
1 TTATATTTTAATCACTTATATTTGAAATG
21555656 TTATATTTTAATCACTTATATTTGAAATG
1 TTATATTTTAATCACTTATATTTGAAATG
** *
21555685 TTACGTTTTAGTCACTTA
1 TTATATTTTAATCACTTA
21555703 CATTATTGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 22 0.54
28 3 0.07
29 16 0.39
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.51
Consensus pattern (29 bp):
TTATATTTTAATCACTTATATTTGAAATG
Found at i:21555676 original size:15 final size:15
Alignment explanation
Indices: 21555629--21555678 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
21555619 CACCCTCAAA
21555629 TTATATTTTAATCAC
1 TTATATTTTAATCAC
* *
21555644 TTAT-GTTTAA--AG
1 TTATATTTTAATCAC
21555656 TTATATTTTAATCAC
1 TTATATTTTAATCAC
21555671 TTATATTT
1 TTATATTT
21555679 GAAATGTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
12 5 0.18
13 5 0.18
14 5 0.18
15 13 0.46
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (15 bp):
TTATATTTTAATCAC
Found at i:21555872 original size:17 final size:16
Alignment explanation
Indices: 21555827--21555875 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 16
21555817 GGAATGAAAA
* *
21555827 TAAATTTTTAATTAAA
1 TAAAATTTTAATTAAT
21555843 T-AAA-TTTAATTAAT
1 TAAAATTTTAATTAAT
21555857 TAAAATTTTAAATTAAT
1 TAAAATTTT-AATTAAT
21555874 TA
1 TA
21555876 CAACTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 10 0.36
15 5 0.18
16 4 0.14
17 9 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAAATTTTAATTAAT
Found at i:21562899 original size:29 final size:29
Alignment explanation
Indices: 21562854--21562910 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
21562844 AGGGGAGAGA
* *
21562854 CTCGAGGCTGTTTAGCTGGTGTGGGTAAC
1 CTCGAGGCTGTTGAGCTGGTGCGGGTAAC
*
21562883 CTCGAGTCTGTTGAGCTGGTGCGGGTAA
1 CTCGAGGCTGTTGAGCTGGTGCGGGTAA
21562911 TTTAGATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.18, G:0.39, T:0.30
Consensus pattern (29 bp):
CTCGAGGCTGTTGAGCTGGTGCGGGTAAC
Found at i:21566281 original size:12 final size:12
Alignment explanation
Indices: 21566264--21566288 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21566254 TGTTATCATG
21566264 ATGAATGCTATT
1 ATGAATGCTATT
21566276 ATGAATGCTATT
1 ATGAATGCTATT
21566288 A
1 A
21566289 ATTCTTTAAT
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:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:21566992 original size:16 final size:16
Alignment explanation
Indices: 21566971--21567001 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21566961 CGTGTATAGG
*
21566971 AATTTAATTTAGTTTT
1 AATTTAACTTAGTTTT
21566987 AATTTAACTTAGTTT
1 AATTTAACTTAGTTT
21567002 AGAATACTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.58
Consensus pattern (16 bp):
AATTTAACTTAGTTTT
Found at i:21568346 original size:21 final size:21
Alignment explanation
Indices: 21568322--21568371 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
21568312 AGGTTTTACT
21568322 GATACAACTATGACTACTACC
1 GATACAACTATGACTACTACC
* * *
21568343 GATACAATTATTACTTCTACC
1 GATACAACTATGACTACTACC
21568364 GATACAAC
1 GATACAAC
21568372 ACACTCCAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.28
Consensus pattern (21 bp):
GATACAACTATGACTACTACC
Found at i:21569293 original size:94 final size:94
Alignment explanation
Indices: 21569132--21569354 Score: 308
Period size: 94 Copynumber: 2.4 Consensus size: 94
21569122 ATTATCTCTA
* * * * *
21569132 TTACCAGTATATGATACTGCTCACACTAAGTTGATGAGGACTCGTAACATATGCGGTACCTCAGC
1 TTACCAGTATACGATGCTGCTCACACTAAGCTGACGAGGACTCGCAACATATGCGGTACCTCAGC
* *
21569197 CATCGATACGGTATCTGTACATATAATTG
66 CATCAATACGGTATCTGTACATATAACTG
* ** *
21569226 TTACCAGTATACAATGCTGCTCACACTAAGCTGACGAGGACTCGCAACATATGTTGTACCTTAGC
1 TTACCAGTATACGATGCTGCTCACACTAAGCTGACGAGGACTCGCAACATATGCGGTACCTCAGC
*
21569291 CATTAATACGGTATCTGTACATATAACTG
66 CATCAATACGGTATCTGTACATATAACTG
*
21569320 TT-CCA-TA-ACGATGTTGCTCACACTAAGCTGACGAG
1 TTACCAGTATACGATGCTGCTCACACTAAGCTGACGAG
21569355 AACATGCAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
91 26 0.23
92 2 0.02
93 3 0.03
94 84 0.73
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (94 bp):
TTACCAGTATACGATGCTGCTCACACTAAGCTGACGAGGACTCGCAACATATGCGGTACCTCAGC
CATCAATACGGTATCTGTACATATAACTG
Found at i:21582460 original size:12 final size:13
Alignment explanation
Indices: 21582437--21582501 Score: 55
Period size: 12 Copynumber: 5.1 Consensus size: 13
21582427 GTGGGTATTG
*
21582437 AGGAAGAGAAAGA
1 AGGAAAAGAAAGA
21582450 A-GAAAAGAAAGA
1 AGGAAAAGAAAGA
* *
21582462 GGAGGGAAAGGAAGA
1 --AGGAAAAGAAAGA
21582477 AGGAAAAG-AAGA
1 AGGAAAAGAAAGA
*
21582489 A-GAAAAGGAAGA
1 AGGAAAAGAAAGA
21582501 A
1 A
21582502 ATTTTTGTCG
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
11 6 0.14
12 20 0.45
13 8 0.18
14 1 0.02
15 9 0.20
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
AGGAAAAGAAAGA
Found at i:21582463 original size:24 final size:26
Alignment explanation
Indices: 21582436--21582502 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 26
21582426 TGTGGGTATT
21582436 GAGGAAGAGAAA-GAAGAAAAG-AAA
1 GAGGAAGAGAAAGGAAGAAAAGAAAA
* *
21582460 GAGG-AGGGAAAGGAAG-AAGGAAAA
1 GAGGAAGAGAAAGGAAGAAAAGAAAA
*
21582484 GAAGAAGA-AAAGGAAGAAA
1 GAGGAAGAGAAAGGAAGAAA
21582503 TTTTTGTCGC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
23 9 0.26
24 22 0.63
25 4 0.11
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (26 bp):
GAGGAAGAGAAAGGAAGAAAAGAAAA
Found at i:21582969 original size:17 final size:17
Alignment explanation
Indices: 21582910--21582969 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
21582900 GTAGTTCTAA
*
21582910 TTGCATTGTCATCACAT
1 TTGCATTGTCATCGCAT
**
21582927 TTTTATTGTCCAT-GCAT
1 TTGCATTGT-CATCGCAT
21582944 TT-CATTTGTCATCGCAT
1 TTGCA-TTGTCATCGCAT
21582961 TTGCATTGT
1 TTGCATTGT
21582970 AGTTGCATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 4 0.11
17 26 0.74
18 5 0.14
ACGTcount: A:0.18, C:0.20, G:0.13, T:0.48
Consensus pattern (17 bp):
TTGCATTGTCATCGCAT
Found at i:21595923 original size:17 final size:16
Alignment explanation
Indices: 21595877--21595924 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 16
21595867 ATAATTTGCA
21595877 TGCATTTTTATTGTCAT
1 TGCATTTTT-TTGTCAT
*
21595894 TACATTTTATTTGTCAT
1 TGCATTTT-TTTGTCAT
21595911 TGCATTTCTTTTGT
1 TGCATTT-TTTTGT
21595925 TAATTTAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 25 0.93
18 2 0.07
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.60
Consensus pattern (16 bp):
TGCATTTTTTTGTCAT
Found at i:21596527 original size:10 final size:10
Alignment explanation
Indices: 21596512--21596545 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
21596502 AAAGGAAAAT
21596512 AAGAAAAAGA
1 AAGAAAAAGA
21596522 AAGAAAAAGAA
1 AAGAAAAAG-A
21596533 AAGAGAAAAGA
1 AAGA-AAAAGA
21596544 AA
1 AA
21596546 AGAAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 8 0.36
12 5 0.23
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:21596541 original size:13 final size:14
Alignment explanation
Indices: 21596516--21596555 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 14
21596506 GAAAATAAGA
21596516 AAAAGAAAGAAAAAG
1 AAAAG-AAGAAAAAG
21596531 AAAAG-AG-AAAAG
1 AAAAGAAGAAAAAG
21596543 AAAAGAAGAAAAA
1 AAAAGAAGAAAAA
21596556 ATGTTTGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 10 0.43
13 4 0.17
14 4 0.17
15 5 0.22
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAGAAGAAAAAG
Found at i:21605799 original size:161 final size:161
Alignment explanation
Indices: 21605606--21605927 Score: 540
Period size: 161 Copynumber: 2.0 Consensus size: 161
21605596 TTGGGTCGTA
*
21605606 TGAGATCATTGAGAGGGTAGGTCCTGTAGCCTACAAACTAGCTTTACCTCTAG-AACTTGAGAAG
1 TGAGATCATTGAGAGGGTAGGTCCTATAGCCTACAAACTAGCTTTACCTC-AGAAACTTGAGAAG
*
21605670 ATTCATAATGTTTTTCATGTTTCGATGCTGAGGCGGTATAGATCAGATCCTTCTCATCTGATTTC
65 ATTCATAATGTTTTTCATGTTTCGATGCTGAGGCGGTATAGATCAGATCCTTATCATCTGATTTC
*
21605735 ACCTTGTGAAGTTGAGATACAA-CTGGATTTGT
130 ACCCTGTGAAGTTGAGATACAATC-GGATTTGT
* *
21605767 TGAGTTCATTGAGAGGGTAGGTCCTATAGCCTACAAACTAGCTTTACCTCCGAAACTTGAGAAGA
1 TGAGATCATTGAGAGGGTAGGTCCTATAGCCTACAAACTAGCTTTACCTCAGAAACTTGAGAAGA
* * *
21605832 TTCATAATTTTTTTCATGTTTCGATGCTGAGGCGGTATAGATTAGATCCTTATCATGTGATTTCA
66 TTCATAATGTTTTTCATGTTTCGATGCTGAGGCGGTATAGATCAGATCCTTATCATCTGATTTCA
21605897 CCCTGTGAAGTTGAGATACAATCGGATTTGT
131 CCCTGTGAAGTTGAGATACAATCGGATTTGT
21605928 CGTATTCAGA
Statistics
Matches: 151, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
160 1 0.01
161 149 0.99
162 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (161 bp):
TGAGATCATTGAGAGGGTAGGTCCTATAGCCTACAAACTAGCTTTACCTCAGAAACTTGAGAAGA
TTCATAATGTTTTTCATGTTTCGATGCTGAGGCGGTATAGATCAGATCCTTATCATCTGATTTCA
CCCTGTGAAGTTGAGATACAATCGGATTTGT
Found at i:21609239 original size:10 final size:10
Alignment explanation
Indices: 21609217--21609247 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
21609207 TTTATTTATT
21609217 TTCATGCAT-
1 TTCATGCATC
21609226 TTCATGCATC
1 TTCATGCATC
21609236 TTCATGCATC
1 TTCATGCATC
21609246 TT
1 TT
21609248 AGTCTTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.19, C:0.26, G:0.10, T:0.45
Consensus pattern (10 bp):
TTCATGCATC
Found at i:21609436 original size:20 final size:19
Alignment explanation
Indices: 21609413--21609451 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
21609403 ATACTTCTAT
*
21609413 AAAAATATTGATACTCATGG
1 AAAAATATCGATAC-CATGG
*
21609433 AAAAGTATCGATACCATGG
1 AAAAATATCGATACCATGG
21609452 GCTTTTAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.26
Consensus pattern (19 bp):
AAAAATATCGATACCATGG
Found at i:21611688 original size:20 final size:20
Alignment explanation
Indices: 21611663--21611705 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
21611653 ACGATTTTAA
*
21611663 AACCAAG-CTAAAATGATTTG
1 AACCAAGTC-AAAATCATTTG
21611683 AACCAAGTCAAAATCATTTG
1 AACCAAGTCAAAATCATTTG
21611703 AAC
1 AAC
21611706 ACTTCAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.23
Consensus pattern (20 bp):
AACCAAGTCAAAATCATTTG
Found at i:21624234 original size:38 final size:38
Alignment explanation
Indices: 21624149--21624315 Score: 200
Period size: 37 Copynumber: 4.4 Consensus size: 38
21624139 CACTACCATA
21624149 GTGTGTAGGGTGGACGGG-TCTACCATAGCCC-ATTGTG
1 GTGTGTAGGGTGGACGGGCT-TACCATAGCCCAATTGTG
* *
21624186 GTGTGCAGGGTGGATGGGCTTACC-TAAGCCCAATTGTG
1 GTGTGTAGGGTGGACGGGCTTACCAT-AGCCCAATTGTG
* *
21624224 GTGTGTAGGGTGGACGGGCCTACCATAGCTCAA-TGTG
1 GTGTGTAGGGTGGACGGGCTTACCATAGCCCAATTGTG
* * * *
21624261 GTGTGCAGGGTGGATGGGTTTA-CTTGAGCCCAATTGTG
1 GTGTGTAGGGTGGACGGGCTTACCAT-AGCCCAATTGTG
21624299 GTGTGTAGGGTGGACGG
1 GTGTGTAGGGTGGACGG
21624316 AGTGGTGTTT
Statistics
Matches: 110, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
36 3 0.03
37 53 0.48
38 53 0.48
39 1 0.01
ACGTcount: A:0.17, C:0.16, G:0.40, T:0.27
Consensus pattern (38 bp):
GTGTGTAGGGTGGACGGGCTTACCATAGCCCAATTGTG
Found at i:21624272 original size:75 final size:75
Alignment explanation
Indices: 21624149--21624315 Score: 280
Period size: 75 Copynumber: 2.2 Consensus size: 75
21624139 CACTACCATA
* *
21624149 GTGTGTAGGGTGGACGGGTCTACCATAGCCCATTGTGGTGTGCAGGGTGGATGGGCTTACCTAAG
1 GTGTGTAGGGTGGACGGGCCTACCATAGCCCAATGTGGTGTGCAGGGTGGATGGGCTTACCTAAG
21624214 CCCAATTGTG
66 CCCAATTGTG
* * * *
21624224 GTGTGTAGGGTGGACGGGCCTACCATAGCTCAATGTGGTGTGCAGGGTGGATGGGTTTACTTGAG
1 GTGTGTAGGGTGGACGGGCCTACCATAGCCCAATGTGGTGTGCAGGGTGGATGGGCTTACCTAAG
21624289 CCCAATTGTG
66 CCCAATTGTG
21624299 GTGTGTAGGGTGGACGG
1 GTGTGTAGGGTGGACGG
21624316 AGTGGTGTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 86 1.00
ACGTcount: A:0.17, C:0.16, G:0.40, T:0.27
Consensus pattern (75 bp):
GTGTGTAGGGTGGACGGGCCTACCATAGCCCAATGTGGTGTGCAGGGTGGATGGGCTTACCTAAG
CCCAATTGTG
Found at i:21646506 original size:23 final size:22
Alignment explanation
Indices: 21646480--21646528 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
21646470 ATTATAAAAT
*
21646480 ATTTCATTA-ATAATTTGGGTTTA
1 ATTT-ATTATATAAATTGGG-TTA
*
21646503 ATTTATTATTTAAATTGGGTTA
1 ATTTATTATATAAATTGGGTTA
21646525 ATTT
1 ATTT
21646529 TATTCTTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (22 bp):
ATTTATTATATAAATTGGGTTA
Found at i:21647797 original size:18 final size:18
Alignment explanation
Indices: 21647774--21647818 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
21647764 ATACATTTAG
21647774 TTTGCATACTTA-GGATCA
1 TTTGCATA-TTAGGGATCA
21647792 TTTGC--ATTAGGGATCA
1 TTTGCATATTAGGGATCA
21647808 TTTGCAT-TTAG
1 TTTGCATATTAG
21647819 TTTAATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 3 0.12
16 12 0.50
17 4 0.17
18 5 0.21
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (18 bp):
TTTGCATATTAGGGATCA
Found at i:21662457 original size:23 final size:24
Alignment explanation
Indices: 21662431--21662479 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
21662421 ACAATCAATC
* *
21662431 CATTTTCTATTA-ATTTACTCTGA
1 CATTTTATATTACATTTACACTGA
*
21662454 CATTTTATATTACATTTGCACTGA
1 CATTTTATATTACATTTACACTGA
21662478 CA
1 CA
21662480 ATATTTAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (24 bp):
CATTTTATATTACATTTACACTGA
Found at i:21671592 original size:3 final size:3
Alignment explanation
Indices: 21671584--21671638 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
21671574 TTTGGGGCAA
* * *
21671584 AAG AAG AAG AAAG AA- AAG AAG AAG AAA AAG AAG -AG AAGG CAG AAA
1 AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG AAG AAG AA-G AAG AAG
21671629 AAG AAG AAG A
1 AAG AAG AAG A
21671639 CGTTGCCCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 4 0.10
3 33 0.79
4 5 0.12
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:21671627 original size:18 final size:17
Alignment explanation
Indices: 21671584--21671635 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
21671574 TTTGGGGCAA
*
21671584 AAGAAGAAGAAAGAAAAG
1 AAGAAGAA-AAAGAAGAG
21671602 AAGAAGAAAAAGAAGAG
1 AAGAAGAAAAAGAAGAG
*
21671619 AAGGCAGAAAAAGAAGA
1 AA-GAAGAAAAAGAAGA
21671636 AGACGTTGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.32
18 21 0.68
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAAGAAGAG
Found at i:21672099 original size:17 final size:17
Alignment explanation
Indices: 21672034--21672106 Score: 60
Period size: 17 Copynumber: 4.3 Consensus size: 17
21672024 GCATTTCATC
*
21672034 TCATTGTCATTACATTT
1 TCATTGTCATTGCATTT
*
21672051 TTATTGTC-TCTGCATTT
1 TCATTGTCAT-TGCATTT
** *
21672068 T-ACTTGTTGTCGCATTT
1 TCA-TTGTCATTGCATTT
21672085 TCATTGTCATTGCATTT
1 TCATTGTCATTGCATTT
*
21672102 CCATT
1 TCATT
21672107 ATTTATATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
16 2 0.05
17 40 0.91
18 2 0.05
ACGTcount: A:0.16, C:0.19, G:0.11, T:0.53
Consensus pattern (17 bp):
TCATTGTCATTGCATTT
Found at i:21683988 original size:14 final size:14
Alignment explanation
Indices: 21683960--21684006 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
21683950 AATGTTGAAT
21683960 GAGAAAAAG-AAAA
1 GAGAAAAAGAAAAA
21683973 GA-AAAAGAGAAAAA
1 GAGAAAA-AGAAAAA
*
21683987 GAGAAAAGGAAAAA
1 GAGAAAAAGAAAAA
*
21684001 AAGAAA
1 GAGAAA
