Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 71 of 438
Found at i:18656245 original size:71 final size:70
Alignment explanation
Indices: 18656044--18656241 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
18656034 CGATTTGTCT
* * * *
18656044 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18656109 CTTTCA
65 CTTTCA
* * * *
18656115 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18656180 CTTTCA
65 CTTTCA
* *
18656186 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
18656242 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:18663222 original size:71 final size:71
Alignment explanation
Indices: 18663138--18663301 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18663128 CGATTTGTCT
18663138 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18663203 CTTTCA
66 CTTTCA
18663209 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18663274 CTTTCA
66 CTTTCA
18663280 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18663302 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:18663339 original size:71 final size:70
Alignment explanation
Indices: 18663138--18663335 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
18663128 CGATTTGTCT
* * * *
18663138 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18663203 CTTTCA
65 CTTTCA
* * * *
18663209 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18663274 CTTTCA
65 CTTTCA
* *
18663280 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
18663336 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:18668381 original size:24 final size:25
Alignment explanation
Indices: 18668326--18668381 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
18668316 ATCTTATCCA
18668326 AGCTTAATAACAGGAAACTCATAAG
1 AGCTTAATAACAGGAAACTCATAAG
* **
18668351 AGTTTAA-AACA-GAAATCTCATTTG
1 AGCTTAATAACAGGAAA-CTCATAAG
18668375 AGCTTAA
1 AGCTTAA
18668382 CGGGATAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 4 0.15
24 16 0.62
25 6 0.23
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (25 bp):
AGCTTAATAACAGGAAACTCATAAG
Found at i:18673728 original size:25 final size:25
Alignment explanation
Indices: 18673700--18673758 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
18673690 TATCTCTCAT
18673700 GAGCTTACCATTAATCAACTCAGAG
1 GAGCTTACCATTAATCAACTCAGAG
* * *
18673725 GAGCTTACCATTATTCAGCTCGGAG
1 GAGCTTACCATTAATCAACTCAGAG
18673750 GAGCTTACC
1 GAGCTTACC
18673759 GTTTACAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (25 bp):
GAGCTTACCATTAATCAACTCAGAG
Found at i:18675189 original size:30 final size:30
Alignment explanation
Indices: 18675155--18675249 Score: 145
Period size: 30 Copynumber: 3.2 Consensus size: 30
18675145 TCACTTGACC
* *
18675155 GTGTGAGCCACACGGCTTGGCCACACGGCT
1 GTGTGAGTCACACAGCTTGGCCACACGGCT
*
18675185 GTGTGAGTCACACAACTTGGCCACACGGCT
1 GTGTGAGTCACACAGCTTGGCCACACGGCT
* *
18675215 GTGTGAGTCACACAGCTTGGCCACAAGGCC
1 GTGTGAGTCACACAGCTTGGCCACACGGCT
18675245 GTGTG
1 GTGTG
18675250 GCCCCTAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.20, C:0.29, G:0.32, T:0.19
Consensus pattern (30 bp):
GTGTGAGTCACACAGCTTGGCCACACGGCT
Found at i:18676736 original size:18 final size:18
Alignment explanation
Indices: 18676699--18676736 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
18676689 ATAAAATCAC
*
18676699 ATTTTTTACATTTAATAT
1 ATTTTTTACATTTAAAAT
18676717 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTACATTT-AAAAT
18676735 AT
1 AT
18676737 ATAGTGCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTTTACATTTAAAAT
Found at i:18679666 original size:22 final size:24
Alignment explanation
Indices: 18679624--18679668 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
18679614 TCACTTATCG
*
18679624 TTTCTTCCACTACATTCTCTAATA
1 TTTCTTCCAATACATTCTCTAATA
18679648 TTTCTTCCAAT-C-TTCTCTAAT
1 TTTCTTCCAATACATTCTCTAAT
18679669 GGCTAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 1 0.05
24 10 0.50
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTCTTCCAATACATTCTCTAATA
Found at i:18681798 original size:40 final size:40
Alignment explanation
Indices: 18681713--18681865 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
18681703 GGATATAGCG
* * * * ***
18681713 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * * *
18681753 GCTCGCATAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
18681793 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
18681833 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
18681866 CATCATTCGA
Statistics
Matches: 90, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
39 3 0.03
40 76 0.84
41 11 0.12
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:18687866 original size:29 final size:28
Alignment explanation
Indices: 18687835--18688021 Score: 239
Period size: 29 Copynumber: 6.5 Consensus size: 28
18687825 AATTTTCGTC
* *
18687835 ACCATCCCTTTTCATATTCAATGGTCGAC
1 ACCATCCCTTTTCATATTCGATGGTC-AA
*
18687864 ACCATCCCTTTTTATATTCGATGGTCGAA
1 ACCATCCCTTTTCATATTCGATGGTC-AA
* * *
18687893 ACCATCCCTTTTCATATTTGATGTTCATC
1 ACCATCCCTTTTCATATTCGATGGTCA-A
* * *
18687922 ACCCTCCCTTCTCATATTCGATGGTCATC
1 ACCATCCCTTTTCATATTCGATGGTCA-A
18687951 ACCATCCCTTTTCATATTCGATGGTCAA
1 ACCATCCCTTTTCATATTCGATGGTCAA
18687979 AGCCATCCCTTTTCATATTCGATGGTCAA
1 A-CCATCCCTTTTCATATTCGATGGTCAA
18688008 AGCCATCCCTTTTC
1 A-CCATCCCTTTTC
18688022 TTTAATCGGT
Statistics
Matches: 142, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
28 2 0.01
29 140 0.99
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.37
Consensus pattern (28 bp):
ACCATCCCTTTTCATATTCGATGGTCAA
Found at i:18687910 original size:58 final size:57
Alignment explanation
Indices: 18687734--18688021 Score: 274
Period size: 58 Copynumber: 4.9 Consensus size: 57
18687724 GAATGCTAAA
* * * * *
18687734 CGATGGTCAAAACCATCCCTTTTCTTTAATCGATGGTCGAAACCATTCCTTTTCTTTAAT
1 CGATGGTC-AAACCATCCCTTTT-TATATTCGATGGTCGAAACCATCCCTTTTC-ATATT
* * * ** **
18687794 CGATGGTCAAAACCATCCCTTTTCTTTAATCAATTTTCGTCACCATCCCTTTTCATATT
1 CGATGGTC-AAACCATCCCTTTT-TATATTCGATGGTCGAAACCATCCCTTTTCATATT
* *
18687853 CAATGGTCGACACCATCCCTTTTTATATTCGATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTC-AAACCATCCCTTTTTATATTCGATGGTCGAAACCATCCCTTTTCATATT
* * * * * * *
18687911 TGATGTTCATCACCCTCCCTTCTCATATTCGATGGTC-ATCACCATCCCTTTTCATATT
1 CGATGGTCA-AACCATCCCTTTTTATATTCGATGGTCGA-AACCATCCCTTTTCATATT
*
18687969 CGATGGTCAAAGCCATCCCTTTTCATATTCGATGGTC-AAAGCCATCCCTTTTC
1 CGATGGTCAAA-CCATCCCTTTTTATATTCGATGGTCGAAA-CCATCCCTTTTC
18688022 TTTAATCGGT
Statistics
Matches: 193, Mismatches: 31, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
57 4 0.02
58 118 0.61
59 23 0.12
60 48 0.25
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.38
Consensus pattern (57 bp):
CGATGGTCAAACCATCCCTTTTTATATTCGATGGTCGAAACCATCCCTTTTCATATT
Found at i:18687946 original size:87 final size:86
Alignment explanation
Indices: 18687745--18688002 Score: 293
Period size: 87 Copynumber: 2.9 Consensus size: 86
18687735 GATGGTCAAA
* * * * * * *
18687745 ACCATCCCTTTTCTTTAATCGATGGTCGAAACCATTCCTTTTCTTTAATCGATGGTCAAAACCAT
1 ACCATCCCTTCTC-ATATTCGATGGTCGACACCATCCCTTTT-TATATTCGATGGTC-AAACCAT
* * * * *
18687810 CCCTTTTCTTTAATCAATTTTCGTC
63 CCCTTTTC-ATATTCGATGTTCATC
* *
18687835 ACCATCCCTTTTCATATTCAATGGTCGACACCATCCCTTTTTATATTCGATGGTCGAAACCATCC
1 ACCATCCCTTCTCATATTCGATGGTCGACACCATCCCTTTTTATATTCGATGGTC-AAACCATCC
*
18687900 CTTTTCATATTTGATGTTCATC
65 CTTTTCATATTCGATGTTCATC
* *
18687922 ACCCTCCCTTCTCATATTCGATGGTC-ATCACCATCCCTTTTCATATTCGATGGTCAAAGCCATC
1 ACCATCCCTTCTCATATTCGATGGTCGA-CACCATCCCTTTTTATATTCGATGGTCAAA-CCATC
18687986 CCTTTTCATATTCGATG
64 CCTTTTCATATTCGATG
18688003 GTCAAAGCCA
Statistics
Matches: 147, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
86 4 0.03
87 80 0.54
88 27 0.18
89 23 0.16
90 13 0.09
ACGTcount: A:0.22, C:0.29, G:0.10, T:0.39
Consensus pattern (86 bp):
ACCATCCCTTCTCATATTCGATGGTCGACACCATCCCTTTTTATATTCGATGGTCAAACCATCCC
TTTTCATATTCGATGTTCATC
Found at i:18688017 original size:87 final size:85
Alignment explanation
Indices: 18687734--18688021 Score: 290
Period size: 87 Copynumber: 3.3 Consensus size: 85
18687724 GAATGCTAAA
* * * * * *
18687734 CGATGGTCAAAACCATCCCTTTTCTTTAATCGATGGTCGAAACCATTCCTTTTCTTTAATCGATG
1 CGATGGTC-AAACCATCCCTTTTC-ATATTCGATGGTCGACACCATCCCTTTTC-ATATTCGATG
* *
18687799 GTCAAAACCATCCCTTTTCTTTAAT
63 GTC-AAACCATCCCTTTTC-ATATT
* ** ** * *
18687824 CAATTTTCGTCACCATCCCTTTTCATATTCAATGGTCGACACCATCCCTTTTTATATTCGATGGT
1 CGATGGTC-AAACCATCCCTTTTCATATTCGATGGTCGACACCATCCCTTTTCATATTCGATGGT
18687889 CGAAACCATCCCTTTTCATATT
65 C-AAACCATCCCTTTTCATATT
* * * * *
18687911 TGATGTTCATCACCCTCCCTTCTCATATTCGATGGTC-ATCACCATCCCTTTTCATATTCGATGG
1 CGATGGTCA-AACCATCCCTTTTCATATTCGATGGTCGA-CACCATCCCTTTTCATATTCGATGG
18687975 TCAAAGCCATCCCTTTTCATATT
64 TCAAA-CCATCCCTTTTCATATT
18687998 CGATGGTCAAAGCCATCCCTTTTC
1 CGATGGTCAAA-CCATCCCTTTTC
18688022 TTTAATCGGT
Statistics
Matches: 164, Mismatches: 30, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
86 5 0.03
87 92 0.56
88 26 0.16
89 23 0.14
90 18 0.11
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.38
Consensus pattern (85 bp):
CGATGGTCAAACCATCCCTTTTCATATTCGATGGTCGACACCATCCCTTTTCATATTCGATGGTC
AAACCATCCCTTTTCATATT
Found at i:18689634 original size:43 final size:43
Alignment explanation
Indices: 18689569--18689761 Score: 235
Period size: 43 Copynumber: 4.5 Consensus size: 43
18689559 GATATGTGAT
* *
18689569 TGTGATTATGTGTAAGAACACGTCTGGGACATTGGCATCGATA
1 TGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCGATA
* * *
18689612 TGTGATTACGTATAAGACCACGTCTGGGACGTTGGCATTGATA
1 TGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCGATA
* * * * *
18689655 TGTGATTATGTGCAAGACCATGTCTGAGACGTTGGCATCGATA
1 TGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCGATA
* * *
18689698 TGTGATTACGTGTAAGACC-CTGTATGGGATAGTGGCATCGATA
1 TGTGATTACGTGTAAGACCAC-GTCTGGGACATTGGCATCGATA
* *
18689741 TGTGATTACATATAAGACCAC
1 TGTGATTACGTGTAAGACCAC
18689762 ATTTAAGACG
Statistics
Matches: 127, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
