Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 144 of 171
Found at i:43729887 original size:147 final size:144
Alignment explanation
Indices: 43729691--43730073 Score: 445
Period size: 147 Copynumber: 2.6 Consensus size: 144
43729681 TGGACATACG
*
43729691 GGGGTAAAAATTGTAATTTTTGAAAGTTTCAA-GGTCAAAAATGGAATTTTTGGACATCCGGGGA
1 GGGGTAAAAA-TGTAA-TTTTGAAAGTTT-AAGGGTCAAAAATGTAATTTTTGGACATCCGGGG-
* *
43729755 TAAAATGGTAATTTTTGAAAGTTTTAGGGTCAAAAATGTAAGCTTTGGA-AGTTCGAGGGTTAAA
62 TAAAATGGTAATTTTTGAAAGTTTTAGGGT-AAAAATGTAAGCTTTGGATA-TTC-AAGCTT-AA
**
43729819 AAT-GT-ATATTTTGGAAGTTTA
123 AATGGTAAT-TTTTAAAAGTTTA
* * *
43729840 GGGGTAAAAATGTAA-TTTGAAAAGTTTTAGGGTAAAAAATGTAATTTTTGGACATTCGGGGGTA
1 GGGGTAAAAATGTAATTTTG-AAAGTTTAAGGGTCAAAAATGTAATTTTTGGACA-TCCGGGGTA
**
43729904 AAATGGTAATTTTTGAAAGTTTTAGGGTAAAAATGTAATTTTTGGATATTCAAGCTTAAAATGGT
64 AAATGGTAATTTTTGAAAGTTTTAGGGTAAAAATGTAAGCTTTGGATATTCAAGCTTAAAATGGT
*
43729969 AATTTTTAAAAGTTTT
129 AATTTTTAAAAGTTTA
* * *
43729985 GGGGTTAAAAATGTAATTTTTGAAAGTTTAAGGATCAAAAATGTAATTTTTGGAAATTCAGGGGT
1 GGGG-TAAAAATGTAA-TTTTGAAAGTTTAAGGGTCAAAAATGTAATTTTTGGACA-TCCGGGGT
*
43730050 CAAAAT-GTAATTTTCGAACAGTTT
63 -AAAATGGTAATTTTTGAA-AGTTT
43730074 AAGGACCTCC
Statistics
Matches: 206, Mismatches: 17, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
144 5 0.02
145 20 0.10
146 37 0.18
147 109 0.53
148 25 0.12
149 10 0.05
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.37
Consensus pattern (144 bp):
GGGGTAAAAATGTAATTTTGAAAGTTTAAGGGTCAAAAATGTAATTTTTGGACATCCGGGGTAAA
ATGGTAATTTTTGAAAGTTTTAGGGTAAAAATGTAAGCTTTGGATATTCAAGCTTAAAATGGTAA
TTTTTAAAAGTTTA
Found at i:43730055 original size:59 final size:59
Alignment explanation
Indices: 43729662--43730078 Score: 238
Period size: 59 Copynumber: 7.1 Consensus size: 59
43729652 AGAAAAATTG
* * * * * *
43729662 GGATCAAAAACGGATTTTTTGGACATACGGGGGTAAAAATTGTAATTTTTGAAAGTTTCAA
1 GGATCAAAAATGTAATTTTTGGAAATTCAGGGGTAAAAA-TGTAATTTTTGAAAGTTT-AA
* * * *
43729723 GG-TCAAAAATGGAATTTTTGGACA-TCCGGGG-ATAAAATGGTAATTTTTGAAAGTTTTA
1 GGATCAAAAATGTAATTTTTGGAAATTCAGGGGTA-AAAAT-GTAATTTTTGAAAGTTTAA
* ** * * * *
43729781 GGGTCAAAAATGTAAGCTTTGGAAGTTCGAGGGTTAAAAATGT-ATATTTTGGAAGTTTAG
1 GGATCAAAAATGTAATTTTTGGAAATTC-AGGGGTAAAAATGTAAT-TTTTGAAAGTTTAA
* * * * ***
43729841 GGGT-AAAAATGTAA--TTTGAAAAGTTTTA-GGGTAAAAAATGTAATTTTTGGACA-TTCGG
1 GGATCAAAAATGTAATTTTTGGAAA--TTCAGGGGT-AAAAATGTAATTTTT-GAAAGTTTAA
* * * *
43729899 GGGT--AAAATGGTAATTTTT-GAAAGTTTTA-GGGTAAAAATGTAATTTTTGGATA-TTCAA
1 GGATCAAAAAT-GTAATTTTTGGAAA--TTCAGGGGTAAAAATGTAATTTTT-GAAAGTTTAA
* * * **
43729957 -GCT-TAAAATGGTAATTTTT-AAAAGTTTTGGGGTTAAAAATGTAATTTTTGAAAGTTTAA
1 GGATCAAAAAT-GTAATTTTTGGAAA-TTCAGGGG-TAAAAATGTAATTTTTGAAAGTTTAA
* *
43730016 GGATCAAAAATGTAATTTTTGGAAATTCAGGGGTCAAAATGTAATTTTCGAACAGTTTAA
1 GGATCAAAAATGTAATTTTTGGAAATTCAGGGGTAAAAATGTAATTTTTGAA-AGTTTAA
43730076 GGA
1 GGA
43730079 CCTCCAGAAC
Statistics
Matches: 293, Mismatches: 40, Indels: 47
0.77 0.11 0.12
Matches are distributed among these distances:
57 19 0.06
58 75 0.26
59 111 0.38
60 69 0.24
61 18 0.06
62 1 0.00
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.35
Consensus pattern (59 bp):
GGATCAAAAATGTAATTTTTGGAAATTCAGGGGTAAAAATGTAATTTTTGAAAGTTTAA
Found at i:43731865 original size:16 final size:15
Alignment explanation
Indices: 43731840--43731869 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
43731830 AAATTCAATT
43731840 TAAATTTAAACTTAG
1 TAAATTTAAACTTAG
43731855 TAAAGTTTAAACTTA
1 TAAA-TTTAAACTTA
43731870 AATCAAACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (15 bp):
TAAATTTAAACTTAG
Found at i:43735701 original size:12 final size:12
Alignment explanation
Indices: 43735684--43735717 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
43735674 AATGAATGGT
43735684 AAAAATGCAT-G
1 AAAAATGCATAG
43735695 CAAAAATGCATAG
1 -AAAAATGCATAG
43735708 AAAAATGCAT
1 AAAAATGCAT
43735718 TTCTTCTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 20 0.95
13 1 0.05
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.18
Consensus pattern (12 bp):
AAAAATGCATAG
Found at i:43738219 original size:3 final size:3
Alignment explanation
Indices: 43738213--43738240 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
43738203 AAGTAATAAT
43738213 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
43738241 TAATAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:43738245 original size:3 final size:3
Alignment explanation
Indices: 43738239--43738302 Score: 69
Period size: 3 Copynumber: 22.0 Consensus size: 3
43738229 CAACAACAAC
* * *
43738239 AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT -AT CAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
43738286 AAA AAT AAC AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT
43738303 TACTTAAGGA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
2 4 0.08
3 48 0.92
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:43744002 original size:21 final size:21
Alignment explanation
Indices: 43743957--43744009 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
43743947 TGTAAAAAAC
43743957 ATAAATATAAATAGACATGAAA
1 ATAAATA-AAATAGACATGAAA
43743979 ATAAATAAAGAT-GACAT-AAGA
1 ATAAATAAA-ATAGACATGAA-A
43744000 ATAAATAAAA
1 ATAAATAAAA
43744010 AATTACACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 3 0.10
21 17 0.59
22 9 0.31
ACGTcount: A:0.66, C:0.04, G:0.09, T:0.21
Consensus pattern (21 bp):
ATAAATAAAATAGACATGAAA
Found at i:43744876 original size:20 final size:19
Alignment explanation
Indices: 43744820--43744876 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
43744810 TTTAAAATGA
*
43744820 TTAAAAAACATATTTTATTT
1 TTAAAAAACA-ACTTTATTT
* *
43744840 TTAAAAATCTAAACTTTCTCTT
1 TTAAAAAAC--AACTTTAT-TT
43744862 TTAAAAAACAACTTT
1 TTAAAAAACAACTTT
43744877 TCCCAAGATC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 14 0.47
21 5 0.17
22 11 0.37
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAAAAAACAACTTTATTT
Found at i:43744896 original size:140 final size:140
Alignment explanation
Indices: 43744592--43744876 Score: 373
Period size: 143 Copynumber: 2.0 Consensus size: 140
43744582 AATCACTATT
* * *
43744592 TTTCTTAAAGATCAAAATTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTATTTTTTTAAAT
1 TTTCTCAAAGATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTA--TTTTAAAAT
* * *
43744657 TTAAACTTTTCCTTTTAAAATGACTAAAAAACATATTTCTATTTTTTTTAAAATCTAATTTTTTT
64 TTAAACTTTTCCTTTTAAAATGACTAAAAAACATATTTCTA-TTTTTTAAAAATCTAATTTCTCT
** *
43744722 TTTAAATCACTAC
128 TTTAAAAAACAAC
*
43744735 TTTCTTAAAGATCAAAACTTTTATTTCGAAATAGTT-AAAAAATCAAAACTTTA-TTTAAAATTT
1 TTTCTCAAAGATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTATTTTAAAA-TT
*
43744798 TAAACTTTTTCC-TTTAAAATGATTAAAAAACATATTT-TA-TTTTTAAAAATCTAAACTTTCTC
65 TAAAC-TTTTCCTTTTAAAATGACTAAAAAACATATTTCTATTTTTTAAAAATCT-AA-TTTCTC
43744860 TTTTAAAAAACAAC
127 TTTTAAAAAACAAC
43744874 TTT
1 TTT
43744877 TCCCAAGATC
Statistics
Matches: 129, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
137 12 0.09
138 2 0.02
139 26 0.20
140 31 0.24
141 6 0.05
142 17 0.13
143 35 0.27
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.45
Consensus pattern (140 bp):
TTTCTCAAAGATCAAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTATTTTAAAATTT
AAACTTTTCCTTTTAAAATGACTAAAAAACATATTTCTATTTTTTAAAAATCTAATTTCTCTTTT
AAAAAACAAC
Found at i:43745232 original size:3 final size:3
Alignment explanation
Indices: 43745224--43745267 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
43745214 AAAATCCTAC
43745224 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
43745268 CATGATGATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:43745275 original size:3 final size:3
Alignment explanation
Indices: 43745269--43745297 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
43745259 AATAATAATC
43745269 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
43745298 AATAATTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:43746225 original size:15 final size:14
Alignment explanation
Indices: 43746207--43746259 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
43746197 TATTTATTAA
43746207 AATAATATTTTATTT
1 AATAA-ATTTTATTT
43746222 AATAGAATTTTATTT
1 AATA-AATTTTATTT
* *
43746237 AATAAATTATAGTT
1 AATAAATTTTATTT
*
43746251 AATAGATTT
1 AATAAATTT
43746260 GTATATATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 15 0.45
15 17 0.52
16 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (14 bp):
AATAAATTTTATTT
Found at i:43747541 original size:29 final size:30
Alignment explanation
Indices: 43747499--43747557 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
43747489 GAACTAGGTC
* *
43747499 AAATCAAAATTTCATGTTTAAAATTACACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
43747529 AAATC-AAAGTTCATGTATAAAATTACACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
43747558 TTAAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.31
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTACACA
Found at i:43751499 original size:3 final size:3
Alignment explanation
Indices: 43751491--43751530 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
43751481 CGAGGAAGAC
43751491 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
43751531 TCGACGAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:43758887 original size:20 final size:20
Alignment explanation
Indices: 43758862--43759044 Score: 267
Period size: 20 Copynumber: 9.2 Consensus size: 20
43758852 GTGCATTCTA
43758862 TGAATCAGGCTTTATGCCGG
1 TGAATCAGGCTTTATGCCGG
*
43758882 TGAATCAGGCTTTATGACGG
1 TGAATCAGGCTTTATGCCGG
*
43758902 TGTATCAGGCTTTATGCCGG
1 TGAATCAGGCTTTATGCCGG
*
43758922 TGAATCAGGCTTTATGCTGG
1 TGAATCAGGCTTTATGCCGG
43758942 TGAATCAGGCTTTATGCCGG
1 TGAATCAGGCTTTATGCCGG
* *
43758962 TGTATCAGGCTTTATGCCGC
1 TGAATCAGGCTTTATGCCGG
* * * *
43758982 TGTATCAAGCTTTGTACCGG
1 TGAATCAGGCTTTATGCCGG
43759002 TGAATCAGGCTTTATGCCGG
1 TGAATCAGGCTTTATGCCGG
* *
43759022 TGTATCAAGCTTTATGCCGG
1 TGAATCAGGCTTTATGCCGG
43759042 TGA
1 TGA
43759045 TTCAAGAACT
Statistics
Matches: 144, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 144 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (20 bp):
TGAATCAGGCTTTATGCCGG
Found at i:43758955 original size:60 final size:60
Alignment explanation
Indices: 43758862--43759044 Score: 294
Period size: 60 Copynumber: 3.0 Consensus size: 60
43758852 GTGCATTCTA
*
43758862 TGAATCAGGCTTTATGCCGGTGAATCAGGCTTTATGACGGTGTATCAGGCTTTATGCCGG
1 TGAATCAGGCTTTATGCCGGTGAATCAGGCTTTATGCCGGTGTATCAGGCTTTATGCCGG
* *
43758922 TGAATCAGGCTTTATGCTGGTGAATCAGGCTTTATGCCGGTGTATCAGGCTTTATGCCGC
1 TGAATCAGGCTTTATGCCGGTGAATCAGGCTTTATGCCGGTGTATCAGGCTTTATGCCGG
* * * * *
43758982 TGTATCAAGCTTTGTACCGGTGAATCAGGCTTTATGCCGGTGTATCAAGCTTTATGCCGG
1 TGAATCAGGCTTTATGCCGGTGAATCAGGCTTTATGCCGGTGTATCAGGCTTTATGCCGG
43759042 TGA
1 TGA
43759045 TTCAAGAACT
Statistics
Matches: 112, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 112 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (60 bp):
TGAATCAGGCTTTATGCCGGTGAATCAGGCTTTATGCCGGTGTATCAGGCTTTATGCCGG
Found at i:43764690 original size:79 final size:79
Alignment explanation
Indices: 43764558--43764776 Score: 305
Period size: 79 Copynumber: 2.8 Consensus size: 79
43764548 ACGATTATGG
* * * *
43764558 ACCCAGTGCTTAGTGGATAAACCT-CAAATGTGAGCCTAGCTCTAGTTGGATTAACCAACAATAT
1 ACCCAGTGCCTAGCGGATAAA-CTGCAATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAATAT
* *
43764622 CCGTCAAATCCTGGC
65 CCATAAAATCCTGGC
* * *
43764637 GCCCAGTGCCTAGCGGATAAATTGCAATTGTGAGCCCAACTCTAGTTGGATTAACCAACAATATC
1 ACCCAGTGCCTAGCGGATAAACTGCAATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAATATC
*
43764702 TATAAAATCCTGGC
66 CATAAAATCCTGGC
* * *
43764716 ACCTAGTGCCTAGCGGATAAACTGCAATTGTGAGTCCAGCTCTAGTTTGATTAACCAACAA
1 ACCCAGTGCCTAGCGGATAAACTGCAATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAA
43764777 CGTCCATCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
78 1 0.01
79 122 0.99
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (79 bp):
ACCCAGTGCCTAGCGGATAAACTGCAATTGTGAGCCCAGCTCTAGTTGGATTAACCAACAATATC
CATAAAATCCTGGC
Found at i:43767324 original size:13 final size:13
Alignment explanation
Indices: 43767306--43767336 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