21684007 TATCGCTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 4 0.14
14 17 0.59
15 4 0.14
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:21683993 original size:16 final size:16
Alignment explanation
Indices: 21683961--21684004 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
21683951 ATGTTGAATG
*
21683961 AGAAAAAGAAAAGAAAA
1 AGAAAAA-AAGAGAAAA
*
21683978 AGAGAAAAAGAGAAAA
1 AGAAAAAAAGAGAAAA
*
21683994 GGAAAAAAAGA
1 AGAAAAAAAGA
21684005 AATATCGCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAGAGAAAA
Found at i:21691132 original size:13 final size:12
Alignment explanation
Indices: 21691113--21691142 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
21691103 AATATTTCTT
21691113 TTTTTTCTTTTC
1 TTTTTTCTTTTC
21691125 TCTTTTTCTTTTC
1 T-TTTTTCTTTTC
21691138 TTTTT
1 TTTTT
21691143 CTCATTCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:21711427 original size:33 final size:33
Alignment explanation
Indices: 21711378--21711459 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
21711368 TCAACATAAG
* * * *
21711378 TGATGGGAACATCTATCAGGGCAGCTTCATGAA
1 TGATTGGAACATCTATCAAGGCAACTTCATCAA
* *
21711411 TGATTGGAACAACTATCAAGGCAACTTCATCAT
1 TGATTGGAACATCTATCAAGGCAACTTCATCAA
21711444 TGATTGGAACATCTAT
1 TGATTGGAACATCTAT
21711460 TGGCACAGCT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (33 bp):
TGATTGGAACATCTATCAAGGCAACTTCATCAA
Found at i:21711472 original size:33 final size:34
Alignment explanation
Indices: 21711399--21711472 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 34
21711389 TCTATCAGGG
*
21711399 CAGCTTCATGAATGATTGGAACAACTATCAAGGCA
1 CAGCTTCATCAATGATTGGAACAACTAT-AAGGCA
* * *
21711434 -A-CTTCATCATTGATTGGAACATCTAT-TGGCA
1 CAGCTTCATCAATGATTGGAACAACTATAAGGCA
21711465 CAGCTTCA
1 CAGCTTCA
21711473 CCGTTCTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
31 4 0.12
32 1 0.03
33 27 0.82
34 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (34 bp):
CAGCTTCATCAATGATTGGAACAACTATAAGGCA
Found at i:21723995 original size:193 final size:195
Alignment explanation
Indices: 21723716--21724084 Score: 517
Period size: 193 Copynumber: 1.9 Consensus size: 195
21723706 TCTATCTGTA
* * * * * *
21723716 AATTGTCCCCTAACGATACTGCTCATAGGAGCTGTCGAGAATATGCATTTAAGCATAAATCTTAG
1 AATTGTCCCCTAACGATACTGCTCACACGAGCTATCGAGAATATGCACTTAAGCATAAATCTCAA
* *
21723781 CCATTGTAAGGCCTATAATCCATT-TAGGATTCTTATCTC-TTTTCTGACTCACGATGCTACTCA
66 CCATCGTAAGGCCTATAATCCATTATAGGATTCTTATCTCATTTCCTGACTCACGATGCTACTCA
* *
21723844 CACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACAGTATCTGTGCACAT
131 CACGAGCTATCGAGGACTCGCAACATATGCGGTACCTCAACCATCGATACAGTATCTGTGCACAT
* * *
21723909 AATTGTTCCCTAACGATGCTGCTCACACGAGCTATCGAGAATATGCACTTATGCATAAATCTCAA
1 AATTGTCCCCTAACGATACTGCTCACACGAGCTATCGAGAATATGCACTTAAGCATAAATCTCAA
* * * * * * *
21723974 CCATCGTAGGGCTTGTAATCCATTATTGGATTGTTTTCTCATTTCCTGACTCACGATGCTGCTCA
66 CCATCGTAAGGCCTATAATCCATTATAGGATTCTTATCTCATTTCCTGACTCACGATGCTACTCA
* * *
21724039 CACGAGCTATTGAGGTCTTGCAACATATGCGGTACCTCAACCATCG
131 CACGAGCTATCGAGGACTCGCAACATATGCGGTACCTCAACCATCG
21724085 CGTCAATTTC
Statistics
Matches: 151, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
193 76 0.50
194 12 0.08
195 63 0.42
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (195 bp):
AATTGTCCCCTAACGATACTGCTCACACGAGCTATCGAGAATATGCACTTAAGCATAAATCTCAA
CCATCGTAAGGCCTATAATCCATTATAGGATTCTTATCTCATTTCCTGACTCACGATGCTACTCA
CACGAGCTATCGAGGACTCGCAACATATGCGGTACCTCAACCATCGATACAGTATCTGTGCACAT
Found at i:21729195 original size:195 final size:193
Alignment explanation
Indices: 21728809--21729236 Score: 507
Period size: 195 Copynumber: 2.2 Consensus size: 193
21728799 CCAGTACCCG
* * * * * * *
21728809 ATGCTCCTCACACGAGCTGTTGAGGACTCGTAACGTATGCAATACCCCAGCCATCGGTACGGTGT
1 ATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCAATACCCCAGCCATCGATACAGTAT
*** *
21728874 CTATTTGTAAACTGTCCCCTAACGATACTGCTCACACGAGCTGTCAAGAATATGCATATTTAAGC
66 CTATGCATAAACTGTCCCCTAACGATACTGCTCACACGAGCTGTCAAGAATATGCA-ACTTAAGC
* * **
21728939 ATAAATCTTAGCCATCGTAGGGCCTATAATCCATTTAGGATTCATATCTCTTTTTCGACTCACA
130 ATAAATCTTAGCCATCGTAGGGCCTATAATCAATTTACGATTCATATCTCTTTCCCGACTCACA
** *
21729003 ATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACAGTAT
1 ATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCAATACCCCAGCCATCGATACAGTAT
* * * * ** *
21729068 CTGTGCATATAACTGTTCCCTAACGATGCTTCTCACACGAGCTGTTGAGAATATGC-ACTTATGC
66 CTATGCATA-AACTGTCCCCTAACGATACTGCTCACACGAGCTGTCAAGAATATGCAACTTAAGC
* * * * *
21729132 ATAAATCTTAGCCATCGTAGGGCCTGTAATCAATTCTTCGATTCTTTTCTCATTTCCCGACTCAG
130 ATAAATCTTAGCCATCGTAGGGCCTATAATCAATT-TACGATTCATATCTC-TTTCCCGACTCAC
*
21729197 G
193 A
** *
21729198 ATGCTGCTCACATAAGCTGTCCAGGACTCGCAACATATG
1 ATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATG
21729237 TGATACGTCA
Statistics
Matches: 197, Mismatches: 34, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
193 39 0.20
194 71 0.36
195 87 0.44
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (193 bp):
ATGCTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCAATACCCCAGCCATCGATACAGTAT
CTATGCATAAACTGTCCCCTAACGATACTGCTCACACGAGCTGTCAAGAATATGCAACTTAAGCA
TAAATCTTAGCCATCGTAGGGCCTATAATCAATTTACGATTCATATCTCTTTCCCGACTCACA
Found at i:21734697 original size:43 final size:43
Alignment explanation
Indices: 21734649--21734733 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
21734639 GACACATTGG
*
21734649 AATATATTTAAAATAGGAAAGAATAAGAAAATTTACCTAAAAC
1 AATATATTTAAAATAGGAAAGAATAAGAAAAGTTACCTAAAAC
* *
21734692 AATATATTTAAAATAGGAAAGAATCAGAAAAGTTACTTAAAA
1 AATATATTTAAAATAGGAAAGAATAAGAAAAGTTACCTAAAA
21734734 ATTCCTTCAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.58, C:0.06, G:0.11, T:0.26
Consensus pattern (43 bp):
AATATATTTAAAATAGGAAAGAATAAGAAAAGTTACCTAAAAC
Found at i:21737839 original size:6 final size:6
Alignment explanation
Indices: 21737818--21737922 Score: 103
Period size: 6 Copynumber: 18.0 Consensus size: 6
21737808 TTGATTTGGC
*
21737818 TTTAAA TTT--A TCTTAAA TTTAAA TTT-AC TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** ** *
21737864 TTTATG TTTAAA TTTAAA TTT-GT TTTAAA TTTAAA TTT-AC TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
21737910 TTTGAAA TTTAAA
1 TTT-AAA TTTAAA
21737923 AGTCCAATTA
Statistics
Matches: 80, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
4 2 0.03
5 13 0.16
6 57 0.71
7 8 0.10
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:21737849 original size:11 final size:12
Alignment explanation
Indices: 21737818--21737922 Score: 103
Period size: 11 Copynumber: 9.0 Consensus size: 12
21737808 TTGATTTGGC
21737818 TTTAAATTT--A
1 TTTAAATTTAAA
21737828 TCTTAAATTTAAA
1 T-TTAAATTTAAA
*
21737841 TTT-ACTTTAAA
1 TTTAAATTTAAA
21737852 TTTAAATTTAAA
1 TTTAAATTTAAA
**
21737864 TTTATGTTTAAA
1 TTTAAATTTAAA
**
21737876 TTTAAATTT-GT
1 TTTAAATTTAAA
21737887 TTTAAATTTAAA
1 TTTAAATTTAAA
*
21737899 TTT-ACTTTAAA
1 TTTAAATTTAAA
21737910 TTTGAAATTTAAA
1 TTT-AAATTTAAA
21737923 AGTCCAATTA
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
10 1 0.01
11 37 0.49
12 29 0.38
13 9 0.12
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:21737873 original size:18 final size:17
Alignment explanation
Indices: 21737818--21737920 Score: 107
Period size: 17 Copynumber: 5.6 Consensus size: 17
21737808 TTGATTTGGC
*
21737818 TTTAAATTTATCTTAAA
1 TTTAAATTTATTTTAAA
21737835 TTTAAATTTACTTTAAATTTAAA
1 TTTAAATTTA---T---TTTAAA
21737858 TTTAAATTTATGTTTAAA
1 TTTAAATTTAT-TTTAAA
*
21737876 TTTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
*
21737893 TTTAAATTTACTTTAAA
1 TTTAAATTTATTTTAAA
21737910 TTTGAAATTTA
1 TTT-AAATTTA
21737921 AAAGTCCAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 13
0.80 0.05 0.14
Matches are distributed among these distances:
17 34 0.46
18 23 0.31
20 2 0.03
23 15 0.20
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:21737918 original size:41 final size:41
Alignment explanation
Indices: 21737818--21737922 Score: 126
Period size: 41 Copynumber: 2.6 Consensus size: 41
21737808 TTGATTTGGC
21737818 TTTAAATTT--ATCTTAAATTTAAATTTACTTTAAATTTAAA
1 TTTAAATTTAAAT-TTAAATTTAAATTTACTTTAAATTTAAA
** **
21737858 TTTAAATTTATGTTTAAATTTAAATTTGTTTTAAATTTAAA
1 TTTAAATTTAAATTTAAATTTAAATTTACTTTAAATTTAAA
*
21737899 TTT-ACTTTAAATTTGAAATTTAAA
1 TTTAAATTTAAATTT-AAATTTAAA
21737923 AGTCCAATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
40 17 0.30
41 38 0.68
42 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (41 bp):
TTTAAATTTAAATTTAAATTTAAATTTACTTTAAATTTAAA
Found at i:21738564 original size:4 final size:3
Alignment explanation
Indices: 21738540--21738601 Score: 63
Period size: 3 Copynumber: 19.7 Consensus size: 3
21738530 ATTTACTTTT
* *
21738540 TAA TAAA TAA TAA TAA TAA TAAA TAAA TAA -AA TAA CAT TAA TTAA TAA
1 TAA T-AA TAA TAA TAA TAA T-AA T-AA TAA TAA TAA TAA TAA -TAA TAA
21738588 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
21738602 GAAAAAAGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 2 0.04
3 36 0.71
4 13 0.25
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:21739718 original size:29 final size:30
Alignment explanation
Indices: 21739686--21739937 Score: 119
Period size: 30 Copynumber: 8.6 Consensus size: 30
21739676 AACTGTCCTG
21739686 AAAT-CATTTTTGACCCCCAAACTTTCAAA
1 AAATCCATTTTTGACCCCCAAACTTTCAAA
* * * *
21739715 AAATTACATTTTT-ACACTCAAACTTCCAAA
1 AAA-TCCATTTTTGACCCCCAAACTTTCAAA
* * * * **
21739745 AATTCCAATTTTGACCTCGAAACTTTTGAA
1 AAATCCATTTTTGACCCCCAAACTTTCAAA
* **
21739775 AATTACCA-TTTT-ACCCTTAAACTTTCAAA
1 AAAT-CCATTTTTGACCCCCAAACTTTCAAA
* ***
21739804 AATTCCATTTTTGACCATGAAAC-TTCTAAA
1 AAATCCATTTTTGACCCCCAAACTTTC-AAA
* *
21739834 AATTACCA-TTTT-A-CCCCAAACTTCCAAA
1 AAAT-CCATTTTTGACCCCCAAACTTTCAAA
* * * ** *
21739862 AATTCCAATTTTAACCCTAAAACTTCTAAAA
1 AAATCCATTTTTGACCCCCAAACTT-TCAAA
* * *
21739893 AAAACCA-TTTT-ACCCCTAAACTTCCAAA
1 AAATCCATTTTTGACCCCCAAACTTTCAAA
* *
21739921 AATTCCATTTTTAACCC
1 AAATCCATTTTTGACCC
21739938 TGAAACTTCT
Statistics
Matches: 172, Mismatches: 36, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
27 3 0.02
28 27 0.16
29 51 0.30
30 70 0.41
31 21 0.12
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.33
Consensus pattern (30 bp):
AAATCCATTTTTGACCCCCAAACTTTCAAA
Found at i:21739788 original size:59 final size:58
Alignment explanation
Indices: 21739690--21740373 Score: 536
Period size: 59 Copynumber: 11.7 Consensus size: 58
21739680 GTCCTGAAAT
* * * *
21739690 CATTTTTGACCCCCAAACTTTCAAAAAATTA-CATTTTTACACTCAAACTTCCAAAAATTC
1 CATTTTTGA-CCCGAAAC-TTCTAAAAATTACCA-TTTTACCCCCAAACTTCCAAAAATTC
* * * ** *
21739750 CAATTTTGACCTCGAAACTTTTGAAAATTACCATTTTACCCTTAAACTTTCAAAAATTC
1 CATTTTTGACC-CGAAACTTCTAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTC
*
21739809 CATTTTTGACCATGAAACTTCTAAAAATTACCATTTTA-CCCCAAACTTCCAAAAATTC
1 CATTTTTGACC-CGAAACTTCTAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTC
* * * ** *
21739867 CAATTTTAACCCTAAAACTTCTAAAAAAAACCATTTTACCCCTAAACTTCCAAAAATTC
1 CATTTTTGACCC-GAAACTTCTAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTC
* * * *
21739926 CATTTTTAACCCTGAAACTTCTAAAAATTACCA--TTACCCCCGAACATCTAAAAATTC
1 CATTTTTGACCC-GAAACTTCTAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTC
* * * ** *
21739983 CATTTTTGACCCTAAAGCTTTTGAAAATTACCATTTTACCCCTGAA-TGTCCAAATATTC
1 CATTTTTGACCCGAAA-CTTCTAAAAATTACCATTTTACCCCCAAACT-TCCAAAAATTC
* * * *
21740042 CA-TTTTGACCCTGAAACTTTTGAAAATTACCATTTTACCCTCGAAC-TCCTAAAAATTC
1 CATTTTTGACCC-GAAACTTCTAAAAATTACCATTTTACCCCCAAACTTCC-AAAAATTC
** *
21740100 CATTTTTGACACTAAAACTTCTAAAAATTACCATTTTACCCTCAAA-TGTCCAAAAA--C
1 CATTTTTGAC-CCGAAACTTCTAAAAATTACCATTTTACCCCCAAACT-TCCAAAAATTC
* * * * ** *
21740157 TATTTTTAACCCTGAACCTTC-CAAAATTACCATTTTACCCCTGAA-TATCTAAAAATTC
1 CATTTTTGACCC-GAAACTTCTAAAAATTACCATTTTACCCCCAAACT-TCCAAAAATTC
* * * * * * *
21740215 TATTTTT-ATTCCCGATATTTCCAAAAATTATCATTTTACCCCCGAA-TGTCTAAAAATTC
1 CATTTTTGA--CCCGAAACTTCTAAAAATTACCATTTTACCCCCAAACT-TCCAAAAATTC
* * *** *
21740274 CATTTTTGATCCCGAACCTTCCAAAAATTACCATTTTACCCTTGAA-TATCTAAAAATTC
1 CATTTTTGA-CCCGAAACTTCTAAAAATTACCATTTTACCCCCAAACT-TCCAAAAATTC
* * * *
21740333 CATTTTTAACCCCG-ATCTCTCCAAAGATTACCATTTTACCC
1 CATTTTTGA-CCCGAAACT-TCTAAAAATTACCATTTTACCC
21740374 TCGAATGTCT
Statistics
Matches: 523, Mismatches: 78, Indels: 47
0.81 0.12 0.07
Matches are distributed among these distances:
56 32 0.06
57 64 0.12
58 109 0.21
59 298 0.57
60 20 0.04
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (58 bp):
CATTTTTGACCCGAAACTTCTAAAAATTACCATTTTACCCCCAAACTTCCAAAAATTC
Found at i:21739885 original size:117 final size:117
Alignment explanation
Indices: 21739690--21740314 Score: 589
Period size: 117 Copynumber: 5.4 Consensus size: 117
21739680 GTCCTGAAAT
** * *
21739690 CATTTTTGACCCCCAAACTTTCAAAAAATTA-CATTTTTACACTCAAACTTCCAAAAATTCCAAT
1 CATTTTTGACCCTGAAAC-TTCTAAAAATTACCA-TTTTAC-CCCAAACTTCCAAAAATTCCAAT
* * * * *
21739754 TTTGA-CCTCGAAACTTTTGAAAATTACCATTTTACCCTTAAACT-TTCAAAAATTC
63 TTTGACCCT-AAAACTTCTAAAAATTACCATTTTACCCCTAAA-TGTCCAAAAATTC
*
21739809 CATTTTTGACCATGAAACTTCTAAAAATTACCATTTTACCCCAAACTTCCAAAAATTCCAATTTT
1 CATTTTTGACCCTGAAACTTCTAAAAATTACCATTTTACCCCAAACTTCCAAAAATTCCAATTTT
* **
21739874 AACCCTAAAACTTCTAAAAAAAACCATTTTACCCCTAAACT-TCCAAAAATTC
66 GACCCTAAAACTTCTAAAAATTACCATTTTACCCCTAAA-TGTCCAAAAATTC
* * * * *
21739926 CATTTTTAACCCTGAAACTTCTAAAAATTACCA--TTACCCCCGAACATCTAAAAATTCCATTTT
1 CATTTTTGACCCTGAAACTTCTAAAAATTACCATTTTA-CCCCAAACTTCCAAAAATTCCAATTT
* * * * *
21739989 TGACCCTAAAGCTTTTGAAAATTACCATTTTACCCCTGAATGTCCAAATATTC
65 TGACCCTAAAACTTCTAAAAATTACCATTTTACCCCTAAATGTCCAAAAATTC
* * * *
21740042 CA-TTTTGACCCTGAAACTTTTGAAAATTACCATTTTACCCTCGAAC-TCCTAAAAATTCCATTT
1 CATTTTTGACCCTGAAACTTCTAAAAATTACCATTTTACCC-CAAACTTCC-AAAAATTCCAATT
*
21740105 TTGACACTAAAACTTCTAAAAATTACCATTTTA-CCCTCAAATGTCCAAAAA--C
64 TTGACCCTAAAACTTCTAAAAATTACCATTTTACCCCT-AAATGTCCAAAAATTC
* * * * * * *
21740157 TATTTTTAACCCTGAACCTTC-CAAAATTACCATTTTACCCCTGAA-TATCTAAAAATT-CTATT
1 CATTTTTGACCCTGAAACTTCTAAAAATTACCATTTTACCCC-AAACT-TCCAAAAATTCCAATT
* * * * * * ** *
21740219 TTTATTCCC-GATATTTCCAAAAATTATCATTTTACCCCCGAATGTCTAAAAATTC
64 TTGA--CCCTAAAACTTCTAAAAATTACCATTTTACCCCTAAATGTCCAAAAATTC
* *
21740274 CATTTTTGATCCC-GAACCTTCCAAAAATTACCATTTTACCC
1 CATTTTTGA-CCCTGAAACTTCTAAAAATTACCATTTTACCC
21740315 TTGAATATCT
Statistics
Matches: 428, Mismatches: 58, Indels: 41
0.81 0.11 0.08
Matches are distributed among these distances:
114 7 0.02
115 92 0.21
116 98 0.23
117 173 0.40
118 41 0.10
119 17 0.04
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (117 bp):
CATTTTTGACCCTGAAACTTCTAAAAATTACCATTTTACCCCAAACTTCCAAAAATTCCAATTTT
GACCCTAAAACTTCTAAAAATTACCATTTTACCCCTAAATGTCCAAAAATTC
Found at i:21740076 original size:174 final size:173
Alignment explanation
Indices: 21739704--21740344 Score: 545
Period size: 174 Copynumber: 3.7 Consensus size: 173
21739694 TTTGACCCCC
* * * *
21739704 AAACTTTCAAAAAATTA-CATTTTTA-CACTCAAACTTCCAAAAATTCCAATTTTGA-CCTCGAA