43 126 0.99
44 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCGATA
Found at i:18701259 original size:37 final size:37
Alignment explanation
Indices: 18701209--18701294 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
18701199 TTATTACGAA
18701209 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
18701246 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
18701283 GTCTCACCCGGA
1 GTCTTACCCGGA
18701295 ATATATTTCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:18701426 original size:48 final size:48
Alignment explanation
Indices: 18701343--18701610 Score: 428
Period size: 48 Copynumber: 5.6 Consensus size: 48
18701333 ACAACATTCT
* * * * *
18701343 CATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
* * * * * * *
18701391 CATTCGCCATTCGACTTTACGACATATACACATCTCATATATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
18701439 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
18701487 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
18701535 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
18701583 CATTAGCCATTCGGCTTTACCACATATA
1 CATTAGCCATTCGGCTTTACCACATATA
18701611 TACACTTTCA
Statistics
Matches: 205, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 205 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (48 bp):
CATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCA
Found at i:18701654 original size:47 final size:47
Alignment explanation
Indices: 18701588--18701710 Score: 219
Period size: 47 Copynumber: 2.6 Consensus size: 47
18701578 TTTCACATTA
* * *
18701588 GCCATTCGGCTTTACCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
18701635 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
18701682 GCCATTAGGCCTTATCACATATATACACT
1 GCCATTAGGCCTTATCACATATATACACT
18701711 ACGAGCTGTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
Found at i:18701670 original size:96 final size:96
Alignment explanation
Indices: 18701338--18701657 Score: 306
Period size: 96 Copynumber: 3.3 Consensus size: 96
18701328 AGGTTACAAC
* * * * * * * * * * *
18701338 ATTCTCATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCACATTCGCCATTC
1 ATTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATTC
* * * * * *
18701403 GACTTTACGACATATACACA-TCTCATATAT
66 GGCTTTACCACATATATACACTCACACATGT
* * * *
18701433 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATT
1 A-TTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATT
* *
18701498 CGGCTTTACCACATATACATA-TCACACATGT
65 CGGCTTTACCACATATATACACTCACACATGT
* * * *
18701529 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATT
1 A-TTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATT
**
18701594 CGGCTTTACCACATATATACACTTTCACAT-T
65 CGGCTTTACCACATATATACACTCACACATGT
* *
18701625 CA-TCACATCGGCCATTAGGCCTTATCACATATA
1 -ATTCACATCAGCCATTAGGCCTTACCACATATA
18701658 TACACTTTCA
Statistics
Matches: 200, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
95 27 0.14
96 166 0.83
97 7 0.04
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (96 bp):
ATTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATTC
GGCTTTACCACATATATACACTCACACATGT
Found at i:18701670 original size:144 final size:143
Alignment explanation
Indices: 18701338--18701657 Score: 356
Period size: 144 Copynumber: 2.2 Consensus size: 143
18701328 AGGTTACAAC
* * * * * * * * * * *
18701338 ATTCTCATTAGCCATTCGGCTTTACCACATATTCATATCTCATACGCATTTCACATTCGCCATTC
1 ATTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATTC
* * *
18701403 GACTTTACGACATATACACATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
66 GACTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
*
18701468 ATATCACACATGT
131 ACATCACACATGT
* * * *
18701481 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATT
1 A-TTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATT
* * *
18701546 CGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGCTTTACCACATATA
65 CGACTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATA
* **
18701611 TACACTTTCACAT-T
130 CACA-TCACACATGT
* *
18701625 CA-TCACATCGGCCATTAGGCCTTATCACATATA
1 -ATTCACATCAGCCATTAGGCCTTACCACATATA
18701658 TACACTTTCA
Statistics
Matches: 152, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
143 27 0.18
144 118 0.78
145 7 0.05
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (143 bp):
ATTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTTCACATTAGCCATTC
GACTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
ACATCACACATGT
Found at i:18704905 original size:40 final size:40
Alignment explanation
Indices: 18704860--18704989 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
18704850 CGGAATATAA
18704860 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
18704900 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
18704940 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
18704980 CCGGATATAA
1 CCGGATATAA
18704990 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:18712968 original size:26 final size:25
Alignment explanation
Indices: 18712908--18712970 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
18712898 ACCCTAAATT
* *
18712908 GATAAATGACTGTTATGCCCTATGA
1 GATAAATGACTATTATGCCCTATAA
*
18712933 GGTAGAATGACTATTATGCCCTTATAA
1 GATA-AATGACTATTATGCCC-TATAA
*
18712960 GATATATGACT
1 GATAAATGACT
18712971 GATTGAGCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 3 0.10
26 21 0.68
27 7 0.23
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (25 bp):
GATAAATGACTATTATGCCCTATAA
Found at i:18717027 original size:27 final size:27
Alignment explanation
Indices: 18716997--18717051 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
18716987 AATCATATTC
18716997 ATCAAAAATGCAATATTTAAGAATTTA
1 ATCAAAAATGCAATATTTAAGAATTTA
*
18717024 ATCAGAAATGCAATATTTAAGAATTTA
1 ATCAAAAATGCAATATTTAAGAATTTA
18717051 A
1 A
18717052 CACACAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (27 bp):
ATCAAAAATGCAATATTTAAGAATTTA
Found at i:18726494 original size:46 final size:46
Alignment explanation
Indices: 18726444--18726613 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 46
18726434 TTGAGCATCT
18726444 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
* * * *
18726490 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG--TCC
* *
18726537 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAT-TCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGT-CC
*
18726583 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
18726614 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 57 0.54
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
Found at i:18726597 original size:93 final size:93
Alignment explanation
Indices: 18726438--18726608 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
18726428 GGATGGTTGA
*
18726438 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
18726503 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
18726531 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAT-TCCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGT-CCGAACTCGTTGAG
18726595 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
18726609 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18726875 original size:19 final size:20
Alignment explanation
Indices: 18726838--18726875 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
18726828 ATAAGGTGGT
18726838 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
18726858 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
18726876 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:18728604 original size:20 final size:22
Alignment explanation
Indices: 18728581--18728620 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18728571 AATCTAAATT
18728581 TTAAATT-TT-AAAATAAAAAA
1 TTAAATTCTTAAAAATAAAAAA
18728601 TTAAATTCTTAAAAATAAAA
1 TTAAATTCTTAAAAATAAAA
18728621 GTAGAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (22 bp):
TTAAATTCTTAAAAATAAAAAA
Found at i:18732918 original size:21 final size:20
Alignment explanation
Indices: 18732893--18732955 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
18732883 AAATTGCAAA
18732893 AAAAAATCAAAATAATTTTT
1 AAAAAATCAAAATAATTTTT
18732913 AAAAAATCAAAATAATTTTT
1 AAAAAATCAAAATAATTTTT
* * *
18732933 -TAAATTCAAAAT-ATTTAT
1 AAAAAATCAAAATAATTTTT
18732951 AAAAA
1 AAAAA
18732956 TTTCAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 5 0.13
19 13 0.34
20 20 0.53
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAATCAAAATAATTTTT
Found at i:18732957 original size:19 final size:19
Alignment explanation
Indices: 18732893--18732955 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
18732883 AAATTGCAAA
18732893 AAAAAATCAAAATAATTTTT
1 AAAAAATCAAAATAA-TTTT
18732913 AAAAAATCAAAATAATTTT
1 AAAAAATCAAAATAATTTT
** *
18732932 TTAAATTCAAAAT-ATTTAT
1 AAAAAATCAAAATAATTT-T
18732951 AAAAA
1 AAAAA
18732956 TTTCAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.11
19 18 0.49
20 15 0.41
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAAATCAAAATAATTTT
Found at i:18732988 original size:10 final size:10
Alignment explanation
Indices: 18732973--18733048 Score: 70
Period size: 10 Copynumber: 7.7 Consensus size: 10
18732963 TTTTATAGTT
18732973 TTTAAAAAAA
1 TTTAAAAAAA
18732983 TTT---AAAA
1 TTTAAAAAAA
18732990 TTATAAAAAAA
1 TT-TAAAAAAA
18733001 TTCT-AAAAAA
1 TT-TAAAAAAA
*
18733011 TATAAAAAAA
1 TTTAAAAAAA
*
18733021 TTTTAAAAAA
1 TTTAAAAAAA
*
18733031 TTTTAAAAAA
1 TTTAAAAAAA
18733041 TTCTAAAA
1 TT-TAAAA
18733049 TAATAATTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
7 6 0.11
8 1 0.02
9 1 0.02
10 36 0.65
11 11 0.20
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:18733009 original size:20 final size:20
Alignment explanation
Indices: 18732975--18733048 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
18732965 TTATAGTTTT
18732975 TAAAAAAATT-T-AAAATTA
1 TAAAAAAATTCTAAAAATTA
*
18732993 TAAAAAAATTCTAAAAAATA
1 TAAAAAAATTCTAAAAATTA
*
18733013 TAAAAAAATTTTAAAAAATT-
1 TAAAAAAATTCT-AAAAATTA
*
18733033 TTAAAAAATTCTAAAA
1 TAAAAAAATTCTAAAA
18733049 TAATAATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