43767296 AAACAATATC
43767306 ATAATAATCCTAA
1 ATAATAATCCTAA
43767319 ATAATAATCCTAA
1 ATAATAATCCTAA
43767332 A-AATA
1 ATAATA
43767337 GAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (13 bp):
ATAATAATCCTAA
Found at i:43774018 original size:53 final size:53
Alignment explanation
Indices: 43773938--43774145 Score: 163
Period size: 53 Copynumber: 4.2 Consensus size: 53
43773928 TGTACCTACT
* * * * *
43773938 CCCATGTGTCAACCCATGTTCCCTAGAACAGTATACACACACCCTAACACACG
1 CCCATGTGTCAGCCCGTGTGCCCTAAAACAGTATACACACACCCTAACCCACG
* * * * * *
43773991 CCCATGTGTCAGCCCGTGTGCCCTAGAATAGTATACAAACACCTTGACCCATG
1 CCCATGTGTCAGCCCGTGTGCCCTAAAACAGTATACACACACCCTAACCCACG
*
43774044 CCC--GTGT--G-CC---T---C-AAAACAGTATACACACACCCTGACCCACG
1 CCCATGTGTCAGCCCGTGTGCCCTAAAACAGTATACACACACCCTAACCCACG
* * * *
43774085 CTCGTGTGCCAGCTCGTGTG-CCTCAAAACAGTATACACACACCCTAACCCACG
1 CCCATGTGTCAGCCCGTGTGCCCT-AAAACAGTATACACACACCCTAACCCACG
*
43774138 CCCGTGTG
1 CCCATGTG
43774146 CGTCAGAACA
Statistics
Matches: 124, Mismatches: 19, Indels: 24
0.74 0.11 0.14
Matches are distributed among these distances:
41 26 0.21
42 1 0.01
43 3 0.02
45 2 0.02
46 1 0.01
48 2 0.02
49 2 0.02
51 5 0.04
53 82 0.66
ACGTcount: A:0.27, C:0.37, G:0.16, T:0.19
Consensus pattern (53 bp):
CCCATGTGTCAGCCCGTGTGCCCTAAAACAGTATACACACACCCTAACCCACG
Found at i:43774047 original size:41 final size:42
Alignment explanation
Indices: 43774002--43774201 Score: 147
Period size: 41 Copynumber: 4.6 Consensus size: 42
43773992 CCATGTGTCA
* * * *
43774002 GCCCGTGTGCCCT-AGAATAGTATACAAACACCTTGACCCAT
1 GCCCGTGTGCCCTCAAAACAGTATACAAACACCCTGACCCAC
*
43774043 GCCCGTGTG-CCTCAAAACAGTATACACACACCCTGACCCAC
1 GCCCGTGTGCCCTCAAAACAGTATACAAACACCCTGACCCAC
* * *
43774084 GCTCGTGTGCCAGCTCGTGTGCCTCAAAACAGTATACACACACCCTAACCCAC
1 G--C-----CC-G-T-GTG-CCCTCAAAACAGTATACAAACACCCTGACCCAC
* * * *
43774137 GCCCGTGTG-CGTCAGAACAGTATACACACACCCTAACCCAC
1 GCCCGTGTGCCCTCAAAACAGTATACAAACACCCTGACCCAC
* *
43774178 ACCCGTGTG-CCTCCAAACAGTATA
1 GCCCGTGTGCCCTCAAAACAGTATA
43774202 GACACACACC
Statistics
Matches: 134, Mismatches: 12, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
40 3 0.02
41 83 0.62
43 4 0.03
44 1 0.01
45 1 0.01
46 2 0.01
48 2 0.01
49 1 0.01
50 1 0.01
51 4 0.03
53 32 0.24
ACGTcount: A:0.28, C:0.37, G:0.17, T:0.18
Consensus pattern (42 bp):
GCCCGTGTGCCCTCAAAACAGTATACAAACACCCTGACCCAC
Found at i:43774127 original size:94 final size:94
Alignment explanation
Indices: 43773964--43774188 Score: 299
Period size: 94 Copynumber: 2.4 Consensus size: 94
43773954 TGTTCCCTAG
* * * * *
43773964 AACAGTATACACACACCCTAACACACGCCCATGTGTCAGCCCGTGTGCCCTAGAATAGTATACAA
1 AACAGTATACACACACCCTAACCCACGCCCGTGTGCCAGCCCGTGTGCCCTAAAACAGTATACAA
* * *
43774029 ACACCTTGACCCATGCCCGTGTGCCTCAA
66 ACACCCTAACCCACGCCCGTGTGCCTCAA
* * *
43774058 AACAGTATACACACACCCTGACCCACGCTCGTGTGCCAGCTCGTGTG-CCTCAAAACAGTATACA
1 AACAGTATACACACACCCTAACCCACGCCCGTGTGCCAGCCCGTGTGCCCT-AAAACAGTATACA
* * *
43774122 CACACCCTAACCCACGCCCGTGTGCGTCAG
65 AACACCCTAACCCACGCCCGTGTGCCTCAA
*
43774152 AACAGTATACACACACCCTAACCCACACCCGTGTGCC
1 AACAGTATACACACACCCTAACCCACGCCCGTGTGCC
43774189 TCCAAACAGT
Statistics
Matches: 113, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
93 3 0.03
94 110 0.97
ACGTcount: A:0.29, C:0.38, G:0.16, T:0.17
Consensus pattern (94 bp):
AACAGTATACACACACCCTAACCCACGCCCGTGTGCCAGCCCGTGTGCCCTAAAACAGTATACAA
ACACCCTAACCCACGCCCGTGTGCCTCAA
Found at i:43774146 original size:53 final size:53
Alignment explanation
Indices: 43774046--43774146 Score: 184
Period size: 53 Copynumber: 1.9 Consensus size: 53
43774036 GACCCATGCC
* *
43774046 CGTGTGCCTCAAAACAGTATACACACACCCTGACCCACGCTCGTGTGCCAGCT
1 CGTGTGCCTCAAAACAGTATACACACACCCTAACCCACGCCCGTGTGCCAGCT
43774099 CGTGTGCCTCAAAACAGTATACACACACCCTAACCCACGCCCGTGTGC
1 CGTGTGCCTCAAAACAGTATACACACACCCTAACCCACGCCCGTGTGC
43774147 GTCAGAACAG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.26, C:0.39, G:0.18, T:0.18
Consensus pattern (53 bp):
CGTGTGCCTCAAAACAGTATACACACACCCTAACCCACGCCCGTGTGCCAGCT
Found at i:43774207 original size:41 final size:41
Alignment explanation
Indices: 43774099--43774208 Score: 168
Period size: 41 Copynumber: 2.7 Consensus size: 41
43774089 TGTGCCAGCT
* *
43774099 CGTGTGCCTCAAAACAGTATACACACACCCTAACCCACGCC
1 CGTGTGCCTCCAAACAGTATACACACACCCTAACCCACACC
*
43774140 CGTGTGCGT-CAGAACAGTATACACACACCCTAACCCACACC
1 CGTGTGCCTCCA-AACAGTATACACACACCCTAACCCACACC
*
43774181 CGTGTGCCTCCAAACAGTATAGACACAC
1 CGTGTGCCTCCAAACAGTATACACACAC
43774209 ACCTTGGAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
40 1 0.02
41 59 0.95
42 2 0.03
ACGTcount: A:0.32, C:0.38, G:0.15, T:0.15
Consensus pattern (41 bp):
CGTGTGCCTCCAAACAGTATACACACACCCTAACCCACACC
Found at i:43775673 original size:42 final size:42
Alignment explanation
Indices: 43775615--43775749 Score: 209
Period size: 42 Copynumber: 3.2 Consensus size: 42
43775605 AGCAAAAAAG
* * *
43775615 AAGTAGATGGACCTCCACACCTGGGCCTCTAAATGCAATGAA
1 AAGTAAATGGAACTCCACACTTGGGCCTCTAAATGCAATGAA
*
43775657 AAGTAAATGGAACTCCACACTTGGTCCTCTAAATGCAATGAA
1 AAGTAAATGGAACTCCACACTTGGGCCTCTAAATGCAATGAA
*
43775699 AAATAAATGG-ACTTCCACACTTGGGCCTCTAAATGCAATGAA
1 AAGTAAATGGAAC-TCCACACTTGGGCCTCTAAATGCAATGAA
43775741 AAGTAAATG
1 AAGTAAATG
43775750 TTTTTTATAG
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
41 2 0.02
42 83 0.98
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (42 bp):
AAGTAAATGGAACTCCACACTTGGGCCTCTAAATGCAATGAA
Found at i:43777911 original size:22 final size:22
Alignment explanation
Indices: 43777879--43777927 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
43777869 AACCACCAAT
** *
43777879 AATAATATGCAGTTAATTTGCC
1 AATAATATGCAGACAAATTGCC
*
43777901 AATAATTTGCAGACAAATTGCC
1 AATAATATGCAGACAAATTGCC
43777923 AATAA
1 AATAA
43777928 GTTGAGGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (22 bp):
AATAATATGCAGACAAATTGCC
Found at i:43779045 original size:80 final size:80
Alignment explanation
Indices: 43778911--43779068 Score: 237
Period size: 80 Copynumber: 2.0 Consensus size: 80
43778901 GAAGAAAAGT
* * *
43778911 ATGGGAGAAAATTAGGACTTAGTATCACGTCCAAAAATCGAGTTGGTAAACCAAGAGTGGA-CAT
1 ATGGGAGAAAATTAGGACTTAGTATCACATCCAAAAATCAAGTTAGTAAACCAAGAGT-GATCAT
43778975 GTCCTGTTTTTGAAGA
65 GTCCTGTTTTTGAAGA
* * * *
43778991 ATGGGAGAAAATTAGGACTTGGTGTCACATCCAAAAATCAAGTTAGTAATCCAAGCGTGATCATG
1 ATGGGAGAAAATTAGGACTTAGTATCACATCCAAAAATCAAGTTAGTAAACCAAGAGTGATCATG
43779056 TCCTGTTTTTGAA
66 TCCTGTTTTTGAA
43779069 TAAATGTTGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
79 2 0.03
80 68 0.97
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (80 bp):
ATGGGAGAAAATTAGGACTTAGTATCACATCCAAAAATCAAGTTAGTAAACCAAGAGTGATCATG
TCCTGTTTTTGAAGA
Found at i:43779602 original size:25 final size:23
Alignment explanation
Indices: 43779561--43779606 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
43779551 CCAATTAGGA
43779561 AATTATTATTTAGATTTAATTCT
1 AATTATTATTTAGATTTAATTCT
*
43779584 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TATTTAG-ATTTAATT
43779607 TGGATTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
AATTATTATTTAGATTTAATTCT
Found at i:43781384 original size:60 final size:60
Alignment explanation
Indices: 43781293--43781554 Score: 318
Period size: 60 Copynumber: 4.4 Consensus size: 60
43781283 ATTTAAGGAT
* * * * * *
43781293 GTTTAGGGGT-AAAATGGTAATTTTTG-AAAGTTTCAGGGTAAAAATGCAATTTTTTGGAAA
1 GTTTTGGGGTCAAAAT-ATAATTTTGGAAAAGTTTTAGGGTAAAAATGTAA-TTTTTAGAAA
* * * *
43781353 -TTTTGGTGTCAAAATATGATTTTGGAAAAGTTTTAGGGTCAAAATGTAA-TTTTGGAAAA
1 GTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTAAAAATGTAATTTTTAG-AAA
* *
43781412 GTTTTGGGGTCAAAATGTAATTTTAGAAAAG-TTTAGGGTAAAAATGTAATTTTTAGAAA
1 GTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTAAAAATGTAATTTTTAGAAA
* *
43781471 GTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTTAGAAA
1 GTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTAAAAATGTAATTTTTAGAAA
* *
43781531 GTTTTGGGGTCAACATGTAATTTT
1 GTTTTGGGGTCAAAATATAATTTT
43781555 TGGACAATTT
Statistics
Matches: 176, Mismatches: 20, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
58 6 0.03
59 66 0.38
60 104 0.59
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (60 bp):
GTTTTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTAAAAATGTAATTTTTAGAAA
Found at i:43781435 original size:119 final size:119
Alignment explanation
Indices: 43781293--43781556 Score: 383
Period size: 119 Copynumber: 2.2 Consensus size: 119
43781283 ATTTAAGGAT
* *
43781293 GTTTAGGGGT-AAAATGGTAATTTTTG-AAAGTTTCAGGGTAAAAATGCAATTTTTTGGAAA-TT
1 GTTTTGGGGTCAAAAT-GTAATTTTTGAAAAGTTT-AGGGTAAAAATGCAA-TTTTTAGAAAGTT
* *
43781355 TTGGTGTCAAAATATGATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTG-GAAAA
63 TTGGGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTGAG-AAA
* *
43781412 GTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTAGGGTAAAAATGTAATTTTTAGAAAGTTTTG
1 GTTTTGGGGTCAAAATGTAATTTTTGAAAAGTTTAGGGTAAAAATGCAATTTTTAGAAAGTTTTG
* *
43781477 GGGTCAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTTAGAAA
66 GGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTGAGAAA
*
43781531 GTTTTGGGGTCAACATGTAATTTTTG
1 GTTTTGGGGTCAAAATGTAATTTTTG
43781557 GACAATTTAG
Statistics
Matches: 131, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
118 9 0.07
119 109 0.83
120 13 0.10
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.39
Consensus pattern (119 bp):
GTTTTGGGGTCAAAATGTAATTTTTGAAAAGTTTAGGGTAAAAATGCAATTTTTAGAAAGTTTTG
GGGTCAAAATATAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTGAGAAA
Found at i:43781555 original size:30 final size:31
Alignment explanation
Indices: 43781293--43781558 Score: 286
Period size: 30 Copynumber: 8.9 Consensus size: 31
43781283 ATTTAAGGAT
*
43781293 GTTTAGGGGT-AAAATGGTAATTTTT-G-AAA
1 GTTTTGGGGTCAAAAT-GTAATTTTTGGAAAA
** * *
43781322 GTTTCAGGGTAAAAATGCAATTTTTTGG-AAA
1 GTTTTGGGGTCAAAATGTAA-TTTTTGGAAAA
* * *
43781353 -TTTTGGTGTCAAAATATGA-TTTTGGAAAA
1 GTTTTGGGGTCAAAATGTAATTTTTGGAAAA
*
43781382 GTTTTAGGGTCAAAATGTAA-TTTTGGAAAA
1 GTTTTGGGGTCAAAATGTAATTTTTGGAAAA
*
43781412 GTTTTGGGGTCAAAATGTAA-TTTTAGAAAA
1 GTTTTGGGGTCAAAATGTAATTTTTGGAAAA
* * *
43781442 G-TTTAGGGTAAAAATGTAATTTTTAG-AAA
1 GTTTTGGGGTCAAAATGTAATTTTTGGAAAA
*
43781471 GTTTTGGGGTCAAAATATAA-TTTTGGAAAA
1 GTTTTGGGGTCAAAATGTAATTTTTGGAAAA
*
43781501 GTTTTGGGGTCAAAATGTAATTTTTAG-AAA
1 GTTTTGGGGTCAAAATGTAATTTTTGGAAAA
*
43781531 GTTTTGGGGTCAACATGTAATTTTTGGA
1 GTTTTGGGGTCAAAATGTAATTTTTGGA
43781559 CAATTTAGGG
Statistics
Matches: 201, Mismatches: 26, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
28 6 0.03
29 39 0.19
30 147 0.73
31 9 0.04
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (31 bp):
GTTTTGGGGTCAAAATGTAATTTTTGGAAAA
Found at i:43782479 original size:16 final size:16
Alignment explanation
Indices: 43782468--43782499 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43782458 ATTAATGTTT
43782468 TTTATTAATAATATTA
1 TTTATTAATAATATTA
*
43782484 TTTATTAATATTATTA
1 TTTATTAATAATATTA
43782500 ATATTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTATTAATAATATTA
Found at i:43782485 original size:25 final size:25
Alignment explanation
Indices: 43782457--43782520 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
43782447 TATTTTTTGC
*
43782457 TATTAATGTTTTTTATTAATAATAT
1 TATTAATGTTTATTATTAATAATAT
* * *
43782482 TATTTAT-TAATATTATTAATATTAT
1 TATTAATGT-TTATTATTAATAATAT
*
43782507 TATTATTG-TTATTA
1 TATTAATGTTTATTA
43782521 ACATAACGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
24 6 0.20
25 24 0.80
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (25 bp):
TATTAATGTTTATTATTAATAATAT
Found at i:43782497 original size:9 final size:9
Alignment explanation
Indices: 43782469--43782513 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
43782459 TTAATGTTTT
43782469 TTATTAATA
1 TTATTAATA
*
43782478 ATATT-AT-
1 TTATTAATA
43782485 TTATTAATA
1 TTATTAATA
43782494 TTATTAATA
1 TTATTAATA
*
43782503 TTATTATTA
1 TTATTAATA
43782512 TT
1 TT
43782514 GTTATTAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
7 4 0.13
8 4 0.13
9 23 0.74
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTATTAATA
Found at i:43782540 original size:3 final size:3
Alignment explanation
Indices: 43782469--43782520 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