1 AAACTTT-TAAAAATTACCA-TTTTACCCCT-AAACTTCCAAAAATTCCATTTTTAACCCT-GAA
* * * * * * *
21739766 ACTTTTGAAAATTACCATTTTACCCTTAAAC-TTTCAAAAATTCCATTTTTGACCATGAAACTTC
62 ACTTCTAAAAATTACCA-TTTACCCTCAAACATCT-AAAAATTCCATTTTTAACCCT-AAACTTT
* *
21739830 TAAAAATTACCATTTTACCCC-AAACTTCCAAAAATTCCAATTTTAACCCTA
124 TAAAAATTACCATTTTACCCCTGAA-TTCCAAAAATTCC-ATTTTAACCCTG
* **
21739881 AAACTTCTAAAAAAAACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTGAAACTT
1 AAACTTTTAAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTGAAACTT
* * * *
21739946 CTAAAAATTACCA-TTACCCCCGAACATCTAAAAATTCCATTTTTGACCCTAAAGCTTTTGAAAA
66 CTAAAAATTACCATTTACCCTCAAACATCTAAAAATTCCATTTTTAACCCTAAA-CTTTTAAAAA
* *
21740010 TTACCATTTTACCCCTGAATGTCCAAATATTCCATTTTGACCCTG
130 TTACCATTTTACCCCTGAAT-TCCAAAAATTCCATTTTAACCCTG
* * * * *
21740055 AAACTTTTGAAAATTACCATTTTA-CCCTCGAAC-TCCTAAAAATTCCATTTTTGACACTAAAAC
1 AAACTTTTAAAAATTACCATTTTACCCCT-AAACTTCC-AAAAATTCCATTTTTAACCCTGAAAC
** * * * * **
21740118 TTCTAAAAATTACCATTTTACCCTCAAATGTCCAAAAA--CTATTTTTAACCCTGAACCTTCCAA
64 TTCTAAAAATTACCA-TTTACCCTCAAACATCTAAAAATTCCATTTTTAACCCTAAACTTTTAAA
* * *
21740181 AATTACCATTTTACCCCTGAATATCTAAAAATTCTATTTTTATTCCC-G
128 AATTACCATTTTACCCCTGAAT-TCCAAAAATTCCA-TTTTA-ACCCTG
* * * ** * * *
21740229 ATA-TTTCCAAAAATTATCATTTTACCCCCGAA-TGTCTAAAAATTCCATTTTTGATCCC-GAAC
1 AAACTTT-TAAAAATTACCATTTTACCCCTAAACT-TCCAAAAATTCCATTTTT-AACCCTGAAA
* ** *
21740291 CTTCCAAAAATTACCATTTTACCCTTGAATATCTAAAAATTCCATTTTTAACCC
63 CTTCTAAAAATTACCA-TTTACCCTCAAACATCTAAAAATTCCATTTTTAACCC
21740345 CGATCTCTCC
Statistics
Matches: 382, Mismatches: 62, Indels: 41
0.79 0.13 0.08
Matches are distributed among these distances:
173 50 0.13
174 213 0.56
175 25 0.07
176 80 0.21
177 14 0.04
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (173 bp):
AAACTTTTAAAAATTACCATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTGAAACTT
CTAAAAATTACCATTTACCCTCAAACATCTAAAAATTCCATTTTTAACCCTAAACTTTTAAAAAT
TACCATTTTACCCCTGAATTCCAAAAATTCCATTTTAACCCTG
Found at i:21740154 original size:233 final size:232
Alignment explanation
Indices: 21739742--21740390 Score: 721
Period size: 233 Copynumber: 2.8 Consensus size: 232
21739732 TCAAACTTCC
* * * *
21739742 AAAAATTCCAATTTTGACCTCGAAACTTTTGAAAATTACCATTTTACCCTTAAACT-TTCAAAAA
1 AAAAATTCCATTTTTGACC-CGAAACTTTTGAAAATTACCATTTTACCCCTGAA-TGTCCAAAAA
* *
21739806 TTCCATTTTTGACCATGAAACTTCTAAAAATTACCATTTTACCC-CAAACTTCC-AAAAATTCCA
64 TTCCATTTTTGACCCTGAAACTTCTAAAAATTACCATTTTACCCTCGAAC-TCCTAAAAATTCCA
* **
21739869 ATTTTAACCCTAAAACTTCTAAAAAAAACCATTTTACCC-CTAAACT-TCCAAAAATTCCATTTT
128 TTTTTAA-CCTAAAACTTCTAAAAATTACCATTTTACCCTC-AAA-TGTCCAAAAATTCCATTTT
21739932 TAACCCTGAAACTTCTAAAAATTACCA-TTACCCCCGAACATCT
190 TAACCCTGAAACTTC-AAAAATTACCATTTACCCCCGAACATCT
* *
21739975 AAAAATTCCATTTTTGACCCTAAAGCTTTTGAAAATTACCATTTTACCCCTGAATGTCCAAATAT
1 AAAAATTCCATTTTTGACCCGAAA-CTTTTGAAAATTACCATTTTACCCCTGAATGTCCAAAAAT
* *
21740040 TCCA-TTTTGACCCTGAAACTTTTGAAAATTACCATTTTACCCTCGAACTCCTAAAAATTCCATT
65 TCCATTTTTGACCCTGAAACTTCTAAAAATTACCATTTTACCCTCGAACTCCTAAAAATTCCATT
* *
21740104 TTTGACACTAAAACTTCTAAAAATTACCATTTTACCCTCAAATGTCCAAAAA--CTATTTTTAAC
130 TTTAAC-CTAAAACTTCTAAAAATTACCATTTTACCCTCAAATGTCCAAAAATTCCATTTTTAAC
* * * *
21740167 CCTGAACCTTCCAAAATTACCATTTTACCCCTGAATATCT
194 CCTGAAACTTCAAAAATTACCA-TTTACCCCCGAACATCT
* * ** * * *
21740207 AAAAATTCTATTTTT-ATTCCCGATA-TTTCCAAAAATTATCATTTTACCCCCGAATGTCTAAAA
1 AAAAATTCCATTTTTGA--CCCGAAACTTT-TGAAAATTACCATTTTACCCCTGAATGTCCAAAA
* * * *
21740270 ATTCCATTTTTGATCCC-GAACCTTCCAAAAATTACCATTTTACCCTTGAA-TATCTAAAAATTC
63 ATTCCATTTTTGA-CCCTGAAACTTCTAAAAATTACCATTTTACCCTCGAACT-CCTAAAAATTC
*** * * * * *
21740333 CATTTTTAACCCCGATCTCTCCAAAGATTACCATTTTACCCTCGAATGTCTAAAAATT
126 CATTTTTAACCTAAAACT-TCTAAAAATTACCATTTTACCCTCAAATGTCCAAAAATT
21740391 TTGTGTTTGA
Statistics
Matches: 355, Mismatches: 43, Indels: 34
0.82 0.10 0.08
Matches are distributed among these distances:
230 10 0.03
231 24 0.07
232 112 0.32
233 205 0.58
234 4 0.01
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (232 bp):
AAAAATTCCATTTTTGACCCGAAACTTTTGAAAATTACCATTTTACCCCTGAATGTCCAAAAATT
CCATTTTTGACCCTGAAACTTCTAAAAATTACCATTTTACCCTCGAACTCCTAAAAATTCCATTT
TTAACCTAAAACTTCTAAAAATTACCATTTTACCCTCAAATGTCCAAAAATTCCATTTTTAACCC
TGAAACTTCAAAAATTACCATTTACCCCCGAACATCT
Found at i:21740422 original size:59 final size:57
Alignment explanation
Indices: 21739708--21740456 Score: 404
Period size: 59 Copynumber: 12.8 Consensus size: 57
21739698 ACCCCCAAAC
* * * *
21739708 TTTCAAAAAATTA-CATTTTTACACTCAAACT-TCCAAAAATTCCAATTTTGACCTCGAAA
1 TTTCCAAAAATTACCA-TTTTACCCTCGAA-TGTCTAAAAATTCC-ATTTTGACCT-GAAA
** ** *
21739767 CTTT-TGAAAATTACCATTTTACCCTTAAACTTTC-AAAAATTCCATTTTTGACCATGAAA
1 -TTTCCAAAAATTACCATTTTACCCTCGAA-TGTCTAAAAATTCCA-TTTTGACC-TGAAA
* * * * * *
21739826 CTTCTAAAAATTACCATTTTACCC-CAAACT-TCCAAAAATTCCAATTTTAACCCTAAAA
1 TTTCCAAAAATTACCATTTTACCCTCGAA-TGTCTAAAAATTCC-ATTTTGA-CCTGAAA
* * ** * * *
21739884 CTTCTAAAAAAAACCATTTTACCC-CTAAACT-TCCAAAAATTCCATTTTTAACCCTGAAA
1 TTTCCAAAAATTACCATTTTACCCTC-GAA-TGTCTAAAAATTCCA-TTTTGA-CCTGAAA
* * * **
21739943 CTTCTAAAAATTACCA--TTACCCCCGAACATCTAAAAATTCCATTTTTGACCCT-AAA
1 TTTCCAAAAATTACCATTTTACCCTCGAATGTCTAAAAATTCCA-TTTTGA-CCTGAAA
** * *
21739999 GCTTT-TGAAAATTACCATTTTACCC-CTGAATGTCCAAATATTCCATTTTGACCCTGAAA
1 --TTTCCAAAAATTACCATTTTACCCTC-GAATGTCTAAAAATTCCATTTTGA-CCTGAAA
** * *
21740058 CTTT-TGAAAATTACCATTTTACCCTCGAACT-CCTAAAAATTCCATTTTTGACACTAAAA
1 -TTTCCAAAAATTACCATTTTACCCTCGAA-TGTCTAAAAATTCCA-TTTTGAC-CTGAAA
* * * * * * *
21740117 CTTCTAAAAATTACCATTTTACCCTCAAATGTCCAAAAA--CTATTTTTAACCCTGAAC
1 TTTCCAAAAATTACCATTTTACCCTCGAATGTCTAAAAATTCCA-TTTTGA-CCTGAAA
* * * * * *
21740174 CTTCC-AAAATTACCATTTTACCC-CTGAATATCTAAAAATTCTATTTTTATTCCCGATA
1 TTTCCAAAAATTACCATTTTACCCTC-GAATGTCTAAAAATTCCATTTTGA--CCTGAAA
* * * *
21740232 TTTCCAAAAATTATCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTGATCCCGAAC
1 TTTCCAAAAATTACCATTTTACCCTCGAATGTCTAAAAATTCCA-TTTTGA-CCTGAAA
* * * * * **
21740291 CTTCCAAAAATTACCATTTTACCCTTGAATATCTAAAAATTCCATTTTTAACCCCGATC
1 TTTCCAAAAATTACCATTTTACCCTCGAATGTCTAAAAATTCCA-TTTTGA-CCTGAAA
* * ***
21740350 TCTCCAAAGATTACCATTTTACCCTCGAATGTCTAAAAATTTTGTGTTTGACCTTGAAA
1 TTTCCAAAAATTACCATTTTACCCTCGAATGTCTAAAAATTCCAT-TTTGACC-TGAAA
* * * * *
21740409 TTTCCCAAAATTACCATTTTGCCCCCGAGTGTC-CAAAATTACCATTTT
1 TTTCCAAAAATTACCATTTTACCCTCGAATGTCTAAAAATT-CCATTTT
21740457 ACCCCCGAGT
Statistics
Matches: 571, Mismatches: 83, Indels: 72
0.79 0.11 0.10
Matches are distributed among these distances:
55 1 0.00
56 31 0.05
57 64 0.11
58 129 0.23
59 332 0.58
60 14 0.02
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (57 bp):
TTTCCAAAAATTACCATTTTACCCTCGAATGTCTAAAAATTCCATTTTGACCTGAAA
Found at i:21740446 original size:28 final size:28
Alignment explanation
Indices: 21740413--21740474 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
21740403 TTGAAATTTC
* *
21740413 CCAAAATTACCATTTTGCCCCCGAGTGT
1 CCAAAATTACCATTTTACCCCCGAGTAT
21740441 CCAAAATTACCATTTTACCCCCGAGTAT
1 CCAAAATTACCATTTTACCCCCGAGTAT
21740469 CCAAAA
1 CCAAAA
21740475 ATCTCATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.32, G:0.10, T:0.26
Consensus pattern (28 bp):
CCAAAATTACCATTTTACCCCCGAGTAT
Found at i:21740456 original size:118 final size:115
Alignment explanation
Indices: 21739773--21740433 Score: 425
Period size: 117 Copynumber: 5.7 Consensus size: 115
21739763 GAAACTTTTG
** * * **
21739773 AAAATTACCATTTTACCCTTAAACTTTC-AAAAATTCCATTTTTGACCATGAAACTTCTAAAAAT
1 AAAATTACCATTTTACCCTCGAA-TGTCTAAAAATT--ATTTTTGACC-TGAACCTTCCCAAAAT
* * * * * * *
21739837 TACCATTTTACCCC-AAACT-TCCAAAAATTCCAATTTTAA-CCCTAAAACTTCTA
62 TACCATTTTACCCCTGAA-TATCTAAAAATTCCATTTTTAACCCCGATATC-TCCA
** * * * * **
21739890 AAAAAAACCATTTTACCC-CTAAACT-TCCAAAAATTCCATTTTTAACCCTGAAACTTCTAAAAA
1 AAAATTACCATTTTACCCTC-GAA-TGTCTAAAAATT--ATTTTTGA-CCTGAACCTTCCCAAAA
* * * * * * ***
21739953 TTACCA--TTACCCCCGAACATCTAAAAATTCCATTTTTGA-CCCTAAAGCTTTTG
61 TTACCATTTTACCCCTGAATATCTAAAAATTCCATTTTTAACCCCGATATC-TCCA
* * * ***
21740006 AAAATTACCATTTTACCC-CTGAATGTCCAAATATTCCA-TTTTGACCCTGAAACTTTTGAAAAT
1 AAAATTACCATTTTACCCTC-GAATGTCTAAAAATT--ATTTTTGA-CCTGAACCTTCCCAAAAT
* * * * * * *
21740069 TACCATTTTA-CCCTCGAACT-CCTAAAAATTCCATTTTTGA-CACTAAAACTTCTA
62 TACCATTTTACCCCT-GAA-TATCTAAAAATTCCATTTTTAACCCCGATATC-TCCA
* * * *
21740123 AAAATTACCATTTTACCCTCAAATGTCCAAAAACTATTTTTAACCCTGAACCTT-CCAAAATTAC
1 AAAATTACCATTTTACCCTCGAATGTCTAAAAATTATTTTTGA-CCTGAACCTTCCCAAAATTAC
* ** *
21740187 CATTTTACCCCTGAATATCTAAAAATTCTATTTTTATTCCCGATATTTCCA
65 CATTTTACCCCTGAATATCTAAAAATTCCATTTTTAACCCCGATATCTCCA
* * * *
21740238 AAAATTATCATTTTACCCCCGAATGTCTAAAAATTCCATTTTTGATCCCGAACCTTCCAAAAATT
1 AAAATTACCATTTTACCCTCGAATGTCTAAAAATT--ATTTTTGA-CCTGAACCTTCCCAAAATT
* *
21740303 ACCATTTTACCCTTGAATATCTAAAAATTCCATTTTTAACCCCGATCTCTCCA
63 ACCATTTTACCCCTGAATATCTAAAAATTCCATTTTTAACCCCGATATCTCCA
* * **
21740356 AAGATTACCATTTTACCCTCGAATGTCTAAAAATTTTGTGTTTGACCTTGAAATTTCCCAAAATT
1 AAAATTACCATTTTACCCTCGAATGTCTAAAAATTAT-T-TTTGACC-TGAACCTTCCCAAAATT
*
21740421 ACCATTTTGCCCC
63 ACCATTTTACCCC
21740434 CGAGTGTCCA
Statistics
Matches: 455, Mismatches: 68, Indels: 41
0.81 0.12 0.07
Matches are distributed among these distances:
114 1 0.00
115 103 0.23
116 91 0.20
117 142 0.31
118 118 0.26
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (115 bp):
AAAATTACCATTTTACCCTCGAATGTCTAAAAATTATTTTTGACCTGAACCTTCCCAAAATTACC
ATTTTACCCCTGAATATCTAAAAATTCCATTTTTAACCCCGATATCTCCA
Found at i:21740476 original size:29 final size:29
Alignment explanation
Indices: 21740006--21740476 Score: 168
Period size: 29 Copynumber: 16.2 Consensus size: 29
21739996 AAAGCTTTTG
* *
21740006 AAAATTACCATTTTACCCCTGAATGTCCA
1 AAAATTACCATTTTACCCCCGAATATCCA
* * ***
21740035 AATATT-CCATTTTGA-CCCTGAA-ACTTTTG
1 AAAATTACCATTTT-ACCCCCGAATA--TCCA
* *
21740064 AAAATTACCATTTTACCCTCGAA-CTCCTA
1 AAAATTACCATTTTACCCCCGAATATCC-A
* *** *
21740093 AAAATT-CCATTTTTGACACTAAAACT-TCTA
1 AAAATTACCA-TTTT-ACCCCCGAA-TATCCA
* * *
21740123 AAAATTACCATTTTACCCTCAAATGTCCA
1 AAAATTACCATTTTACCCCCGAATATCCA
* * * *
21740152 AAAACTA--TTTTTAACCCTGAACCT-TCC-
1 AAAATTACCATTTTACCCCCGAA--TATCCA
* *
21740179 AAAATTACCATTTTACCCCTGAATATCTA
1 AAAATTACCATTTTACCCCCGAATATCCA
* ** *
21740208 AAAATT-CTATTTTTATTCCCGATATTTCCA
1 AAAATTACCA-TTTTACCCCCGA-ATATCCA
* * *
21740238 AAAATTATCATTTTACCCCCGAATGTCTA
1 AAAATTACCATTTTACCCCCGAATATCCA
*
21740267 AAAATT-CCATTTTTGA-TCCCGAACCT-TCCA
1 AAAATTACCA-TTTT-ACCCCCGAA--TATCCA
** *
21740297 AAAATTACCATTTTACCCTTGAATATCTA
1 AAAATTACCATTTTACCCCCGAATATCCA
* * *
21740326 AAAATT-CCATTTTTAACCCCGATCTCTCCA
1 AAAATTACCA-TTTTACCCCCGA-ATATCCA
* * * *
21740356 AAGATTACCATTTTACCCTCGAATGTCTA
1 AAAATTACCATTTTACCCCCGAATATCCA
*** ** * *
21740385 AAAATT-TTGTGTTTGA-CCTTGAAATTTCCC
1 AAAATTACCAT-TTT-ACCCCCG-AATATCCA
* * *
21740415 AAAATTACCATTTTGCCCCCGAGTGTCC-
1 AAAATTACCATTTTACCCCCGAATATCCA
*
21740443 AAAATTACCATTTTACCCCCGAGTATCCA
1 AAAATTACCATTTTACCCCCGAATATCCA
21740472 AAAAT
1 AAAAT
21740477 CTCATTTTCA
Statistics
Matches: 327, Mismatches: 78, Indels: 74
0.68 0.16 0.15
Matches are distributed among these distances:
27 16 0.05
28 59 0.18
29 133 0.41
30 105 0.32
31 14 0.04
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.35
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAATATCCA
Found at i:21740482 original size:28 final size:28
Alignment explanation
Indices: 21740413--21740484 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
21740403 TTGAAATTTC
* * *
21740413 CCAAAATTACCATTTTGCCCCCGAGTGT
1 CCAAAAATACCATTTTACCCCCGAGTAT
*
21740441 CCAAAATTACCATTTTACCCCCGAGTAT
1 CCAAAAATACCATTTTACCCCCGAGTAT
21740469 CCAAAAAT-CTCATTTT
1 CCAAAAATAC-CATTTT
21740485 CAACTCCGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (28 bp):
CCAAAAATACCATTTTACCCCCGAGTAT
Found at i:21744693 original size:15 final size:16
Alignment explanation
Indices: 21744673--21744705 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
21744663 AAATCCAATA
*
21744673 AAAAAGTAA-AAAAGG
1 AAAAAGAAAGAAAAGG
21744688 AAAAAGAAAGAAAAGG
1 AAAAAGAAAGAAAAGG
21744704 AA
1 AA
21744706 GAAAAAGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (16 bp):
AAAAAGAAAGAAAAGG
Found at i:21745566 original size:12 final size:12
Alignment explanation
Indices: 21745548--21745611 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
21745538 ATAAATAAAG
21745548 AAAGAAGAA-AA
1 AAAGAAGAAGAA
21745559 AGAAGAAGAAGAA
1 A-AAGAAGAAGAA
21745572 AAAGCAA-AAGAA
1 AAAG-AAGAAGAA
*
21745584 AATAGAGGAA-AA
1 AA-AGAAGAAGAA
21745596 ACAAGAAGAAAGAA
1 A-AAGAAG-AAGAA
21745610 AA
1 AA
21745612 TAGAGAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
11 1 0.02
12 26 0.60
13 13 0.30
14 3 0.07
ACGTcount: A:0.73, C:0.03, G:0.22, T:0.02
Consensus pattern (12 bp):
AAAGAAGAAGAA
Found at i:21745582 original size:15 final size:14
Alignment explanation
Indices: 21745544--21745583 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
21745534 TTCAATAAAT
21745544 AAAG-AAAGAAGAA
1 AAAGAAAAGAAGAA
21745557 AAAGAAGAAGAAGAA
1 AAAGAA-AAGAAGAA
21745572 AAAGCAAAAGAA
1 AAAG-AAAAGAA
21745584 AATAGAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.17
14 1 0.04
15 17 0.71
16 2 0.08
ACGTcount: A:0.75, C:0.03, G:0.23, T:0.00
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:21746688 original size:48 final size:49
Alignment explanation
Indices: 21746626--21747053 Score: 369
Period size: 48 Copynumber: 8.8 Consensus size: 49
21746616 AGCAGATATG
21746626 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACA-C
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACATC
* * * * *
21746674 AAGGGAAAGGTTTAAGTCGCAATGGCGAA-CCTAGTACCTCAGAA-ACATG
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCAC-GAAGACATC
* * * * *
21746723 AAGGGAGAGATCTAAGCCGTAACGGCGGATCTAGTACCACGAAGACA-C
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACATC
* * * * * *
21746771 AAGGGAAAGGTTTAAGTCGCAACGAC-AAACCTAGTACCTC-AGAGACATG
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCACGA-AGACATC
* * *
21746820 AAGGGAAAGATCTAAGCCGCAACGGTGGATCCAGTACCACGAAGACA-C
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACATC
* * * *
21746868 AAGGGAAAGGTTTAAGTCGCAACGGTGAA-CCTAGTACCTCACG-AGACATG
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTA-C-CACGAAGACATC
* * *
21746918 AAGGGAAAGATCTAAGCCGCAACAGCGGATCCAGTACCACGAAGACA-C
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACATC
* * * * * * *
21746966 AAGGGAAAGGTTTAAGTCGCAATGGTGAA-CCTTGTACCTC-AGAGACATG
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCACGA-AGACATC
* *
21747015 AAGGGAAAGATTT-AGCCACAACAGCGAATCCAGTACCAC
1 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCAC
21747054 AAGGAAATAA
Statistics
Matches: 295, Mismatches: 65, Indels: 40
0.74 0.16 0.10
Matches are distributed among these distances:
47 10 0.03
48 153 0.52
49 94 0.32
50 36 0.12
51 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.14
Consensus pattern (49 bp):
AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACATC
Found at i:21746759 original size:97 final size:97