18 10 0.21
19 5 0.10
20 27 0.56
21 6 0.12
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAAAAATTCTAAAAATTA
Found at i:18734681 original size:38 final size:38
Alignment explanation
Indices: 18734607--18734679 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
18734597 AAAAACGCCG
18734607 CTAAAGAACAAGCATTAGCGGCGCTTTGTAAAAAAACA
1 CTAAAGAACAAGCATTAGCGGCGCTTTGTAAAAAAACA
**
18734645 CTAAAGAATGAGCATTAGCGGCGCTTT-TAAAAAAA
1 CTAAAGAACAAGCATTAGCGGCGCTTTGTAAAAAAA
18734680 ACGCCGCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
37 8 0.24
38 25 0.76
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (38 bp):
CTAAAGAACAAGCATTAGCGGCGCTTTGTAAAAAAACA
Found at i:18734709 original size:41 final size:41
Alignment explanation
Indices: 18734659--18734768 Score: 184
Period size: 41 Copynumber: 2.7 Consensus size: 41
18734649 AGAATGAGCA
18734659 TTAGCGGCGCTTTTAAAAAAAACGCCGCTAATGCTCGATCT
1 TTAGCGGCGCTTTTAAAAAAAACGCCGCTAATGCTCGATCT
18734700 TTAGCGGCGCTTTTAAAAAAAACGCCGCTAATGCTCGATCT
1 TTAGCGGCGCTTTTAAAAAAAACGCCGCTAATGCTCGATCT
* ** *
18734741 TTAGCGGCGTTTTTTTAAAAAGCGCCGC
1 TTAGCGGCGCTTTTAAAAAAAACGCCGC
18734769 AAAAAATTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (41 bp):
TTAGCGGCGCTTTTAAAAAAAACGCCGCTAATGCTCGATCT
Found at i:18735189 original size:22 final size:20
Alignment explanation
Indices: 18735120--18735189 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 20
18735110 ATTATAGCTT
*
18735120 AGGGTTTACGGTATATGGTTA
1 AGGGTTTAAGGT-TATGGTTA
*
18735141 AGGGTTTAATGTTTATGAGTTA
1 AGGGTTTAA-GGTTATG-GTTA
* *
18735163 TGGGTTTAGGGATTATGGTTTA
1 AGGGTTTAAGG-TTATGG-TTA
18735185 AGGGT
1 AGGGT
18735190 GGTTTAAGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
21 14 0.36
22 25 0.64
ACGTcount: A:0.23, C:0.01, G:0.34, T:0.41
Consensus pattern (20 bp):
AGGGTTTAAGGTTATGGTTA
Found at i:18735255 original size:15 final size:14
Alignment explanation
Indices: 18735214--18735248 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
18735204 GATTTAAGGT
*
18735214 TTAAGTGTTAGGGG
1 TTAAGGGTTAGGGG
18735228 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
18735242 TTCAAGG
1 TT-AAGG
18735249 TTCAGGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.23, C:0.03, G:0.43, T:0.31
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:18735292 original size:22 final size:22
Alignment explanation
Indices: 18735263--18735311 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
18735253 GGGTTTATGT
18735263 TTTA-AGATTTAT-AGTTTAGGG
1 TTTAGAGA-TTATGAGTTTAGGG
18735284 TTTAGAGATTATGAGTTTAGGG
1 TTTAGAGATTATGAGTTTAGGG
18735306 TTTAGA
1 TTTAGA
18735312 TTAATTAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.45
Consensus pattern (22 bp):
TTTAGAGATTATGAGTTTAGGG
Found at i:18735427 original size:14 final size:14
Alignment explanation
Indices: 18735410--18735448 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
18735400 ATTATTATAG
18735410 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
* *
18735424 TTTAGGGTATATGG
1 TTTAGGGTTTATGA
*
18735438 TTTAGAGTTTA
1 TTTAGGGTTTA
18735449 AAGTGTATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:18735503 original size:14 final size:15
Alignment explanation
Indices: 18735486--18735518 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
18735476 TATGGATTAT
*
18735486 GGTTTAAGGGTT-GG
1 GGTTTAAGGCTTAGG
18735500 GGTTTAAGGCTTAGG
1 GGTTTAAGGCTTAGG
18735515 GGTT
1 GGTT
18735519 AGAGGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.15, C:0.03, G:0.45, T:0.36
Consensus pattern (15 bp):
GGTTTAAGGCTTAGG
Found at i:18735590 original size:32 final size:32
Alignment explanation
Indices: 18735544--18735614 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
18735534 GGTTTACTTA
*
18735544 AGGA-TTAGACTTTATATATATTAAATGGTTT
1 AGGATTTAGACTTTATATATATTAAATGATTT
*
18735575 AGGATTTAGGCTTTATATATATTAAATGATTT
1 AGGATTTAGACTTTATATATATTAAATGATTT
18735607 AGGATTTA
1 AGGATTTA
18735615 AAGTTTACTT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
31 4 0.11
32 33 0.89
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (32 bp):
AGGATTTAGACTTTATATATATTAAATGATTT
Found at i:18739641 original size:26 final size:26
Alignment explanation
Indices: 18739612--18739719 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
18739602 TGATACAAAT
18739612 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
18739638 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18739664 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18739690 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18739716 TGAT
1 TGAT
18739720 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18740645 original size:37 final size:37
Alignment explanation
Indices: 18740585--18740678 Score: 152
Period size: 37 Copynumber: 2.5 Consensus size: 37
18740575 TCCCCACGCA
* *
18740585 TAGTTATCGGGTCTTACCTGGACAAAATCTCCACACG
1 TAGTCATCGGGTCTTACCCGGACAAAATCTCCACACG
* *
18740622 TAGTCATCGGGTCTTACCCGGACATAATCTCCACGCG
1 TAGTCATCGGGTCTTACCCGGACAAAATCTCCACACG
18740659 TAGTCATCGGGTCTTACCCG
1 TAGTCATCGGGTCTTACCCG
18740679 AAATATATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (37 bp):
TAGTCATCGGGTCTTACCCGGACAAAATCTCCACACG
Found at i:18740879 original size:48 final size:48
Alignment explanation
Indices: 18740821--18741350 Score: 925
Period size: 48 Copynumber: 11.0 Consensus size: 48
18740811 ATATACACAC
* *
18740821 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
18740869 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
18740917 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
18740965 ATCTTATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
18741013 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
18741061 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
18741109 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
18741157 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
18741205 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
18741253 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
18741301 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
18741349 AT
1 AT
18741351 TTATCTTGTA
Statistics
Matches: 461, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 461 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:18750208 original size:26 final size:26
Alignment explanation
Indices: 18750179--18750291 Score: 181
Period size: 26 Copynumber: 4.3 Consensus size: 26
18750169 TGATACAAAT
18750179 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
18750205 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18750231 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
18750257 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18750283 TGATAATGG
1 TGATAATGG
18750292 ATGAAATATG
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18753819 original size:44 final size:44
Alignment explanation
Indices: 18753756--18753844 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
18753746 GCTATCGCTT
18753756 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
1 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
18753800 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
1 TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
18753844 T
1 T
18753845 GATGCTATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (44 bp):
TCATTTAGGTGTCAACTTTATTTTAACAGATGTTATGCCTTATA
Found at i:18755682 original size:19 final size:21
Alignment explanation
Indices: 18755654--18755701 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
18755644 TTATTATTTA
18755654 TTTTAGTTTTGATTCTAA-AT
1 TTTTAGTTTTGATTCTAATAT
* *
18755674 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTCTAATAT
18755694 TTTTAGTT
1 TTTTAGTT
18755702 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTCTAATAT
Found at i:18757427 original size:40 final size:41
Alignment explanation
Indices: 18757383--18757474 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
18757373 AAAAACGAGC
* *
18757383 ATTAGCGGCTCTTATAAG-GAAACGCCGCTATATG-TTGAGA
1 ATTAGCGGCGCTTATAAGAGAAACGCCGCTATA-GCTTGACA
* *
18757423 ATTAGCGGCGCTTATATGAGAAACGCCGCTATAGCTTGACC
1 ATTAGCGGCGCTTATAAGAGAAACGCCGCTATAGCTTGACA
18757464 ATTAGCGGCGC
1 ATTAGCGGCGC
18757475 CTTGGAGAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
40 17 0.37
41 29 0.63
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (41 bp):
ATTAGCGGCGCTTATAAGAGAAACGCCGCTATAGCTTGACA
Found at i:18758161 original size:35 final size:36
Alignment explanation
Indices: 18758096--18758186 Score: 132
Period size: 35 Copynumber: 2.5 Consensus size: 36
18758086 GGTCGGGTTA
18758096 GGGTTTAAGGGTTTAGGGTTAAGGGTTTATGGTTTAG
1 GGGTTT-AGGGTTTAGGGTTAAGGGTTTATGGTTTAG
*
18758133 GTG-TTAGGGGTTTAGGG-TAAGGGTTTATGGTTTAG
1 GGGTTTA-GGGTTTAGGGTTAAGGGTTTATGGTTTAG
*
18758168 GGGTTTAGGGTTTATGGTT
1 GGGTTTAGGGTTTAGGGTT
18758187 TATGTGTGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
35 30 0.62
36 16 0.33
37 2 0.04
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.42
Consensus pattern (36 bp):
GGGTTTAGGGTTTAGGGTTAAGGGTTTATGGTTTAG
Found at i:18758190 original size:7 final size:7
Alignment explanation
Indices: 18758093--18758188 Score: 97
Period size: 7 Copynumber: 13.4 Consensus size: 7
18758083 TAGGGTCGGG
18758093 TTAGGGT
1 TTAGGGT
18758100 TTAAGGGT
1 TT-AGGGT
18758108 TTAGGGT
1 TTAGGGT
*
18758115 TAAGGGT
1 TTAGGGT
*
18758122 TTATGGT
1 TTAGGGT
18758129 TTA-GGT
1 TTAGGGT
18758135 GTTAGGGGT
1 -TTA-GGGT
18758144 TTAGGG-
1 TTAGGGT
*
18758150 TAAGGGT
1 TTAGGGT
*
18758157 TTATGGT
1 TTAGGGT
18758164 TTAGGGGT
1 TTA-GGGT
18758172 TTAGGGT
1 TTAGGGT
*
18758179 TTATGGT
1 TTAGGGT
18758186 TTA
1 TTA
18758189 TGTGTGTATT
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
6 8 0.11
7 48 0.64
8 16 0.21
9 3 0.04
ACGTcount: A:0.18, C:0.00, G:0.40, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Found at i:18759194 original size:158 final size:157
Alignment explanation
Indices: 18758974--18759315 Score: 379
Period size: 158 Copynumber: 2.2 Consensus size: 157