43782459 TTAATGTTTT
* * * * *
43782469 TTA TTA ATA ATA TTA TTTA TTA ATA TTA TTA ATA TTA TTA TTA TTG
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
43782515 TTA TTA
1 TTA TTA
43782521 ACATAACGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:43783331 original size:23 final size:23
Alignment explanation
Indices: 43783296--43783357 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
43783286 TGGACATTTT
* * *
43783296 AAATTTAAGTTTAAGTTTAAAAC
1 AAATTTAAATTTAAATTCAAAAC
* *
43783319 CATTTTAAATTTAAATTCAAAAC
1 AAATTTAAATTTAAATTCAAAAC
43783342 AAATTTAAATTTAAAT
1 AAATTTAAATTTAAAT
43783358 AAATCTTAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.40
Consensus pattern (23 bp):
AAATTTAAATTTAAATTCAAAAC
Found at i:43783366 original size:17 final size:16
Alignment explanation
Indices: 43783324--43783372 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
43783314 AAAACCATTT
*
43783324 TAAATTTAAATTCAAAA
1 TAAATTTAAATT-TAAA
*
43783341 CAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
*
43783357 TAAATCTTAAAATTAA
1 TAAAT-TTAAATTTAA
43783373 TTCAAACTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 7 0.26
17 20 0.74
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:43783382 original size:17 final size:17
Alignment explanation
Indices: 43783362--43783395 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43783352 TTAAATAAAT
*
43783362 CTTAAAATTAATTCAAA
1 CTTAAAATAAATTCAAA
*
43783379 CTTAATATAAATTCAAA
1 CTTAAAATAAATTCAAA
43783396 AATCTCAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (17 bp):
CTTAAAATAAATTCAAA
Found at i:43783787 original size:91 final size:91
Alignment explanation
Indices: 43783657--43784197 Score: 895
Period size: 91 Copynumber: 5.9 Consensus size: 91
43783647 CCGGGGTTTT
* * * * *
43783657 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCATCTTTACTAT-AACTTCAA
1 ATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGCTCTACT-TCAATTTCAA
*
43783721 AAGGATAGGAAAAGATGTCGGTGCTTC
65 GAGGATAGGAAAAGATGTCGGTGCTTC
43783748 ATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
43783813 AGGATAGGAAAAGATGTCGGTGCTTC
66 AGGATAGGAAAAGATGTCGGTGCTTC
*
43783839 ATCTTGCTCTTACTTCAATTTCAGAGGGACAAAGGCTTGATATCCAGTCTCTACTTCAATTTCAA
1 ATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAG-CTCTACTTCAATTTCAA
43783904 GAGGATAGGAAAAGATGTCGGTGCTTC
65 GAGGATAGGAAAAGATGTCGGTGCTTC
*
43783931 ATCTTGCTCTTACTTCAACTTCAGAGAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
43783996 AGGATAGGAAAAGATGTCGGTGCTTC
66 AGGATAGGAAAAGATGTCGGTGCTTC
*
43784022 ATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGTTATCCAGCTCTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
* * *
43784087 AGGATAGGAAAAGATGTTTGATGCTTT
66 AGGATAGGAAAAGATG-TCGGTGCTTC
* * * * *
43784114 ATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAGCTCTATTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
43784179 AGGATAGGAAAAGATGTCG
66 AGGATAGGAAAAGATGTCG
43784198 CTCTTGCTTC
Statistics
Matches: 428, Mismatches: 19, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
90 1 0.00
91 254 0.59
92 173 0.40
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (91 bp):
ATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGCTCTACTTCAATTTCAAG
AGGATAGGAAAAGATGTCGGTGCTTC
Found at i:43783894 original size:41 final size:41
Alignment explanation
Indices: 43783844--43784089 Score: 133
Period size: 41 Copynumber: 5.5 Consensus size: 41
43783834 GCTTCATCTT
43783844 GCTCTTACTTCAATTTC-AGAGGGACAAAGGCTTGATATCCA
1 GCTC-TACTTCAATTTCAAGAGGGACAAAGGCTTGATATCCA
* * **
43783885 GTCTCTACTTCAATTTCAAGAGGATAGGA-AAAGATGTCGGTGCTTCATCTT
1 G-CTCTACTTCAATTTCAAGA-G---GGACAAAG--G-C-TTG-AT-ATCCA
* *
43783936 GCTCTTACTTCAACTTC-AGAGAGACAAAGGCTTGATATCCA
1 GCTC-TACTTCAATTTCAAGAGGGACAAAGGCTTGATATCCA
* * **
43783977 GCTCTACTTCAATTTCAAGAGGATAGGA-AAAGATGTCGGTGCTTCATCTT
1 GCTCTACTTCAATTTCAAGA-G---GGACAAAG--G-C-TTG-AT-ATCCA
* *
43784027 GCTCTTACTTCAATTTC-AGAGAGACAAAGGCTTGTTATCCA
1 GCTC-TACTTCAATTTCAAGAGGGACAAAGGCTTGATATCCA
43784068 GCTCTACTTCAATTTCAAGAGG
1 GCTCTACTTCAATTTCAAGAGG
43784090 ATAGGAAAAG
Statistics
Matches: 156, Mismatches: 21, Indels: 56
0.67 0.09 0.24
Matches are distributed among these distances:
40 23 0.15
41 34 0.22
42 10 0.06
43 5 0.03
44 6 0.04
45 8 0.05
46 8 0.05
47 10 0.06
48 3 0.02
49 5 0.03
50 17 0.11
51 27 0.17
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (41 bp):
GCTCTACTTCAATTTCAAGAGGGACAAAGGCTTGATATCCA
Found at i:43783964 original size:183 final size:183
Alignment explanation
Indices: 43783657--43784197 Score: 899
Period size: 183 Copynumber: 3.0 Consensus size: 183
43783647 CCGGGGTTTT
* * * *
43783657 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCA-TCTTTACTAT-AACTTCA
1 ATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGTCTCTACT-TCAATTTCA
*
43783720 AAAGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCT
65 AGAGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCT
43783785 TGATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTC
130 TGATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTC
*
43783839 ATCTTGCTCTTACTTCAATTTCAGAGGGACAAAGGCTTGATATCCAGTCTCTACTTCAATTTCAA
1 ATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGTCTCTACTTCAATTTCAA
*
43783904 GAGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTACTTCAACTTCAGAGAGACAAAGGCTT
66 GAGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTT
43783969 GATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTC
131 GATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTC
*
43784022 ATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGTTATCCAG-CTCTACTTCAATTTCAA
1 ATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGTCTCTACTTCAATTTCAA
* * * * * *
43784086 GAGGATAGGAAAAGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACT
66 GAGGATAGGAAAAGATG-TCGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCT
* *
43784151 TGTTATCCAGCTCTATTTCAATTTCAAGAGGATAGGAAAAGATGTCG
130 TGATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAAGATGTCG
43784198 CTCTTGCTTC
Statistics
Matches: 338, Mismatches: 18, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
182 78 0.23
183 260 0.77
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (183 bp):
ATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTGATATCCAGTCTCTACTTCAATTTCAA
GAGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTT
GATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTC
Found at i:43784173 original size:274 final size:274
Alignment explanation
Indices: 43783657--43784197 Score: 897
Period size: 274 Copynumber: 2.0 Consensus size: 274
43783647 CCGGGGTTTT
* * * *
43783657 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCATCTTTACTATAACTTCAAA
1 ATCTTGCTCTTACTTCAACTTCAGAGAGACAAAGACTTGATATCCAGCTCTACTATAACTTCAAA
43783722 AGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTG
66 AGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTG
* *
43783787 ATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTAC
131 ATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAAGATGTCGATGCTTCATCTAGCTCTTAC
* *
43783852 TTCAATTTCAGAGGGACAAAGGCTTGATATCCAGTCTCTACTTCAATTTCAAGAGGATAGGAAAA
196 TTCAATTTCAGAGAGACAAAGACTTGATATCCAGTCTCTACTTCAATTTCAAGAGGATAGGAAAA
43783917 GATGTCGGTGCTTC
261 GATGTCGGTGCTTC
* *
43783931 ATCTTGCTCTTACTTCAACTTCAGAGAGACAAAGGCTTGATATCCAGCTCTACT-TCAATTTCAA
1 ATCTTGCTCTTACTTCAACTTCAGAGAGACAAAGACTTGATATCCAGCTCTACTAT-AACTTCAA
*
43783995 GAGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTT
65 AAGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTT
* * *
43784060 GTTATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAAGATGTTTGATGCTTTATCTAGCTCTT
130 GATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAAGATG-TCGATGCTTCATCTAGCTCTT
* * *
43784125 ACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAG-CTCTATTTCAATTTCAAGAGGATAGGAA
194 ACTTCAATTTCAGAGAGACAAAGACTTGATATCCAGTCTCTACTTCAATTTCAAGAGGATAGGAA
43784189 AAGATGTCG
259 AAGATGTCG
43784198 CTCTTGCTTC
Statistics
Matches: 248, Mismatches: 17, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
273 1 0.00
274 198 0.80
275 49 0.20
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (274 bp):
ATCTTGCTCTTACTTCAACTTCAGAGAGACAAAGACTTGATATCCAGCTCTACTATAACTTCAAA
AGGATAGGAAAAGATGTCGGTGCTTCATCTTGCTCTTACTTCAATTTCAGAGAGACAAAGGCTTG
ATATCCAGCTCTACTTCAATTTCAAGAGGATAGGAAAAGATGTCGATGCTTCATCTAGCTCTTAC
TTCAATTTCAGAGAGACAAAGACTTGATATCCAGTCTCTACTTCAATTTCAAGAGGATAGGAAAA
GATGTCGGTGCTTC
Found at i:43784247 original size:76 final size:77
Alignment explanation
Indices: 43784119--43784265 Score: 224
Period size: 76 Copynumber: 1.9 Consensus size: 77
43784109 GCTTTATCTA
* * *
43784119 GCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAGCTCTATTTCAATTTCAAGAGGAT
1 GCTCTTACTTCAATTTCA-AGAGATAAAAACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT
*
43784184 AGGAAAAGATGTC
65 AAGAAAAGATGTC
* *
43784197 GCTCTTGCTTCAATTTC-AGAGATAAAAACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATA
1 GCTCTTACTTCAATTTCAAGAGATAAAAACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATA
43784261 AGAAA
66 AGAAA
43784266 TGATCTTGTG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
76 47 0.75
78 16 0.25
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (77 bp):
GCTCTTACTTCAATTTCAAGAGATAAAAACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATA
AGAAAAGATGTC
Found at i:43795943 original size:30 final size:30
Alignment explanation
Indices: 43795898--43796215 Score: 267
Period size: 30 Copynumber: 10.6 Consensus size: 30
43795888 AGTTTGGGGG
43795898 TAAAATGGTAATTTTT-GAAAGTTTTAGGGT
1 TAAAAT-GTAATTTTTGGAAAGTTTTAGGGT
* *
43795928 AAAAATGAAATTTTTTGGAAA-TTTT-GGTGT
1 TAAAATGTAA-TTTTTGGAAAGTTTTAGG-GT
* * * *
43795958 CAAAATATGA-TTTTGGAAAAGTTTTGGGGT
1 TAAAATGTAATTTTTGG-AAAGTTTTAGGGT
43795988 TAAAATGT-ATTTTTGGAAAAGTTTTAGGGT
1 TAAAATGTAATTTTTGG-AAAGTTTTAGGGT
*
43796018 CAAAATGTAA-TTTTGGAAAAG-TTTAGGGGT
1 TAAAATGTAATTTTTGG-AAAGTTTTA-GGGT
* * *
43796048 TAAAATGTAATTTCTAGAAAGTTTTGGGGT
1 TAAAATGTAATTTTTGGAAAGTTTTAGGGT
* *
43796078 TAAAATATAA-TTTTGGAAAAGTTTTGGGGT
1 TAAAATGTAATTTTTGG-AAAGTTTTAGGGT
* * *
43796108 CAAAATGTAATTTTTAGAAAGTTTTAAGGT
1 TAAAATGTAATTTTTGGAAAGTTTTAGGGT
* * * *
43796138 CAAAATATAA-TTTTGAAAAAGTTTTGGGGT
1 TAAAATGTAATTTTTG-GAAAGTTTTAGGGT
*** *
43796168 TAAAATGTAATTTTCAAAAAGTTTTGGGGT
1 TAAAATGTAATTTTTGGAAAGTTTTAGGGT
* *
43796198 CAACATGTAATTTTTGGA
1 TAAAATGTAATTTTTGGA
43796216 TAATTTAGGG
Statistics
Matches: 237, Mismatches: 36, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
28 6 0.03
29 21 0.09
30 188 0.79
31 22 0.09
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.40
Consensus pattern (30 bp):
TAAAATGTAATTTTTGGAAAGTTTTAGGGT
Found at i:43795979 original size:60 final size:60
Alignment explanation
Indices: 43795906--43796211 Score: 377
Period size: 60 Copynumber: 5.1 Consensus size: 60
43795896 GGTAAAATGG
* * * * *
43795906 TAATTTTTG-AAAGTTTTAGGGTAAAAATGAAATTTTTTGGAAA-TTTT-GGTGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTTAAAATGTAA-TTTTTAGAAAGTTTTAGG-GTCAAAATA
* * *
43795965 TGATTTTGGAAAAGTTTTGGGGTTAAAATGT-ATTTTTGGAAAAGTTTTAGGGTCAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTTAG-AAAGTTTTAGGGTCAAAATA
* * * *
43796025 TAATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTCTAGAAAGTTTTGGGGTTAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTTAGAAAGTTTTAGGGTCAAAATA
* *
43796085 TAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTTAAGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTTAGAAAGTTTTAGGGTCAAAATA
* * * * * *
43796145 TAATTTTGAAAAAGTTTTGGGGTTAAAATGTAATTTTCAAAAAGTTTTGGGGTCAACATG
1 TAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTTAGAAAGTTTTAGGGTCAAAATA
43796205 TAATTTT
1 TAATTTT
43796212 TGGATAATTT
Statistics
Matches: 215, Mismatches: 27, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
58 7 0.03
59 11 0.05
60 189 0.88
61 8 0.04
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.40
Consensus pattern (60 bp):
TAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTTAGAAAGTTTTAGGGTCAAAATA
Found at i:43796013 original size:90 final size:89
Alignment explanation
Indices: 43795890--43796215 Score: 390