Alignment explanation
Indices: 21746576--21747133 Score: 728
Period size: 97 Copynumber: 5.7 Consensus size: 97
21746566 CGAAGATTTG
* * * * * * *
21746576 AAGGGAAAGGTTAAAGCCGTAATGGCGAACC-CGATACCTTAGCAGATATGAAGGGAAAGATTTA
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAG-TACCTCAG-AGACATGAAGGGAAAGATCTA
*
21746640 AGCCGCAACGGCGAATCCAGTACCACGAAGACAC
64 AGCCGCAACGGCGGATCCAGTACCACGAAGACAC
* *
21746674 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAAACATGAAGGGAGAGATCTAAG
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAG
* *
21746739 CCGTAACGGCGGATCTAGTACCACGAAGACAC
66 CCGCAACGGCGGATCCAGTACCACGAAGACAC
* * *
21746771 AAGGGAAAGGTTTAAGTCGCAACGACAAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAG
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAG
*
21746836 CCGCAACGGTGGATCCAGTACCACGAAGACAC
66 CCGCAACGGCGGATCCAGTACCACGAAGACAC
* *
21746868 AAGGGAAAGGTTTAAGTCGCAACGGTGAACCTAGTACCTCACGAGACATGAAGGGAAAGATCTAA
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCA-GAGACATGAAGGGAAAGATCTAA
*
21746933 GCCGCAACAGCGGATCCAGTACCACGAAGACAC
65 GCCGCAACGGCGGATCCAGTACCACGAAGACAC
* * *
21746966 AAGGGAAAGGTTTAAGTCGCAATGGTGAACCTTGTACCTCAGAGACATGAAGGGAAAGAT-TTAG
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAG
* * * * *
21747030 CCACAACAGCGAATCCAGTACCAC-AAGGAAATAA
66 CCGCAACGGCGGATCCAGTACCACGAA-G--ACAC
* * * * * * *
21747064 AAGGG-AAGGTTTAAGTCACAATGGCAAACCTTGTACCTTAAAAACATGAAGGGAAAGATTTAAG
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAG
21747128 CCGCAA
66 CCGCAA
21747134 TGGTAAATCT
Statistics
Matches: 414, Mismatches: 40, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
95 2 0.00
96 26 0.06
97 242 0.58
98 143 0.35
99 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (97 bp):
AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAG
CCGCAACGGCGGATCCAGTACCACGAAGACAC
Found at i:21747126 original size:49 final size:49
Alignment explanation
Indices: 21746623--21747150 Score: 196
Period size: 48 Copynumber: 10.9 Consensus size: 49
21746613 CTTAGCAGAT
* * * * * *
21746623 ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AGTACCACGAAGAC
1 ATGAAGGGAAAGATTTAAGCCACAATGGC-AAACCTAGTACCTCAAAAAC
* * * * * *
21746672 A-CAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAAAC
1 ATGAAGGGAAAGATTTAAGCCACAATGGCAAACCTAGTACCTCAAAAAC
* * ** * ** * * * *
21746720 ATGAAGGGAGAGATCTAAGCCGTAACGGCGGATCTAGTACCACGAAGAC
1 ATGAAGGGAAAGATTTAAGCCACAATGGCAAACCTAGTACCTCAAAAAC
* * * * * * * *
21746769 A-CAAGGGAAAGGTTTAAGTCGCAACGACAAACCTAGTACCTCAGAGAC
1 ATGAAGGGAAAGATTTAAGCCACAATGGCAAACCTAGTACCTCAAAAAC
* * * ** * * * *
21746817 ATGAAGGGAAAGATCTAAGCCGCAACGGTGGATCC-AGTACCACGAAGAC
1 ATGAAGGGAAAGATTTAAGCCACAATGG-CAAACCTAGTACCTCAAAAAC
* * * * * ** * *
21746866 A-CAAGGGAAAGGTTTAAGTCGCAACGGTGAACCTAGTACCTCACGAGAC
1 ATGAAGGGAAAGATTTAAGCCACAATGGCAAACCTAGTACCTCA-AAAAC
* * ** * * * * *
21746915 ATGAAGGGAAAGATCTAAGCCGCAACAGCGGATCC-AGTACCACGAAGAC
1 ATGAAGGGAAAGATTTAAGCCACAATGGC-AAACCTAGTACCTCAAAAAC
* * * * ** * * *
21746964 A-CAAGGGAAAGGTTTAAGTCGCAATGGTGAACCTTGTACCTCAGAGAC
1 ATGAAGGGAAAGATTTAAGCCACAATGGCAAACCTAGTACCTCAAAAAC
** * * *
21747012 ATGAAGGGAAAGATTT-AGCCACAACAGCGAATCC-AGTACCACAAGGAA-
1 ATGAAGGGAAAGATTTAAGCCACAATGGC-AAACCTAGTACCTCAA-AAAC
* * * * *
21747060 ATAAAAGGG-AAGGTTTAAGTCACAATGGCAAACCTTGTACCTTAAAAAC
1 AT-GAAGGGAAAGATTTAAGCCACAATGGCAAACCTAGTACCTCAAAAAC
* * *
21747109 ATGAAGGGAAAGATTTAAGCCGCAATGGTAAATCTAGTACCT
1 ATGAAGGGAAAGATTTAAGCCACAATGGCAAACCTAGTACCT
21747151 TGAAGATTTG
Statistics
Matches: 353, Mismatches: 109, Indels: 34
0.71 0.22 0.07
Matches are distributed among these distances:
47 11 0.03
48 162 0.46
49 145 0.41
50 31 0.09
51 4 0.01
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (49 bp):
ATGAAGGGAAAGATTTAAGCCACAATGGCAAACCTAGTACCTCAAAAAC
Found at i:21747172 original size:195 final size:193
Alignment explanation
Indices: 21746576--21747133 Score: 744
Period size: 195 Copynumber: 2.9 Consensus size: 193
21746566 CGAAGATTTG
* * * * * *
21746576 AAGGGAAAGGTTAAAGCCGTAATGGCGAACC-CGATACCTTAGCAGATATGAAGGGAAAGATTTA
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAG-TACCTCAG-AGACATGAAGGGAAAGATTT-
21746640 AGCCGCAACGGCGAATCCAGTACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACC
63 AGCCGCAACGGCGAATCCAGTACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACC
* *
21746705 TAGTACCTCAGAAACATGAAGGGAGAGATCTAAGCCGTAACGGCGGATCTAGTACCACGAAGACA
128 TAGTACCTCAGAAACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCTAGTACCACGAAGACA
21746770 C
193 C
* * * *
21746771 AAGGGAAAGGTTTAAGTCGCAACGACAAACCTAGTACCTCAGAGACATGAAGGGAAAGATCTAAG
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGAT-TTAG
* * * *
21746836 CCGCAACGGTGGATCCAGTACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAACGGTGAACCTA
65 CCGCAACGGCGAATCCAGTACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTA
* * *
21746901 GTACCTCACGAGACATGAAGGGAAAGATCTAAGCCGCAACAGCGGATCCAGTACCACGAAGACAC
130 GTACCTCA-GAAACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCTAGTACCACGAAGACAC
* *
21746966 AAGGGAAAGGTTTAAGTCGCAATGGTGAACCTTGTACCTCAGAGACATGAAGGGAAAGATTTAGC
1 AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATTTAGC
* * * * * *
21747031 CACAACAGCGAATCCAGTACCAC-AAGGAAATAAAAGGG-AAGGTTTAAGTCACAATGGCAAACC
66 CGCAACGGCGAATCCAGTACCACGAA-G--ACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACC
* * * *
21747094 TTGTACCTTAAAAACATGAAGGGAAAGATTTAAGCCGCAA
128 TAGTACCTCAGAAACATGAAGGGAAAGATCTAAGCCGCAA
21747134 TGGTAAATCT
Statistics
Matches: 317, Mismatches: 40, Indels: 13
0.86 0.11 0.04
Matches are distributed among these distances:
193 2 0.01
194 139 0.44
195 168 0.53
196 8 0.03
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (193 bp):
AAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAGTACCTCAGAGACATGAAGGGAAAGATTTAGC
CGCAACGGCGAATCCAGTACCACGAAGACACAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTAG
TACCTCAGAAACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCTAGTACCACGAAGACAC
Found at i:21747477 original size:39 final size:39
Alignment explanation
Indices: 21747430--21747524 Score: 136
Period size: 39 Copynumber: 2.4 Consensus size: 39
21747420 TGAAGATTCT
*
21747430 GATCTTTTACCCTGAGCTTGGGGCAAATCACCATTAGCC
1 GATCTTTTACCCCGAGCTTGGGGCAAATCACCATTAGCC
* * *
21747469 GATCTTTTACCCCGAGTTTGGGGCAGATTACCATTAGCC
1 GATCTTTTACCCCGAGCTTGGGGCAAATCACCATTAGCC
* *
21747508 AATCTCTTACCCCGAGC
1 GATCTTTTACCCCGAGC
21747525 CTGAAGGCAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (39 bp):
GATCTTTTACCCCGAGCTTGGGGCAAATCACCATTAGCC
Found at i:21748143 original size:6 final size:6
Alignment explanation
Indices: 21748122--21748225 Score: 94
Period size: 6 Copynumber: 18.0 Consensus size: 6
21748112 TTGATTTGGC
*
21748122 TTTAAA TTT--A TCTTAAA TTTAAA TTT-AC TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** ** *
21748168 TTTATG TTTAAA TTT-AA TTT-TT TTTAAA TTTAAA TTT-AG TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
21748213 TTTGAAA TTTAAA
1 TTT-AAA TTTAAA
21748226 AGTCCAATTA
Statistics
Matches: 79, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
4 2 0.03
5 18 0.23
6 51 0.65
7 8 0.10
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:21748144 original size:17 final size:17
Alignment explanation
Indices: 21748122--21748223 Score: 98
Period size: 17 Copynumber: 5.6 Consensus size: 17
21748112 TTGATTTGGC
*
21748122 TTTAAATTTATCTTAAA
1 TTTAAATTTATTTTAAA
21748139 TTTAAATTTACTTTAAATTTAAA
1 TTTAAATTTA---T---TTTAAA
21748162 TTTAAATTTATGTTTAAA
1 TTTAAATTTAT-TTTAAA
*
21748180 TTT-AATTTTTTTTAAA
1 TTTAAATTTATTTTAAA
*
21748196 TTTAAATTTAGTTTAAA
1 TTTAAATTTATTTTAAA
21748213 TTTGAAATTTA
1 TTT-AAATTTA
21748224 AAAGTCCAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
16 9 0.12
17 30 0.42
18 16 0.22
20 2 0.03
23 15 0.21
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:21748148 original size:23 final size:24
Alignment explanation
Indices: 21748134--21748184 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
21748124 TAAATTTATC
21748134 TTAAATTTAAATTTA-CTTTAAAT
1 TTAAATTTAAATTTAGCTTTAAAT
21748157 TTAAATTTAAATTTATG-TTTAAAT
1 TTAAATTTAAATTTA-GCTTTAAAT
21748181 TTAA
1 TTAA
21748185 TTTTTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTAAATTTAAATTTAGCTTTAAAT
Found at i:21748153 original size:11 final size:11
Alignment explanation
Indices: 21748137--21748225 Score: 81
Period size: 11 Copynumber: 7.7 Consensus size: 11
21748127 ATTTATCTTA
21748137 AATTTAAATTT
1 AATTTAAATTT
*
21748148 ACTTTAAATTT
1 AATTTAAATTT
21748159 AAATTTAAATTT
1 -AATTTAAATTT
*
21748171 ATGTTTAAATTT
1 A-ATTTAAATTT
**
21748183 AATTT-TTTTT
1 AATTTAAATTT
21748193 AAATTTAAATTT
1 -AATTTAAATTT
*
21748205 AGTTTAAATTT
1 AATTTAAATTT
21748216 GAAATTTAAA
1 --AATTTAAA
21748226 AGTCCAATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
10 3 0.05
11 29 0.47
12 23 0.37
13 7 0.11
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:21748187 original size:40 final size:40
Alignment explanation
Indices: 21748122--21748205 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
21748112 TTGATTTGGC
21748122 TTTAAATTTATCTTAAATTTAAATTTACTTTAAATTTAAA
1 TTTAAATTTATCTTAAATTTAAATTTACTTTAAATTTAAA
* **
21748162 TTTAAATTTATGTTTAAATTT-AATTTTTTTTAAATTTAAA
1 TTTAAATTTAT-CTTAAATTTAAATTTACTTTAAATTTAAA
21748202 TTTA
1 TTTA
21748206 GTTTAAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 32 0.80
41 8 0.20
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.57
Consensus pattern (40 bp):
TTTAAATTTATCTTAAATTTAAATTTACTTTAAATTTAAA
Found at i:21748221 original size:40 final size:40
Alignment explanation
Indices: 21748122--21748224 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 40
21748112 TTGATTTGGC
21748122 TTTAAATTT--ATCTTAAATTTAAATTTACTTTAAATTTAAA
1 TTTAAATTTAAAT-TTAAATTT-AATTTACTTTAAATTTAAA
** **
21748162 TTTAAATTTATGTTTAAATTTAATTTTTTTTAAATTTAAA
1 TTTAAATTTAAATTTAAATTTAATTTACTTTAAATTTAAA
*
21748202 TTT-AGTTTAAATTTGAAATTTAA
1 TTTAAATTTAAATTT-AAATTTAA
21748225 AAGTCCAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
39 8 0.15
40 37 0.69
41 8 0.15
42 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (40 bp):
TTTAAATTTAAATTTAAATTTAATTTACTTTAAATTTAAA
Found at i:21748872 original size:22 final size:22
Alignment explanation
Indices: 21748841--21748882 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21748831 CATTTACTTT
21748841 TTAATAAATAATAACAATAACA
1 TTAATAAATAATAACAATAACA
* *
21748863 TTAATTAATAATAATAATAA
1 TTAATAAATAATAACAATAA
21748883 TAGGAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAATAAATAATAACAATAACA
Found at i:21750114 original size:59 final size:58
Alignment explanation
Indices: 21750014--21750536 Score: 344
Period size: 59 Copynumber: 8.8 Consensus size: 58
21750004 ATATTTTGAC
* ** *
21750014 CCCCAAAACTTTCCAAAAATTACAATTTTACCCTTAAACT-TCTAAAAATTCCATTTTTAA
1 CCCCAAAAC-TTCC-AAAATTACCATTTTACCCTCGAA-TATCCAAAAATTCCATTTTTAA
* *
21750074 CCCCAAAACTTCTAAAAGTTACCATTTTACCCTCGAACT-TCCAAAAATTCCATTTTTGA
1 CCCCAAAACTTCCAAAA-TTACCATTTTACCCTCGAA-TATCCAAAAATTCCATTTTTAA
* * * * * *
21750133 CCCCTAAATTTCTAAAATTACCATTTTACCCCCGAATGTCCAAAAATTCCATTTTTGA
1 CCCCAAAACTTCCAAAATTACCATTTTACCCTCGAATATCCAAAAATTCCATTTTTAA
* * ** *
21750191 CCCTAAAGCTTTTGAAAATTACCATTTTACCCTCGAATATCCAAAAATTCCA-TTTTCA
1 CCCCAAAAC-TTCCAAAATTACCATTTTACCCTCGAATATCCAAAAATTCCATTTTTAA
* * * * *
21750249 CCTCAAAACTTCCAAAAATTACCATTTTACCC-CTAAATGTCCAAAAACTCTATTTTTAA
1 CCCCAAAACTTCC-AAAATTACCATTTTACCCTC-GAATATCCAAAAATTCCATTTTTAA
** * ** * *
21750308 CCCTGAACCTTCCAAAATTACCATTTTACCCTTAAATATCTAAAAATTCAATTTTTTTTAA
1 CCCCAAAACTTCCAAAATTACCATTTTACCCTCGAATATCCAAAAATTCCA---TTTTTAA
* * * * * * * * * * *
21750369 TCTC-GATCTTTCCACAAAGT-CTCGTTTTACCCCCGAATGTCTAAAAATTCTATTTTTGA
1 CCCCAAAAC-TTCCA-AAATTAC-CATTTTACCCTCGAATATCCAAAAATTCCATTTTTAA
* * * * * * *
21750428 CCCCGAACCTTTCAAAAATTACCATTTTACCCTCAAATATCTAAAAATT-TAGTTTTTTTA
1 CCCCAAAAC-TTCCAAAATTACCATTTTACCCTCGAATATCCAAAAATTCCA--TTTTTAA
* * * *
21750488 CCTC-GATCTCTCCAAAAATTACCATTTTACCCTC-AGATATCTAAAAATT
1 CCCCAAAACT-TCC-AAAATTACCATTTTACCCTCGA-ATATCCAAAAATT
21750537 TTGTTTTTGA
Statistics
Matches: 378, Mismatches: 65, Indels: 40
0.78 0.13 0.08
Matches are distributed among these distances:
57 4 0.01
58 125 0.33
59 146 0.39
60 61 0.16
61 14 0.04
62 28 0.07
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (58 bp):
CCCCAAAACTTCCAAAATTACCATTTTACCCTCGAATATCCAAAAATTCCATTTTTAA
Found at i:21750182 original size:58 final size:58
Alignment explanation
Indices: 21750057--21750459 Score: 296
Period size: 58 Copynumber: 6.8 Consensus size: 58
21750047 TTAAACTTCT
* * * *
21750057 AAAAATTCCATTTTTAACCCCAAAACTTCTAAAAGTTACCATTTTACCCTCGAACT-TCC
1 AAAAATTCCATTTTTGACCCCTAAATTTCTAAAA-TTACCATTTTACCCCCGAA-TGTCC
21750116 AAAAATTCCATTTTTGACCCCTAAATTTCTAAAATTACCATTTTACCCCCGAATGTCC
1 AAAAATTCCATTTTTGACCCCTAAATTTCTAAAATTACCATTTTACCCCCGAATGTCC
* *
21750174 AAAAATTCCATTTTTGA-CCCTAAAGCTTT-TGAAAATTACCATTTTACCCTCGAATATCC
1 AAAAATTCCATTTTTGACCCCTAAA--TTTCT-AAAATTACCATTTTACCCCCGAATGTCC
* * * * * **
21750233 AAAAATTCCA-TTTTCACCTCAAAACTTCCAAAAATTACCATTTTACCCCTAAATGTCC
1 AAAAATTCCATTTTTGACCCCTAAA-TTTCTAAAATTACCATTTTACCCCCGAATGTCC
* * * ** * *** * *
21750291 AAAAACTCTATTTTT-AACCCTGAACCTTCCAAAATTACCATTTTACCCTTAAATATCT
1 AAAAATTCCATTTTTGACCCCT-AAATTTCTAAAATTACCATTTTACCCCCGAATGTCC
* * * * * ** * * * *
21750349 AAAAATTCAATTTTTTTTAATCTCGATCTTTCCACAAAGT-CTCGTTTTACCCCCGAATGTCT
1 AAAAATTCCA---TTTTTGACCCCTAAATTTCTA-AAATTAC-CATTTTACCCCCGAATGTCC
* * * *
21750411 AAAAATTCTATTTTTGACCCCGAACCTTTCAAAAATTACCATTTTACCC
1 AAAAATTCCATTTTTGACCCCTAA-ATTTCTAAAATTACCATTTTACCC
21750460 TCAAATATCT
Statistics
Matches: 280, Mismatches: 48, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
57 8 0.03
58 117 0.42
59 104 0.37
60 7 0.03
61 13 0.05
62 31 0.11
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.35
Consensus pattern (58 bp):
AAAAATTCCATTTTTGACCCCTAAATTTCTAAAATTACCATTTTACCCCCGAATGTCC
Found at i:21750473 original size:29 final size:29
Alignment explanation
Indices: 21750441--21750536 Score: 97
Period size: 29 Copynumber: 3.2 Consensus size: 29
21750431 CGAACCTTTC
*
21750441 AAAAATTACCATTTTACCCTCAAATATCT
1 AAAAATTACCATTTTACCCTCAGATATCT
*** *
21750470 AAAAATTTAGTTTTTTTA-CCTC-GATCTCT
1 AAAAA-TTA-CCATTTTACCCTCAGATATCT
21750499 CCAAAAATTACCATTTTACCCTCAGATATCT
1 --AAAAATTACCATTTTACCCTCAGATATCT
21750530 AAAAATT
1 AAAAATT
21750537 TTGTTTTTGA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
29 22 0.42
30 14 0.27
31 16 0.31
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCTCAGATATCT
Found at i:21751478 original size:25 final size:24
Alignment explanation
Indices: 21751431--21751483 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
21751421 CATTTTCTAA
* * *
21751431 TTTTAAAATAATTTTTGAAACTCG
1 TTTTAAAAAAATTTTCGAAACTCC
*
21751455 TTTTAAAAAAAGTTTTCGACACTCC
1 TTTTAAAAAAA-TTTTCGAAACTCC
21751480 TTTT
1 TTTT
21751484 CAATCACCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (24 bp):
TTTTAAAAAAATTTTCGAAACTCC