18758964 GAGATTAGTG
* * * * * *
18758974 GCGTTTTTTAAAAAAACGCCGCAAAAAAACAGTATAGTTGAAAGAAAATGGCATCATTTTAGT-T
1 GCGTTTTTTAAATAAACGCCAC-AAAAGATAGTTTAGTTGAAAGAAAATGGCACCATTTTAGTAT
* *
18759038 GGAT-AGAGTATTAGTGGCG-TTTTGAAAAACGCCGCAACAGAAGTAAAGTGTACTGGA-AGCCT
65 --ATGAGAGTATTAGTGGAGCTTTT-AAAAACGCCGCAAAAGAAGTAAAGTGTACTGGACA-CCT
*
18759100 CATCGTTTTAGATGAATATATAGGGGATTAGCA
126 CATCATTTTAGATGAATATATA-GGGATTAGCA
* * * * *
18759133 GCGTTTTTATAGA-AAACGCCATAAAAGATAGTTTAGTTTAAAGAAAATGGCCCCGTTTTAGTAT
1 GCGTTTTT-TAAATAAACGCCACAAAAGATAGTTTAGTTGAAAGAAAATGGCACCATTTTAGTAT
* * * * * * *
18759197 ATGAGGGTATTAGTGGAGCTTTTAAAAACGCCGCAAAATAATTAAAGTTTACTGTACACGTCGTC
65 ATGAGAGTATTAGTGGAGCTTTTAAAAACGCCGCAAAAGAAGTAAAGTGTACTGGACACCTCATC
* *
18759262 ATTTTAGTTGAATATATAGGGATTAGCG
130 ATTTTAGATGAATATATAGGGATTAGCA
18759290 GCGTTTTTTAAATAAACGCCACAAAA
1 GCGTTTTTTAAATAAACGCCACAAAA
18759316 AAATTAGTGC
Statistics
Matches: 153, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
156 3 0.02
157 31 0.20
158 95 0.62
159 21 0.14
160 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (157 bp):
GCGTTTTTTAAATAAACGCCACAAAAGATAGTTTAGTTGAAAGAAAATGGCACCATTTTAGTATA
TGAGAGTATTAGTGGAGCTTTTAAAAACGCCGCAAAAGAAGTAAAGTGTACTGGACACCTCATCA
TTTTAGATGAATATATAGGGATTAGCA
Found at i:18759899 original size:2 final size:2
Alignment explanation
Indices: 18759894--18759919 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18759884 TTGTTCCAAA
18759894 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
18759920 TCTGATCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18760406 original size:28 final size:28
Alignment explanation
Indices: 18760370--18760466 Score: 169
Period size: 28 Copynumber: 3.5 Consensus size: 28
18760360 TATCATATGA
18760370 ATCT-TATGGTTTGGGAGTGATAAATAT
1 ATCTGTATGGTTTGGGAGTGATAAATAT
18760397 ATCTGTATGGTTTGGGAGTGATAAATAT
1 ATCTGTATGGTTTGGGAGTGATAAATAT
18760425 ATCTGTATGGTTTGGGAGTGATAAATAT
1 ATCTGTATGGTTTGGGAGTGATAAATAT
*
18760453 ATCTATATTGGTTT
1 ATCTGTA-TGGTTT
18760467 TTCCTTGTTT
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
27 4 0.06
28 57 0.85
29 6 0.09
ACGTcount: A:0.28, C:0.04, G:0.26, T:0.42
Consensus pattern (28 bp):
ATCTGTATGGTTTGGGAGTGATAAATAT
Found at i:18761126 original size:8 final size:8
Alignment explanation
Indices: 18761113--18761170 Score: 57
Period size: 8 Copynumber: 7.4 Consensus size: 8
18761103 TGATTATGAT
18761113 AATAGTGG
1 AATAGTGG
18761121 AATAGTGG
1 AATAGTGG
*
18761129 AATAGTGT
1 AATAGTGG
18761137 AAT--TGCG
1 AATAGTG-G
* *
18761144 TATAGTGT
1 AATAGTGG
*
18761152 AATAGTGT
1 AATAGTGG
18761160 AATAGTGG
1 AATAGTGG
18761168 AAT
1 AAT
18761171 TTTTTGATTG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
6 2 0.05
7 2 0.05
8 35 0.85
9 2 0.05
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (8 bp):
AATAGTGG
Found at i:18761953 original size:99 final size:99
Alignment explanation
Indices: 18761829--18762112 Score: 452
Period size: 99 Copynumber: 2.9 Consensus size: 99
18761819 ATGTTTACTT
*
18761829 AAATTAACAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
* *
18761894 TTTTATTTTTATATTACCTAATTTTTAAGTTAAC
66 TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
18761928 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
18761993 TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
66 TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
** *
18762027 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAATGTTTAAAAT-ATT--TTGT--CTACTT
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAA-GTTTAATGTCATTAATT-TAAATA-TT
18762087 TTATTTTATTTTTAAATTACCTAATT
63 TTATTTTATTTTTAAATTACCTAATT
18762113 AAATTAAATT
Statistics
Matches: 176, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
96 2 0.01
97 30 0.17
98 1 0.01
99 136 0.77
100 7 0.04
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.43
Consensus pattern (99 bp):
AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
Found at i:18762031 original size:16 final size:16
Alignment explanation
Indices: 18761997--18762031 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18761987 ATTTTATTTT
* *
18761997 ATTTTTAAATTACCTA
1 ATTTTTAAATTAACAA
18762013 ATTTTTAAATTAACAA
1 ATTTTTAAATTAACAA
18762029 ATT
1 ATT
18762032 AATAAATGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTTTAAATTAACAA
Found at i:18762227 original size:5 final size:5
Alignment explanation
Indices: 18762219--18762243 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18762209 GTATTTAAAG
18762219 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
18762244 ATCAGGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:18762318 original size:5 final size:5
Alignment explanation
Indices: 18762310--18762334 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18762300 GTATTTAAAG
18762310 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
18762335 ATCACGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:18762364 original size:187 final size:185
Alignment explanation
Indices: 18762133--18762516 Score: 621
Period size: 187 Copynumber: 2.1 Consensus size: 185
18762123 GTATTTAAAG
*
18762133 TTTTATTTTATTTTAATCACGAAAAAACTTTTGTCAAATTTTATTTTATTTTTAAATTACCTAAT
1 TTTTATTTTATTTTAATCACGAAAAAACCTTTGTCAAATTTTATTTTATTTTTAAATTACCTAAT
*
18762198 TAAATTAAATTGTATTTAAAGTTTTATTTTATTTTATTTTATTTTAATCAGGAAAAAA-TTTGTC
66 TAAAGTAAATTGTATTTAAA----T-TTTTATTTTATTTTATTTTAATCAGGAAAAAACTTTGTC
*
18762262 TACTTTTA-TT-TTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTA
126 TACTTTTATTTATTTTTAAATTACCTAAATAAATTAAATTGTATTTAAAGTTTTATTTTA
* *
18762320 TTTTATTTTATTTTAATCACGAAAAAACCTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
1 TTTTATTTTATTTTAATCACGAAAAAACCTTTGTCAAATTTTATTTTATTTTTAAATTACCTAAT
*
18762385 TAAAGTAAATTGTATTTAAATTTTTATTTTATTTTATTTTAATCTGGAAAAAACTTTTGTCTACT
66 TAAAGTAAATTGTATTTAAATTTTTATTTTATTTTATTTTAATCAGGAAAAAAC-TTTGTCTACT
*
18762450 TTTATTTTATTTTTAAATTACCTAAATAAATTAAATTGTATTTAAATTTTTATTTTA
130 TTTA-TTTATTTTTAAATTACCTAAATAAATTAAATTGTATTTAAAGTTTTATTTTA
18762507 TTTTATTTTA
1 TTTTATTTTA
18762517 ATCATGAAAA
Statistics
Matches: 185, Mismatches: 7, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
182 31 0.17
183 1 0.01
184 14 0.08
186 2 0.01
187 137 0.74
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (185 bp):
TTTTATTTTATTTTAATCACGAAAAAACCTTTGTCAAATTTTATTTTATTTTTAAATTACCTAAT
TAAAGTAAATTGTATTTAAATTTTTATTTTATTTTATTTTAATCAGGAAAAAACTTTGTCTACTT
TTATTTATTTTTAAATTACCTAAATAAATTAAATTGTATTTAAAGTTTTATTTTA
Found at i:18762453 original size:43 final size:42
Alignment explanation
Indices: 18762315--18762462 Score: 113
Period size: 43 Copynumber: 3.3 Consensus size: 42
18762305 TAAAGTTTTA
* *
18762315 TTTTATTTTATTTTATTTTAATCACGAAAAAACCTTTGTCTAC
1 TTTTATTTTATTTTATTTTAATC-TGAAAAAACTTTTGTCTAC
* * ** *
18762358 TTTTATTTTATTTTTAAATTACCTAAT-T-AAAGTAAA-TTGTATTTAAAT
1 TTTTATTTTA-TTTT--ATT--TTAATCTGAAA--AAACTT-T-TGTCTAC
18762406 TTTTATTTTATTTTATTTTAATCTGGAAAAAACTTTTGTCTAC
1 TTTTATTTTATTTTATTTTAATCT-GAAAAAACTTTTGTCTAC
18762449 TTTTATTTTATTTT
1 TTTTATTTTATTTT
18762463 TAAATTACCT
Statistics
Matches: 80, Mismatches: 12, Indels: 26
0.68 0.10 0.22
Matches are distributed among these distances:
43 31 0.39
44 9 0.11
45 8 0.10
46 7 0.09
47 8 0.10
48 17 0.21
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.57
Consensus pattern (42 bp):
TTTTATTTTATTTTATTTTAATCTGAAAAAACTTTTGTCTAC
Found at i:18762517 original size:91 final size:91
Alignment explanation
Indices: 18762075--18762531 Score: 664
Period size: 91 Copynumber: 5.0 Consensus size: 91
18762065 GTTTAAAATA
*
18762075 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAA-----GTT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAATTTTTATT
18762135 TTATTTTATTTTAATCACGAAAAAAC
66 TTATTTTATTTTAATCACGAAAAAAC
* *
18762161 TTTTGTCAAATTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAA----T-TT
*
18762226 TTATTTTATTTTATTTTAATCAGGAAAAAA-
61 TTATTTTATTTTATTTTAATCACGAAAAAAC
18762256 -TTTGTCTACTTTTA--TT-TTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAA----T-TT
18762317 TTATTTTATTTTATTTTAATCACGAAAAAAC
61 TTATTTTATTTTATTTTAATCACGAAAAAAC
* *
18762348 CTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAATTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAATTTTTATT
**
18762413 TTATTTTATTTTAATCTGGAAAAAAC
66 TTATTTTATTTTAATCACGAAAAAAC
*
18762439 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAATAAATTAAATTGTATTTAAATTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAATTTTTATT
*
18762504 TTATTTTATTTTAATCATGAAAAAAC
66 TTATTTTATTTTAATCACGAAAAAAC
18762530 TT
1 TT
18762532 GTAAATAATT
Statistics
Matches: 341, Mismatches: 15, Indels: 25
0.90 0.04 0.07
Matches are distributed among these distances:
86 55 0.16
91 193 0.57
92 3 0.01
93 14 0.04
94 12 0.04
95 2 0.01
96 62 0.18
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (91 bp):
TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAATTTTTATT
TTATTTTATTTTAATCACGAAAAAAC
Found at i:18762721 original size:9 final size:9
Alignment explanation
Indices: 18762709--18762815 Score: 83
Period size: 9 Copynumber: 11.7 Consensus size: 9
18762699 AAATATATAT
*
18762709 CATATTTTA
1 CATAATTTA
18762718 CATAATTTA
1 CATAATTTA
*
18762727 CATAACTTA
1 CATAATTTA
18762736 CATAATATATA
1 CATAAT-T-TA
* *
18762747 AAT-ATATA
1 CATAATTTA
18762755 TCAT-ATCTTA
1 -CATAAT-TTA
18762765 CATAATTTA
1 CATAATTTA
**
18762774 CATAATTCG
1 CATAATTTA
* *
18762783 GATAACTTA
1 CATAATTTA
18762792 CATAATTTA
1 CATAATTTA
*
18762801 CATAACTTA
1 CATAATTTA
18762810 CATAAT
1 CATAAT
18762816 ACATAAATAT
Statistics
Matches: 76, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
8 2 0.03
9 63 0.83
10 7 0.09
11 4 0.05
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (9 bp):
CATAATTTA
Found at i:18767907 original size:13 final size:14
Alignment explanation
Indices: 18767891--18767919 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18767881 TTATAAATAT
18767891 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
18767904 TTATAATGGTTTAA
1 TTATAATGGTTTAA
18767918 TT
1 TT