Period size: 90 Copynumber: 3.6 Consensus size: 89
43795880 TTTAAGGAAG
* * * *
43795890 TTTGGGGGTAAAATGGTAATTTTTG-AAAGTTTTAGGGTAAAAATGAAATTTTTTGGAAA-TTTT
1 TTTGGGGTTAAAAT-GTAATTTTGGAAAAGTTTTAGGGTCAAAATGTAA-TTTTTGGAAAGTTTT
*
43795953 GGTGTCAAAATATGATTTTGGAAAAGT
64 GG-GTCAAAATATAATTTTGGAAAAGT
* *
43795980 TTTGGGGTTAAAATGTATTTTTGGAAAAGTTTTAGGGTCAAAATGTAA-TTTTGGAAAAGTTTAG
1 TTTGGGGTTAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTTGG-AAAGTTT-T
* * *
43796044 GGGTTAAAATGTAATTTCTAG-AAAGT
64 GGGTCAAAATATAATTT-TGGAAAAGT
* * * *
43796070 TTTGGGGTTAAAATATAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTTAA
1 TTTGGGGTTAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTTGGAAAGTTTT-G
*
43796135 GGTCAAAATATAATTTTGAAAAAGT
65 GGTCAAAATATAATTTTGGAAAAGT
** * *
43796160 TTTGGGGTTAAAATGTAATTTTCAAAAAGTTTTGGGGTCAACATGTAATTTTTGGA
1 TTTGGGGTTAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTTGGA
43796216 TAATTTAGGG
Statistics
Matches: 203, Mismatches: 25, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
88 6 0.03
89 12 0.06
90 176 0.87
91 9 0.04
ACGTcount: A:0.35, C:0.02, G:0.23, T:0.40
Consensus pattern (89 bp):
TTTGGGGTTAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTTGGAAAGTTTTGG
GTCAAAATATAATTTTGGAAAAGT
Found at i:43797139 original size:16 final size:16
Alignment explanation
Indices: 43797120--43797151 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43797110 TTAATGTTTT
43797120 TTTATTAATAATATTA
1 TTTATTAATAATATTA
*
43797136 TTTATTAATATTATTA
1 TTTATTAATAATATTA
43797152 ATATTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTATTAATAATATTA
Found at i:43797149 original size:9 final size:9
Alignment explanation
Indices: 43797121--43797165 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
43797111 TAATGTTTTT
43797121 TTATTAATA
1 TTATTAATA
*
43797130 ATATT-AT-
1 TTATTAATA
43797137 TTATTAATA
1 TTATTAATA
43797146 TTATTAATA
1 TTATTAATA
*
43797155 TTATTATTA
1 TTATTAATA
43797164 TT
1 TT
43797166 GTTATTAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
7 4 0.13
8 4 0.13
9 23 0.74
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTATTAATA
Found at i:43797192 original size:3 final size:3
Alignment explanation
Indices: 43797121--43797172 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
43797111 TAATGTTTTT
* * * * *
43797121 TTA TTA ATA ATA TTA TTTA TTA ATA TTA TTA ATA TTA TTA TTA TTG
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
43797167 TTA TTA
1 TTA TTA
43797173 ACATAACGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:43798045 original size:17 final size:17
Alignment explanation
Indices: 43798025--43798058 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43798015 TTAAATAAGT
*
43798025 CTTAAAATTAATTCAAA
1 CTTAAAATAAATTCAAA
*
43798042 CTTAATATAAATTCAAA
1 CTTAAAATAAATTCAAA
43798059 AATCTCAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (17 bp):
CTTAAAATAAATTCAAA
Found at i:43801266 original size:7 final size:7
Alignment explanation
Indices: 43801254--43801353 Score: 143
Period size: 7 Copynumber: 14.7 Consensus size: 7
43801244 TTTTTATTTC
43801254 CATTTTT
1 CATTTTT
43801261 CATTTTT
1 CATTTTT
*
43801268 CATTTTC
1 CATTTTT
*
43801275 CATTTTC
1 CATTTTT
*
43801282 CATTTTC
1 CATTTTT
43801289 CATTTTT
1 CATTTTT
43801296 CATTTTT
1 CATTTTT
43801303 CATTTTT
1 CATTTTT
43801310 CATTTTT
1 CATTTTT
43801317 CATTTTT
1 CATTTTT
43801324 CATTTTT
1 CATTTTT
43801331 CA-TTTT
1 CATTTTT
*
43801337 -GTTTTT
1 CATTTTT
43801343 CA-TTTT
1 CATTTTT
43801349 CATTT
1 CATTT
43801354 AAATTTAAAT
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
6 14 0.16
7 72 0.84
ACGTcount: A:0.14, C:0.17, G:0.01, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:43802240 original size:209 final size:209
Alignment explanation
Indices: 43801874--43802721 Score: 1006
Period size: 209 Copynumber: 4.1 Consensus size: 209
43801864 TATTATTTTA
* * *
43801874 GGTCGTCTTCCTGATGAGATACAGAA-AAGTGGACCAAATTCATCTTCCTGATGAAATACAAAGT
1 GGTCGTCTTCCTGATGAGATACA-AAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAAAGA
** *
43801938 AGTGGATTAAAACAAATGAGGCAGTCATCTTCTTGATGAGATACAGAGAAGTATACCAAATCAAT
65 AGTGGATTAAAACAAATGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAAT
* * * *
43802003 GAAACAAAACTCAATCTGAGCAAAACTTCGAATCCCAGCTTCTTGATGAGATACTAAGAAGCAGG
130 GAAACAAAACTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGG
*
43802068 TCGAAGCAATAAAGT
195 TCGAAGCAATAAAGC
43802083 GGTCGTCTTCCTGATGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAAAGAA
1 GGTCGTCTTCCTGATGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAAAGAA
43802148 GTGGATTAAAACAAATGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATG
66 GTGGATTAAAACAAATGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATG
**
43802213 AAACAAAACTCAATGTGAGCGAAACTTCGAATACCAGCTTCCTGATGAGATACTAAGAAGCAGGT
131 AAACAAAACTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGT
43802278 CGAAGCAATAAAGC
196 CGAAGCAATAAAGC
* * * ** * *
43802292 GATCGTCTTCTTGATGAGATACAGAGAAGTAAACCAAATCCGTCTTCCTGATGAGATATAAAG-A
1 GGTCGTCTTCCTGATGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAAAGAA
* * * * * * *
43802356 -T-G--T-ATACCAA--A--T--CCGTCTTCCTGATGAGATATAAAGATGTATACCAAATCAATG
66 GTGGATTAAAACAAATGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATG
* * *
43802410 AAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATGCTGAGAAGCAGGT
131 AAACAAAACTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGT
*
43802475 CGAAGCAATAAAAC
196 CGAAGCAATAAAGC
* ** * * * * * * *
43802489 GATCACCTTGCTGATGAGATATAGAGAAGTGGACCAAATCCGTTTTCCTAATGAGATACAGAGAA
1 GGTCGTCTTCCTGATGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAAAGAA
* * * * **
43802554 GTGGATTGAAAC-AATGAAGTGATCATCTTCCTGATGAGATACGGAGAAGTGGACCAAATCAATG
66 GTGGATTAAAACAAATGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATG
* ** * * * * * * **
43802618 AAGCAAAGTTCAAATGCGAGTGAAGCTTCAAACCCCTATCTTCTTGATGAGATAC-AGAGAAGTG
131 AAACAAAACTC-AATGTGAGCGAAACTTCGAACCCC-AGCTTCCTGATGAGATACTA-AGAAGCA
*
43802682 GGTCGAAGCAATAAAGA
193 GGTCGAAGCAATAAAGC
* *
43802699 GGTCATCTTCCTAATGAGATACA
1 GGTCGTCTTCCTGATGAGATACA
43802722 GACAAGTAAA
Statistics
Matches: 553, Mismatches: 70, Indels: 31
0.85 0.11 0.05
Matches are distributed among these distances:
197 162 0.29
198 1 0.00
199 2 0.00
200 1 0.00
201 1 0.00
202 3 0.01
203 8 0.01
204 2 0.00
206 2 0.00
207 1 0.00
208 46 0.08
209 271 0.49
210 53 0.10
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (209 bp):
GGTCGTCTTCCTGATGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAAAGAA
GTGGATTAAAACAAATGAGGTGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATG
AAACAAAACTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGT
CGAAGCAATAAAGC
Found at i:43802345 original size:37 final size:37
Alignment explanation
Indices: 43802295--43802405 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
43802285 ATAAAGCGAT
* * * * *
43802295 CGTCTTCTTGATGAGATACAGAGAAGTAAACCAAATC
1 CGTCTTCCTGATGAGATATAAAGATGTATACCAAATC
43802332 CGTCTTCCTGATGAGATATAAAGATGTATACCAAATC
1 CGTCTTCCTGATGAGATATAAAGATGTATACCAAATC
43802369 CGTCTTCCTGATGAGATATAAAGATGTATACCAAATC
1 CGTCTTCCTGATGAGATATAAAGATGTATACCAAATC
43802406 AATGAAACAA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (37 bp):
CGTCTTCCTGATGAGATATAAAGATGTATACCAAATC
Found at i:43802509 original size:197 final size:197
Alignment explanation
Indices: 43802174--43802546 Score: 586
Period size: 197 Copynumber: 1.9 Consensus size: 197
43802164 GAGGTGGTCA
*
43802174 TCTTCCTGATGAGATACAGAGAAGTATACCAAATCAATGAAACAAAACTCAATGTGAGCGAAACT
1 TCTTCCTGATGAGATACAAAGAAGTATACCAAATCAATGAAACAAAACTCAATGTGAGCGAAACT
* * **
43802239 TCGAATACCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAGCGATCGTCTTCTT
66 TCGAACACCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAACGATCACCTTCTT
*
43802304 GATGAGATACAGAGAAGTAAACCAAATCCGTCTTCCTGATGAGATATAAAGATGTATACCAAATC
131 GATGAGATACAGAGAAGTAAACCAAATCCGTCTTCCTAATGAGATATAAAGATGTATACCAAATC
43802369 CG
196 CG
* * *
43802371 TCTTCCTGATGAGATATAAAGATGTATACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACT
1 TCTTCCTGATGAGATACAAAGAAGTATACCAAATCAATGAAACAAAACTCAATGTGAGCGAAACT
* * *
43802436 TCGAACCCCAGCTTCCTGATGAGATGCTGAGAAGCAGGTCGAAGCAATAAAACGATCACCTTGC-
66 TCGAACACCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAACGATCACCTT-CT
* ** *
43802500 TGATGAGATATAGAGAAGTGGACCAAATCCGTTTTCCTAATGAGATA
130 TGATGAGATACAGAGAAGTAAACCAAATCCGTCTTCCTAATGAGATA
43802547 CAGAGAAGTG
Statistics
Matches: 159, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
197 158 0.99
198 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (197 bp):
TCTTCCTGATGAGATACAAAGAAGTATACCAAATCAATGAAACAAAACTCAATGTGAGCGAAACT
TCGAACACCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAACGATCACCTTCTT
GATGAGATACAGAGAAGTAAACCAAATCCGTCTTCCTAATGAGATATAAAGATGTATACCAAATC
CG
Found at i:43804877 original size:30 final size:30
Alignment explanation
Indices: 43804844--43805215 Score: 245
Period size: 30 Copynumber: 12.6 Consensus size: 30
43804834 TAATAATCCT
*
43804844 ATTTTGACCCTCAAACTTCTCTAAAATTAT
1 ATTTTGACCCTCAAACTTCTCTAAAATTAC
* *
43804874 ATTTTGA-CCTCCAAACTTCTCTAGAATTAT
1 ATTTTGACCCT-CAAACTTCTCTAAAATTAC
* * * **
43804904 ATTTTGACCCCCAAAGTT-TTTCAAAATCCC
1 ATTTTGACCCTCAAACTTCTCT-AAAATTAC
* * *
43804934 ATTTTGACCCTTAAACTTC-CCAAAAATAC
1 ATTTTGACCCTCAAACTTCTCTAAAATTAC
*
43804963 ATTTTAACCC-CTAAACTTCTCTAAAATTAC
1 ATTTTGACCCTC-AAACTTCTCTAAAATTAC
* * *
43804993 ATTTTAACCCTTAAACTTCTCCAAAATTAC
1 ATTTTGACCCTCAAACTTCTCTAAAATTAC
* * **
43805023 ATTTTAACCCTCAAACTTCTATAAAATCCC
1 ATTTTGACCCTCAAACTTCTCTAAAATTAC
* * *
43805053 ATTTTTACCC-CAAACTTCTCCAAAATTATG
1 ATTTTGACCCTCAAACTTCTCTAAAATTA-C
* * * *
43805083 ATTTTGTCCC-CGAACATC-CAAAAATTACC
1 ATTTTGACCCTCAAACTTCTCTAAAATTA-C
*
43805112 ATTTTG-CCCTCAAACATC-C-AAAATTAC
1 ATTTTGACCCTCAAACTTCTCTAAAATTAC
* * *
43805139 TATTTT-ACCCCCAAACATC-CAAAAATTACC
1 -ATTTTGACCCTCAAACTTCTCTAAAATTA-C
* * *
43805169 ATTTTG-CTCC-CGAACATC-CAAAAATTACC
1 ATTTTGAC-CCTCAAACTTCTCTAAAATTA-C
*
43805198 ATTTTGCCCCT-AAACTTC
1 ATTTTGACCCTCAAACTTC
43805216 AATAAATCTC
Statistics
Matches: 280, Mismatches: 45, Indels: 35
0.78 0.12 0.10
Matches are distributed among these distances:
27 1 0.00
28 27 0.10
29 106 0.38
30 144 0.51
31 2 0.01
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (30 bp):
ATTTTGACCCTCAAACTTCTCTAAAATTAC
Found at i:43805018 original size:89 final size:88
Alignment explanation
Indices: 43804838--43805173 Score: 261
Period size: 89 Copynumber: 3.8 Consensus size: 88
43804828 TTTCTTTAAT
* * * * *
43804838 AATCCTATTTTGACCCTCAAACTTCTCTAAAATTATATTTTGACCTCCAAACTTCTCTAGAATTA
1 AATCCCATTTTGACCCTCAAACTTC-CTAAAAATACATTTTAACC-CCAAACTTCTCTAAAATTA
* * * * *
43804903 TATTTTGACCCCCAAAGTTTTTCAA
64 CATTTTAACCCCCAAACTTCTCCAA
* *
43804928 AATCCCATTTTGACCCTTAAACTTCCCAAAAATACATTTTAACCCCTAAACTTCTCTAAAATTAC
1 AATCCCATTTTGACCCTCAAACTTCCTAAAAATACATTTTAACCCC-AAACTTCTCTAAAATTAC
**
43804993 ATTTTAACCCTTAAACTTCTCCAA
65 ATTTTAACCCCCAAACTTCTCCAA
** * * * *
43805017 AATTACATTTTAACCCTCAAACTT-CTATAAAATCCCATTTTTACCCCAAACTTCTCCAAAATTA
1 AATCCCATTTTGACCCTCAAACTTCCTA-AAAAT-ACATTTTAACCCCAAACTTCTCTAAAATTA
* ** * * *
43805081 TGATTTT-GTCCCCGAACATC-CAAA
64 -CATTTTAACCCCCAAACTTCTCCAA
* * * * * *
43805105 AATTACCATTTTG-CCCTCAAACATCC-AAAATTACTATTTTACCCCCAAACATC-CAAAAATTA
1 AA-TCCCATTTTGACCCTCAAACTTCCTAAAAATAC-ATTTTAACCCCAAACTTCTCTAAAATTA
43805167 CCATTTT
64 -CATTTT
43805174 GCTCCCGAAC
Statistics
Matches: 197, Mismatches: 42, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
86 14 0.07
87 19 0.10
88 20 0.10
89 105 0.53
90 39 0.20
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.35
Consensus pattern (88 bp):
AATCCCATTTTGACCCTCAAACTTCCTAAAAATACATTTTAACCCCAAACTTCTCTAAAATTACA
TTTTAACCCCCAAACTTCTCCAA
Found at i:43805106 original size:29 final size:28
Alignment explanation
Indices: 43805055--43805212 Score: 174
Period size: 29 Copynumber: 5.5 Consensus size: 28
43805045 AAAATCCCAT
* * * **
43805055 TTTTACCCCAAACTTCTCCAAAATTATGA
1 TTTTGCCCCAAACATC-CAAAAATTACCA
*
43805084 TTTTGTCCCCGAACATCCAAAAATTACCA
1 TTTTG-CCCCAAACATCCAAAAATTACCA
*
43805113 TTTTGCCCTCAAACATCC-AAAATTACTA
1 TTTTGCCC-CAAACATCCAAAAATTACCA
*
43805141 TTTTACCCCCAAACATCCAAAAATTACCA
1 TTTT-GCCCCAAACATCCAAAAATTACCA