Found at i:21762372 original size:17 final size:18
Alignment explanation
Indices: 21762332--21762372 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
21762322 CTAAACTAAA
21762332 AAGAATGCAGTGACAATT
1 AAGAATGCAGTGACAATT
21762350 AA-AATGCAG-GCACAA-T
1 AAGAATGCAGTG-ACAATT
21762366 AAGAATG
1 AAGAATG
21762373 AATGAAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 15 0.71
18 2 0.10
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.17
Consensus pattern (18 bp):
AAGAATGCAGTGACAATT
Found at i:21764012 original size:14 final size:14
Alignment explanation
Indices: 21763993--21764019 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21763983 CCTGATCCAA
21763993 GATGGTTGCAGAAG
1 GATGGTTGCAGAAG
21764007 GATGGTTGCAGAA
1 GATGGTTGCAGAA
21764020 ATATTCCCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.41, T:0.22
Consensus pattern (14 bp):
GATGGTTGCAGAAG
Found at i:21778666 original size:19 final size:20
Alignment explanation
Indices: 21778642--21778681 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
21778632 TTTAAAATTA
21778642 ATTTTTTAAAAATATT-TTT
1 ATTTTTTAAAAATATTGTTT
* *
21778661 ATTTTTTTAAATTATTGTTT
1 ATTTTTTAAAAATATTGTTT
21778681 A
1 A
21778682 ATCGATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTTTTTAAAAATATTGTTT
Found at i:21778937 original size:33 final size:33
Alignment explanation
Indices: 21778900--21778975 Score: 116
Period size: 33 Copynumber: 2.3 Consensus size: 33
21778890 AAAGTGATAG
**
21778900 GAACATCTATCAGGGCAACTTCATGAATGATTA
1 GAACATCTATCAGGGCAACTTCACCAATGATTA
* *
21778933 GAACATCTATCAGGGCAACTTCACCATTGATTG
1 GAACATCTATCAGGGCAACTTCACCAATGATTA
21778966 GAACATCTAT
1 GAACATCTAT
21778976 TGGCATAACT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (33 bp):
GAACATCTATCAGGGCAACTTCACCAATGATTA
Found at i:21780208 original size:17 final size:17
Alignment explanation
Indices: 21780186--21780222 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
21780176 ATAAATTTTA
21780186 CCAATCAAATTTTACTT
1 CCAATCAAATTTTACTT
* *
21780203 CCAATCAATTTTTTCTT
1 CCAATCAAATTTTACTT
21780220 CCA
1 CCA
21780223 TTTCCCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (17 bp):
CCAATCAAATTTTACTT
Found at i:21781224 original size:36 final size:36
Alignment explanation
Indices: 21781177--21781247 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
21781167 TGTGAAAGTG
21781177 AATATGGGGGTATGTTATT-AATGCCATGTAACAGTA
1 AATATGGGGGTATGTT-TTCAATGCCATGTAACAGTA
* * *
21781213 AATATGTGGGTATGTTTTCCATGCCATGTGACAGT
1 AATATGGGGGTATGTTTTCAATGCCATGTAACAGT
21781248 TTTATATTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 2 0.06
36 29 0.94
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.35
Consensus pattern (36 bp):
AATATGGGGGTATGTTTTCAATGCCATGTAACAGTA
Found at i:21795835 original size:19 final size:19
Alignment explanation
Indices: 21795813--21795851 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
21795803 AAAAAAGCTG
21795813 AAAAAATTGAAAAAAAAGA
1 AAAAAATTGAAAAAAAAGA
*
21795832 AAAAAATTGGAAAAAAAGA
1 AAAAAATTGAAAAAAAAGA
21795851 A
1 A
21795852 GAAGAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (19 bp):
AAAAAATTGAAAAAAAAGA
Found at i:21795848 original size:30 final size:30
Alignment explanation
Indices: 21795785--21795847 Score: 85
Period size: 28 Copynumber: 2.1 Consensus size: 30
21795775 AAGTCGAGAG
*
21795785 AAAATTGAAAACAAAAAGAAAAAAGCTGAA
1 AAAATTGAAAACAAAAAGAAAAAAACTGAA
*
21795815 AAAATTG-AAA-AAAAAGAAAAAAATTGGAA
1 AAAATTGAAAACAAAAAGAAAAAAACT-GAA
21795844 AAAA
1 AAAA
21795848 AGAAGAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 13 0.43
29 10 0.33
30 7 0.23
ACGTcount: A:0.73, C:0.03, G:0.13, T:0.11
Consensus pattern (30 bp):
AAAATTGAAAACAAAAAGAAAAAAACTGAA
Found at i:21806578 original size:33 final size:33
Alignment explanation
Indices: 21806500--21806594 Score: 118
Period size: 33 Copynumber: 2.9 Consensus size: 33
21806490 AAAAGTTAAG
* * * *
21806500 GGAACATCTATCAGGGCAGCTTCATGAATGATT
1 GGAACATCTATCGGGGTAGCTTCATCATTGATT
* *
21806533 GGAACGTCTATCGGGGTAACTTCATCATTGATT
1 GGAACATCTATCGGGGTAGCTTCATCATTGATT
**
21806566 GGAACATCTATCGGTATAGCTTCATCATT
1 GGAACATCTATCGGGGTAGCTTCATCATT
21806595 CTGTTCGACT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (33 bp):
GGAACATCTATCGGGGTAGCTTCATCATTGATT
Found at i:21809498 original size:43 final size:43
Alignment explanation
Indices: 21809450--21809573 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
21809440 GACACATTGG
* * *
21809450 AATATAGTTAGAACAGGAAAGAATAAGAAAATTTACCTCAAAC
1 AATATATTTAAAAAAGGAAAGAATAAGAAAATTTACCTCAAAC
* * * *
21809493 AATATATTTAAAAAAGGAAAGAATCAGTAAATTTAACTGAAAC
1 AATATATTTAAAAAAGGAAAGAATAAGAAAATTTACCTCAAAC
* *
21809536 AATATATTTAAAATAGGAAAGAATCAA-AAAAATTACCT
1 AATATATTTAAAAAAGGAAAGAAT-AAGAAAATTTACCT
21809574 AAAAAATCCT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 67 0.99
44 1 0.01
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.24
Consensus pattern (43 bp):
AATATATTTAAAAAAGGAAAGAATAAGAAAATTTACCTCAAAC
Found at i:21811173 original size:43 final size:43
Alignment explanation
Indices: 21811125--21811211 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
21811115 GACACGTTGG
* *
21811125 AATATATTTAGAA-CACAAAAGAAT-AAGAAAATTTACCTAAAAC
1 AATATATTTA-AATCACAAAAAAATCAA-AAAAGTTACCTAAAAC
* *
21811168 AATATATTTAAATTAGAAAAAAATCAAAAAAGTTACCTAAAAC
1 AATATATTTAAATCACAAAAAAATCAAAAAAGTTACCTAAAAC
21811211 A
1 A
21811212 TCCTTTAGGC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 2 0.05
43 34 0.89
44 2 0.05
ACGTcount: A:0.60, C:0.10, G:0.06, T:0.24
Consensus pattern (43 bp):
AATATATTTAAATCACAAAAAAATCAAAAAAGTTACCTAAAAC
Found at i:21811567 original size:28 final size:29
Alignment explanation
Indices: 21811497--21811579 Score: 93
Period size: 28 Copynumber: 3.0 Consensus size: 29
21811487 AAACTATAAT
*
21811497 CTCG-AACCCTAAAACCA-AAACCC-AAA
1 CTCGTAACACTAAAACCATAAACCCTAAA
*
21811523 CTCGTAACACTAAAACCATGAACCCTAAA
1 CTCGTAACACTAAAACCATAAACCCTAAA
* * *
21811552 CTTGTAACA-TATAACCCTAAACCCTAAA
1 CTCGTAACACTAAAACCATAAACCCTAAA
21811580 GTATTAAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.08
27 12 0.25
28 21 0.44
29 11 0.23
ACGTcount: A:0.46, C:0.33, G:0.05, T:0.17
Consensus pattern (29 bp):
CTCGTAACACTAAAACCATAAACCCTAAA
Found at i:21811708 original size:21 final size:20
Alignment explanation
Indices: 21811662--21811717 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
21811652 TTTAACCTTG
*
21811662 AGGTTTGTGGTTCAAGGTTA
1 AGGTTTGAGGTTCAAGGTTA
* *
21811682 AGGGTTTGAGGTTCTAGGTTCT
1 A-GGTTTGAGGTTCAAGGTT-A
*
21811704 AGGTTTGGGGTTCA
1 AGGTTTGAGGTTCA
21811718 TAGTAAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.16, C:0.07, G:0.38, T:0.39
Consensus pattern (20 bp):
AGGTTTGAGGTTCAAGGTTA
Found at i:21821434 original size:16 final size:16
Alignment explanation
Indices: 21821413--21821445 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
21821403 CTCTTGAGGT
21821413 TTAAGAAATAAAAGAG
1 TTAAGAAATAAAAGAG
21821429 TTAAGAAATAAAAGAG
1 TTAAGAAATAAAAGAG
21821445 T
1 T
21821446 GCCACTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.18, T:0.21
Consensus pattern (16 bp):
TTAAGAAATAAAAGAG
Found at i:21833281 original size:6 final size:6
Alignment explanation
Indices: 21833270--21833319 Score: 50
Period size: 7 Copynumber: 8.0 Consensus size: 6
21833260 ATGTTGAATG
21833270 AGAAAA AG-AAA AGAAAAA TAGAAAA AGAAAAA AGAAAAA AGAAAA A-AAAA
1 AGAAAA AGAAAA AG-AAAA -AGAAAA AG-AAAA AG-AAAA AGAAAA AGAAAA
21833320 TTCTATAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
5 9 0.22
6 9 0.22
7 20 0.50
8 2 0.05
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (6 bp):
AGAAAA
Found at i:21833308 original size:13 final size:13
Alignment explanation
Indices: 21833272--21833316 Score: 65
Period size: 14 Copynumber: 3.4 Consensus size: 13
21833262 GTTGAATGAG
21833272 AAAAAG-AAAAGA
1 AAAAAGAAAAAGA
21833284 AAAATAGAAAAAGA
1 AAAA-AGAAAAAGA
21833298 AAAAAGAAAAAAGA
1 AAAAAG-AAAAAGA
21833312 AAAAA
1 AAAAA
21833317 AAATTCTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.13
13 4 0.13
14 22 0.73
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.02
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:21833317 original size:8 final size:7
Alignment explanation
Indices: 21833278--21833316 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
21833268 TGAGAAAAAG
21833278 AAAAGAA
1 AAAAGAA
21833285 AAATAG-A
1 AAA-AGAA
21833292 AAAAGAA
1 AAAAGAA
21833299 AAAAGAA
1 AAAAGAA
21833306 AAAAGAA
1 AAAAGAA
21833313 AAAA
1 AAAA
21833317 AAATTCTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 2 0.07
7 26 0.87
8 2 0.07
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.03
Consensus pattern (7 bp):
AAAAGAA
Found at i:21834852 original size:54 final size:53
Alignment explanation
Indices: 21834793--21834959 Score: 160
Period size: 53 Copynumber: 3.1 Consensus size: 53
21834783 TATTTTTTTG
*
21834793 CATTTAAATTCTCAAAACTTCAACAACAATTTGATTTACTTTCAGTTGCTCTGA
1 CATTTAAATTCTTAAAACTTCAACAACAATTTGATTTACTTTCA-TTGCTCTGA
* * *** * ** * **
21834847 CATTTAACTT-TTATAA-TTACATTGACAATTTTATCACACTTTTATTTTTCTG-
1 CATTTAAATTCTTAAAACTT-CAACAACAATTTGAT-TTACTTTCATTGCTCTGA
*
21834899 CATTTAAATTCTTAAAACTTCAACAACAGTTTGATTTACTTTCAATTGCTCTGA
1 CATTTAAATTCTTAAAACTTCAACAACAATTTGATTTACTTTC-ATTGCTCTGA
21834953 CATTTAA
1 CATTTAA
21834960 CTTTTATAAT
Statistics
Matches: 83, Mismatches: 24, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
52 16 0.19
53 43 0.52
54 24 0.29
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (53 bp):
CATTTAAATTCTTAAAACTTCAACAACAATTTGATTTACTTTCATTGCTCTGA
Found at i:21834875 original size:53 final size:52
Alignment explanation
Indices: 21834818--21834983 Score: 165
Period size: 53 Copynumber: 3.1 Consensus size: 52
21834808 AACTTCAACA
21834818 ACAATTTGATTTACTTTCAGTTGCTCTGACATTTAACTTTTATAATTACATTG
1 ACAATTTGATTTACTTTCA-TTGCTCTGACATTTAACTTTTATAATTACATTG
* ** * ** * * ***
21834871 ACAATTTTATCACACTTTTATTTTTCTG-CATTTAAATTCTTAAAACTT-CAACA
1 ACAATTTGAT-TTACTTTCATTGCTCTGACATTTAACTT-TTATAA-TTACATTG
*
21834924 ACAGTTTGATTTACTTTCAATTGCTCTGACATTTAACTTTTATAATTACATTG
1 ACAATTTGATTTACTTTC-ATTGCTCTGACATTTAACTTTTATAATTACATTG
21834977 ACAATTT
1 ACAATTT
21834984 TAACTATCTT
Statistics
Matches: 83, Mismatches: 24, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
52 16 0.19
53 50 0.60
54 17 0.20
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.46
Consensus pattern (52 bp):
ACAATTTGATTTACTTTCATTGCTCTGACATTTAACTTTTATAATTACATTG
Found at i:21834895 original size:106 final size:106
Alignment explanation
Indices: 21834773--21834985 Score: 390
Period size: 106 Copynumber: 2.0 Consensus size: 106
21834763 TTTGCACTTG
* *
21834773 ATCACACTTTTATTTTTTTGCATTTAAATTCTCAAAACTTCAACAACAATTTGATTTACTTTCAG
1 ATCACACTTTTATTTTTCTGCATTTAAATTCTCAAAACTTCAACAACAATTTGATTTACTTTCAA
21834838 TTGCTCTGACATTTAACTTTTATAATTACATTGACAATTTT
66 TTGCTCTGACATTTAACTTTTATAATTACATTGACAATTTT
* *
21834879 ATCACACTTTTATTTTTCTGCATTTAAATTCTTAAAACTTCAACAACAGTTTGATTTACTTTCAA
1 ATCACACTTTTATTTTTCTGCATTTAAATTCTCAAAACTTCAACAACAATTTGATTTACTTTCAA
21834944 TTGCTCTGACATTTAACTTTTATAATTACATTGACAATTTT
66 TTGCTCTGACATTTAACTTTTATAATTACATTGACAATTTT
21834985 A
1 A
21834986 ACTATCTTAG
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 103 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (106 bp):
ATCACACTTTTATTTTTCTGCATTTAAATTCTCAAAACTTCAACAACAATTTGATTTACTTTCAA
TTGCTCTGACATTTAACTTTTATAATTACATTGACAATTTT
Found at i:21837674 original size:43 final size:43
Alignment explanation
Indices: 21837625--21837735 Score: 177
Period size: 43 Copynumber: 2.6 Consensus size: 43
21837615 TAGAACAAAA
* *
21837625 AAAGAATAAGAAAATTTACCTAAAACAATATATTTAAAATAGG
1 AAAGAATCAGAAAATTTACCTAAAACAAAATATTTAAAATAGG
*
21837668 AAAGAATCAGTAAATTTACCTAAAACAAAATATTTAAAATAGG
1 AAAGAATCAGAAAATTTACCTAAAACAAAATATTTAAAATAGG
* *
21837711 AAAGACTCAGAAAAGTTACCTAAAA
1 AAAGAATCAGAAAATTTACCTAAAA
21837736 AATCCTTCCG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (43 bp):
AAAGAATCAGAAAATTTACCTAAAACAAAATATTTAAAATAGG
Found at i:21842047 original size:43 final size:43
Alignment explanation
Indices: 21842016--21842126 Score: 170
Period size: 43 Copynumber: 2.6 Consensus size: 43
21842006 TTAGAACACA
21842016 AAAGAATAAGAAAATTTACCTAAAACAATATATTTAAAATAGG
1 AAAGAATAAGAAAATTTACCTAAAACAATATATTTAAAATAGG
* *
21842059 AAAGAATCAA-TAAATTTACCTAAAACAGTATATTTAAAATAGG
1 AAAGAAT-AAGAAAATTTACCTAAAACAATATATTTAAAATAGG
* *
21842102 AAAGAATCAGAAAAGTTACCTAAAA
1 AAAGAATAAGAAAATTTACCTAAAA
21842127 AATCCTTCAG
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
42 1 0.02
43 58 0.95
44 2 0.03
ACGTcount: A:0.57, C:0.09, G:0.10, T:0.24
Consensus pattern (43 bp):
AAAGAATAAGAAAATTTACCTAAAACAATATATTTAAAATAGG
Found at i:21845010 original size:43 final size:42
Alignment explanation
Indices: 21844978--21845090 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 42
21844968 TTAGAACCGA
21844978 AAAGAATAATAAAATTTACCTAAAAAAATATATTTAAAATAGG
1 AAAGAATAA-AAAATTTACCTAAAAAAATATATTTAAAATAGG
* *
21845021 AAAGAATCAAGAAATTTACCTAAAACAATATATTTAAAATAGG
1 AAAGAAT-AAAAAATTTACCTAAAAAAATATATTTAAAATAGG
* *
21845064 AAAGAATCAGAAAAGTTACCTAAAAAA
1 AAAGAAT-AAAAAATTTACCTAAAAAA
21845091 TCCTTCAGGA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 61 0.97
44 2 0.03
ACGTcount: A:0.59, C:0.08, G:0.09, T:0.24
Consensus pattern (42 bp):
AAAGAATAAAAAATTTACCTAAAAAAATATATTTAAAATAGG
Found at i:21845464 original size:14 final size:13
Alignment explanation
Indices: 21845393--21845467 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
21845383 AATCCAAAAA
*
21845393 CCAAAACCTAAAC
1 CCAAACCCTAAAC
*
21845406 CCAAACCCCAAATC
1 CCAAACCCTAAA-C
*
21845420 CCAAACACATAACAC
1 CCAAAC-CCTAA-AC
* * *
21845435 CAAAACCATGAAC
1 CCAAACCCTAAAC
21845448 CCAAACCCTAAACC
1 CCAAACCCTAAA-C
21845462 CCAAAC
1 CCAAAC
21845468 TTGTAACCTA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
13 21 0.43
14 18 0.37
15 9 0.18
16 1 0.02
ACGTcount: A:0.49, C:0.43, G:0.01, T:0.07
Consensus pattern (13 bp):
CCAAACCCTAAAC
Found at i:21847995 original size:43 final size:43
Alignment explanation
Indices: 21847946--21848030 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
21847936 GACACATTGG
* *
21847946 AATATATTTAGAACACAAAAGAAT-AATAAAATTTACCTAAAAC
1 AATATATTTAAAACACAAAAGAATCAA-AAAAGTTACCTAAAAC
* * *
21847989 AATATATTTAAAATAGAAAAGAATCAAAAAAGTTAGCTAAAA
1 AATATATTTAAAACACAAAAGAATCAAAAAAGTTACCTAAAA
21848031 AAATCCTTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 34 0.94
44 2 0.06
ACGTcount: A:0.60, C:0.08, G:0.07, T:0.25
Consensus pattern (43 bp):
AATATATTTAAAACACAAAAGAATCAAAAAAGTTACCTAAAAC
Found at i:21853236 original size:17 final size:17
Alignment explanation
Indices: 21853193--21853225 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21853183 CAAATGTACT
21853193 GACAAATAAAATGCAAA
1 GACAAATAAAATGCAAA
*
21853210 GACAATTAAAATGCAA
1 GACAAATAAAATGCAA
21853226 TTACAACTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.12, G:0.12, T:0.15