18767920 CGTTGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:18768356 original size:21 final size:21
Alignment explanation
Indices: 18768332--18768400 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
18768322 TAGAGCAGAG
*
18768332 GCAGCAGAGAGGGAGGCAGCA
1 GCAGCAGCGAGGGAGGCAGCA
18768353 GCAGCAGCGAGGGAGGCAGC-
1 GCAGCAGCGAGGGAGGCAGCA
*
18768373 GACAGCAGCGAGAGAGGCAG-A
1 G-CAGCAGCGAGGGAGGCAGCA
18768394 GGCAGCA
1 -GCAGCA
18768401 TCAATGGCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.46, T:0.00
Consensus pattern (21 bp):
GCAGCAGCGAGGGAGGCAGCA
Found at i:18768879 original size:42 final size:43
Alignment explanation
Indices: 18768814--18768963 Score: 187
Period size: 43 Copynumber: 3.5 Consensus size: 43
18768804 GCTTGGCGCC
*
18768814 TTTCCCACAAACGCCGTTAAAAGCCATAACTTTTAGCGACGCT
1 TTTCCCACAAACGCCGCTAAAAGCCATAACTTTTAGCGACGCT
* **
18768857 TTT-CGACAAACGCCGCTAAAAGCCACGACTTTTAGC-AGCGCT
1 TTTCCCACAAACGCCGCTAAAAGCCATAACTTTTAGCGA-CGCT
* * * * *
18768899 TTTCCCATAAATGCCACTAAAATCCATAACTTTTAGCGGCGCT
1 TTTCCCACAAACGCCGCTAAAAGCCATAACTTTTAGCGACGCT
*
18768942 TTTCCCACAAATGCCGCTAAAA
1 TTTCCCACAAACGCCGCTAAAA
18768964 ATCTTGGTCC
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 36 0.40
43 53 0.59
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (43 bp):
TTTCCCACAAACGCCGCTAAAAGCCATAACTTTTAGCGACGCT
Found at i:18770618 original size:16 final size:16
Alignment explanation
Indices: 18770594--18770630 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
18770584 TTTAAAAAGG
*
18770594 AAAACAAATGAATCTT
1 AAAAAAAATGAATCTT
*
18770610 AAAAAAAATGAGTCTT
1 AAAAAAAATGAATCTT
18770626 AAAAA
1 AAAAA
18770631 CTTAATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (16 bp):
AAAAAAAATGAATCTT
Found at i:18783641 original size:31 final size:31
Alignment explanation
Indices: 18783563--18783641 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
18783553 TTTAATGGTT
*
18783563 ACTGGGCTGAAGCCTTGTCATAAATCATATC
1 ACTGGGCTGAAGCCTTTTCATAAATCATATC
*
18783594 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCTGAAGCCTTTTCATAAATCATATC
*
18783625 ATTGGGCTGAAGCCTTT
1 ACTGGGCTGAAGCCTTT
18783642 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (31 bp):
ACTGGGCTGAAGCCTTTTCATAAATCATATC
Found at i:18783712 original size:42 final size:42
Alignment explanation
Indices: 18783665--18783756 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
18783655 TGGCCCTTAG
* ** *
18783665 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
18783707 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
18783749 GCCCATTT
1 GCCCATTT
18783757 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:18783977 original size:26 final size:26
Alignment explanation
Indices: 18783901--18784049 Score: 212
Period size: 26 Copynumber: 5.8 Consensus size: 26
18783891 CCTCTTTAAT
* * *
18783901 AACTGGGTCA-AAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
18783926 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
18783951 AACTGGGGCATAAGTCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
18783977 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
18784003 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
18784029 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
18784050 GCACTTCCTC
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 31 0.28
26 81 0.72
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:18784005 original size:52 final size:52
Alignment explanation
Indices: 18783901--18784049 Score: 239
Period size: 52 Copynumber: 2.9 Consensus size: 52
18783891 CCTCTTTAAT
* *
18783901 AACTGGGTCA-AAGCCCTTTTTGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
* *
18783951 AACTGGGGCATAAGTCCTTTTCGATAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
18784003 AACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
18784050 GCACTTCCTC
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 9 0.10
51 22 0.24
52 59 0.66
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:18784921 original size:27 final size:27
Alignment explanation
Indices: 18784826--18784904 Score: 133
Period size: 27 Copynumber: 2.9 Consensus size: 27
18784816 TATTCATCAT
*
18784826 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCAC
18784853 TTTACCCTACAGGGGCTTTACGGTCAC
1 TTTACCCTACAGGGGCTTTACGGTCAC
18784880 TTTACCCTACAGGGGCTTTACGGTC
1 TTTACCCTACAGGGGCTTTACGGTC
18784905 TTTTTACCTA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCAC
Found at i:18784995 original size:27 final size:27
Alignment explanation
Indices: 18784942--18785301 Score: 242
Period size: 27 Copynumber: 13.3 Consensus size: 27
18784932 TTTCATCCTA
* * * *
18784942 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *
18784969 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *** * *
18784996 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTATAAA-C
* * *
18785025 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * *
18785052 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
18785079 TAAGGGTATTTCGGTAATTTCATGAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
18785106 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * * *
18785133 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * *
18785160 TGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
18785187 CAAGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
18785213 CTAGGGTATTTTGGTAATTTTACTGATC
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* *
18785241 GAA-GGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
18785267 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
18785294 CGAGGGTA
1 CAAGGGTA
18785302 AAACAATAAT
Statistics
Matches: 260, Mismatches: 64, Indels: 18
0.76 0.19 0.05
Matches are distributed among these distances:
26 27 0.10
27 205 0.79
28 15 0.06
29 13 0.05
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:18785114 original size:54 final size:53
Alignment explanation
Indices: 18784944--18785287 Score: 267
Period size: 54 Copynumber: 6.4 Consensus size: 53
18784934 TCATCCTACA
* * * * *
18784944 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACC
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTATAAACC
* *** * * * * * *
18784997 AATGGTATTTCCATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAATC
1 -AGGGTATTTTGGTAA-TTTTACAAA-CCAAGGGTATTTCGGTAATTTTATAAACC
** * *
18785053 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCATGAACC
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTATAAACC
* * * * **
18785107 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTG
1 AG-GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTATAAA-CC
* ** * * * *
18785162 AGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGACT
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTATAAACC
* * * * *
18785215 AGGGTATTTTGGTAATTTTACTGATCGAA-GGTATTTTGGTAATTTTGTAAACC
1 AGGGTATTTTGGTAATTTTAC-AAACCAAGGGTATTTCGGTAATTTTATAAACC
*
18785268 AAGGGTATTTTAGTAATTTT
1 -AGGGTATTTTGGTAATTTT
18785288 GTAAATCGAG
Statistics
Matches: 232, Mismatches: 51, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
53 39 0.17
54 141 0.61
55 17 0.07
56 35 0.15
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTTATAAACC
Found at i:18785148 original size:81 final size:81
Alignment explanation
Indices: 18785053--18785287 Score: 323
Period size: 81 Copynumber: 2.9 Consensus size: 81
18785043 TTTGTAAATC
* *
18785053 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCATGAACC-AGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTTATAAACCAAG-GGTATTT
*
18785117 TGGTAATTTTACAAACT
65 TAGTAATTTTACAAACT
* *
18785134 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTTATAAACCAAGGGTATTTT
* *
18785199 AGCAATTTTACAGACT
66 AGTAATTTTACAAACT
** * * *
18785215 A-GGGTATTTTGGTAATTTTACTGATCGAA-GGTATTTTGGTAATTTTGTAAACCAAGGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAAT-TAAGGGTATTTCGGTAATTTTATAAACCAAGGGTATTT
18785278 TAGTAATTTT
65 TAGTAATTTT
18785288 GTAAATCGAG
Statistics
Matches: 137, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
80 62 0.45
81 73 0.53
82 2 0.01
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTTATAAACCAAGGGTATTTT
AGTAATTTTACAAACT
Found at i:18785311 original size:27 final size:27
Alignment explanation
Indices: 18785279--18785382 Score: 154
Period size: 27 Copynumber: 3.9 Consensus size: 27
18785269 AGGGTATTTT
* *
18785279 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * *
18785306 AATAATTCTATAAATCAAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
18785333 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
18785360 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
18785383 CTTTGGTAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.29
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:18785312 original size:54 final size:54
Alignment explanation
Indices: 18785262--18785396 Score: 171
Period size: 54 Copynumber: 2.5 Consensus size: 54
18785252 GGTAATTTTG
* * *
18785262 TAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTA
1 TAAATCAAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACAATAATTCTA
** * **
18785316 TAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCAAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACAATAATTCTA
* * *
18785370 TAAATCGAGGGTACTTTGGTAATTTTA
1 TAAATCAAGGGTAATTTAGTAATTTTA
18785397 CAATTTGAGG
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.33
Consensus pattern (54 bp):
TAAATCAAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACAATAATTCTA
Found at i:18787172 original size:122 final size:122
Alignment explanation
Indices: 18787022--18787266 Score: 445
Period size: 122 Copynumber: 2.0 Consensus size: 122
18787012 GTTTGTGGAC
*
18787022 TAAATTGAAAGATTATGTGATTAAATGAGTTGAATTTGTTATAATATAGATCAAGAAAAGAGGAA
1 TAAATTGAAAGATTATGTGATTAAATGAGTTGAATTTGTTATAATATAGATCAAGAAAAAAGGAA
* *
18787087 CTCGGATTTAGATCGAGGCAAGAATAAAGTAGTCGACTAATCGACTAGTTTTGTTGT
66 CTCGGATTTAGATCGAGGCAAGAATAAAGTACTCGACTAATCGACTAGTTTCGTTGT
18787144 TAAATTGAAAGATTATGTGATTAAATGAGTTGAATTTGTTATAATATAGATCAAGAAAAAAGGAA