*
43805170 TTTTGCTCCCGAACATCCAAAAATTACCA
1 TTTTGC-CCCAAACATCCAAAAATTACCA
43805199 TTTTGCCCCTAAAC
1 TTTTGCCCC-AAAC
43805213 TTCAATAAAT
Statistics
Matches: 110, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
28 29 0.26
29 72 0.65
30 9 0.08
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.30
Consensus pattern (28 bp):
TTTTGCCCCAAACATCCAAAAATTACCA
Found at i:43805114 original size:59 final size:59
Alignment explanation
Indices: 43804932--43805173 Score: 219
Period size: 59 Copynumber: 4.1 Consensus size: 59
43804922 TTTCAAAATC
* * * * * *
43804932 CCATTTTGACCCTTAAACTTC-CCAAAAATACATTTTAACCCCTAAACTTCTCTAAAATTA
1 CCATTTTTACCCTCAAACTTCTCCAAAATTATATTTTAACCCC-AAACATC-CAAAAATTA
* * * * * *
43804992 -CATTTTAACCCTTAAACTTCTCCAAAATTACATTTTAACCCTCAAACTTCTATAAAA-TC
1 CCATTTTTACCCTCAAACTTCTCCAAAATTATATTTTAACCC-CAAACATCCA-AAAATTA
** *
43805051 CCATTTTTACCC-CAAACTTCTCCAAAATTATGATTTTGTCCCCGAACATCCAAAAATTA
1 CCATTTTTACCCTCAAACTTCTCCAAAATTAT-ATTTTAACCCCAAACATCCAAAAATTA
* * *
43805110 CCA-TTTTGCCCTCAAAC--ATCCAAAATTACTATTTTACCCCCAAACATCCAAAAATTA
1 CCATTTTTACCCTCAAACTTCTCCAAAATTA-TATTTTAACCCCAAACATCCAAAAATTA
43805167 CCATTTT
1 CCATTTT
43805174 GCTCCCGAAC
Statistics
Matches: 154, Mismatches: 19, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
57 37 0.24
58 15 0.10
59 53 0.34
60 48 0.31
61 1 0.01
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (59 bp):
CCATTTTTACCCTCAAACTTCTCCAAAATTATATTTTAACCCCAAACATCCAAAAATTA
Found at i:43805144 original size:57 final size:56
Alignment explanation
Indices: 43805071--43805212 Score: 180
Period size: 57 Copynumber: 2.5 Consensus size: 56
43805061 CCCAAACTTC
*
43805071 TCCAAAATTA-TGATTTTGTCCCCGAACATCCAAAAATTACCATTTTGC-CCTCAAACA
1 TCCAAAATTACT-ATTTTG-CCCCAAACATCCAAAAATTACCATTTTGCTCC-CAAACA
* *
43805128 TCCAAAATTACTATTTTACCCCCAAACATCCAAAAATTACCATTTTGCTCCCGAACA
1 TCCAAAATTACTATTTT-GCCCCAAACATCCAAAAATTACCATTTTGCTCCCAAACA
*
43805185 TCCAAAAATTACCATTTTGCCCCTAAAC
1 TCC-AAAATTACTATTTTGCCCC-AAAC
43805213 TTCAATAAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
57 55 0.73
58 20 0.27
ACGTcount: A:0.36, C:0.30, G:0.05, T:0.29
Consensus pattern (56 bp):
TCCAAAATTACTATTTTGCCCCAAACATCCAAAAATTACCATTTTGCTCCCAAACA
Found at i:43806630 original size:7 final size:7
Alignment explanation
Indices: 43806618--43806642 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43806608 TTACATGTTA
43806618 ATAATTT
1 ATAATTT
43806625 ATAATTT
1 ATAATTT
43806632 ATAATTT
1 ATAATTT
43806639 ATAA
1 ATAA
43806643 CATTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
ATAATTT
Found at i:43806835 original size:30 final size:29
Alignment explanation
Indices: 43806755--43806924 Score: 141
Period size: 30 Copynumber: 5.8 Consensus size: 29
43806745 AGGGAATTTG
* *
43806755 GGGTCAAAATGTAACTTTGGAAAAATTTGA
1 GGGTCAAAATGTAATTTTGGAAAAGTTT-A
* *
43806785 GGGTCAAAATGTAATATTGGAAAAGTTTT
1 GGGTCAAAATGTAATTTTGGAAAAGTTTA
43806814 GGGTCAAAATGTAATTTTTGG--AAGTTTA
1 GGGTCAAAATGTAA-TTTTGGAAAAGTTTA
* * * *
43806842 GGGTTAAAATATGATTTT-TAGAAAGTTTA
1 GGGTCAAAATGTAATTTTGGA-AAAGTTTA
* * * *
43806871 GGGGTCAAAATATGATTTT-AAAAAGTTTG
1 -GGGTCAAAATGTAATTTTGGAAAAGTTTA
* *
43806900 GAGGTCAAAATGTGATTTTGAAAAA
1 G-GGTCAAAATGTAATTTTGGAAAA
43806925 ATCTAGGGGT
Statistics
Matches: 119, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
27 4 0.03
28 18 0.15
29 44 0.37
30 53 0.45
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.35
Consensus pattern (29 bp):
GGGTCAAAATGTAATTTTGGAAAAGTTTA
Found at i:43806923 original size:29 final size:28
Alignment explanation
Indices: 43806751--43806923 Score: 150
Period size: 29 Copynumber: 6.0 Consensus size: 28
43806741 TTTCAGGGAA
* *
43806751 TTTGGGGTCAAAATGTAACTTTGGAAAAA
1 TTTGGGGTCAAAATGTAA-TTTTGAAAAG
*
43806780 TTTGAGGGTCAAAATGTAATATTGGAAAAG
1 TTTG-GGGTCAAAATGTAAT-TTTGAAAAG
* *
43806810 TTTTGGGTCAAAATGTAATTTTTG-GAAG
1 TTTGGGGTCAAAATGTAA-TTTTGAAAAG
* * * * *
43806838 TTTAGGGTTAAAATATGATTTTTAGAAAG
1 TTTGGGGTCAAAATGTAATTTTGA-AAAG
* * *
43806867 TTTAGGGGTCAAAATATGATTTTAAAAAG
1 TTT-GGGGTCAAAATGTAATTTTGAAAAG
*
43806896 TTTGGAGGTCAAAATGTGATTTTGAAAA
1 TTTGG-GGTCAAAATGTAATTTTGAAAA
43806924 AATCTAGGGG
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
27 4 0.03
28 19 0.16
29 55 0.45
30 44 0.36
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (28 bp):
TTTGGGGTCAAAATGTAATTTTGAAAAG
Found at i:43806944 original size:32 final size:30
Alignment explanation
Indices: 43806868--43806960 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 30
43806858 TTTAGAAAGT
* *
43806868 TTAGG-GGTCAAAATATGATTTT-AAAAAG
1 TTAGGAGGTCAAAATGTGATTTTGAAAAAA
*
43806896 TTTGGAGGTCAAAATGTGATTTTGAAAAAA
1 TTAGGAGGTCAAAATGTGATTTTGAAAAAA
* *
43806926 TCTAGGGGTGTCAAAATGTGTTATTTGAATAAAA
1 T-TAGGAG-GTCAAAATGTGAT-TTTGAA-AAAA
43806960 T
1 T
43806961 AGGGTCTTCA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
28 4 0.08
29 16 0.30
30 6 0.11
31 4 0.08
32 12 0.23
33 6 0.11
34 5 0.09
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (30 bp):
TTAGGAGGTCAAAATGTGATTTTGAAAAAA
Found at i:43806964 original size:32 final size:31
Alignment explanation
Indices: 43806903--43806964 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 31
43806893 AAGTTTGGAG
43806903 GTCAAAATGTGATTTTGAAAAAATCTAGGGGT
1 GTCAAAATGTGATTTTGAAAAAA-CTAGGGGT
*
43806935 GTCAAAATGTGTTATTTGAATAAAA-TAGGG
1 GTCAAAATGTGAT-TTTGAA-AAAACTAGGG
43806965 TCTTCATGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 17 0.63
33 6 0.22
34 4 0.15
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (31 bp):
GTCAAAATGTGATTTTGAAAAAACTAGGGGT
Found at i:43808773 original size:30 final size:30
Alignment explanation
Indices: 43808737--43808797 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
43808727 CGGCGTTTTA
*
43808737 TCCATAAACGCCACTAATGATCTTTACCTT
1 TCCATAAACACCACTAATGATCTTTACCTT
* * *
43808767 TCCATAAACACCGCTATTGCTCTTTACCTT
1 TCCATAAACACCACTAATGATCTTTACCTT
43808797 T
1 T
43808798 TGCGGCATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.31, G:0.07, T:0.36
Consensus pattern (30 bp):
TCCATAAACACCACTAATGATCTTTACCTT
Found at i:43812166 original size:13 final size:13
Alignment explanation
Indices: 43812131--43812169 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
43812121 AAGTTTATTT
**
43812131 GAATTATTACATG
1 GAATTATTTTATG
43812144 GAACTTATTTTATG
1 GAA-TTATTTTATG
43812158 GAATTATTTTAT
1 GAATTATTTTAT
43812170 TCAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (13 bp):
GAATTATTTTATG
Found at i:43813651 original size:6 final size:6
Alignment explanation
Indices: 43813635--43813719 Score: 81
Period size: 6 Copynumber: 15.0 Consensus size: 6
43813625 TTTTGTTTAT
* * * * *
43813635 TTTAAA ATTAAT TTTAAA TTT-TA TTTAAA TTTAAA TTT-AT TTTAAG
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
43813681 TTTAAA TTT-AT TTTAAA TTTAAA TTT-AA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
43813720 AATGATATTA
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
4 2 0.03
5 16 0.25
6 45 0.71
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:43813662 original size:17 final size:17
Alignment explanation
Indices: 43813642--43813719 Score: 106
Period size: 17 Copynumber: 4.6 Consensus size: 17
43813632 TATTTTAAAA
*
43813642 TTAATTTTAAATTT-TAT
1 TTAAATTTAAATTTAT-T
43813659 TTAAATTTAAATTTATT
1 TTAAATTTAAATTTATT
*
43813676 TTAAGTTTAAATTTATT
1 TTAAATTTAAATTTATT
*
43813693 TTAAATTTAAATTTA-A
1 TTAAATTTAAATTTATT
43813709 TTAAATTTAAA
1 TTAAATTTAAA
43813720 AATGATATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
16 11 0.20
17 44 0.79
18 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (17 bp):
TTAAATTTAAATTTATT
Found at i:43813710 original size:11 final size:11
Alignment explanation
Indices: 43813630--43813719 Score: 76
Period size: 11 Copynumber: 8.0 Consensus size: 11
43813620 TTGGATTTTG
*
43813630 TTTATTTTAAA
1 TTTAATTTAAA
*
43813641 ATTAATTTTAAA
1 TTTAA-TTTAAA
*
43813653 TTTTATTTAAA
1 TTTAATTTAAA
*
43813664 TTTAAATTT-AT
1 TTT-AATTTAAA
43813675 TTTAAGTTTAAA
1 TTTAA-TTTAAA
*
43813687 TTTATTTTAAA
1 TTTAATTTAAA
43813698 TTTAAATTT-AA
1 TTT-AATTTAAA
*
43813709 TTAAATTTAAA
1 TTTAATTTAAA
43813720 AATGATATTA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
10 7 0.11
11 34 0.54
12 22 0.35
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:43813731 original size:34 final size:34
Alignment explanation
Indices: 43813659--43813736 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
43813649 TAAATTTTAT
* * * * *
43813659 TTAAATTTAAATTTATTTTAAGTTTAAATTTATT
1 TTAAATTTAAATTTATATTAAATTTAAAATGATA
43813693 TTAAATTTAAATTTA-ATTAAATTTAAAAATGATA
1 TTAAATTTAAATTTATATTAAATTT-AAAATGATA
*
43813727 TTAAAATTAA
1 TTAAATTTAA
43813737 TGAATTAAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
33 7 0.19
34 30 0.81
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (34 bp):
TTAAATTTAAATTTATATTAAATTTAAAATGATA
Found at i:43814501 original size:33 final size:33
Alignment explanation
Indices: 43814438--43814508 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
43814428 TTTCTATATT
*
43814438 ATTAATGATAATAATAATTGTAACTTAAATACA
1 ATTAATGATAATAATAATTGTAACTAAAATACA
* * * *
43814471 ATTAGTGATAATTAAT-ATTTTCACTAAAATAGA
1 ATTAATGATAA-TAATAATTGTAACTAAAATACA
43814504 ATTAA
1 ATTAA
43814509 AAAAAAAAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
33 27 0.87
34 4 0.13
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.38
Consensus pattern (33 bp):
ATTAATGATAATAATAATTGTAACTAAAATACA
Found at i:43814789 original size:11 final size:11
Alignment explanation
Indices: 43814773--43814797 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43814763 TATAATAAAG
43814773 AAAGAAAACAA
1 AAAGAAAACAA
43814784 AAAGAAAACAA
1 AAAGAAAACAA
43814795 AAA
1 AAA
43814798 AATAAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAGAAAACAA
Found at i:43815734 original size:29 final size:29
Alignment explanation
Indices: 43815689--43815794 Score: 87
Period size: 29 Copynumber: 3.6 Consensus size: 29
43815679 AAATTTTAGG
*
43815689 AAATTA-CATTCTAACCCCGATTTCACCAA
1 AAATTACCATT-TTACCCCGATTTCACCAA
*
43815718 AAATTACCATTTTACCCCTGAACTTT---CTA
1 AAATTACCATTTTACCCC-G-A-TTTCACCAA
*
43815747 AAA-TACCATTTTTAACCCCGGTTTCACCAA
1 AAATTACCA-TTTT-ACCCCGATTTCACCAA
*
43815777 AAATTACCGTTTTACCCC
1 AAATTACCATTTTACCCC
43815795 CGAACTCTCA
Statistics
Matches: 62, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
27 3 0.05
28 5 0.08
29 27 0.44
30 19 0.31
31 5 0.08
32 3 0.05
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (29 bp):
AAATTACCATTTTACCCCGATTTCACCAA
Found at i:43815806 original size:29 final size:29
Alignment explanation
Indices: 43815715--43815810 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 29
43815705 CCGATTTCAC
* *
43815715 CAAAAATTACCATTTTACCCCTGAACTTT
1 CAAAAATTACCATTTTACCCCCGAACTCT
* * *** *
43815744 CTAAAA-TACCATTTTTAACCCCGGTTTCAC
1 CAAAAATTACCA-TTTTACCCCCGAACTC-T
*
43815774 CAAAAATTACCGTTTTACCCCCGAACTCT
1 CAAAAATTACCATTTTACCCCCGAACTCT
43815803 CAAAAATT
1 CAAAAATT
43815811 TTATTTTTTA
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
28 5 0.10
29 23 0.47
30 17 0.35
31 4 0.08
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.31
Consensus pattern (29 bp):
CAAAAATTACCATTTTACCCCCGAACTCT
Found at i:43828077 original size:76 final size:76
Alignment explanation
Indices: 43827953--43828544 Score: 743
Period size: 76 Copynumber: 7.9 Consensus size: 76
43827943 GGAGCAAAGA
* * *
43827953 TCCTGTCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
1 TCCTATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGA
43828017 GCAAGATCA-T
66 GCAAGATCATT
43828027 TCTCTATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAG
1 TC-CTATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAG
*
43828092 AGC-A-A-C--G
65 AGCAAGATCATT
* * *
43828099 T-C-ATCCGCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTCATCTCTGAAATTGAAGTAGGA
1 TCCTATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGA
*
43828161 GCAAAGATCTTT
66 GC-AAGATCATT
* * * *
43828173 TCCTGTCCGCTTGAAATTGAAGTAGAATTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGA
1 TCCTATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGA
*
43828238 GC-A-A-C--G
66 GCAAGATCATT
* * * *