Consensus pattern (17 bp):
GACAAATAAAATGCAAA
Found at i:21857907 original size:24 final size:24
Alignment explanation
Indices: 21857856--21857910 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
21857846 TCTATCAGTT
* *
21857856 AAACTCTTTTTATTTATTTCAATT
1 AAACTCTATTTATTTATTTCAATA
* * *
21857880 AAACTCTATTTATTTGTTTGAGTA
1 AAACTCTATTTATTTATTTCAATA
21857904 AAACTCT
1 AAACTCT
21857911 TATTAGTCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (24 bp):
AAACTCTATTTATTTATTTCAATA
Found at i:21862752 original size:792 final size:792
Alignment explanation
Indices: 21859234--21864272 Score: 6869
Period size: 794 Copynumber: 6.4 Consensus size: 792
21859224 GTATTGTTAA
* *
21859234 AATTGTGGCGCCAATTTGACAAGCGTCGTATACTGTCAAAATAATTATCCTTAATCTCAAAAGAA
1 AATTTTGGCGCCAATTTGACAAGCGTCGTACACTGTCAAAATAATTA-CCTTAATCTCAAAAGAA
* * * * *
21859299 ATTATTAAATAGCATAATAAAGAGAAGAACGGTCGATCCACAGGGACTTAGGAAATTCTGATGTA
65 ATAATTAAATAGCGTAGTAAAGAGAAGAAGGGTCGATCCACAGAGACTTAGGAAATTCTGATGTA
* * * *
21859364 GAAGGCTTTTAGTTCTTGATTTAGGTGAAATGGGATAAAAATTG-GGGTTTTTGATCGAAAGAGT
130 GAAGGCTTTTATTTCTTGATTTAGGCGAAATAGGATAAAAATTGAGGG-GTTTGATCGAAAGAGT
* ** *
21859428 TTAATTAAAGTAAAATGAAAAAATGGGAATTTAAATCTAAGAATTTAAAAAAAGTTAATTTAAGA
194 TTAATTAAAGTAAAATGAAAAAATGAGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGA
*
21859493 AGAAACTCAGTTTAAGTATCAGCCACAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAATA
259 AGAAACTCAGTTTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAATA
* *
21859558 AGATTTTCCTCCAGATAAATGCCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCT
324 AGATTTTACTCCAGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCT
* *
21859623 CTCCGGTAAACTGAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACTAACCACGA
389 CTCCGAT-AACCGAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACTAACCACGA
* * *
21859688 CTATCGTCGTTAGAATGAAACAGTTTAAAATTTGGAAAAACTCGACTC-AGA-TAATGTTGTCTC
453 CTATCGTCGTTAGAATAAAACAGTTTAAAATCTGGAAAAACCCGACTCGA-ACT-ATGTTGTCTC
* * *
21859751 AATGAGAATCGAATCCGATCTCAATTTCTCTTAGTGGACCGCCGCTAAGTGTGTTCACAGGAAGT
516 AATGAGAATCGAATCCGATCTAAATTTCCCTTAGCGGACCGCCGCTAAGTGTGTTCACAGGAAGT
* *
21859816 CGAATGTGCTACAAGCCGGTCCTTCCTCCCAACTATAAATCGAAACAACCATCAAACCAACGGGC
581 CGAATGTGCTACAAGCCGATCCTTCCTCCCAACTATAAATCGAAACAACCTTCAAACCAACGGGC
* * *
21859881 CCTTTTTGAACTTGAAAGTGTAAGGATTTTAAAAGGAAAGGCCGATTGTCAATCCAAGTTTCCAG
646 CCTTTTTGAACTTGAAAGTGTAAGGATTTTAAAAGGAAAGGCCGATTGCCAATCCAAGTTTGCAA
* * *
21859946 AAAATTAAGAAATATATCCGAAGATATAAGGTGCTTTTCAATTCTCACGATCGGAATTGAGTCGT
711 AAAATTGAGAAATATATCCGAAGATATAAGGTGCTTTTCAATTCTCACGATCGAAATTGAGTCAT
21860011 TGCTTTAGCCTTCGGCT
776 TGCTTTAGCCTTCGGCT
* * * * **
21860028 AATTTTGGTGCCAATTTGACAAGCGTTGTATATTGTCAAAATAATTATTTTTAATCTCAAAAGAA
1 AATTTTGGCGCCAATTTGACAAGCGTCGTACACTGTCAAAATAATTA-CCTTAATCTCAAAAGAA
*
21860093 ATAATTAAATAGCGTAATAAAGAGAAGAAGGGTCGATCCACAGAGACTTAGGAAATTCTGATGTA
65 ATAATTAAATAGCGTAGTAAAGAGAAGAAGGGTCGATCCACAGAGACTTAGGAAATTCTGATGTA
** *
21860158 GAAGG---------C--GA---A-ATG--A-A--ATAAAAATGTG-GGGTTTTGATCGAAAGAGT
130 GAAGGCTTTTATTTCTTGATTTAGGCGAAATAGGATAAAAAT-TGAGGGGTTTGATCGAAAGAGT
* * * *
21860202 TTAATTAAAGTAAAATGAAGAAATGAGAATTTAAATCTAAGAATTGAACGTAAGTAATTTTAAGA
194 TTAATTAAAGTAAAATGAAAAAATGAGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGA
*
21860267 AGAAACTCAGTTTAAGTATCAACCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAATA
259 AGAAACTCAGTTTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAATA
* * *
21860332 AGATTTTACTCCGGATAAATGTCGGTTACAGTCTACAAGACTCAACCCTTGTAACTTGTTCTTCT
324 AGATTTTACTCCAGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCT
* * * * * * *
21860397 ATTC-AGTAAACCGAAAATCCAAAATCAATTTTTGAATTTCAATTTTCTAGCTAAAGTAAGCACG
389 CTCCGA-T-AACCGAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACTAACCACG
* *
21860461 ACTATC-TCCATTAGAATAAAACAGTTTAAAATCTGGAAAAACTCGACTCGAACTATGTTGTCTC
452 ACTATCGT-CGTTAGAATAAAACAGTTTAAAATCTGGAAAAACCCGACTCGAACTATGTTGTCTC
* * * * *
21860525 AATGAGAATCGAATCCGATTTCAATTTTCCTTACCGGACCGCCGCTAAGTGTGTTTACAGGAAGT
516 AATGAGAATCGAATCCGATCTAAATTTCCCTTAGCGGACCGCCGCTAAGTGTGTTCACAGGAAGT
* * ** *
21860590 CGAATGTGGTACAAACCGATCCTTCCTCCCAACTATAAAAAGAAACAACCTTCAAACCAATGGGC
581 CGAATGTGCTACAAGCCGATCCTTCCTCCCAACTATAAATCGAAACAACCTTCAAACCAACGGGC
** * * *
21860655 CCTTTTTGAACTTTTAAGTGTAAAGATTTTAAAAGAAAAGGCCGATCGCCAATCCAAGTTTGCAA
646 CCTTTTTGAACTTGAAAGTGTAAGGATTTTAAAAGGAAAGGCCGATTGCCAATCCAAGTTTGCAA
* * * *
21860720 AAAATTGATAAATATATATCCGAAGATATAAGATGCATTTCAATTCTCACGATCGGAATTGAGTC
711 AAAATTGA-GAA-ATATATCCGAAGATATAAGGTGCTTTTCAATTCTCACGATCGAAATTGAGTC
*
21860785 ATTCCTTTAGCCTAT-GGCT
774 ATTGCTTTAGCCT-TCGGCT
* * * *
21860804 AATTTTGGCGCCAATTTGACAAGCGTCGTATACTGTCTAAACAATTATCCTTAAACTCAAAAGAA
1 AATTTTGGCGCCAATTTGACAAGCGTCGTACACTGTCAAAATAATTA-CCTTAATCTCAAAAGAA
*
21860869 ATAATTAAATAGCGTAGTAAAGAGAAGAAGGGTCGATCCATA-AGGACTTAGGAAATTCTGATGT
65 ATAATTAAATAGCGTAGTAAAGAGAAGAAGGGTCGATCCACAGA-GACTTAGGAAATTCTGATGT
** * *
21860933 AGAAGGCTTTTAGATCTTGATTTAGGCTAAATTGGATAAAAA-TGAGGGGTTTTGATCGAAAGAG
129 AGAAGGCTTTTATTTCTTGATTTAGGCGAAATAGGATAAAAATTGAGGGG-TTTGATCGAAAGAG
* * *
21860997 TTTAATTAAAGT-AAAT-AAAGAAATGAAAATTTAAATTTAAGAATTTAACGAAAATAAATTTAA
193 TTTAATTAAAGTAAAATGAAA-AAATGAGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAA
* * *
21861060 GAAGAAACTCAGTTTAAGTATTAGCCTCAAGCTTCGCTTTGACTCATTTTCAACCGATCATCGAA
257 GAAGAAACTCAGTTTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAA
* *
21861125 TAAGATTTTACTCCAGATAAATATCGGTTACAGTCTACAAGACCCAACCCATGTAACTTGTTTTT
322 TAAGATTTTACTCCAGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTT
* * * *
21861190 CTCTCTGATAACTGAAAATCCAAAATCAATTTTTGAATTTCAATTTTCTAGCTAGACTAACCACG
387 CTCTCCGATAACCGAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACTAACCACG
* ** * *
21861255 ACTATCGCCGTTAGAATAAAACAGTTTAAAATCTGGAAACTCCCGACTTGAACTACGTTGTCTCA
452 ACTATCGTCGTTAGAATAAAACAGTTTAAAATCTGGAAAAACCCGACTCGAACTATGTTGTCTCA
* * * *
21861320 ATGAGAATCGAATCTGATCTAAATTTCCCTTAGCGGACCACCACTAAGTGTGTTCATAGGAAGTC
517 ATGAGAATCGAATCCGATCTAAATTTCCCTTAGCGGACCGCCGCTAAGTGTGTTCACAGGAAGTC
* *
21861385 GAATGTGCTACAAGCCGATCCTTCCTCCCCACTATAAATCGAAACAACCTTCAAACCAATGGGCC
582 GAATGTGCTACAAGCCGATCCTTCCTCCCAACTATAAATCGAAACAACCTTCAAACCAACGGGCC
*
21861450 CTTTTTGAACTTGAAAGTGTAAGGATTTTAAAAGGAAAGGCCGATTGCCAATCCAAGTTTGCAGA
647 CTTTTTGAACTTGAAAGTGTAAGGATTTTAAAAGGAAAGGCCGATTGCCAATCCAAGTTTGCAAA
* * * * *
21861515 AAATTGATAAATATATCCAAAGATATAAGGTGATTTTCAACTCCTCACGATCGAAATCGAGTCAT
712 AAATTGAGAAATATATCCGAAGATATAAGGTGCTTTTCAA-TTCTCACGATCGAAATTGAGTCAT
* *
21861580 TGCTTTATCCTTCGACT
776 TGCTTTAGCCTTCGGCT
* * *
21861597 AA-TTTGGACGCCAATTTGATAAGCGTTGTACACTATCAAAATAATTACCCTTAATCTCAAAAGA
1 AATTTTGG-CGCCAATTTGACAAGCGTCGTACACTGTCAAAATAATTA-CCTTAATCTCAAAAGA
* *
21861661 AATAATTAAATAGCGTAGTAAAGAGAAGAAGGGTCGATCCACAGGGACTTAGAAAATTCTGATGT
64 AATAATTAAATAGCGTAGTAAAGAGAAGAAGGGTCGATCCACAGAGACTTAGGAAATTCTGATGT
* * * *
21861726 AGAAGGCTTTTATTTTTTGATTTAGGCGAAATGGGATAAAAATT-AGGGGTTTTGATCAAAAGGG
129 AGAAGGCTTTTATTTCTTGATTTAGGCGAAATAGGATAAAAATTGAGGGG-TTTGATCGAAAGAG
* * *
21861790 TTTAATTAAAGTAAAATGAAAAAATGAGAATTTAAATCTAAGAATTTAACAAAAGTACATTAAAG
193 TTTAATTAAAGTAAAATGAAAAAATGAGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAG
* * * * *** * *
21861855 AAGAGACTTAGTTTAAGTATCAGCCTTAGGCTTCGTTTTGA-TACATTTTTTACTGATTATCGAA
258 AAGAAACTCAGTTTAAGTATCAGCCTCAGGCTTCGCTTTGACT-CATTTCCAACCGATCATCGAA
* *
21861919 TAAGATTTTACTCCAGATAAATGCCGGTTATAGTCTACAAGACCCAACCCTTGTAACTTGTTTTT
322 TAAGATTTTACTCCAGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTT
* * *
21861984 CTCTCCGATAATCAAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACCAACCACG
387 CTCTCCGATAACCGAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACTAACCACG
* * *
21862049 ACCATCATCGTTAGAATAAAACAGTTTAAAATCTGGAAAATCCCGACTCGAACTATGTTGTCTCA
452 ACTATCGTCGTTAGAATAAAACAGTTTAAAATCTGGAAAAACCCGACTCGAACTATGTTGTCTCA
* * ** *
21862114 ATGAGAATCGAATCCGATCTAAATTTCCCTTAGTGGACCACCGCTAAGTGTGTTCGTAGGATGTC
517 ATGAGAATCGAATCCGATCTAAATTTCCCTTAGCGGACCGCCGCTAAGTGTGTTCACAGGAAGTC
* * * *
21862179 GAATGTTCTACAAGTCGGTCCTTCTTCCCAACTATAAATCGAAACAACCTTCAAACCAACGGGCC
582 GAATGTGCTACAAGCCGATCCTTCCTCCCAACTATAAATCGAAACAACCTTCAAACCAACGGGCC
* * *
21862244 CTTTTTGAACTTGAAAGTGTAAGCATTTTAAAA-AAAAGGCCGATTGCCAATCCAAGTTTACAAA
647 CTTTTTGAACTTGAAAGTGTAAGGATTTTAAAAGGAAAGGCCGATTGCCAATCCAAGTTTGCAAA
** * *
21862308 AAATTGAGAAATATATCCGAAGATATAATATGCTTTTCAATTCTCACAATCGAAATTGAGTCGTT
712 AAATTGAGAAATATATCCGAAGATATAAGGTGCTTTTCAATTCTCACGATCGAAATTGAGTCATT
*
21862373 ACTTTAGCCTTCGGCT
777 GCTTTAGCCTTCGGCT
* * * *
21862389 AATTTTTGCGCCAATTTGATAAGCGTCGTACAGTGTCAAAATAATTACCATTAATCTCAAAATAA
1 AATTTTGGCGCCAATTTGACAAGCGTCGTACACTGTCAAAATAATTACC-TTAATCTCAAAAGAA
* * * *
21862454 ATAATTAAATAGCGTAGTAAAGAGAAGAAGGGTCGATTCATAGAGACTTAGAAAATTCTGATATA
65 ATAATTAAATAGCGTAGTAAAGAGAAGAAGGGTCGATCCACAGAGACTTAGGAAATTCTGATGTA
* *
21862519 GAAGGCTTTTATTTCTTGATTTAGGCGAAATAGGATAAAAATTGAGGGGTTTGATCAAAAGAATT
130 GAAGGCTTTTATTTCTTGATTTAGGCGAAATAGGATAAAAATTGAGGGGTTTGATCGAAAGAGTT
* * * *
21862584 TAATTAAAATAAATTGAAAAAATGGGAATTTAAATCTAAAAATTTAACGAAAGTAAATTTAAGAA
195 TAATTAAAGTAAAATGAAAAAATGAGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAA
** * * * * * *
21862649 GAGTCTTAGTTTAAGTATCAACCTTAGGCTTCGATTTGACTCATTTCCAACTGATCACCGAATAA
260 GAAACTCAGTTTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAATAA
* * * * *
21862714 GATTTTACTCCGGATAAATATCGATTACAGTTTACAAGACCTAACCCTTGTAA---GTTTTTCTC
325 GATTTTACTCCAGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTC
* * * *
21862776 TCTGATAATCGAAAATTCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTATACTAACCACGACT
390 TCCGATAACCGAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACTAACCACGACT
* * * *
21862841 ATCGTCGTCAGAATAAAATAGTTTAAAATCT---------CAACTCGGACTATGTTGTCTCAATG
455 ATCGTCGTTAGAATAAAACAGTTTAAAATCTGGAAAAACCCGACTCGAACTATGTTGTCTCAATG
* * **
21862897 AGAATCGAATCTGATCTAAATTTTCCTTAGCGGGTCGCCGCTAAGTGTGTTCACA-GAATGTCGA
520 AGAATCGAATCCGATCTAAATTTCCCTTAGCGGACCGCCGCTAAGTGTGTTCACAGGAA-GTCGA
* * * *
21862961 ATGTGCTACAAGTCGATCCTTCTTCCCAACTATAAATCGAAACAACCTTCAAACCAAAGGGCTCT
584 ATGTGCTACAAGCCGATCCTTCCTCCCAACTATAAATCGAAACAACCTTCAAACCAACGGGCCCT
* * * *
21863026 TTTTGAAATTGAAAGTGTAAGGATTTTAAAA-GAAAGGCAGATTGCCAATCCAAATTTACAAAAA
649 TTTTGAACTTGAAAGTGTAAGGATTTTAAAAGGAAAGGCCGATTGCCAATCCAAGTTTGCAAAAA
* *
21863090 ATTGAGAAATATATCCGAAGATATAATGTGCTTTTCAATTCTCACAATCGAAATTGAGT-AGTTG
714 ATTGAGAAATATATCCGAAGATATAAGGTGCTTTTCAATTCTCACGATCGAAATTGAGTCA-TTG
21863154 CTTTAGCCTT-GGCT
778 CTTTAGCCTTCGGCT
* ** * *
21863168 AATTTTGGAGCCAATTTGACAAGCGTCGTACGTTGTCTAAACAATTATCCTTAATCTCAAAAGAA
1 AATTTTGGCGCCAATTTGACAAGCGTCGTACACTGTCAAAATAATTA-CCTTAATCTCAAAAGAA
* * * * * *
21863233 ATAATTAAATGGCATCGTAAAGAGAAGAAGAGTCGATCCATAGAGACTTAGGAAATTCTAATGTA
65 ATAATTAAATAGCGTAGTAAAGAGAAGAAGGGTCGATCCACAGAGACTTAGGAAATTCTGATGTA
* * * * *
21863298 GAAGTCTTTTAGTTT-TTCATTTAGGCTAAATTGGATAAAAA-TGAGAGGTTTTGATCGAAAGAG
130 GAAGGCTTTTA-TTTCTTGATTTAGGCGAAATAGGATAAAAATTGAG-GGGTTTGATCGAAAGAG
*
21863361 TTTAATTAAAGTAAAATGAAGAAATGAGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAG
193 TTTAATTAAAGTAAAATGAAAAAATGAGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAG
* *
21863426 AAGAAACTCAGTTTAAGTATCAGCCTCAAGCTTCGTTTTGACTCATTTCCAACCGATCATCGAAT
258 AAGAAACTCAGTTTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAAT
* * *
21863491 AAGATTTTACTCC-GAATAAATGTCGGTTACAGTCTAAAAGACCCAACCTTTGTAACTTATTTTT
323 AAGATTTTACTCCAG-ATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTT
* * *
21863555 CTCTCCGGTAAACCGAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGAGTAAACAC
387 CTCTCCGAT-AACCGAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACTAACCAC
* * * *
21863620 GACTATCGCCGTTAGAATAAAACAATTTAAAATCTGAAAAAACCCGACTCGAACTATGTTGTCTT
451 GACTATCGTCGTTAGAATAAAACAGTTTAAAATCTGGAAAAACCCGACTCGAACTATGTTGTCTC
* * * * * *
21863685 AATGAGAATCGAATCCGATCTCAA-TTCCCTTTAGCGGACCGCCGTTAATTTTGTTCACATGAAA
516 AATGAGAATCGAATCCGATCTAAATTTCCC-TTAGCGGACCGCCGCTAAGTGTGTTCACAGGAAG
* *
21863749 TCGAATGTGCTAAAAGCCGATCCTTCCTCCCCAA-TATAAATCAAAACAACCTTCAAACCAACGG
580 TCGAATGTGCTACAAGCCGATCCTTCCT-CCCAACTATAAATCGAAACAACCTTCAAACCAACGG
* *
21863813 GCCCTTTTTGAACTTAAAAGTGTAAGGATTTTAAAAGGAAAGGCCGATTTCCAATCCAAGTTTGC
644 GCCCTTTTTGAACTTGAAAGTGTAAGGATTTTAAAAGGAAAGGCCGATTGCCAATCCAAGTTTGC
* * * * * *
21863878 AGAAAATTGAGAAATATATCTGAAGATATAAGGTGCGTTTCAAATCCTCACGATCGGATTTGAGT
709 AAAAAATTGAGAAATATATCCGAAGATATAAGGTGCTTTTC-AATTCTCACGATCGAAATTGAGT
* *
21863943 CATTGCTTTATCCTTCGACT
773 CATTGCTTTAGCCTTCGGCT
*
21863963 AATTTTGGCGCCAATTTGATAAGCGTCGTACACTGTCAAAATAATTACCCTTAATCTCAAAAGAA
1 AATTTTGGCGCCAATTTGACAAGCGTCGTACACTGTCAAAATAATTA-CCTTAATCTCAAAAGAA
* *
21864028 ATAATTAAATAGTGTAGTAAAGAGAAGAAGGGTCGATCCACAGGGACTTAGGAAATTCTGATGTA
65 ATAATTAAATAGCGTAGTAAAGAGAAGAAGGGTCGATCCACAGAGACTTAGGAAATTCTGATGTA
* * *
21864093 GAAGGCTTTTATTTATTGATTTAGGCGAAATAGGATAAAAATTGAGGGGTTTGATCAAAAGAATT
130 GAAGGCTTTTATTTCTTGATTTAGGCGAAATAGGATAAAAATTGAGGGGTTTGATCGAAAGAGTT
* * * *
21864158 TAATTAAAATAAATTGAAAAAATGGGAATTTAAATCTAAAAATTTAACGAAAGTAAATTTAAGAA
195 TAATTAAAGTAAAATGAAAAAATGAGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAA
** * * * *
21864223 GAGTCTTAGTTTAAGTATCAACCTTAGGCTTCGATTTGACTCATTTCCAA
260 GAAACTCAGTTTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAA
21864273 ATCAATTTTT
Statistics
Matches: 3761, Mismatches: 410, Indels: 147
0.87 0.09 0.03
Matches are distributed among these distances:
773 1 0.00
774 494 0.13
775 10 0.00
776 188 0.05
777 2 0.00
778 5 0.00
779 329 0.09
780 271 0.07
782 12 0.00
783 83 0.02
785 2 0.00
787 2 0.00
789 96 0.03
790 1 0.00
791 6 0.00
792 543 0.14
793 357 0.09
794 878 0.23
795 443 0.12
796 38 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (792 bp):
AATTTTGGCGCCAATTTGACAAGCGTCGTACACTGTCAAAATAATTACCTTAATCTCAAAAGAAA
TAATTAAATAGCGTAGTAAAGAGAAGAAGGGTCGATCCACAGAGACTTAGGAAATTCTGATGTAG
AAGGCTTTTATTTCTTGATTTAGGCGAAATAGGATAAAAATTGAGGGGTTTGATCGAAAGAGTTT
AATTAAAGTAAAATGAAAAAATGAGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAG
AAACTCAGTTTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAATAAG
ATTTTACTCCAGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCT
CCGATAACCGAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACTAACCACGACTA
TCGTCGTTAGAATAAAACAGTTTAAAATCTGGAAAAACCCGACTCGAACTATGTTGTCTCAATGA
GAATCGAATCCGATCTAAATTTCCCTTAGCGGACCGCCGCTAAGTGTGTTCACAGGAAGTCGAAT
GTGCTACAAGCCGATCCTTCCTCCCAACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTT
TTGAACTTGAAAGTGTAAGGATTTTAAAAGGAAAGGCCGATTGCCAATCCAAGTTTGCAAAAAAT
TGAGAAATATATCCGAAGATATAAGGTGCTTTTCAATTCTCACGATCGAAATTGAGTCATTGCTT
TAGCCTTCGGCT
Found at i:21864910 original size:692 final size:693
Alignment explanation
Indices: 21863578--21864964 Score: 2161
Period size: 692 Copynumber: 2.0 Consensus size: 693
21863568 CGAAAATCCA
** *
21863578 AAATCAATTTTTGAATTTCAGTTTTCTGGCTAGAGTAAACACGACTATCGCCGTTAGAATAAAAC