1 TAAATTGAAAGATTATGTGATTAAATGAGTTGAATTTGTTATAATATAGATCAAGAAAAAAGGAA
* *
18787209 CTCGGATTTAGATTGAGGCAAGAATAAAGTACTCGACTAATCGACTGGTTTCGTTGT
66 CTCGGATTTAGATCGAGGCAAGAATAAAGTACTCGACTAATCGACTAGTTTCGTTGT
18787266 T
1 T
18787267 TTTACGTCTG
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
122 118 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (122 bp):
TAAATTGAAAGATTATGTGATTAAATGAGTTGAATTTGTTATAATATAGATCAAGAAAAAAGGAA
CTCGGATTTAGATCGAGGCAAGAATAAAGTACTCGACTAATCGACTAGTTTCGTTGT
Found at i:18787439 original size:41 final size:41
Alignment explanation
Indices: 18787412--18787530 Score: 175
Period size: 41 Copynumber: 2.9 Consensus size: 41
18787402 CAATATCGAG
* *
18787412 ATAGCTTCGACTATGTAATGCACTTAGTGTACGAGATTATA
1 ATAGCTTCGGCTATGTAATGCACTTAGTGTGCGAGATTATA
* * * *
18787453 ATAACTTTGGCTATGTAATGAACTTAGTGTGTGAGATTATA
1 ATAGCTTCGGCTATGTAATGCACTTAGTGTGCGAGATTATA
*
18787494 ATAGCTTCGGCTATGTAATGCACTGAGTGTGCGAGAT
1 ATAGCTTCGGCTATGTAATGCACTTAGTGTGCGAGAT
18787531 ATCGAGTAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (41 bp):
ATAGCTTCGGCTATGTAATGCACTTAGTGTGCGAGATTATA
Found at i:18789271 original size:32 final size:32
Alignment explanation
Indices: 18789230--18789292 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
18789220 TTCAAGTTTG
18789230 TTAGTCAAAATCTTAGTTTCATGAGGAATATA
1 TTAGTCAAAATCTTAGTTTCATGAGGAATATA
*
18789262 TTAGTCAAAATTTTAGTTTCATGAGGAATAT
1 TTAGTCAAAATCTTAGTTTCATGAGGAATAT
18789293 TGCTTAGACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.40
Consensus pattern (32 bp):
TTAGTCAAAATCTTAGTTTCATGAGGAATATA
Found at i:18804386 original size:40 final size:40
Alignment explanation
Indices: 18804322--18804450 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
18804312 ATTATGTTTG
* *
18804322 GCACTTAGTGTGCGTATCGAAATAGCTTCGGCTATATAAA
1 GCACTTAGTGTGCGAATCGGAATAGCTTCGGCTATATAAA
**
18804362 GCACTTAGTGTGCGAATCGGAATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCGAATCGGAATAGCTTCGGCTATATAAA
* * *
18804402 GCACTTAGTGTGAGAGA-CTGAGATAGCTTCAGCTATA-AAA
1 GCACTTAGTGTGCGA-ATCGGA-ATAGCTTCGGCTATATAAA
18804442 GGCACTTAG
1 -GCACTTAG
18804451 CGTGTGAGAT
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
40 54 0.70
41 23 0.30
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (40 bp):
GCACTTAGTGTGCGAATCGGAATAGCTTCGGCTATATAAA
Found at i:18807636 original size:56 final size:56
Alignment explanation
Indices: 18807575--18807729 Score: 211
Period size: 56 Copynumber: 2.8 Consensus size: 56
18807565 TCCCAGACAG
* **
18807575 GGTCTTACTCGCAAACACATATTGGAATCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACACATATTGGAATCACATATCGATGCCAACATATTAAACGT
* ** * *
18807631 GGTCTTACTCGTACACACATATCAGAATCACATATTGATGCTAACATATTAAACGT
1 GGTCTTACTCGCACACACATATTGGAATCACATATCGATGCCAACATATTAAACGT
* * *
18807687 GGTCTTACTTGCTCACACATATTGAAATCACATATCGATGCCA
1 GGTCTTACTCGCACACACATATTGGAATCACATATCGATGCCA
18807730 CTGTCCTAGA
Statistics
Matches: 83, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 83 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (56 bp):
GGTCTTACTCGCACACACATATTGGAATCACATATCGATGCCAACATATTAAACGT
Found at i:18807747 original size:56 final size:56
Alignment explanation
Indices: 18807548--18807750 Score: 175
Period size: 56 Copynumber: 3.6 Consensus size: 56
18807538 ATATGTAATT
* * * ** *
18807548 ACATATCGATGACACTGTCCCAGACAG-GGTCTTACTCGCAAACACATATTGGAATC
1 ACATATCGATGCCACTGTCCTAAAC-GTGGTCTTACTCGCTCACACATATTGAAATC
* ** *
18807604 ACATATCGATGCCAATGTATTAAACGTGGTCTTACTCG-TACACACATA-TCAGAATC
1 ACATATCGATGCCACTGTCCTAAACGTGGTCTTACTCGCT-CACACATATTGA-AATC
* * * *
18807660 ACATATTGATGCTAACATAT--TAAACGTGGTCTTACTTGCTCACACATATTGAAATC
1 ACATATCGATGC-CAC-TGTCCTAAACGTGGTCTTACTCGCTCACACATATTGAAATC
*
18807716 ACATATCGATGCCACTGTCCTAGACAG-GGTCTTAC
1 ACATATCGATGCCACTGTCCTAAAC-GTGGTCTTAC
18807751 ACGAATCAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 20
0.75 0.13 0.13
Matches are distributed among these distances:
54 2 0.02
55 4 0.03
56 104 0.89
57 5 0.04
58 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (56 bp):
ACATATCGATGCCACTGTCCTAAACGTGGTCTTACTCGCTCACACATATTGAAATC
Found at i:18807758 original size:42 final size:43
Alignment explanation
Indices: 18807712--18807807 Score: 108
Period size: 41 Copynumber: 2.3 Consensus size: 43
18807702 CACATATTGA
* *
18807712 AATCACATATCGAT-GCCACTGTCCTAGACAGGGTCTTACACG-
1 AATCACATATCGATAACCA-TGTCCAAGACAGGGTCTTACACGT
* * * *
18807754 AATCAAATAT-GATAACGATGTCCAAGATATGGTCTTACACGT
1 AATCACATATCGATAACCATGTCCAAGACAGGGTCTTACACGT
18807796 AATCACATATCG
1 AATCACATATCG
18807808 GAAATCCTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
41 23 0.52
42 20 0.45
43 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (43 bp):
AATCACATATCGATAACCATGTCCAAGACAGGGTCTTACACGT
Found at i:18812887 original size:15 final size:15
Alignment explanation
Indices: 18812867--18812900 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
18812857 AAATTCAGAG
18812867 TTGATTCAAATAATT
1 TTGATTCAAATAATT
*
18812882 TTGATTCAGATAATT
1 TTGATTCAAATAATT
18812897 TTGA
1 TTGA
18812901 ATAAAGCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (15 bp):
TTGATTCAAATAATT
Found at i:18815430 original size:83 final size:83
Alignment explanation
Indices: 18815305--18815495 Score: 223
Period size: 83 Copynumber: 2.3 Consensus size: 83
18815295 ACGAATCGAT
* *
18815305 TATG-TTTGGCACTTAGTGTGCG-TATCGAAATAGCTTCGGCTATATAAA-GCACTTAGTATGCG
1 TATGATTTGGCACTTAGTGTGTGAGATCGAAATAGCTTCGGCTATA-AAAGGCACTTAGTATGCG
18815367 A-ATCAGAATAGCTTC-GG
65 AGATCAGAATAGCTTCAGG
* * *
18815384 CTAT-ATATATGGCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATAAAAGGCACTTAGTGTG
1 -TATGAT-T-TGGCACTTAGTGTGTGAGATCGAAATAGCTTCGGCTATAAAAGGCACTTAGTATG
* * *
18815448 TGAGATTATAATAGCTTCAGG
63 CGAGATCAGAATAGCTTCAGG
*
18815469 TATGCTTTGGCACTTAGTGTGTGAGAT
1 TATGATTTGGCACTTAGTGTGTGAGAT
18815496 ATCGAGTATT
Statistics
Matches: 94, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
80 4 0.04
81 1 0.01
82 18 0.19
83 52 0.55
84 16 0.17
85 3 0.03
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (83 bp):
TATGATTTGGCACTTAGTGTGTGAGATCGAAATAGCTTCGGCTATAAAAGGCACTTAGTATGCGA
GATCAGAATAGCTTCAGG
Found at i:18815449 original size:41 final size:42
Alignment explanation
Indices: 18815312--18815454 Score: 161
Period size: 40 Copynumber: 3.5 Consensus size: 42
18815302 GATTATGTTT
* * *
18815312 GGCACTTAGTGTGCG-TATCGAAATAGCTTCGGCTATATAAA
1 GGCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATAAA
* * *
18815353 -GCACTTAGTATGCGA-A-TCAGAATAGCTTCGGCTATATATAT
1 GGCACTTAGTGTGCGAGATTGAG-ATAGCTTCGGCTATATA-AA
*
18815394 GGCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATA-AAA
1 GGCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATAAA
*
18815435 GGCACTTAGTGTGTGAGATT
1 GGCACTTAGTGTGCGAGATT
18815455 ATAATAGCTT
Statistics
Matches: 87, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.01
40 31 0.36
41 22 0.25
42 14 0.16
43 16 0.18
44 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.31
Consensus pattern (42 bp):
GGCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATAAA
Found at i:18815462 original size:41 final size:41
Alignment explanation
Indices: 18815332--18815495 Score: 167
Period size: 42 Copynumber: 4.0 Consensus size: 41
18815322 GTGCGTATCG
* * *
18815332 AAATAGCTTCGGCTATATAAA-GCACTTAGTATGCGA-ATC
1 AAATAGCTTCGGCTATATAAAGGCACTTAGTGTGTGAGATT
*
18815371 AGAATAGCTTCGGCTATATATATGGCACTTAGTGTGTGAGATT
1 A-AATAGCTTCGGCTATATA-AAGGCACTTAGTGTGTGAGATT
*
18815414 GAGATAGCTTCGGCTATA-AAAGGCACTTAGTGTGTGAGATT
1 -AAATAGCTTCGGCTATATAAAGGCACTTAGTGTGTGAGATT
* **
18815455 ATAATAGCTTCAGG-TATGCT-TTGGCACTTAGTGTGTGAGAT
1 A-AATAGCTTC-GGCTAT-ATAAAGGCACTTAGTGTGTGAGAT
18815496 ATCGAGTATT
Statistics
Matches: 106, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.01
40 19 0.18
41 33 0.31
42 35 0.33
43 17 0.16
44 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.32
Consensus pattern (41 bp):
AAATAGCTTCGGCTATATAAAGGCACTTAGTGTGTGAGATT
Found at i:18815494 original size:42 final size:41
Alignment explanation
Indices: 18815311--18815495 Score: 157
Period size: 42 Copynumber: 4.5 Consensus size: 41
18815301 CGATTATGTT
* * *
18815311 TGGCACTTAGTGTGCG-TATCGAAATAGCTTCGGCTATATAA
1 TGGCACTTAGTGTGTGAGATTGAAATAGCTTCGGCTATA-AA
* * * *
18815352 -AGCACTTAGTATGCGA-A-TCAGAATAGCTTCGGCTATATATA
1 TGGCACTTAGTGTGTGAGATTGA-AATAGCTTCGGCTATA-A-A
*
18815393 TGGCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATAAA
1 TGGCACTTAGTGTGTGAGATTGAAATAGCTTCGGCTATAAA
* ***
18815434 AGGCACTTAGTGTGTGAGATT-ATAATAGCTTCAGG-TATGCTT
1 TGGCACTTAGTGTGTGAGATTGA-AATAGCTTC-GGCTAT-AAA
18815476 TGGCACTTAGTGTGTGAGAT
1 TGGCACTTAGTGTGTGAGAT
18815496 ATCGAGTATT
Statistics
Matches: 120, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
39 1 0.01
40 33 0.28
41 33 0.28
42 35 0.29
43 16 0.13
44 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (41 bp):
TGGCACTTAGTGTGTGAGATTGAAATAGCTTCGGCTATAAA
Found at i:18821175 original size:23 final size:24
Alignment explanation
Indices: 18821137--18821181 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
18821127 TTTGCTCTTC
*
18821137 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
18821161 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
18821182 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:18821438 original size:55 final size:53
Alignment explanation
Indices: 18821297--18821504 Score: 213
Period size: 55 Copynumber: 3.8 Consensus size: 53
18821287 ATCCTTTTGA
* * *
18821297 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
18821350 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
* ***
18821404 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
18821457 AAACCTTACCAATTGCCATGCCTTGGCATAGTCTTACATGGTATCCTT
1 -AA-CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
18821505 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
52 2 0.02
53 45 0.35
54 8 0.06
55 70 0.55
56 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:18821449 original size:108 final size:110