43828244 T-C-ATCCGCTTGTAATTGGAGCAGAGTTGGATATCAAGTCTTTATCTTTGAAATTGAAGTAAGA
1 TCCTATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGA
43828307 GCAACG-TCATT
66 GCAA-GATCATT
* *
43828318 TCCTATCCGCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGA
1 TCCTATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGA
*
43828383 GTAAGATCATT
66 GCAAGATCATT
* * *
43828394 TCCTATCCTCTCTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAG
1 TCCTATCCGCT-TGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAG
*
43828459 AGTAAGATCATT
65 AGCAAGATCATT
* * ** *
43828471 TCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCGTTGTCCCTCTGAAATTGAAATAA
1 TCCTATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTC-TT-TATCTCTGAAATTGAAGTAA
43828536 GAGCAAGAT
64 GAGCAAGAT
43828545 GAAGCACCGA
Statistics
Matches: 459, Mismatches: 36, Indels: 42
0.85 0.07 0.08
Matches are distributed among these distances:
68 36 0.08
69 78 0.17
70 4 0.01
71 2 0.00
72 3 0.01
73 2 0.00
74 6 0.01
75 29 0.06
76 160 0.35
77 114 0.25
78 25 0.05
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (76 bp):
TCCTATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGA
GCAAGATCATT
Found at i:43828081 original size:38 final size:37
Alignment explanation
Indices: 43827964--43828531 Score: 224
Period size: 38 Copynumber: 15.3 Consensus size: 37
43827954 CCTGTCCGCT
* *
43827964 TGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTC
1 TGAAATTGAAGTAGAGTGGATATCAAGTCTTTATCTC
** * * * *
43828001 TGAAATTGAAGTAAGAG-CAAGATC-ATTCTCTATCCGC
1 TGAAATTGAAGT-AGAGTGGATATCAAGTCTTTAT-CTC
43828038 TTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTC
1 -TGAAATTGAAGTAGAG-TGGATATCAAGTCTTTATCTC
* * * ***
43828077 TGAAATTGAAGTA-AGAGCA-A-C--GTCATCCGCT-
1 TGAAATTGAAGTAGAGTGGATATCAAGTCTTTATCTC
* *
43828108 TGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTC
1 TGAAATTGAAGTAGAGTGGATATCAAGTCTTTATCTC
*** * *** * * *
43828145 TGAAATTGAAGTAGGAGCAAAGATCTTTTCCTGT-CCGC
1 TGAAATTGAAGTA-GAGTGGATATCAAGT-CTTTATCTC
* * *
43828183 TTGAAATTGAAGTAGAATTGGATAACACGTCTTTATCTC
1 -TGAAATTGAAGTAG-AGTGGATATCAAGTCTTTATCTC
* * * ***
43828222 TGAAATTGAAGTA-AGAGCA-A-C--GTCATCCGCT-
1 TGAAATTGAAGTAGAGTGGATATCAAGTCTTTATCTC
* * * *
43828253 TGTAATTGGAGCAGAGTTGGATATCAAGTCTTTATCTT
1 TGAAATTGAAGTAGAG-TGGATATCAAGTCTTTATCTC
* * ** * *
43828291 TGAAATTGAAGTA-AGAGCA-ACGTCATTTC-CTATCCGC
1 TGAAATTGAAGTAGAGTGGATA--TCAAGTCTTTAT-CTC
*
43828328 TTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
1 -TGAAATTGAAGTAGAG-TGGATATCAAGTCTTTATCTC
* * ** **
43828367 TGAAATTGAAGTAAGAGT-AAGATCATTTCCTATCCTCTC
1 TGAAATTGAAGT-AGAGTGGATATCAAGT-CT-TTATCTC
*
43828406 TGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
1 TGAAATTGAAGTAGAG-TGGATATCAAGTCTTTATCTC
* * ** *
43828444 TGAAATTGAAGTAAGAGT-AAGATCATTTC-CTATCCTC
1 TGAAATTGAAGT-AGAGTGGATATCAAGTCTTTAT-CTC
* **
43828481 TTGAAATTGAAGTAAAGTTGGATATCAAGTCGTTGTCCCTC
1 -TGAAATTGAAGTAGAG-TGGATATCAAGTC-TT-TATCTC
43828522 TGAAATTGAA
1 TGAAATTGAA
43828532 ATAAGAGCAA
Statistics
Matches: 377, Mismatches: 109, Indels: 87
0.66 0.19 0.15
Matches are distributed among these distances:
31 23 0.06
32 18 0.05
33 3 0.01
34 4 0.01
35 4 0.01
36 26 0.07
37 69 0.18
38 127 0.34
39 70 0.19
40 28 0.07
41 4 0.01
42 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (37 bp):
TGAAATTGAAGTAGAGTGGATATCAAGTCTTTATCTC
Found at i:43828236 original size:145 final size:146
Alignment explanation
Indices: 43827958--43828541 Score: 777
Period size: 145 Copynumber: 4.0 Consensus size: 146
43827948 AAAGATCCTG
*
43827958 TCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGC-AA
1 TCCGCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAA
*
43828021 GATCA-TTCTCTATCCGCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAATTG
66 GATCATTTC-CTATCCGCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCTGAAATTG
43828085 AAGTAAGAGCAACGTCA
130 AAGTAAGAGCAACGTCA
* *
43828102 TCCGCTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTCATCTCTGAAATTGAAGTAGGAGCAAA
1 TCCGCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAA
* * * *
43828166 GATCTTTTCCTGTCCGCTTGAAATTGAAGTAGAA-TTGGATAACACGTCTTTATCTCTGAAATTG
66 GATCATTTCCTATCCGCTTGAAATTGAAGTA-AAGTTGGATATCAAGTCTTTATCTCTGAAATTG
43828230 AAGTAAGAGCAACGTCA
130 AAGTAAGAGCAACGTCA
* * * * * * *
43828247 TCCGCTTGTAATTGGAGCAGAGTTGGATATCAAGTCTTTATCTTTGAAATTGAAGTAAGAGCAAC
1 TCCGCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAA
*
43828312 G-TCATTTCCTATCCGCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGA
66 GATCATTTCCTATCCGCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCTGAAATTGA
* *
43828376 AGTAAGAGTAAGATCATTTCCTA
131 AGTAAGAG-CA-A-C--GT-C-A
* * * *
43828399 TCCTCTCTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAG-TA
1 TCCGCT-TGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
* **
43828463 AGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCGTTGTCCCTCTGAAAT
65 AGATCATTTCCTATCCGCTTGAAATTGAAGTAAAGTTGGATATCAAGTC-TT-TATCTCTGAAAT
*
43828528 TGAAATAAGAGCAA
128 TGAAGTAAGAGCAA
43828542 GATGAAGCAC
Statistics
Matches: 386, Mismatches: 38, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
144 60 0.16
145 154 0.40
146 43 0.11
147 1 0.00
148 1 0.00
150 1 0.00
151 1 0.00
152 8 0.02
153 94 0.24
154 3 0.01
155 20 0.05
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (146 bp):
TCCGCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAA
GATCATTTCCTATCCGCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCTGAAATTGA
AGTAAGAGCAACGTCA
Found at i:43828631 original size:92 final size:91
Alignment explanation
Indices: 43828465--43828636 Score: 290
Period size: 92 Copynumber: 1.9 Consensus size: 91
43828455 TAAGAGTAAG
* * *
43828465 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATATCAAGTCGTTGTCCCTCTGAAATTG
1 ATCATTTCATATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCGTTGTCCCTCTGAAATTG
43828530 AAATAAGAGCAAGATGAAGCACCGAC
66 AAATAAGAGCAAGATGAAGCACCGAC
*
43828556 ATCATTTTCATATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCTTTGTCCCTCTGAAATT
1 ATCA-TTTCATATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCGTTGTCCCTCTGAAATT
*
43828621 GAAGTAAGAGCAAGAT
65 GAAATAAGAGCAAGAT
43828637 CATTTCCTAT
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 4 0.05
92 71 0.95
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (91 bp):
ATCATTTCATATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGCCGTTGTCCCTCTGAAATTG
AAATAAGAGCAAGATGAAGCACCGAC
Found at i:43828985 original size:6 final size:6
Alignment explanation
Indices: 43828969--43829057 Score: 75
Period size: 6 Copynumber: 16.0 Consensus size: 6
43828959 TTTTGTTTAT
* * * * *
43828969 TTTAAA ATTAAT TTTAAA TTT-TA TTTAAA TTTAAA TTT-AT TTTAAG
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
43829015 TTTAAA TTT--A TTTAAA TTT-AT TTTAAA TTT-AA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
43829058 AATGATATTA
Statistics
Matches: 65, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
4 6 0.09
5 16 0.25
6 43 0.66
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:43828995 original size:11 final size:11
Alignment explanation
Indices: 43828981--43829054 Score: 59
Period size: 11 Copynumber: 6.8 Consensus size: 11
43828971 TAAAATTAAT
43828981 TTTAAATTTTA
1 TTTAAATTTTA
*
43828992 TTTAAATTTAAA
1 TTTAAATTT-TA
43829004 TTT--ATTTTAA
1 TTTAAATTTT-A
43829014 GTTTAAA-TTTA
1 -TTTAAATTTTA
43829025 TTTAAA-TTTA
1 TTTAAATTTTA
43829035 TTTTAAA-TTTA
1 -TTTAAATTTTA
*
43829046 ATTAAATTT
1 TTTAAATTT
43829055 AAAAATGATA
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
10 20 0.38
11 25 0.47
12 7 0.13
13 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (11 bp):
TTTAAATTTTA
Found at i:43828996 original size:17 final size:16
Alignment explanation
Indices: 43828976--43829034 Score: 82
Period size: 17 Copynumber: 3.6 Consensus size: 16
43828966 TATTTTAAAA
*
43828976 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
43828993 TTAAATTTAAATTTATT
1 TTAAATTTAAATTTA-T
*
43829010 TTAAGTTTAAATTTAT
1 TTAAATTTAAATTTAT
43829026 TTAAATTTA
1 TTAAATTTA
43829035 TTTTAAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
16 13 0.34
17 25 0.66
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:43829054 original size:27 final size:27
Alignment explanation
Indices: 43828973--43829057 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
43828963 GTTTATTTTA
* *
43828973 AAATTAATTTTAAATTTTATTTAAATTT
1 AAATTTATTTTAAA-TTTAATTAAATTT
* *
43829001 AAATTTATTTTAAGTTTAAATT-TATTT
1 AAATTTATTTTAAATTT-AATTAAATTT
43829028 AAATTTATTTTAAATTTAATTAAATTT
1 AAATTTATTTTAAATTTAATTAAATTT
43829055 AAA
1 AAA
43829058 AATGATATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
26 4 0.08
27 30 0.61
28 15 0.31
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (27 bp):
AAATTTATTTTAAATTTAATTAAATTT
Found at i:43829056 original size:10 final size:10
Alignment explanation
Indices: 43828982--43829056 Score: 60
Period size: 10 Copynumber: 7.0 Consensus size: 10
43828972 AAAATTAATT
*
43828982 TTAAATTTTAT
1 TTAAA-TTTAA
43828993 TTAAATTTAAA
1 TTAAATTT-AA
* *
43829004 TTTATTTTAA
1 TTAAATTTAA
*
43829014 GTTTAAATTTAT
1 --TTAAATTTAA
*
43829026 TTAAATTTATT
1 TTAAATTTA-A
43829037 TTAAATTTAA
1 TTAAATTTAA
43829047 TTAAATTTAA
1 TTAAATTTAA
43829057 AAATGATATT
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
10 24 0.45
11 22 0.42
12 7 0.13
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (10 bp):
TTAAATTTAA
Found at i:43830154 original size:18 final size:17
Alignment explanation
Indices: 43830128--43830163 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
43830118 ATAAAGAAAG
43830128 AAAAAAAAGAAAACAAA
1 AAAAAAAAGAAAACAAA
*
43830145 AAAAATAAAGAAAAGAAA
1 AAAAA-AAAGAAAACAAA
43830163 A
1 A
43830164 GGAAGGGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.86, C:0.03, G:0.08, T:0.03
Consensus pattern (17 bp):
AAAAAAAAGAAAACAAA
Found at i:43830907 original size:161 final size:163
Alignment explanation
Indices: 43830727--43831046 Score: 529
Period size: 164 Copynumber: 2.0 Consensus size: 163
43830717 AGCTTTCAAT
* * *
43830727 TTAGTCCTTTGACTGTTTGACTGTACC-AGAAGCTGCGATGTGTCACTTTTTGGCTTATTTATGC
1 TTAGTCCTTTGACTGTTTGACTGCACCAAG-AGCTGCCACGTGTCACTTTTTGGCTTATTTATGC
*
43830791 ATTTAGT-CCTGACA-TTTTTTATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTAT
65 ATTTAGTCCCTGACATTTTTTTATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTAC
* *
43830854 AAAATTGGCCCAAGAATTTTTCAAGGTTTTTAAA
130 AAAATTGGCCCAAAAATTTTTCAAAGTTTTTAAA
*
43830888 TTAGTCCTTTGACTGTTTGACTGCACCAAGGGCTGCCACGTGTCACTTTTTGGCTTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGCACCAAGAGCTGCCACGTGTCACTTTTTGGCTTATTTATGCA
*
43830953 TTTAGTCCCTGACATTTTTTTTATTTGTTTTAATTTAATCCCTAAATCTACTTTTATTTAATTAC
66 TTTAGTCCCTGACA-TTTTTTTATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTAC
43831018 AAAATTGGCCCAAAAATTTTTCAAAGTTT
130 AAAATTGGCCCAAAAATTTTTCAAAGTTT
43831047 ACAAATTAAT
Statistics
Matches: 147, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
161 64 0.44
162 9 0.06
164 74 0.50
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (163 bp):
TTAGTCCTTTGACTGTTTGACTGCACCAAGAGCTGCCACGTGTCACTTTTTGGCTTATTTATGCA
TTTAGTCCCTGACATTTTTTTATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTTAATTACA
AAATTGGCCCAAAAATTTTTCAAAGTTTTTAAA
Found at i:43831244 original size:59 final size:59
Alignment explanation
Indices: 43831180--43831334 Score: 170
Period size: 59 Copynumber: 2.6 Consensus size: 59
43831170 AATTACATTC
* * *
43831180 TAACCCCAATTTCACCGAAAATTACCATTTTACCCCCAAACTTTCTAAAATATC-A-TTTT
1 TAACCCCGATTTCACC-AAAATTACCATTTTACCCCCAAACTCTCAAAAAT-TCTATTTTT
* * *
43831239 TAACCCCGGTTTCACCAAAAATTACCGTTTTACCCCCGAACTCTCAAAAATTCTATTTTT
1 TAACCCCGATTTCACC-AAAATTACCATTTTACCCCCAAACTCTCAAAAATTCTATTTTT
* * * * *
43831299 TAATCCCGACTTCACCACAATTACCCTTTTGCCCCC
1 TAACCCCGATTTCACCAAAATTACCATTTTACCCCC
43831335 GGGTGTCCAA
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
58 2 0.02
59 62 0.77
60 17 0.21
ACGTcount: A:0.30, C:0.33, G:0.05, T:0.32
Consensus pattern (59 bp):
TAACCCCGATTTCACCAAAATTACCATTTTACCCCCAAACTCTCAAAAATTCTATTTTT
Found at i:43835167 original size:23 final size:22
Alignment explanation
Indices: 43835078--43835166 Score: 99
Period size: 23 Copynumber: 4.0 Consensus size: 22