1 AAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACCAAACACAACTATCGCCGTTAGAATAAAAC
* *
21863643 AATTTAAAATCTGAAAAAACCCGACTCGAACTATGTTGTCTTAATGAGAATCGAATCCGATCTCA
66 AATTTAAAATCTGAAAAAACCCGACTCGAACTATGTTGTCTCAATGAGAATCGAATCCGATCTAA
* * *
21863708 ATTCCCTTTAGCGGACCGCCGTTAATTTTGTTCACATGAAATCGAATGTGCTAAAAGCCGATCCT
131 ATTCCCTTTAGCGGACCGCCGCTAATTGTGTTCACAGGAAATCGAATGTGCTAAAAGCCGATCCT
21863773 TCCTCCCCAATATAAATCAAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTAAAAGTGTAA
196 TCCTCCCCAATATAAATCAAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTAAAAGTGTAA
* * * * *
21863838 GGATTTTAAAAGGAAAGGCCGATTTCCAATCCAAGTTTGCAGAAAATTGAGAAATATATCTGAAG
261 GGATTTTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTACAGAAAATTGAGAAATACATCCGAAG
* * * *
21863903 ATATAAGGTGCGTTTCAAATCCTCACGATCGGATTTGAGTCATTGCTTTATCCTTCGACTAATTT
326 ATATAAGATGCGTTTCAAATCCTCACGATCGAAATTGAGTCATTGCTTTAGCCTTCGACTAATTT
*
21863968 TGGCGCCAATTTGATAAGCGTCGTACACTGTCAAAATAATTACCCTTAATCTCAAAAGAAATAAT
391 TGGCGCCAATTTGATAAGCGTCGTACACTGTCAAAATAATTACCCTTAATCTCAAAAAAAATAAT
* **
21864033 TAAATAGTGTAGTAAAGAGAAGAAGGGTCGATCCACAGGGACTTAGGAAATTCTGATGTAGAAGG
456 TAAATAGCGTAGTAAAGAGAAGAAGGGTCGATCCACAGGGACTTACAAAATTCTGATGTAGAAGG
*
21864098 CTTTTATTTATTGATTTAGGCGAAATAGGATAAAAATTGAGGGGTTTGATCAAAAGAATTTAATT
521 CTTTTATTTATTGATTTACGCGAAATAGGATAAAAATTGAGGGGTTTGATCAAAAGAATTTAATT
*
21864163 AAAATAAATTGAAAAAATGGGAATTTAAATCTAAAAATTTAACGAAAGTAAATTTAAGAAGAGTC
586 AAAATAAAATGAAAAAATGGGAATTTAAATCTAAAAATTTAACGAAAGTAAATTTAAGAAGAGTC
** *
21864228 TTAGTTTAAGTATCAACCTTAGGCTTCGATTTGACTCATTTCC
651 CCAATTTAAGTATCAACCTTAGGCTTCGATTTGACTCATTTCC
* *
21864271 AAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACCAACCACAACTATCGTCGTTAGAATAAAAC
1 AAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACCAAACACAACTATCGCCGTTAGAATAAAAC
* * *
21864336 AGTTTAAAATCTGGAAAATCCCGACTCGAACTATGTTGTCTCAATGAGAATCGAATCCGATCTAA
66 AATTTAAAATCTGAAAAAACCCGACTCGAACTATGTTGTCTCAATGAGAATCGAATCCGATCTAA
** * * * ** * **
21864401 ATT-TTTCTTAGTGGATCGCCGCTAATTGTGTTCGCAGGATGTCGAATGTGCTAGAAGTTGATCC
131 ATTCCCT-TTAGCGGACCGCCGCTAATTGTGTTCACAGGAAATCGAATGTGCTAAAAGCCGATCC
* * *
21864465 TT-CTTCCCAACTATAAGTCAAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGT
195 TTCCTCCCCAA-TATAAATCAAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTAAAAGTGT
21864529 AAGGATTTTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTACAGAAAATTGAGAAATACATCCGA
259 AAGGATTTTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTACAGAAAATTGAGAAATACATCCGA
* * * *
21864594 AGATATAATATGCTTTTC-AATTCTCACGATCGAAATTGAGTCGTTGCTTTAGCCTTCGACTAAT
324 AGATATAAGATGCGTTTCAAATCCTCACGATCGAAATTGAGTCATTGCTTTAGCCTTCGACTAAT
* * *
21864658 TTTGGCGCCAATTTGATAAGTGTCGTATAGTGTCAAAATAATTACCCTTAATCTCAAAAAAAATA
389 TTTGGCGCCAATTTGATAAGCGTCGTACACTGTCAAAATAATTACCCTTAATCTCAAAAAAAATA
*
21864723 ATTAAATAGCGTAGTAAAGAGAAGAAGGGTCGATTCACAGGGACTTACAAAATTCTGATGTAGAA
454 ATTAAATAGCGTAGTAAAGAGAAGAAGGGTCGATCCACAGGGACTTACAAAATTCTGATGTAGAA
* ** * *
21864788 GGCTTTTATTTCTTGATTTACTTGAAATGGGATAAAAATTG-GGGGTTTTTATCAAAAGAATTTA
519 GGCTTTTATTTATTGATTTACGCGAAATAGGATAAAAATTGAGGGG-TTTGATCAAAAGAATTTA
* * * *
21864852 ATTAAAGTAAAATGAAAAAATGGGAATTTAGATCTAAGAATTTAACGGAAGTAAATTTAAGAAGA
583 ATTAAAATAAAATGAAAAAATGGGAATTTAAATCTAAAAATTTAACGAAAGTAAATTTAAGAAGA
*
21864917 GTCCCAATTTAAGTATCAGCCTTAGGCTTCGATTTGACTCATTTCC
648 GTCCCAATTTAAGTATCAACCTTAGGCTTCGATTTGACTCATTTCC
21864963 AA
1 AA
21864965 CCGATCACCG
Statistics
Matches: 629, Mismatches: 62, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
691 4 0.01
692 328 0.52
693 297 0.47
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (693 bp):
AAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACCAAACACAACTATCGCCGTTAGAATAAAAC
AATTTAAAATCTGAAAAAACCCGACTCGAACTATGTTGTCTCAATGAGAATCGAATCCGATCTAA
ATTCCCTTTAGCGGACCGCCGCTAATTGTGTTCACAGGAAATCGAATGTGCTAAAAGCCGATCCT
TCCTCCCCAATATAAATCAAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTAAAAGTGTAA
GGATTTTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTACAGAAAATTGAGAAATACATCCGAAG
ATATAAGATGCGTTTCAAATCCTCACGATCGAAATTGAGTCATTGCTTTAGCCTTCGACTAATTT
TGGCGCCAATTTGATAAGCGTCGTACACTGTCAAAATAATTACCCTTAATCTCAAAAAAAATAAT
TAAATAGCGTAGTAAAGAGAAGAAGGGTCGATCCACAGGGACTTACAAAATTCTGATGTAGAAGG
CTTTTATTTATTGATTTACGCGAAATAGGATAAAAATTGAGGGGTTTGATCAAAAGAATTTAATT
AAAATAAAATGAAAAAATGGGAATTTAAATCTAAAAATTTAACGAAAGTAAATTTAAGAAGAGTC
CCAATTTAAGTATCAACCTTAGGCTTCGATTTGACTCATTTCC
Found at i:21865870 original size:784 final size:784
Alignment explanation
Indices: 21864271--21866707 Score: 3473
Period size: 784 Copynumber: 3.1 Consensus size: 784
21864261 ACTCATTTCC
*
21864271 AAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACCAACCACAACTATCGTCGTTAGAATAAAAC
1 AAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACCAACCACGACTATCGTCGTTAGAATAAAAC
*
21864336 AGTTTAAAATCTGGAAAATCCCGACTCGAACTATGTTGTCTCAATGAGAATCGAATCCGATCTAA
66 AGTTTAAAATC-----AA--CCGACTCGAACTATGTTGTCTCAATGAGAATCGAATCCGATCCAA
* * * * *
21864401 ATTTTTCTTAGTGGATCGCCGCTAATTGTGTTCGCAGGATGTCGAATGTGCTAGAAGTTGATCCT
124 ATTTTCCTTAGTGGACCGCCGCTAATTGTGTTCACAGGATGTCGAATGTGCTACAAGTCGATCCT
* *
21864466 TCTTCCCAACTATAAGTCAAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGTAA
189 TCTTCCCAACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGTAA
* *
21864531 GGATTTTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTACAGAAAATTGAGAAATACATCCGAAG
254 GGATTTTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTACAGAAAATTAAGAAATATATCCGAAG
* *
21864596 ATATAATATGCTTTTCAATTCTCACGATCGAAATTGAGTCGTTGCTTTAGCCTTCGACTAATTTT
319 ATATAATGTGCTTTTCAATTCTCACGATCGAAATTGAGTCGTTGCTTTAACCTTCGACTAATTTT
* * *
21864661 GGCGCCAATTTGATAAGTGTCGTATAGTGTCAAAATAATTACCCTTAATCTCAAAAAAAATAATT
384 GGCGCCAATTTGATAAGTGTCGTATACTGTC-AAATAATTATCCTTAATCTCAAAAGAAATAATT
* * ** *
21864726 AAATAGCGTAGTAAAGAGAAGAAGGGTCGATTCACAGGGACTTACAAAATTCTGATGTAGAAGGC
448 AAATAGCGTAGTAAAAAGAAGAAGGGTCGATCCACAGGGACTTAGGAAATTCTGATGTAAAAGGC
* * * *
21864791 TTTTATTTCTTGATTTA--CTTGAAATGGGATAAAAATTGGGGGTTTTTATCAAAAGAATTTAAT
513 TTTTATTTCTTGATTTAGGC-T-AAATGGGATAAAAA-TGAGGGTTTTGATCGAAAGAGTTTAAT
* * *
21864854 TAAAGTAAAATGAAAAAATGGGAATTTAGATCTAAGAATTTAACGGAAGTAAATTTAAGAAGAGT
575 TAAAGTAAAATGAAAAAATGGGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAGAGA
* * * *
21864919 CCCAATTTAAGTATCAGCCTTAGGCTTCGATTTGACTCATTTCCAACCGATCACCGAATAAGATT
640 CTCAGTTTAAGTATCAGCCTCAGGCTTCGATTTGACTCATTTCCAACCGATCATCGAATAAGATT
*
21864984 TTACTCCGGATAAATATCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCTCCG
705 TTACTCCGGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCTCCG
21865049 ATAATCGAAAATCCA
770 ATAATCGAAAATCCA
* * * ** *
21865064 AAATTAATTTTTGAATTTCAGTTTACTGGCTAGACTAACCACGACTATTATCGTCAGAATAAAAC
1 AAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACCAACCACGACTATCGTCGTTAGAATAAAAC
*
21865129 AGTTTAAAATC-A-CGACTCGGACTATGTTGTCTCAATGAGAATCGAATCCGATCCAAATTTTCC
66 AGTTTAAAATCAACCGACTCGAACTATGTTGTCTCAATGAGAATCGAATCCGATCCAAATTTTCC
* * *
21865192 TTAGCAGG-CCGTCGCTAAGTGTGTTTC-CAGGATGTCGAATGTGCTACAAGTCGATCCTTCTTC
131 TTAG-TGGACCGCCGCTAATTGTG-TTCACAGGATGTCGAATGTGCTACAAGTCGATCCTTCTTC
* * *
21865255 CCAACTATAAATCGAAACAACCTTCAAATCAACGTGCCTTTTTTGAACTTGAAAGTGTAAGGATT
194 CCAACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGTAAGGATT
21865320 TTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTACAGAAAATTAAGAAATATATCCGAAGATATA
259 TTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTACAGAAAATTAAGAAATATATCCGAAGATATA
* * * *
21865385 ATGTGCTTTTCAATTCTCACGATCAAAATTGAGTAGTTGCTTTAACCTT-GGCTAATTTTGGCAC
324 ATGTGCTTTTCAATTCTCACGATCGAAATTGAGTCGTTGCTTTAACCTTCGACTAATTTTGGCGC
* * *
21865449 CAATTTGATAAGCGTCGTATACTGTCTAAACAATTATCCTTAATCTCAAAAGAAATAATTAAATG
389 CAATTTGATAAGTGTCGTATACTGTC-AAATAATTATCCTTAATCTCAAAAGAAATAATTAAATA
* * * *
21865514 GCATAATAAAAAGAAGAGGGGTCGATCCACAGGGACTTAGGAAATT-TCGATGTAAAAGTCTTTT
453 GCGTAGTAAAAAGAAGAAGGGTCGATCCACAGGGACTTAGGAAATTCT-GATGTAAAAGGCTTTT
* * *
21865578 AGTTCTTCATTTAGGCTAAATTGGATAAAAATGAGAGGTTTTGATCGAAAGAGTTTAATTAAAGT
517 ATTTCTTGATTTAGGCTAAATGGGATAAAAATGAG-GGTTTTGATCGAAAGAGTTTAATTAAAGT
* * * * *
21865643 AAAATCAAGAGATGAGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAGAAACTCAGT
581 AAAATGAAAAAATGGGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAGAGACTCAGT
* *
21865708 TTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCAAATAAGATTTTACTC
646 TTAAGTATCAGCCTCAGGCTTCGATTTGACTCATTTCCAACCGATCATCGAATAAGATTTTACTC
* * *
21865773 CGGATAAATGTCGGTTACAGTCTAAAAGACCCAA-CCTATGTAACTTATTTTTCTCTCCGGTAAA
711 CGGATAAATGTCGGTTACAGTCTACAAGACCCAACCCT-TGTAACTTGTTTTTCTCTCCGAT-AA
21865837 TCGAAAATCCA
774 TCGAAAATCCA
* ** *
21865848 AAATTAATTTTTGAATTTCAGTTTTCTGGCTAGAGTAACCACGACTATCGCCGTTAGAATAAAAC
1 AAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACCAACCACGACTATCGTCGTTAGAATAAAAC
*
21865913 AGTTTAAAATCTGGAAAAACCCGACTCGAACTATGTTGTCTCAATGAGAATTGAATCCGATCTC-
66 AGTTTAAAATC------AA-CCGACTCGAACTATGTTGTCTCAATGAGAATCGAATCCGATC-CA
** * * * *
21865977 AATTCCCCTTAGTGGACCACCGTTAATTTTGTTCACAGGAAGTCGAATGTGCTACAAGTCGATCC
123 AATTTTCCTTAGTGGACCGCCGCTAATTGTGTTCACAGGATGTCGAATGTGCTACAAGTCGATCC
* * *
21866042 TTCCTACCC-ACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTCTTTGAACTTAAAAGTGT
188 TT-CTTCCCAACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGT
* * * *
21866106 AAGGATTTTAAAAGGAAAGGCCGATTTCCAATCCAAGTTTGCAGAAAATTAAGAAATATATTCGA
252 AAGGATTTTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTACAGAAAATTAAGAAATATATCCGA
* * * * *
21866171 AGATATAAGGTGCTTTTCAAATCCTCACGATCGGATTTGAGTCGTTGCTTTATCCTTCGACTAAT
317 AGATATAATGTGCTTTTC-AATTCTCACGATCGAAATTGAGTCGTTGCTTTAACCTTCGACTAAT
* * *
21866236 TTTGACGCCAATTTGATAAGTGTCGTACACTATCATAATAATTATCCTTAATCTCAAAAGAAATA
381 TTTGGCGCCAATTTGATAAGTGTCGTATACTGTCA-AATAATTATCCTTAATCTCAAAAGAAATA
* * *
21866301 ATTAAATAGCGTAGT--AAAG-AGAAGGGTCAATCTATAGGGACTTAGGAAATTCTGATGTAAAA
445 ATTAAATAGCGTAGTAAAAAGAAGAAGGGTCGATCCACAGGGACTTAGGAAATTCTGATGTAAAA
* *
21866363 GGCTTTTATTTCTTGATTTAGGCGAAATGGGATAAAATTTGAGGGTTTTGATCGAAAGAGTTTAA
510 GGCTTTTATTTCTTGATTTAGGCTAAATGGGATAAAA-ATGAGGGTTTTGATCGAAAGAGTTTAA
* * *
21866428 TTAAAGTAAAATGAAAAAATGGGAATTTAAATCTAAAAATTTAACGAAAATAAATTAAAGAAGAG
574 TTAAAGTAAAATGAAAAAATGGGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAGAG
*
21866493 ACTCAGTTTAAGTATCAGCCTCAGGCTTC-ATTTGACACATTTCCAACCGATCATCGAATAAGAT
639 ACTCAGTTTAAGTATCAGCCTCAGGCTTCGATTTGACTCATTTCCAACCGATCATCGAATAAGAT
* * * *
21866557 TTTACTCCAGATAAATGCCGCTTACAATCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCTCC
704 TTTACTCCGGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCTCC
* *
21866622 AATAATCGAAAATACA
769 GATAATCGAAAATCCA
* * *
21866638 AAATCAATTTTTGAATGTCATTTTTCTGGCTAGACCAACCACGACTATCGTCATTAGAATAAAAC
1 AAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACCAACCACGACTATCGTCGTTAGAATAAAAC
21866703 AGTTT
66 AGTTT
21866708 TTCCTTAAGC
Statistics
Matches: 1466, Mismatches: 151, Indels: 57
0.88 0.09 0.03
Matches are distributed among these distances:
782 7 0.00
783 343 0.23
784 350 0.24
785 6 0.00
787 1 0.00
790 75 0.05
791 89 0.06
792 185 0.13
793 296 0.20
794 39 0.03
795 75 0.05
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (784 bp):
AAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACCAACCACGACTATCGTCGTTAGAATAAAAC
AGTTTAAAATCAACCGACTCGAACTATGTTGTCTCAATGAGAATCGAATCCGATCCAAATTTTCC
TTAGTGGACCGCCGCTAATTGTGTTCACAGGATGTCGAATGTGCTACAAGTCGATCCTTCTTCCC
AACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGTAAGGATTTT
AAAAAGAAAGGCCGATTGCCAATCCAAGTTTACAGAAAATTAAGAAATATATCCGAAGATATAAT
GTGCTTTTCAATTCTCACGATCGAAATTGAGTCGTTGCTTTAACCTTCGACTAATTTTGGCGCCA
ATTTGATAAGTGTCGTATACTGTCAAATAATTATCCTTAATCTCAAAAGAAATAATTAAATAGCG
TAGTAAAAAGAAGAAGGGTCGATCCACAGGGACTTAGGAAATTCTGATGTAAAAGGCTTTTATTT
CTTGATTTAGGCTAAATGGGATAAAAATGAGGGTTTTGATCGAAAGAGTTTAATTAAAGTAAAAT
GAAAAAATGGGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAGAGACTCAGTTTAAG
TATCAGCCTCAGGCTTCGATTTGACTCATTTCCAACCGATCATCGAATAAGATTTTACTCCGGAT
AAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCTCCGATAATCGAAAA
TCCA
Found at i:21869322 original size:792 final size:794
Alignment explanation
Indices: 21866710--21872899 Score: 9089
Period size: 792 Copynumber: 7.8 Consensus size: 794
21866700 AACAGTTTTT
*
21866710 CCTTAAGCGGACCGCCGCTAAGTGTGTTCACAGGAAGTCGAATGTGCTACAAGCCGATCCTTCCT
1 CCTT-AGCGGACCGCCGCTAAGTGTGTTCACAGGATGTCGAATGTGCTACAAGCCGATCCTTCCT
* * *
21866775 CCCAACTATAAATCGAAACGACCTTCAAACCAATGAGCCCTTTTTGAACTTGAAAGTGTAAGGAT
65 CCCAACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGTAAGGAT
* ** * *
21866840 TTTAAAAGGAAAGATCGATTTCCAATCCAAGTTTGCAGAAAATTGAGAAATATATCCGAAGATAT
130 TTTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTGCAAAAAATTGAGAAATATATCCGAAGATAT
** * * * **
21866905 AAGGTGCTTTTCAATTCCTCACGATCAAAATTAAGTCGTTGTTTTAGCCTTTGGTTAATTTTGGC
195 AAGGTGCTTTTCAATT-CTCACGATCGGAATTGAGTCGTTGCTTTAGCCTTCGACTAATTTTGGC
** * *
21866970 ATCAGTTTGACAAGCGTCGTATACTGTCTAAATAATTATCCTTAATGTCAAAAGAAATAATTAAA
259 GCCAATTTGACAAGCGTCGTATACTGTCTAAATAATTATCCTTAATCTCAAAAGAAATAATTAAA
* * * * * *
21867035 TAGCTTAGTAAAGAGAAGAAGGGTCAATTCACAAGGACTTAGGAAATTCTAATGTAAAAGGCTTT
324 TAGCGTAGTAAAGAGAAGAAGGGTCGATCCACATGGACTTAGAAAATTCTAATGTAGAAGGCTTT
* * * *
21867100 TAGTTCTTGATTTAGGCGAAATTGGATAAAAATGGGGGGGTTTGATCGAAAGAGTTTAATTTAAG
389 TAGTTCTTGATTTAGGCGAAATGGGATAAAAATGTGGGGTTTTGATCGAAAGAGTTTAATTAAAG
* *
21867165 TAAAATGAAGAAATGGAAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAACAAGAAACTCAG
454 TAAAATGAAGAAATGGGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAGAAACTCAG
* *
21867230 TTTAAGTATCAGTCTCAAGCTTCGCTTTGACTCATTTCCAACCGATCATCGAATAAGATTTTACT
519 TTTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAATAAGATTTTACT
* * *
21867295 CCGGATAAATATCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTATTTTTCTCTCTGGT-AA
584 CCGGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCTCCGGTAAA
* * * * * * *
21867359 CCGAAAATCCAAAATCAAATTTTGTATTTCTA-TTTTTTGACTAGACTAACCACGACTATCACCA
649 CCAAAAATCCAAAATCAATTTTTGAATTTC-AGTTTTCTGGCTAGACTAACCACGACTATCGCCG
* * * * *
21867423 TTAGAATAAAATAGTTTAAAATCTGCAAAATCCCGACTCAGTCAATGTTGTCTCAATGAGAATCG
713 TTAGAATAAAACAGTTTAAAATCTGAAAAATCCCGACTCGGACTATGTTGTCTCAATGAGAATCG
*
21867488 AATCCGATCTAAATTTT
778 AATCCGATCTAAATTTC
* * * *
21867505 CCTTAGCGGGCCGCCGCTAAGTGTGTTCACAGGATGTCGAATGTGGTACAAGTCGATCTTTCCTC
1 CCTTAGCGGACCGCCGCTAAGTGTGTTCACAGGATGTCGAATGTGCTACAAGCCGATCCTTCCTC
* *
21867570 CCAACTATAAATCGAAACAACCTTCAAACCAACGAGCCC-TTTTGAACTTAAAAGTGTAAGGATT
66 CCAACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGTAAGGATT
* *
21867634 TTAAAAAGAATGGCCGATTGCCAATCCAAGTTTGCAAAAAATTGAGAAATATATTCGAAGATATA
131 TTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTGCAAAAAATTGAGAAATATATCCGAAGATATA
* *
21867699 AGGTGCTTTTCAATTCTCACGATAGGAATTGAGTCGTTGCTTTAGCCTTC-AGCTAATTTTGGTG
196 AGGTGCTTTTCAATTCTCACGATCGGAATTGAGTCGTTGCTTTAGCCTTCGA-CTAATTTTGGCG
*
21867763 CCAATTTGACAAGCGTCGTATACTGTCTAAATAATTATCCTTAATCTCAAAAGAAATAATTCAAT