Alignment explanation
Indices: 18821297--18821497 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
18821287 ATCCTTTTGA
* *
18821297 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
*
18821360 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
65 TTGCCATGCCTTGGCATAGTCTTACATGGGACCTTTTCCTTATAGT
* * * *
18821405 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
18821470 TGCCATGCCTTGGCATAGTCTTACATGG
66 TGCCATGCCTTGGCATAGTCTTACATGG
18821498 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.58
109 7 0.08
110 27 0.33
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATAGTCTTACATGGGACCTTTTCCTTATAGT
Found at i:18825404 original size:37 final size:37
Alignment explanation
Indices: 18825350--18825457 Score: 198
Period size: 37 Copynumber: 2.9 Consensus size: 37
18825340 GCTCAGACGA
*
18825350 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
18825387 ACTCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
18825424 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
18825458 ATATATTTCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:18825573 original size:48 final size:48
Alignment explanation
Indices: 18825502--18826276 Score: 1127
Period size: 48 Copynumber: 16.0 Consensus size: 48
18825492 TGTTACAACC
* * * * *
18825502 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
18825550 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
18825598 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACGCATATAA
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
18825646 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACGCATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
18825694 TTCACATTCGCCATTCGACTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
18825742 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
18825790 TTCACATTAGCCATTCGACTTTACCACATATACATATCACATTTCATACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATAT--CA---C--ACATATAT
* * **
18825845 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCGTATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* **
18825893 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCGTATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
18825941 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
18825989 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * **
18826037 TTCACGTTCGCCATTCGGCTTTACCACATATACATATCTCGTATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
18826085 TTCACATTCGCCATTCGGCTTTACCACATATACATTTCACACACATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * * **
18826133 TTCGCATTAGCCATTCGGCTTTACGACATATACATATCTCGTATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
* ** *
18826181 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCGTATATGT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
18826229 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
18826277 ATATTTGTCT
Statistics
Matches: 663, Mismatches: 57, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
48 614 0.93
50 3 0.00
53 2 0.00
55 44 0.07
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:18827993 original size:2 final size:2
Alignment explanation
Indices: 18827986--18828013 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18827976 ACATTCGGCA
18827986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18828014 GTTAATGACG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18839655 original size:42 final size:42
Alignment explanation
Indices: 18839577--18839656 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
18839567 GTGCAGGTTT
* *
18839577 CACACGGCCAAGACACATGCCCATGTTCTAGGCCGTGTAGCA
1 CACACGGCCAAGACACACGCCCATGTTCTAGCCCGTGTAGCA
** *
18839619 CACACGGCTGAGACACACGCTCATGTCTCTA-CCCGTGT
1 CACACGGCCAAGACACACGCCCATGT-TCTAGCCCGTGT
18839657 GCTCAATTCT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 28 0.88
43 4 0.12
ACGTcount: A:0.24, C:0.35, G:0.23, T:0.19
Consensus pattern (42 bp):
CACACGGCCAAGACACACGCCCATGTTCTAGCCCGTGTAGCA
Found at i:18846165 original size:43 final size:43
Alignment explanation
Indices: 18846040--18846201 Score: 179
Period size: 43 Copynumber: 3.8 Consensus size: 43
18846030 CGGAAAGCTC
*
18846040 ATACAATGCCAACGTCCTAGATGTGGTCTTACATGT-AATCAA
1 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAAATCAA
* **
18846082 ATATCGATGCC-ACTGTCCTAGACAAGGTCTTACATG-AAATCAA
1 ATA-CAATGCCAAC-GTCCTAGACGTGGTCTTACATGTAAATCAA
*
18846125 ATACAATGCCAACGTCCTAGGCGTGGTCTTACATGTAAATCATA
1 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAAATCA-A
** * *
18846169 AGT-CAATTTCAATGTCCCAGACGTGGTCTTACA
1 A-TACAATGCCAACGTCCTAGACGTGGTCTTACA
18846202 CGAAAACACA
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
42 30 0.30
43 42 0.42
44 27 0.27
45 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAAATCAA
Found at i:18846965 original size:69 final size:69
Alignment explanation
Indices: 18846888--18847025 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
18846878 ATAGTTGGGT
*
18846888 GAGTTTACGAAAACTCAGTGTGTAATCCCGATAATAAACAAATAGTCGAACATACAGAGAGTAAA
1 GAGTTTACGAAAACTCAATGTGTAATCCCGATAATAAACAAATAGTCGAACATACAGAGAGTAAA
18846953 TACA
66 TACA
18846957 GAGTTTACGAAAACTCAATGTGTAATCCCGATAATAAACAAATAGTCGAACATACAGAGAGTAAA
1 GAGTTTACGAAAACTCAATGTGTAATCCCGATAATAAACAAATAGTCGAACATACAGAGAGTAAA
18847022 TACA
66 TACA
18847026 TTCTGGGCCT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.22
Consensus pattern (69 bp):
GAGTTTACGAAAACTCAATGTGTAATCCCGATAATAAACAAATAGTCGAACATACAGAGAGTAAA
TACA
Found at i:18847104 original size:35 final size:34
Alignment explanation
Indices: 18847027--18847112 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 34
18847017 GTAAATACAT
18847027 TCTGGGCCTAAGCCCATGTTAGTAACAGTAACAG
1 TCTGGGCCTAAGCCCATGTTAGTAACAGTAACAG
* * * * *
18847061 TCTAGGCCTTAGCCTATTTTAGTATCAGTAAACAG
1 TCTGGGCCTAAGCCCATGTTAGTAACAGT-AACAG
*
18847096 TCTGGGCCTAGGCCCAT
1 TCTGGGCCTAAGCCCAT
18847113 CTCAATACAG
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
34 24 0.57
35 18 0.43
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (34 bp):
TCTGGGCCTAAGCCCATGTTAGTAACAGTAACAG
Found at i:18847366 original size:22 final size:22
Alignment explanation
Indices: 18847303--18847367 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 22
18847293 TTAATAGTAC
18847303 TTGCAGCAGAGCTGCCAGTATAA
1 TTGCAGCAGAGCTGCCAGTAT-A
**
18847326 TTG--GCTTAGAGCTATCAGTGAT-
1 TTGCAGC--AGAGCTGCCAGT-ATA
18847348 TTGCAGCAGAGCTGCCAGTA
1 TTGCAGCAGAGCTGCCAGTA
18847368 CAGTACACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
21 3 0.09
22 13 0.39
23 13 0.39
24 4 0.12
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (22 bp):
TTGCAGCAGAGCTGCCAGTATA
Found at i:18847560 original size:27 final size:27
Alignment explanation
Indices: 18847530--18847603 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
18847520 CTTACCATAT
18847530 AAGGGCAAAACAGTCATTTTGCCTCAC
1 AAGGGCAAAACAGTCATTTTGCCTCAC
* * *
18847557 AAGGGCAAAATAGTCATTTTGTCTCAT
1 AAGGGCAAAACAGTCATTTTGCCTCAC
18847584 AAGGGCAAAACAGTCATTTT
1 AAGGGCAAAACAGTCATTTT
18847604 ACCCTATGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (27 bp):
AAGGGCAAAACAGTCATTTTGCCTCAC
Found at i:18849020 original size:71 final size:71
Alignment explanation
Indices: 18848936--18849098 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
18848926 CGATTTGTCT
18848936 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18849001 CTTTCA
66 CTTTCA
18849007 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18849072 CTTTCA
66 CTTTCA
18849078 CGTAGCTCT-TTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18849099 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 12 0.13
71 80 0.87
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:18856594 original size:71 final size:71
Alignment explanation
Indices: 18856510--18856673 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
18856500 CGATTTGTCT
18856510 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18856575 CTTTCA
66 CTTTCA
18856581 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
18856646 CTTTCA
66 CTTTCA
18856652 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18856674 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:18856711 original size:71 final size:70
Alignment explanation
Indices: 18856510--18856707 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
18856500 CGATTTGTCT
* * * *
18856510 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18856575 CTTTCA
65 CTTTCA
* * * *
18856581 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18856646 CTTTCA
65 CTTTCA
* *
18856652 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
18856708 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:18859080 original size:27 final size:28
Alignment explanation
Indices: 18859049--18859111 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 28
18859039 ATTTAAACCC
18859049 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATATCGGTAATTTTGCTCTT
*
18859076 TA-GGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATATCGGTAATTTTGCTCTT
18859103 TA-GGGTAAT
1 TAGGGGTAAT
18859112 TTCGTGATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 4 0.12
27 30 0.88
ACGTcount: A:0.21, C:0.10, G:0.25, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATATCGGTAATTTTGCTCTT
Found at i:18859112 original size:27 final size:27
Alignment explanation
Indices: 18859059--18859115 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
18859049 TAGGGGTATA
18859059 TCGGTAATTTTGCTCTTTAGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGTAATT
18859086 TCGGTAATTTTGCTCTTTAGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGTAATT
18859113 TCG
1 TCG
18859116 TGATCTACGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.18, C:0.12, G:0.23, T:0.47
Consensus pattern (27 bp):
TCGGTAATTTTGCTCTTTAGGGTAATT
Found at i:18860719 original size:20 final size:20
Alignment explanation
Indices: 18860696--18860733 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18860686 CACATCCAAA
*
18860696 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