43835068 GTTGGGGAAA
*
43835078 CAGTAAGCACACACAGTGCAAT
1 CAGTAGGCACACACAGTGCAAT
*
43835100 CCAGTAGGCACACACAATGCAAT
1 -CAGTAGGCACACACAGTGCAAT
* * *
43835123 CAGTAGGCGCACATAGCGCAAAT
1 CAGTAGGCACACACAGTGC-AAT
43835146 CAGTAGGCACACGA-AGTGCAA
1 CAGTAGGCACAC-ACAGTGCAA
43835167 AACAGTAAGC
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
22 17 0.30
23 38 0.68
24 1 0.02
ACGTcount: A:0.38, C:0.27, G:0.22, T:0.12
Consensus pattern (22 bp):
CAGTAGGCACACACAGTGCAAT
Found at i:43835172 original size:23 final size:23
Alignment explanation
Indices: 43835075--43835173 Score: 94
Period size: 23 Copynumber: 4.3 Consensus size: 23
43835065 AGTGTTGGGG
*
43835075 AAACAGTAAGCACACACAGTGCA
1 AAACAGTAGGCACACACAGTGCA
** *
43835098 ATCCAGTAGGCACACACAATGC-
1 AAACAGTAGGCACACACAGTGCA
* * * *
43835120 AATCAGTAGGCGCACATAGCGCA
1 AAACAGTAGGCACACACAGTGCA
*
43835143 AATCAGTAGGCACACGA-AGTGCA
1 AAACAGTAGGCACAC-ACAGTGCA
43835166 AAACAGTA
1 AAACAGTA
43835174 AGCGCGCTAG
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
22 16 0.26
23 44 0.72
24 1 0.02
ACGTcount: A:0.41, C:0.25, G:0.21, T:0.12
Consensus pattern (23 bp):
AAACAGTAGGCACACACAGTGCA
Found at i:43837477 original size:24 final size:24
Alignment explanation
Indices: 43837450--43837503 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
43837440 AGTTTGACTC
*
43837450 AAACAACTAAACAAAGTTTAATTG
1 AAACAAATAAACAAAGTTTAATTG
* *
43837474 AAACAAATAAATAGAGTTTAATT-
1 AAACAAATAAACAAAGTTTAATTG
43837497 AAA-AAAT
1 AAACAAAT
43837504 TATTTCTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 4 0.15
23 3 0.11
24 20 0.74
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (24 bp):
AAACAAATAAACAAAGTTTAATTG
Found at i:43837823 original size:15 final size:13
Alignment explanation
Indices: 43837789--43837814 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43837779 AATTAGAGAA
43837789 AACAAAAAAATCC
1 AACAAAAAAATCC
43837802 AACAAAAAAATCC
1 AACAAAAAAATCC
43837815 TTAGCAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.23, G:0.00, T:0.08
Consensus pattern (13 bp):
AACAAAAAAATCC
Found at i:43841924 original size:16 final size:16
Alignment explanation
Indices: 43841903--43841934 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43841893 ATATATTTTA
*
43841903 ATTATATTTATTAGTT
1 ATTATATTTAATAGTT
43841919 ATTATATTTAATAGTT
1 ATTATATTTAATAGTT
43841935 TTTTAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (16 bp):
ATTATATTTAATAGTT
Found at i:43843413 original size:31 final size:31
Alignment explanation
Indices: 43843378--43843436 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
43843368 GGTATAATTA
*
43843378 TATACCTGAAA-TTCTAATTGTGGTTTAAATG
1 TATACCTGAAACTT-TAATTGTGATTTAAATG
* *
43843409 TATACTTGAAACTTTAATTTTGATTTAA
1 TATACCTGAAACTTTAATTGTGATTTAA
43843437 TCATATGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.92
32 2 0.08
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (31 bp):
TATACCTGAAACTTTAATTGTGATTTAAATG
Found at i:43848994 original size:53 final size:53
Alignment explanation
Indices: 43848888--43849000 Score: 126
Period size: 53 Copynumber: 2.1 Consensus size: 53
43848878 AAAATATATT
* *
43848888 TACAAAATCATTAAAATTTACAAAAATAAAATAAAATATAAAATTCTTGAAAA
1 TACAAAATCATTAAAATTTACAAAAATAAAATAAAATATAAAATTCATAAAAA
* *
43848941 TATAAAATCATTAAAATTATTTA-AAAAATAGAAAT-AAA-CTAAAATT-ATAAAAA
1 TACAAAATCATT-AAA--ATTTACAAAAATA-AAATAAAATATAAAATTCATAAAAA
43848994 TACAAAA
1 TACAAAA
43849001 AAAAAACTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
53 22 0.43
54 10 0.20
55 10 0.20
56 9 0.18
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (53 bp):
TACAAAATCATTAAAATTTACAAAAATAAAATAAAATATAAAATTCATAAAAA
Found at i:43849011 original size:22 final size:23
Alignment explanation
Indices: 43848981--43849023 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
43848971 GAAATAAACT
*
43848981 AAAATTATA-AAAATACAAAAAA
1 AAAACTATATAAAATACAAAAAA
43849003 AAAACTATATAAAATACAAAA
1 AAAACTATATAAAATACAAAA
43849024 TTTACTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (23 bp):
AAAACTATATAAAATACAAAAAA
Found at i:43851688 original size:16 final size:17
Alignment explanation
Indices: 43851669--43851707 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
43851659 GAAAAGACCT
43851669 AAAATTATA-AAAATAC
1 AAAATTATAGAAAATAC
* *
43851685 AAAACTATAGAAAATAT
1 AAAATTATAGAAAATAC
43851702 AAAATT
1 AAAATT
43851708 TTACTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAATTATAGAAAATAC
Found at i:43861839 original size:59 final size:59
Alignment explanation
Indices: 43861747--43861888 Score: 239
Period size: 59 Copynumber: 2.4 Consensus size: 59
43861737 TCATACAATC
* * * *
43861747 ATGAAACTGTGATTCCATGTCATCATTATCCCTTCCCAATAAGAGTCTGGAGGGATTGT
1 ATGAAACTGTGATTCCATGTCATCATCATCCCTTCCCAATAAGAGTCTGAAAGGATTAT
43861806 ATGAAACTGTGATTCCATGTCATCATCATCCCTTCCCAATAAGAGTCTGAAAGGATTAT
1 ATGAAACTGTGATTCCATGTCATCATCATCCCTTCCCAATAAGAGTCTGAAAGGATTAT
*
43861865 ATGAAACTGTGATTTCATGTCATC
1 ATGAAACTGTGATTCCATGTCATC
43861889 CCTATCCCTA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 78 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (59 bp):
ATGAAACTGTGATTCCATGTCATCATCATCCCTTCCCAATAAGAGTCTGAAAGGATTAT
Found at i:43863816 original size:200 final size:200
Alignment explanation
Indices: 43863465--43863829 Score: 617
Period size: 200 Copynumber: 1.8 Consensus size: 200
43863455 CGATTTTTCG
* *
43863465 AGGAAGACGAATTTGGTCCACTTCTTGGTATCTCTTCAAGAAGCTAACCATTTTATTGCTTCGAC
1 AGGAAGACGAATTTAGTCCACTTCTTGGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGAC
*
43863530 CTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTTGCGTTGAGCGTTGAGTTGG
66 CTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTTGAGCGTTGAGTTGG
*
43863595 TATTCTTCTCTGTATCTCATCAGGAAGATGACCGCTTCGCTTGTTTTAATTCGTTTCTCTGGATC
131 TATACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCGCTTGTTTTAATTCGTTTCTCTGGATC
43863660 TCCTC
196 TCCTC
* *
43863665 AGGAAGACGAATTTAGTCCACTTCTCT-GTGTCTCATCAGGAAGCTAACC-TTTTATTGCTTCGA
1 AGGAAGACGAATTTAGTCCACTTCT-TGGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGA
*
43863728 CCTGCTTCTCAGTGTCTCATCAGGAAGTTGGGTTCGAAGATTGGCTCGCGTTGAGCGTTTGAGTT
65 CCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTTGAGCG-TTGAGTT
* *
43863793 GGTATACTTCTTTGTATCTCATCAGGAAGATTACCGC
129 GGTATACTTCTCTGTATCTCATCAGGAAGATGACCGC
43863830 CTCACTGTTT
Statistics
Matches: 154, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
199 69 0.45
200 84 0.55
201 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (200 bp):
AGGAAGACGAATTTAGTCCACTTCTTGGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGAC
CTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTCGAAGATTGGCTCGCGTTGAGCGTTGAGTTGG
TATACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCGCTTGTTTTAATTCGTTTCTCTGGATC
TCCTC
Found at i:43870418 original size:29 final size:29
Alignment explanation
Indices: 43870385--43870547 Score: 90
Period size: 30 Copynumber: 5.6 Consensus size: 29
43870375 TTTCGGGGGC
43870385 AAAAATGTAATTTTGGGAAAATTCGTGGTT
1 AAAAATGTAATTTTGGGAAAATTCG-GGTT
* *
43870415 AAAAATAG-AATTTT-GGAAAGTTCAGGGGT
1 AAAAAT-GTAATTTTGGGAAAATTC-GGGTT
43870444 -AAAATGATAATTTTTGGTG-AAA-TCGGGGTT
1 AAAAATG-TAA-TTTTGG-GAAAATTC-GGGTT
* * * *
43870474 AAAAATGGAATTTT-GGAAAGTTTGGGGT
1 AAAAATGTAATTTTGGGAAAATTCGGGTT
* * *
43870502 AAAAATGCAAATTTTGATG-AAA-TCGGGGTA
1 AAAAATG-TAATTTTG-GGAAAATTC-GGGTT
*
43870532 AAAAATGAAATTTTGG
1 AAAAATGTAATTTTGG
43870548 AAAGTTAAGG
Statistics
Matches: 103, Mismatches: 16, Indels: 30
0.69 0.11 0.20
Matches are distributed among these distances:
27 2 0.02
28 19 0.18
29 33 0.32
30 37 0.36
31 11 0.11
32 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (29 bp):
AAAAATGTAATTTTGGGAAAATTCGGGTT
Found at i:43870564 original size:29 final size:28
Alignment explanation
Indices: 43870380--43870564 Score: 121
Period size: 29 Copynumber: 6.3 Consensus size: 28
43870370 TTGACTTTCG
* * * *
43870380 GGGGCAAAAATGTAATTTTGGGAAAATTC
1 GGGGTAAAAATGAAATTTT-GGAAAGTTA
*
43870409 GTGGTTAAAAAT-AGAATTTTGGAAAGTTCA
1 G-GGGTAAAAATGA-AATTTTGGAAAGTT-A
*
43870439 GGGGT-AAAATGATAATTTTTGGTGAAA--TC
1 GGGGTAAAAATGA-AA-TTTT-G-GAAAGTTA
* *
43870468 GGGGTTAAAAATGGAATTTTGGAAAGTTT
1 GGGG-TAAAAATGAAATTTTGGAAAGTTA
*
43870497 GGGGTAAAAATGCAAATTTTGATGAAA--TC
1 GGGGTAAAAATG-AAATTTTG--GAAAGTTA
43870526 GGGGTAAAAAATGAAATTTTGGAAAGTTAA
1 GGGGT-AAAAATGAAATTTTGGAAAGTT-A
43870556 GGGGTAAAA
1 GGGGTAAAA
43870565 TGGTAATTTT
Statistics
Matches: 125, Mismatches: 13, Indels: 36
0.72 0.07 0.21
Matches are distributed among these distances:
27 8 0.06
28 14 0.11
29 53 0.42
30 35 0.28
31 11 0.09
32 4 0.03
ACGTcount: A:0.39, C:0.03, G:0.28, T:0.30
Consensus pattern (28 bp):
GGGGTAAAAATGAAATTTTGGAAAGTTA
Found at i:43870588 original size:29 final size:29
Alignment explanation
Indices: 43870439--43870596 Score: 109
Period size: 29 Copynumber: 5.4 Consensus size: 29
43870429 GGAAAGTTCA
43870439 GGGGT-AAAAT-GATAATTTTTGGTGAAATC
1 GGGGTAAAAATGGA-AA-TTTTGGTGAAATC
*
43870468 GGGGTTAAAAATGG-AATTTT-G-GAAAGTTT
1 GGGG-TAAAAATGGAAATTTTGGTGAAA--TC
* *
43870497 GGGGTAAAAATGCAAATTTTGATGAAATC
1 GGGGTAAAAATGGAAATTTTGGTGAAATC
*
43870526 GGGGTAAAAAAT-GAAATTTT-G-GAAAGTTAA
1 GGGGT-AAAAATGGAAATTTTGGTGAAA--T-C
*
43870556 GGGGT-AAAATGGTAATTTTTGGTGAAATC
1 GGGGTAAAAATGG-AAATTTTGGTGAAATC
*
43870585 GGGGTTAAAATG
1 GGGGTAAAAATG
43870597 TGATTTTCAA
Statistics
Matches: 103, Mismatches: 9, Indels: 33
0.71 0.06 0.23
Matches are distributed among these distances:
27 8 0.08
28 14 0.14
29 39 0.38
30 27 0.26
31 10 0.10
32 5 0.05
ACGTcount: A:0.37, C:0.03, G:0.29, T:0.31
Consensus pattern (29 bp):
GGGGTAAAAATGGAAATTTTGGTGAAATC
Found at i:43870596 original size:58 final size:57
Alignment explanation
Indices: 43870386--43870594 Score: 262
Period size: 59 Copynumber: 3.6 Consensus size: 57
43870376 TTCGGGGGCA
*
43870386 AAAATGTAA-TTTTGG-GAAAATTCGTGGTTAAAAAT-AGAATTTTGGAAAGTTCAGGGGT
1 AAAATGTAATTTTTGGTG-AAA-TCGGGGTTAAAAATGA-AATTTTGGAAAGTT-AGGGGT
* *
43870444 AAAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGT
1 AAAATG-TAATTTTTGGTGAAATCGGGGTTAAAAATGAAATTTTGGAAAGTTAGGGGT
* * * *
43870502 AAAAATGCAAATTTTGATGAAATCGGGGTAAAAAATGAAATTTTGGAAAGTTAAGGGGT
1 -AAAATGTAATTTTTGGTGAAATCGGGGTTAAAAATGAAATTTTGGAAAGTT-AGGGGT
43870561 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAA
1 AAAAT-GTAATTTTTGGTGAAATCGGGGTTAAAA
43870595 TGTGATTTTC
Statistics
Matches: 131, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
58 56 0.43
59 65 0.50
60 9 0.07
61 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.27, T:0.32
Consensus pattern (57 bp):
AAAATGTAATTTTTGGTGAAATCGGGGTTAAAAATGAAATTTTGGAAAGTTAGGGGT
Found at i:43870603 original size:58 final size:56
Alignment explanation
Indices: 43870386--43870603 Score: 219
Period size: 58 Copynumber: 3.8 Consensus size: 56
43870376 TTCGGGGGCA
* *
43870386 AAAAT-GTAA-TTTTGG-GAAAATTCGTGGTTAAAAATAGAATTTTGGAAAGTTCAGGGGT
1 AAAATGGTAATTTTTGGTG-AAA-TCGGGGTT-AAAAT-GGATTTTGGAAAGTT-AGGGGT
* *
43870444 AAAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGG-ATTTTGGAAAGTTAGGGGT
* * * * *
43870502 AAAAAT-GCAAATTTTGATGAAATCGGGGTAAAAAATGAAATTTTGGAAAGTTAAGGGGT
1 -AAAATGGTAATTTTTGGTGAAATCGGGGT-TAAAATG-GATTTTGGAAAGTT-AGGGGT
43870561 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGTGATTTT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATG-GATTTT
43870604 CAAAAAGTTG
Statistics
Matches: 134, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
58 65 0.49
59 59 0.44
60 9 0.07
61 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.33
Consensus pattern (56 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGATTTTGGAAAGTTAGGGGT
Found at i:43870611 original size:59 final size:56
Alignment explanation
Indices: 43870380--43870633 Score: 228
Period size: 59 Copynumber: 4.3 Consensus size: 56
43870370 TTGACTTTCG
* * *
43870380 GGGGCAAAAATGTAA-TTTTGG-GAAAATTCGTGGTTAAAAATAGAATTTTGGAAAGTTCA
1 GGGGTAAAAATGTAATTTTTGGTG-AAA-TCGGGGTT-AAAAT-GGATTTTGGAAAGTT-A
*
43870439 GGGGT-AAAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTT
1 GGGGTAAAAATG-TAATTTTTGGTGAAATCGGGGTT-AAAATGG-ATTTTGGAAAGTTA
* * * * *
43870497 GGGGTAAAAATGCAAATTTTGATGAAATCGGGGTAAAAAATGAAATTTTGGAAAGTTAA
1 GGGGTAAAAATGTAATTTTTGGTGAAATCGGGGT-TAAAATG-GATTTTGGAAAGTT-A