260 CCAATTTGACAAGCGTCGTATACTGTCTAAATAATTATCCTTAATCTCAAAAGAAATAATTAAAT
* * *
21867828 AGCGTAGTAAAGAGAAGAAGGGTCGATTCACATGGACTTAGAAAATACTAATGTAGAAGGCTTCT
325 AGCGTAGTAAAGAGAAGAAGGGTCGATCCACATGGACTTAGAAAATTCTAATGTAGAAGGCTTTT
*
21867893 AGTTCTTGATTTAGGCGAAATGGGATAAAAATGTGGGGTTTTGATCGAAAAAGTTTAATTAAAGT
390 AGTTCTTGATTTAGGCGAAATGGGATAAAAATGTGGGGTTTTGATCGAAAGAGTTTAATTAAAGT
* *
21867958 -AAATAAAGAAATGGGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAA-AAGACTTAG
455 AAAATGAAGAAATGGGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAGAA-ACTCAG
* * * ** * *
21868021 TTTAAGTATCAGCCTTAAGCTTCGATTTGACTCATTTCCAATTGATCATCGAACAAGATTCTACT
519 TTTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAATAAGATTTTACT
*
21868086 CCGGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCTCTGGT-AA
584 CCGGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCTCCGGTAAA
* * * *
21868150 CTAATAATGCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACTAACCACGACTATCGCCAT
649 CCAAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACTAACCACGACTATCGCCGT
* *
21868215 TAGAAT-AAACAGTTTAAAATCTGAAAAATCCCGACTCAGACTATGTTATCTCAATGAGAATCGA
714 TAGAATAAAACAGTTTAAAATCTGAAAAATCCCGACTCGGACTATGTTGTCTCAATGAGAATCGA
* *
21868279 ATCTGATCGAAA-TTC
779 ATCCGATCTAAATTTC
* * * *
21868294 CTCTTAGTGGATCGCCGCTAAGTGTGTTCACAGGATGTCGAATGTGCTACAAGTCGATCTTTCCT
1 C-CTTAGCGGACCGCCGCTAAGTGTGTTCACAGGATGTCGAATGTGCTACAAGCCGATCCTTCCT
* *
21868359 CCCAACTATAAATCGAAACAACCTTCAAACTAACGGGCCC-TTTTAAACTTGAAAGTGTAAGGAT
65 CCCAACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGTAAGGAT
* * *
21868423 TTTGAAAAGAAAGGCCGATTGCCAATACAAGTTTGCAAAAAATTGAGAAATATATCTGAAGATAT
130 TTTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTGCAAAAAATTGAGAAATATATCCGAAGATAT
* *
21868488 AAGGTGCGTTTCAATTCTCACGATCGGAATTGAGTCGTTGCTTTAGCCTTCGACTAATTTTGGTG
195 AAGGTGCTTTTCAATTCTCACGATCGGAATTGAGTCGTTGCTTTAGCCTTCGACTAATTTTGGCG
*
21868553 CCATTTTGACAAGCGTCGTATACTGTCTAAATAATTATCCTTAATCTCAAAAGAAATAATTAAAT
260 CCAATTTGACAAGCGTCGTATACTGTCTAAATAATTATCCTTAATCTCAAAAGAAATAATTAAAT
* * * *
21868618 AGCATGGTAAAGAGAAGAAGGGTCGATCCACATGGACTTAGGAAATTCTAATGTAGAAGGCTTCT
325 AGCGTAGTAAAGAGAAGAAGGGTCGATCCACATGGACTTAGAAAATTCTAATGTAGAAGGCTTTT
*
21868683 AGTTCTTGATTTAGGCGAAATGGGATAAAAATGTGGGGTTTTGATCGAAAAAGTTTAATTAAAGT
390 AGTTCTTGATTTAGGCGAAATGGGATAAAAATGTGGGGTTTTGATCGAAAGAGTTTAATTAAAGT
* * * *
21868748 AAAATAAAGAAATGGGAATTTAAATATAAGAATTTAACGAAAGTAAATTTAAGAAGAGACTTAGT
455 AAAATGAAGAAATGGGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAGAAACTCAGT
* * * * *
21868813 TTAAATATCAGCCTTAGGCTTCGATTTGACTCATTTTCAATCGATCATCGAATAAGATTTTACTC
520 TTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAATAAGATTTTACTC
* *
21868878 CGGATAAATGTCGGTTACAGTCTACAAGACCTAACCCTTGTAACTTATTTTTCTCTCCGGT-AAC
585 CGGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCTCCGGTAAAC
* *
21868942 CAAAAATCCAAAATCAATTTTTGAATTTCAGTGTTT-TGGCTAGACTAACCACGACTATTGTCGT
650 CAAAAATCCAAAATCAATTTTTGAATTTCAGT-TTTCTGGCTAGACTAACCACGACTATCGCCGT
* *
21869006 TAAAATAAAACAGTTTAAAATCTGAAAAATCCCGACTCGGACTATATTGTCTCAATGAGAATCGA
714 TAGAATAAAACAGTTTAAAATCTGAAAAATCCCGACTCGGACTATGTTGTCTCAATGAGAATCGA
* *
21869071 AGCTGATCTAAATTTC
779 ATCCGATCTAAATTTC
* ** * * *
21869087 CCTTAGCAGACCGCCATTAAGTGTGTTCAAAGGATATC-AAGTGTGCTACAAGTCGATCCTTCCT
1 CCTTAGCGGACCGCCGCTAAGTGTGTTCACAGGATGTCGAA-TGTGCTACAAGCCGATCCTTCCT
** * * *
21869151 ATCAACTATAAATCGAAACTACCTTCAAACCAACGAG-CCTTTTTTAACTTGAAAGTGTAAGGAT
65 CCCAACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGTAAGGAT
* *
21869215 TTTAAAAAGAAAGACCGATTGCCAATCCAAGTTTGCAAAAAATTCAGAAATATATCCGAAGATAT
130 TTTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTGCAAAAAATTGAGAAATATATCCGAAGATAT
* * * * *
21869280 AAGTTGCCTTTCAATTCTCATGTTCGGAATTGAGTCGTTGCTTTAGCCTTCGGA-TAATTTTGGT
195 AAGGTGCTTTTCAATTCTCACGATCGGAATTGAGTCGTTGCTTTAGCCTTC-GACTAATTTTGGC
* * * *
21869344 GCCAATTGGACAAGCGTCGTATACTATCTAGATAATTATTCTTAATCTCAAAAGAAATAATTAAA
259 GCCAATTTGACAAGCGTCGTATACTGTCTAAATAATTATCCTTAATCTCAAAAGAAATAATTAAA
* * *
21869409 TAGCGTAGTAAAGAGAAGAAGGGTCGATCTACATGGACTTAGAAAATTCTGATGTAGAAGGCCTT
324 TAGCGTAGTAAAGAGAAGAAGGGTCGATCCACATGGACTTAGAAAATTCTAATGTAGAAGGCTTT
* *
21869474 TAGTTCTTGATTTAGGTGAAATGGGATAAAAATGAGGGGTTTTGATCGAAAGAGTTTAATTAAAG
389 TAGTTCTTGATTTAGGCGAAATGGGATAAAAATGTGGGGTTTTGATCGAAAGAGTTTAATTAAAG
*
21869539 TAAAATGAAGAAATGGAAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAGAAACTCAG
454 TAAAATGAAGAAATGGGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAGAAACTCAG
* * *
21869604 TTTAAGTATTAGCATCAGGCTTCGTTTTGACTCATTTCCAACCGATCATCGAATAAGATTTTACT
519 TTTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAATAAGATTTTACT
* * * * *
21869669 CCGGATAAATGCCAGTTACAGTTTACAAGACCGAACCATTGTAACTTGTTTTTCTCTCCGGTAAA
584 CCGGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCTCCGGTAAA
* * * * * *
21869734 TCAAAAATGCAAAATTAATTTTTGAATTTCAATTTTCTGGCTAGATTAACCACAACTATCGCCGT
649 CCAAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACTAACCACGACTATCGCCGT
* * *
21869799 TAGAATAAAACAGTTTAAAATCTGGAAAAA-CCAGACTTGAACTATGTTGTCTCAATGAGAATCG
714 TAGAATAAAACAGTTTAAAATCT-GAAAAATCCCGACTCGGACTATGTTGTCTCAATGAGAATCG
*
21869863 AAT-CGATCTCAATTTC
778 AATCCGATCTAAATTTC
* * *
21869879 CCTTAGTGGACCGCCGCTAAGTGTGTTCACAGGATGTCGAATGTGTTACAAGCCGATCTTTCCTC
1 CCTTAGCGGACCGCCGCTAAGTGTGTTCACAGGATGTCGAATGTGCTACAAGCCGATCCTTCCTC
*
21869944 CCAACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTTTTGTACTTGAAAGTGTAAGGATT
66 CCAACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGTAAGGATT
21870009 TTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTGCAAAAAATTGAGAAATATATCCGAAGATATA
131 TTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTGCAAAAAATTGAGAAATATATCCGAAGATATA
* * * *
21870074 AGGTGCTTTTCAATTCTCACAATCGAAATTGAGTCGTTGCTCTATCCTTCGACTAATTTTGGCGC
196 AGGTGCTTTTCAATTCTCACGATCGGAATTGAGTCGTTGCTTTAGCCTTCGACTAATTTTGGCGC
* * * * *
21870139 CAATTTCATAAGCGTCGTACACTGTCAAAATTATTATCCTTAATCTCAAAAGAAATAATTAAATA
261 CAATTTGACAAGCGTCGTATACTGTCTAAATAATTATCCTTAATCTCAAAAGAAATAATTAAATA
* *
21870204 GCGTAGTAAAGAGAAGAAGGGTCGATCTACAGGGACTTAGAAAATTCTGAA-GTAGAAGGCTTTT
326 GCGTAGTAAAGAGAAGAAGGGTCGATCCACATGGACTTAGAAAATTCT-AATGTAGAAGGCTTTT
* * *
21870268 ATTTCTTGATTTAGGCAAAATGGGATAAAAATGTGGGATTTTGATCGAAAGAGTTTAATTAAAGT
390 AGTTCTTGATTTAGGCGAAATGGGATAAAAATGTGGGGTTTTGATCGAAAGAGTTTAATTAAAGT
* * *
21870333 AAAAT-AAAAAATGGGAATTTAAATATAAGAATTTAACGAAAGTAAATTTAAGAAGAGACTCAGT
455 AAAATGAAGAAATGGGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAGAAACTCAG-
* * *
21870397 TTTAAGTATCAGTCTCAGGCTTCGCTTTAACTCATTTCCAACCAATCATCGAATAAGATTTTACT
519 TTTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAATAAGATTTTACT
* * *
21870462 CCGGATAAATGCCGGTTACAGTCTACAAGACCCAACCCTTGTAACATGTTTTCCTCTCCGGTAAA
584 CCGGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCTCCGGTAAA
* * * *
21870527 CCGAAAATGCAAAATTATTTTTTGAATTT-AGTTTTCTGGCTAGACTAACCACGACTATCGCCGT
649 CCAAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACTAACCACGACTATCGCCGT
* *
21870591 TAGAATAAAACAGTTTAAAATCTGGAAAAA-CCAGACTCGAACTATGTTGTCTCAATGAGAATCG
714 TAGAATAAAACAGTTTAAAATCT-GAAAAATCCCGACTCGGACTATGTTGTCTCAATGAGAATCG
21870655 AATCCGATCTAAATTTC
778 AATCCGATCTAAATTTC
* * *
21870672 CCTTAACGGATCGTCC-CTAAGTGTGTTAACAGGATGTCGAATGTGCTACAAGCC-AGTCCTTCC
1 CCTTAGCGGACCG-CCGCTAAGTGTGTTCACAGGATGTCGAATGTGCTACAAGCCGA-TCCTTCC
* * *
21870735 CCCCAACTATAAATCGAAATAACCTTCAAACCAACGGGCCCTTTTTGTACTTGAAAGTGTAAGGA
64 TCCCAACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGTAAGGA
* * * * *
21870800 TTTTAAACAGAAAGGCCGATTGTCAATCTAAGTTTACAGAAAATTGAGAAATATATCCGAAGATA
129 TTTTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTGCAAAAAATTGAGAAATATATCCGAAGATA
* * * *
21870865 TAA-GTGCTTTTCAATTCTTACGATCGAAATTGAGTCATTGCTTTAGCCTTCGGCTAATTTTGGC
194 TAAGGTGCTTTTCAATTCTCACGATCGGAATTGAGTCGTTGCTTTAGCCTTCGACTAATTTTGGC
*
21870929 GCTAATTTGACAAGCGTCGTATACTGTCTAAATAATTATCCTTAATCTCAAAAGAAATAATTAAA
259 GCCAATTTGACAAGCGTCGTATACTGTCTAAATAATTATCCTTAATCTCAAAAGAAATAATTAAA
* * * * * * *
21870994 TGGCATAGTAAAGTGAGGAAGGGTCGATCCACAGGGACTTAGAAAATTCTGATATAGAAGGCTTT
324 TAGCGTAGTAAAGAGAAGAAGGGTCGATCCACATGGACTTAGAAAATTCTAATGTAGAAGGCTTT
* * * * *
21871059 TAGTTCTTCATTTAGGCTAAATTGTATAAAAATGAGGGGTTTTGATCGAAAGAG-----TT----
389 TAGTTCTTGATTTAGGCGAAATGGGATAAAAATGTGGGGTTTTGATCGAAAGAGTTTAATTAAAG
21871115 T-AAAT---G--A---GAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAGAAACTCAG
454 TAAAATGAAGAAATGGGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAGAAACTCAG
* * * * *
21871171 TTTAAGTATCAGGCTTAGGCTTCGCTTT-A-ACATTTCCAACCGATCATCAAATAAGAGTTTACT
519 TTTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAATAAGATTTTACT
* * * **
21871234 TCGGATAAATG-CTGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTCTTCTATTTGGTAA
584 CCGGATAAATGTC-GGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCTCCGGTAA
* * * *
21871298 ATCAAAAATCTAAAATCAATTTTTGAATTTCAATTTTCTGGCTAGAGTAACCACGACTATCGCCG
648 ACCAAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACTAACCACGACTATCGCCG
* * *
21871363 TTAGAATAAAACAATTTAAAATCTGGAAAAA-CCC-ACTCGGACTATGTTGTCTTAATGAGAATT
713 TTAGAATAAAACAGTTTAAAATCT-GAAAAATCCCGACTCGGACTATGTTGTCTCAATGAGAATC
* *
21871426 GAATCCAATCTCAATTT-
777 GAATCCGATCTAAATTTC
* * *
21871443 CCTTAGCGGATCGCCGCTAATTGTGTTCACAGGAAGTCGAATGTGCTACAAGCCGATCCTTCCTC
1 CCTTAGCGGACCGCCGCTAAGTGTGTTCACAGGATGTCGAATGTGCTACAAGCCGATCCTTCCTC
*
21871508 CCCACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGTAAGGATT
66 CCAACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGTAAGGATT
* * * *
21871573 TTAAAAGGAAAGGCCGATTG-TAATCCAAGTTTGTAGAAAATTGAGAAATATATCCGAAGATATA
131 TTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTGCAAAAAATTGAGAAATATATCCGAAGATATA
* * *
21871637 AGGTACTTTTCAATTCCTCACGATCGGAATTGAGTCGTTGCTTTAGCCTT-GGCTAATTTTGGCA
196 AGGTGCTTTTCAATT-CTCACGATCGGAATTGAGTCGTTGCTTTAGCCTTCGACTAATTTTGGCG
*
21871701 CCAATTTGA-AGAGCGTCGTATACTGTCTAAATAATTATCCTTAATGTCAAAAGAAATAATTAAA
260 CCAATTTGACA-AGCGTCGTATACTGTCTAAATAATTATCCTTAATCTCAAAAGAAATAATTAAA
* * *
21871765 TAACGTAGTAAAGAGAAGAAGGGTCGAT-CACA-GAGACTTAGGAAATTCTAATGTAAAAGGCTT
324 TAGCGTAGTAAAGAGAAGAAGGGTCGATCCACATG-GACTTAGAAAATTCTAATGTAGAAGGCTT
21871828 TTAGTTCTTGATTTAGGCGAAATGGGATAAAAATGTGGGGTTTTGATCGAAAGAGTTTAATTAAA
388 TTAGTTCTTGATTTAGGCGAAATGGGATAAAAATGTGGGGTTTTGATCGAAAGAGTTTAATTAAA
* *
21871893 GTAAAATGAAGAAATGAGAATTTAAATCTATGAATTTAACGAAAGTAAATTTAAGAAGAAACTCA
453 GTAAAATGAAGAAATGGGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAGAAACTCA
*
21871958 GTTTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACTGATCATCGAATAAGATTTTAC
518 GTTTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAATAAGATTTTAC
* * * *
21872023 T-AGGATAAATGTCGGTTATAGTCTATAAGACCCAACCCTTGTAACTTATTTTTCTCTCCGGT-A
583 TCCGGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCTCCGGTAA
* * *
21872086 ACCGAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGTTAGA-TAACCACGACTATCACCG
648 ACCAAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACTAACCACGACTATCGCCG
* *
21872150 TTAGAATAAAACAGTTTAAAATTTG-GAAATCCCGACTCGGACTATGTTGTCTCAATGAGAATCG
713 TTAGAATAAAACAGTTTAAAATCTGAAAAATCCCGACTCGGACTATGTTGTCTCAATGAGAATCG
21872214 AATCCGATCTAAA-TTC
778 AATCCGATCTAAATTTC
* *
21872230 CTCTTAGCGGACCGCCGCTAAGTGTGTTCACAGGATGTCGAATGTGCTACAAGCCGAT-CTTTCG
1 C-CTTAGCGGACCGCCGCTAAGTGTGTTCACAGGATGTCGAATGTGCTACAAGCCGATCCTTCCT
*
21872294 CCTAACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGTAAGGAT
65 CCCAACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGTAAGGAT
*
21872359 TTTAAAAAGAAAGGCCGATTGCCAATCCATGTTTGCAAAAAATTGAGAAATATATCCGAAGATAT
130 TTTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTGCAAAAAATTGAGAAATATATCCGAAGATAT
* * *
21872424 AAGGTGCTTTTCAATTCCTCACGATTGGAATTGAGTAGTTGCTTTAGCCTTCGGCTAATTTTGGC
195 AAGGTGCTTTTCAATT-CTCACGATCGGAATTGAGTCGTTGCTTTAGCCTTCGACTAATTTTGGC
* ** *
21872489 GCCAATTTGACAAGCGTCGTATACTATCTAAATAATTATTTTTAATGTCAAAAGAAATAATTAAA
259 GCCAATTTGACAAGCGTCGTATACTGTCTAAATAATTATCCTTAATCTCAAAAGAAATAATTAAA
* * * * *
21872554 TAGCTTAGTAAAGAGAAGAAGGGTCGATCCACAAGGACTTAGGAAATTCTGATGTAGAAGGCTTC
324 TAGCGTAGTAAAGAGAAGAAGGGTCGATCCACATGGACTTAGAAAATTCTAATGTAGAAGGCTTT
* *
21872619 TAGTTCTTGATTTAGGCGAAATAGGATAAAAATG-GGGGTTTTGATCGAAAGAGTTTAATTAATG
389 TAGTTCTTGATTTAGGCGAAATGGGATAAAAATGTGGGGTTTTGATCGAAAGAGTTTAATTAAAG
* *
21872683 TAAAATGAAGAAATGGGAATTTAAATCTATGAATTTAACGAAAGTAAATTGAAGAAGAAACTCAG
454 TAAAATGAAGAAATGGGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAGAAACTCAG
* * * *
21872748 TTTAAGTATCAGCATCAAGCTTCACTTTGACTCATTTCCAACCGATCATCAAATAAGATTTTACT
519 TTTAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAATAAGATTTTACT
* *
21872813 CCGGATTAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCTCTGGTAAA
584 CCGGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCTCCGGTAAA
*
21872878 CCGAAAATCCAAAATCAATTTT
649 CCAAAAATCCAAAATCAATTTT
21872900 GGATTAATTC
Statistics
Matches: 4903, Mismatches: 427, Indels: 134
0.90 0.08 0.02
Matches are distributed among these distances:
769 1 0.00
770 123 0.03
771 244 0.05
772 182 0.04
773 65 0.01
774 26 0.01
775 49 0.01
778 1 0.00
779 1 0.00
780 4 0.00
782 4 0.00
783 2 0.00
785 4 0.00
786 6 0.00
787 168 0.03
788 256 0.05
789 305 0.06
790 645 0.13
791 506 0.10
792 1335 0.27
793 870 0.18
794 102 0.02
795 4 0.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (794 bp):
CCTTAGCGGACCGCCGCTAAGTGTGTTCACAGGATGTCGAATGTGCTACAAGCCGATCCTTCCTC
CCAACTATAAATCGAAACAACCTTCAAACCAACGGGCCCTTTTTGAACTTGAAAGTGTAAGGATT
TTAAAAAGAAAGGCCGATTGCCAATCCAAGTTTGCAAAAAATTGAGAAATATATCCGAAGATATA
AGGTGCTTTTCAATTCTCACGATCGGAATTGAGTCGTTGCTTTAGCCTTCGACTAATTTTGGCGC
CAATTTGACAAGCGTCGTATACTGTCTAAATAATTATCCTTAATCTCAAAAGAAATAATTAAATA
GCGTAGTAAAGAGAAGAAGGGTCGATCCACATGGACTTAGAAAATTCTAATGTAGAAGGCTTTTA
GTTCTTGATTTAGGCGAAATGGGATAAAAATGTGGGGTTTTGATCGAAAGAGTTTAATTAAAGTA
AAATGAAGAAATGGGAATTTAAATCTAAGAATTTAACGAAAGTAAATTTAAGAAGAAACTCAGTT
TAAGTATCAGCCTCAGGCTTCGCTTTGACTCATTTCCAACCGATCATCGAATAAGATTTTACTCC
GGATAAATGTCGGTTACAGTCTACAAGACCCAACCCTTGTAACTTGTTTTTCTCTCCGGTAAACC
AAAAATCCAAAATCAATTTTTGAATTTCAGTTTTCTGGCTAGACTAACCACGACTATCGCCGTTA
GAATAAAACAGTTTAAAATCTGAAAAATCCCGACTCGGACTATGTTGTCTCAATGAGAATCGAAT
CCGATCTAAATTTC
Found at i:21873728 original size:10 final size:10
Alignment explanation
Indices: 21873713--21873742 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
21873703 GTCAATAAAA
21873713 AACACATTTT
1 AACACATTTT
21873723 AACACATTTT
1 AACACATTTT
21873733 -ACACATTTT
1 AACACATTTT
21873742 A
1 A
21873743 TTCACTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (10 bp):
AACACATTTT
Found at i:21874661 original size:4 final size:4
Alignment explanation
Indices: 21874652--21874699 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
21874642 ATAAATCGAG
* * * * *
21874652 TAAA TAAA TAAC TGAA TAAA TGAA TAAA TAAA GAAA TAAA CAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
21874700 ATAATATACA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (4 bp):
TAAA
Done.