18860716 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
18860734 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:18867031 original size:28 final size:28
Alignment explanation
Indices: 18866985--18867053 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
18866975 TTTAAAACCC
*
18866985 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
18867012 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
18867040 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
18867054 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:18868693 original size:20 final size:20
Alignment explanation
Indices: 18868670--18868707 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18868660 CACATCCAAA
*
18868670 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
18868690 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
18868708 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:18873763 original size:26 final size:26
Alignment explanation
Indices: 18873734--18873789 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
18873724 TGATACAAAT
18873734 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18873760 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18873786 TGAT
1 TGAT
18873790 TGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18876585 original size:40 final size:40
Alignment explanation
Indices: 18876530--18876610 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
18876520 ACTAAGTTCT
18876530 TATGAACTTAGTCTCTTTTTCTTATTTTCAAGCTTTTAGG
1 TATGAACTTAGTCTCTTTTTCTTATTTTCAAGCTTTTAGG
*
18876570 TATGAACTTAGTCTCTTTTTCTTATTTTCAAGGTTTTAGG
1 TATGAACTTAGTCTCTTTTTCTTATTTTCAAGCTTTTAGG
18876610 T
1 T
18876611 TGGACAAGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.53
Consensus pattern (40 bp):
TATGAACTTAGTCTCTTTTTCTTATTTTCAAGCTTTTAGG
Found at i:18878086 original size:40 final size:40
Alignment explanation
Indices: 18878041--18878208 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
18878031 CGGAATACAA
18878041 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
18878081 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
18878121 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
18878161 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
18878201 CCGGATAT
1 CCGGATAT
18878209 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:18878181 original size:80 final size:80
Alignment explanation
Indices: 18878041--18878208 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
18878031 CGGAATACAA
* *
18878041 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
18878106 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
18878121 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
18878184 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
18878201 CCGGATAT
1 CCGGATAT
18878209 CATTCAATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:18886076 original size:40 final size:40
Alignment explanation
Indices: 18886031--18886198 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
18886021 CGGAATACAA
18886031 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
18886071 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
18886111 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
18886151 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
18886191 CCGGATAT
1 CCGGATAT
18886199 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:18886171 original size:80 final size:80
Alignment explanation
Indices: 18886031--18886198 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
18886021 CGGAATACAA
* *
18886031 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
18886096 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
18886111 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
18886174 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
18886191 CCGGATAT
1 CCGGATAT
18886199 CATTCAATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:18897988 original size:46 final size:46
Alignment explanation
Indices: 18897895--18898110 Score: 201
Period size: 46 Copynumber: 4.7 Consensus size: 46
18897885 TATCTATGCT
* * *
18897895 GATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTC-AAGGCC
* * *
18897941 GATGCATGTCCCAGGCATGTCTTATACTAGC-TTACGTCTCAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAAGGCC
*
18897987 GATGCATGTCCCAGACATG-CTTACACTAGCACTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAGGCC
* * * * ** *
18898032 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGT-CTCAAGGCC
18898080 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
18898111 TCACACAATT
Statistics
Matches: 142, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
44 9 0.06
45 40 0.28
46 57 0.40
47 15 0.11
48 20 0.14
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAGGCC
Found at i:18915544 original size:28 final size:27
Alignment explanation
Indices: 18915512--18915596 Score: 68
Period size: 28 Copynumber: 3.2 Consensus size: 27
18915502 TTGGAAGAAG
18915512 TACTG-TATTAGTGGCTTTGCCATGTAAT
1 TACTGCTATTAGTGGCTTTGCCATGT--T
* * *
18915540 TACTGCT-CTGGTGGCTTTGCCACGTT
1 TACTGCTATTAGTGGCTTTGCCATGTT
* ** *
18915566 TACTGTTATTAGCAGCTTTGCTATG-T
1 TACTGCTATTAGTGGCTTTGCCATGTT
18915592 TACTG
1 TACTG
18915597 TTAGCAGCTT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
26 13 0.29
27 11 0.24
28 20 0.44
29 1 0.02
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.42
Consensus pattern (27 bp):
TACTGCTATTAGTGGCTTTGCCATGTT
Found at i:18917825 original size:42 final size:42
Alignment explanation
Indices: 18917711--18917984 Score: 171
Period size: 43 Copynumber: 6.4 Consensus size: 42
18917701 ACAAAAGTTC
*
18917711 GCGGCGTTTTTTATAAAAGCGCCGCTAAAGACCAGGACCTTTA
1 GCGGCGTCTTTTAT-AAAGCGCCGCTAAAGACCAGGACCTTTA
* * * * * * * * *
18917754 GCGGCGCCCTTAAAAAAACACCACAAAAGACCAGGACCTCTA
1 GCGGCGTCTTTTATAAAGCGCCGCTAAAGACCAGGACCTTTA
* *
18917796 GCGGCGTTTTTTATAAAGCGCCGGTAAAGACCAGGACCTTTA
1 GCGGCGTCTTTTATAAAGCGCCGCTAAAGACCAGGACCTTTA
* * * * * *
18917838 GCAGCG-CTTTTATAAAAAACGCCGCTATAGAGCTA-TACTTTTA
1 GCGGCGTCTTTTAT--AAAGCGCCGCTAAAGA-CCAGGACCTTTA
* * * *
18917881 GCGGCG-CTTTTATAAAAAACGCCGCTATAGACCTA-TACTTTTA
1 GCGGCGTCTTTTAT--AAAGCGCCGCTAAAGACC-AGGACCTTTA
* * * * * *
18917924 GCGGCGCTTTTTGTAAAAAAACGCCGCTATAGACCAAGAACTTTA
1 GCGGCG-TCTTT-T-ATAAAGCGCCGCTAAAGACCAGGACCTTTA
18917969 GCGGCG-CTTTTATAAA
1 GCGGCGTCTTTTATAAA
18917985 AAACGCCGCT
Statistics
Matches: 184, Mismatches: 38, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
41 10 0.05
42 61 0.33
43 76 0.41
44 3 0.02
45 32 0.17
46 1 0.01
47 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (42 bp):
GCGGCGTCTTTTATAAAGCGCCGCTAAAGACCAGGACCTTTA
Found at i:18917958 original size:45 final size:43
Alignment explanation
Indices: 18917834--18917995 Score: 245
Period size: 43 Copynumber: 3.7 Consensus size: 43
18917824 GACCAGGACC
* *
18917834 TTTAGCAGCGCTTTTATAAAAAACGCCGCTATAGAGCTATACT
1 TTTAGCGGCGCTTTTATAAAAAACGCCGCTATAGACCTATACT
18917877 TTTAGCGGCGCTTTTATAAAAAACGCCGCTATAGACCTATACT
1 TTTAGCGGCGCTTTTATAAAAAACGCCGCTATAGACCTATACT
* * *
18917920 TTTAGCGGCGCTTTTTGTAAAAAAACGCCGCTATAGACCAAGAAC-
1 TTTAGCGGCGC-TTTTAT-AAAAAACGCCGCTATAGACCTA-TACT
18917965 TTTAGCGGCGCTTTTATAAAAAACGCCGCTA
1 TTTAGCGGCGCTTTTATAAAAAACGCCGCTA
18917996 ATTTGCCCAG
Statistics
Matches: 110, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
43 66 0.60
44 10 0.09
45 32 0.29
46 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTATAAAAAACGCCGCTATAGACCTATACT
Found at i:18917975 original size:88 final size:86
Alignment explanation
Indices: 18917834--18917995 Score: 245
Period size: 88 Copynumber: 1.9 Consensus size: 86
18917824 GACCAGGACC
* * *
18917834 TTTAGCAGCGCTTTTATAAAAAACGCCGCTATAGAGCTATACTTTTAGCGGCGCTTTTATAAAAA
1 TTTAGCAGCGCTTTTATAAAAAACGCCGCTATAGACCAAAACTTTTAGCGGCGCTTTTATAAAAA
18917899 ACGCCGCTATAGACCTATACT
66 ACGCCGCTATAGACCTATACT
* *
18917920 TTTAGCGGCGCTTTTTGTAAAAAAACGCCGCTATAGACCAAGAAC-TTTAGCGGCGCTTTTATAA
1 TTTAGCAGCGC-TTTTAT-AAAAAACGCCGCTATAGACCAA-AACTTTTAGCGGCGCTTTTATAA
18917984 AAAACGCCGCTA
63 AAAACGCCGCTA
18917996 ATTTGCCCAG
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
86 10 0.15
87 5 0.07
88 51 0.75
89 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (86 bp):
TTTAGCAGCGCTTTTATAAAAAACGCCGCTATAGACCAAAACTTTTAGCGGCGCTTTTATAAAAA
ACGCCGCTATAGACCTATACT
Found at i:18918904 original size:18 final size:18
Alignment explanation
Indices: 18918872--18918909 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
18918862 TACAATATAG
18918872 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
18918891 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
18918908 TA
1 TA
18918910 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:18924053 original size:21 final size:21
Alignment explanation
Indices: 18924029--18924072 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
18924019 TGAAATTTTT
* * *
18924029 AATTCTTTTTAAGGTCAATAG
1 AATTATTTATAAGCTCAATAG
*
18924050 AATTATTTATAAGCTCCATAG
1 AATTATTTATAAGCTCAATAG
18924071 AA
1 AA
18924073 CTTTTTGGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (21 bp):
AATTATTTATAAGCTCAATAG
Found at i:18924478 original size:21 final size:21
Alignment explanation
Indices: 18924454--18924493 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18924444 AAATTAATTC
*
18924454 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
18924475 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
18924494 ATATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:18928136 original size:40 final size:40
Alignment explanation
Indices: 18928077--18928218 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
18928067 AAATTGAATG
* * *
18928077 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
18928117 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
18928157 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
18928197 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
18928219 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Done.