** *
43870556 GGGGT-AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGTGATTTTCAAAAAGTTGT
1 GGGGTAAAAAT-GTAATTTTTGGTGAAATCGGGGTTAAAATG-GATTTT-GGAAAGTT-A
*
43870615 GGGGTCAAAATGTAATTTT
1 GGGGTAAAAATGTAATTTT
43870634 CAAAAAGTTT
Statistics
Matches: 164, Mismatches: 20, Indels: 22
0.80 0.10 0.11
Matches are distributed among these distances:
58 66 0.40
59 83 0.51
60 14 0.09
61 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (56 bp):
GGGGTAAAAATGTAATTTTTGGTGAAATCGGGGTTAAAATGGATTTTGGAAAGTTA
Found at i:43870619 original size:30 final size:30
Alignment explanation
Indices: 43870585--43870663 Score: 122
Period size: 30 Copynumber: 2.6 Consensus size: 30
43870575 TGGTGAAATC
*
43870585 GGGGTTAAAATGTGATTTTCAAAAAGTTGT
1 GGGGTTAAAATGTAATTTTCAAAAAGTTGT
* *
43870615 GGGGTCAAAATGTAATTTTCAAAAAGTTTT
1 GGGGTTAAAATGTAATTTTCAAAAAGTTGT
*
43870645 GGGGTTAAAATATAATTTT
1 GGGGTTAAAATGTAATTTT
43870664 GGATAGTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (30 bp):
GGGGTTAAAATGTAATTTTCAAAAAGTTGT
Found at i:43870632 original size:117 final size:117
Alignment explanation
Indices: 43870380--43870633 Score: 329
Period size: 117 Copynumber: 2.2 Consensus size: 117
43870370 TTGACTTTCG
* * * *
43870380 GGGGCAAAAATGTAATTTTGGGAAAATTCGTGGTTAAAAATAGAATTTTGGAAAGTTCAGGGGTA
1 GGGGTAAAAATGTAATTTTGGGAAAATTCGGGGTAAAAAATAGAATTTTGGAAAGTTAAGGGGTA
**
43870445 AAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTT
66 AAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAAGTTT
* *
43870497 GGGGTAAAAATGCAAATTTTGATG-AAA-TCGGGGTAAAAAAT-GAAATTTTGGAAAGTTAAGGG
1 GGGGTAAAAATG-TAATTTTG-GGAAAATTCGGGGTAAAAAATAG-AATTTTGGAAAGTTAAGGG
*
43870559 GTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGTG-ATTTTCAAAAAGTTGT
63 GTAAAATGATAATTTTTGGTGAAATCGGGGTTAAAAATG-GAATTTT-AAAAAGTT-T
*
43870615 GGGGTCAAAATGTAATTTT
1 GGGGTAAAAATGTAATTTT
43870634 CAAAAAGTTT
Statistics
Matches: 120, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
116 12 0.10
117 85 0.71
118 22 0.18
119 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (117 bp):
GGGGTAAAAATGTAATTTTGGGAAAATTCGGGGTAAAAAATAGAATTTTGGAAAGTTAAGGGGTA
AAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAAGTTT
Found at i:43872568 original size:27 final size:27
Alignment explanation
Indices: 43872531--43872597 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
43872521 TAATTTTGAT
* * *
43872531 TTTAAGTTTAAAACTATTTTAAATGTA
1 TTTAAATTTAAAACAAATTTAAATGTA
*
43872558 TTTAAATTTAAAACAAATTTAAATTTA
1 TTTAAATTTAAAACAAATTTAAATGTA
**
43872585 AATAAATTTAAAA
1 TTTAAATTTAAAA
43872598 TCAATTCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (27 bp):
TTTAAATTTAAAACAAATTTAAATGTA
Found at i:43872598 original size:17 final size:17
Alignment explanation
Indices: 43872557--43872596 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
43872547 TTTTAAATGT
43872557 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
*
43872574 ATTTAAATTT-AAATAA
1 ATTTAAATTTAAAACAA
43872590 ATTTAAA
1 ATTTAAA
43872597 ATCAATTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:43872603 original size:27 final size:27
Alignment explanation
Indices: 43872560--43872612 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
43872550 TAAATGTATT
* *
43872560 TAAATTTAAAACAAATTTAAATTTAAA
1 TAAATTTAAAACAAATTCAAACTTAAA
43872587 TAAATTTAAAATC-AATTCAAACTTAA
1 TAAATTTAAAA-CAAATTCAAACTTAA
43872613 CTTAAAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (27 bp):
TAAATTTAAAACAAATTCAAACTTAAA
Found at i:43875897 original size:45 final size:45
Alignment explanation
Indices: 43875839--43876034 Score: 116
Period size: 45 Copynumber: 4.3 Consensus size: 45
43875829 GATATAAAGA
*
43875839 ATTATTAATTGGTTGAA-TATGTTAGAT-AAATCAAATGATAAGATG
1 ATTATT-ATTGGTTGAACTATGATAGATGAAAT-AAATGATAAGATG
* * * *
43875884 ATTGTTGATTGGTT-AACTATGATATATGATATGAATGATAAGATG
1 ATTATT-ATTGGTTGAACTATGATAGATGAAATAAATGATAAGATG
** * * * * *
43875929 ATTATTATTTGGTTG-AGGATGCTATATGATATGAATGACAAGATCG
1 ATTATTA-TTGGTTGAACTATGATAGATGAAATAAATGATAAGAT-G
* * * * * * *
43875975 -TTAGTATCTGATT-TACTATGCTATATGATATGAATGATAAGATG
1 ATTATTAT-TGGTTGAACTATGATAGATGAAATAAATGATAAGATG
43876019 ATTATTATTTGGTTGA
1 ATTATTA-TTGGTTGA
43876035 GAATGCTATA
Statistics
Matches: 122, Mismatches: 19, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
44 5 0.04
45 112 0.92
46 5 0.04
ACGTcount: A:0.35, C:0.04, G:0.20, T:0.40
Consensus pattern (45 bp):
ATTATTATTGGTTGAACTATGATAGATGAAATAAATGATAAGATG
Found at i:43876041 original size:45 final size:45
Alignment explanation
Indices: 43875872--43876062 Score: 224
Period size: 45 Copynumber: 4.2 Consensus size: 45
43875862 AGATAAATCA
* * *
43875872 AATGATAAGATGATTGTTGA-TTGGTTAACTATGATATATGATATG
1 AATGATAAGATGATTATT-ATTTGGTTGACTATGCTATATGATATG
**
43875917 AATGATAAGATGATTATTATTTGGTTGAGGATGCTATATGATATG
1 AATGATAAGATGATTATTATTTGGTTGACTATGCTATATGATATG
* * * * *
43875962 AATGACAAGATCG-TTAGTATCTGATTTACTATGCTATATGATATG
1 AATGATAAGAT-GATTATTATTTGGTTGACTATGCTATATGATATG
**
43876007 AATGATAAGATGATTATTATTTGGTTGAGAATGCTATATGATATG
1 AATGATAAGATGATTATTATTTGGTTGACTATGCTATATGATATG
**
43876052 AACAATAAGAT
1 AATGATAAGAT
43876063 AGTTAGTATC
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
44 2 0.02
45 119 0.98
46 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (45 bp):
AATGATAAGATGATTATTATTTGGTTGACTATGCTATATGATATG
Found at i:43876086 original size:45 final size:44
Alignment explanation
Indices: 43875896--43876093 Score: 189
Period size: 45 Copynumber: 4.4 Consensus size: 44
43875886 TGTTGATTGG
* * * *
43875896 TTAACTATGATATATGATATGAATGATAAGATGATTATTATTTGG
1 TTAACTATGCTATATGATATGAATGATAAGATG-TTAGTATCTGA
* ** *
43875941 TTGAGGATGCTATATGATATGAATGACAAGATCGTTAGTATCTGA
1 TTAACTATGCTATATGATATGAATGATAAGAT-GTTAGTATCTGA
* * * *
43875986 TTTACTATGCTATATGATATGAATGATAAGATGATTATTATTTGG
1 TTAACTATGCTATATGATATGAATGATAAGATG-TTAGTATCTGA
* ** ** *
43876031 TTGAGAATGCTATATGATATGAACAATAAGATAGTTAGTATCTAA
1 TTAACTATGCTATATGATATGAATGATAAGAT-GTTAGTATCTGA
*
43876076 TTAATTATGCTATATGAT
1 TTAACTATGCTATATGAT
43876094 GTGCTTGATA
Statistics
Matches: 123, Mismatches: 27, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
44 1 0.01
45 120 0.98
46 2 0.02
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (44 bp):
TTAACTATGCTATATGATATGAATGATAAGATGTTAGTATCTGA
Found at i:43876103 original size:90 final size:90
Alignment explanation
Indices: 43875896--43876093 Score: 315
Period size: 90 Copynumber: 2.2 Consensus size: 90
43875886 TGTTGATTGG
* *
43875896 TTAACTATGATATATGATATGAATGATAAGATGATTATTATTTGGTTGAGGATGCTATATGATAT
1 TTAACTATGCTATATGATATGAATGATAAGATGATTATTATTTGGTTGAGAATGCTATATGATAT
** * *
43875961 GAATGACAAGATCGTTAGTATCTGA
66 GAACAACAAGATAGTTAGTATCTAA
*
43875986 TTTACTATGCTATATGATATGAATGATAAGATGATTATTATTTGGTTGAGAATGCTATATGATAT
1 TTAACTATGCTATATGATATGAATGATAAGATGATTATTATTTGGTTGAGAATGCTATATGATAT
*
43876051 GAACAATAAGATAGTTAGTATCTAA
66 GAACAACAAGATAGTTAGTATCTAA
*
43876076 TTAATTATGCTATATGAT
1 TTAACTATGCTATATGAT
43876094 GTGCTTGATA
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 98 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (90 bp):
TTAACTATGCTATATGATATGAATGATAAGATGATTATTATTTGGTTGAGAATGCTATATGATAT
GAACAACAAGATAGTTAGTATCTAA
Found at i:43876116 original size:90 final size:90
Alignment explanation
Indices: 43875896--43876119 Score: 297
Period size: 90 Copynumber: 2.5 Consensus size: 90
43875886 TGTTGATTGG
* * *
43875896 TTAACTATGATATATGATATGAATGATAAGATGATTATTATTTGGTTGAGGATGCTATATGATAT
1 TTAACTATGCTATATGATATGAATGATAAGATAATTATTATTTGGTTGAGAATGCTATATGATAT
** * *
43875961 GAATGACAAGATCGTTAGTATCTGA
66 GAACAACAAGATAGTTAGTATCTAA
* *
43875986 TTTACTATGCTATATGATATGAATGATAAGATGATTATTATTTGGTTGAGAATGCTATATGATAT
1 TTAACTATGCTATATGATATGAATGATAAGATAATTATTATTTGGTTGAGAATGCTATATGATAT
*
43876051 GAACAATAAGATAGTTAGTATCTAA
66 GAACAACAAGATAGTTAGTATCTAA
* * ** *
43876076 TTAATTATGCTATATGATGTGCTTGATATGA-AATTCATTATTTG
1 TTAACTATGCTATATGATATGAATGATAAGATAATT-ATTATTTG
43876120 TTTATGTCAT
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
89 3 0.03
90 115 0.97
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (90 bp):
TTAACTATGCTATATGATATGAATGATAAGATAATTATTATTTGGTTGAGAATGCTATATGATAT
GAACAACAAGATAGTTAGTATCTAA
Found at i:43876300 original size:7 final size:7
Alignment explanation
Indices: 43876285--43876318 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
43876275 ATTTTACTGC
*
43876285 AGTTTTA
1 AGTTATA
43876292 AGTTATA
1 AGTTATA
43876299 AGTTATA
1 AGTTATA
43876306 AGTTATA
1 AGTTATA
43876313 A-TTATA
1 AGTTATA
43876319 TTGTGAAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (7 bp):
AGTTATA
Found at i:43881533 original size:25 final size:23
Alignment explanation
Indices: 43881503--43881548 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
43881493 GTTGGATTCA
43881503 AATTAAACTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
43881528 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
43881549 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:43882635 original size:17 final size:17
Alignment explanation
Indices: 43882601--43882638 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
43882591 TTTCTTCCAA
43882601 TTTCTTTTTCTTGATTTT
1 TTTCTTTTTCTT-ATTTT
43882619 TTTCTTTTTCTCT-TTTT
1 TTTCTTTTTCT-TATTTT
43882636 TTT
1 TTT
43882639 GAACAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 11 0.58
19 1 0.05
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTCTTTTTCTTATTTT
Found at i:43889354 original size:37 final size:38
Alignment explanation
Indices: 43889294--43889366 Score: 130
Period size: 37 Copynumber: 1.9 Consensus size: 38
43889284 AACAGTAGTG
*
43889294 ACCTCTAATGGAATTATGAGGTTTTTATATTGTAATCT
1 ACCTCTAATGGAATTATGAGGTTTTTATATTATAATCT
43889332 ACCTCTAATGG-ATTATGAGGTTTTTATATTATAAT
1 ACCTCTAATGGAATTATGAGGTTTTTATATTATAAT
43889367 GAAGCCTCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 23 0.68
38 11 0.32
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (38 bp):
ACCTCTAATGGAATTATGAGGTTTTTATATTATAATCT
Found at i:43889375 original size:38 final size:38
Alignment explanation
Indices: 43889294--43889376 Score: 123
Period size: 37 Copynumber: 2.2 Consensus size: 38
43889284 AACAGTAGTG
* *
43889294 ACCTCTAATGGAATTATGAGGTTTTTATATTGTAATCT
1 ACCTCTAATGGAATTATGAGGTTTTTATATTATAATCA
*
43889332 ACCTCTAATGG-ATTATGAGGTTTTTATATTATAATGA
1 ACCTCTAATGGAATTATGAGGTTTTTATATTATAATCA
43889369 AGCCTCTA
1 A-CCTCTA
43889377 TTTATTCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 24 0.59
38 17 0.41
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (38 bp):
ACCTCTAATGGAATTATGAGGTTTTTATATTATAATCA
Found at i:43891174 original size:21 final size:20
Alignment explanation
Indices: 43891148--43891210 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 20
43891138 AATGGAATAA
43891148 TTCTTGTTTAAATTGATTCT
1 TTCTTGTTTAAATTGATTCT
* * *
43891168 TCTCTTGTTTGAATGGATTCA
1 T-TCTTGTTTAAATTGATTCT
* * *
43891189 TTGTGGTTTAAATTTATTCT
1 TTCTTGTTTAAATTGATTCT
43891209 TT
1 TT
43891211 TTGGATCATT
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.19, C:0.10, G:0.14, T:0.57
Consensus pattern (20 bp):
TTCTTGTTTAAATTGATTCT
Found at i:43891396 original size:16 final size:16
Alignment explanation
Indices: 43891371--43891441 Score: 99
Period size: 16 Copynumber: 4.4 Consensus size: 16
43891361 TGAATTACTG
43891371 ATTACAATTCTATTCC
1 ATTACAATTCTATTCC
* *
43891387 ATTGCAATTCTATTCT
1 ATTACAATTCTATTCC
43891403 ATTACAATTCTATTCC
1 ATTACAATTCTATTCC
*
43891419 ATTACAGCTT-TATTCC
1 ATTACA-ATTCTATTCC
43891435 ATTACAA
1 ATTACAA
43891442 CGAATCAAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
16 46 0.96
17 2 0.04
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.44
Consensus pattern (16 bp):
ATTACAATTCTATTCC
Found at i:43892098 original size:20 final size:20
Alignment explanation
Indices: 43892073--43892123 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
43892063 TTCCAGTGAG
*
43892073 ACTTCTACCGGTAAAACTCC
1 ACTTCTACCGATAAAACTCC
* *
43892093 ACTTCTACCAATACAACTCC
1 ACTTCTACCGATAAAACTCC
*
43892113 ATTTCTACCGA
1 ACTTCTACCGA
43892124 AACCTTGAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.35, G:0.06, T:0.27
Consensus pattern (20 bp):
ACTTCTACCGATAAAACTCC
Done.