Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 57 of 284
Found at i:20014061 original size:43 final size:43
Alignment explanation
Indices: 20014012--20014097 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
20014002 TCATATTTCA
* **
20014012 TTTCTCATCTCCTATTCATTTCTCATATTTG-ACATTTCAATAT
1 TTTCTCATCTCATAACCATTTCTCATATTTGCA-ATTTCAATAT
* *
20014055 TTTCTCATCTCATAACCATTTCTTATCTTTGCAATTTCAATAT
1 TTTCTCATCTCATAACCATTTCTCATATTTGCAATTTCAATAT
20014098 CAATCACATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 36 0.97
44 1 0.03
ACGTcount: A:0.24, C:0.23, G:0.02, T:0.50
Consensus pattern (43 bp):
TTTCTCATCTCATAACCATTTCTCATATTTGCAATTTCAATAT
Found at i:20014205 original size:114 final size:114
Alignment explanation
Indices: 20014044--20014263 Score: 379
Period size: 114 Copynumber: 1.9 Consensus size: 114
20014034 TCATATTTGA
*
20014044 CATTTCAATATTTTCTCATCTCATAACCATTTCTTATCTTTGCAATTTCAATATCAATCACATAG
1 CATTTCAATATTTTCTCATCTCATAACCATTTCTTATCTTTGCAATTTCAATATCAATCACATAA
20014109 ATTATTAATTTATTTTCCCTATTAACACGACT-AGGACTCGAACGACTGT
66 ATTATTAATTTATTTTCCCTATTAACACGACTCA-GACTCGAACGACTGT
* * *
20014158 CATTTTAATATTTTCTCATCTCATAATCATTTCTTATCTTTGCAATTTCAATATCTATCACATAA
1 CATTTCAATATTTTCTCATCTCATAACCATTTCTTATCTTTGCAATTTCAATATCAATCACATAA
*
20014223 ATTATTAATTTATTTTTCCTATTAACACGACTCAGACTCGA
66 ATTATTAATTTATTTTCCCTATTAACACGACTCAGACTCGA
20014264 TCTGTACATG
Statistics
Matches: 100, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
114 99 0.99
115 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.43
Consensus pattern (114 bp):
CATTTCAATATTTTCTCATCTCATAACCATTTCTTATCTTTGCAATTTCAATATCAATCACATAA
ATTATTAATTTATTTTCCCTATTAACACGACTCAGACTCGAACGACTGT
Found at i:20015777 original size:31 final size:30
Alignment explanation
Indices: 20015736--20015802 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 30
20015726 TCAATAACCC
*
20015736 TTTGTTTTTTTTCTTTTTTTTTTCTTTTGCT
1 TTTGTATTTTTTCTTTTTTTT-TCTTTTGCT
20015767 TTTGTATTTTTTCTTTTTTTTTCTTTTGCT
1 TTTGTATTTTTTCTTTTTTTTTCTTTTGCT
20015797 TTTGTA
1 TTTGTA
20015803 CCAGCAGTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 15 0.43
31 20 0.57
ACGTcount: A:0.03, C:0.09, G:0.07, T:0.81
Consensus pattern (30 bp):
TTTGTATTTTTTCTTTTTTTTTCTTTTGCT
Found at i:20015794 original size:24 final size:24
Alignment explanation
Indices: 20015749--20015794 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
20015739 GTTTTTTTTC
20015749 TTTTTTTTTTCTTTTGCTTTTGTA
1 TTTTTTTTTTCTTTTGCTTTTGTA
*
20015773 TTTTTTCTTTT-TTTTTCTTTTG
1 TTTTTT-TTTTCTTTTGCTTTTG
20015795 CTTTTGTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.02, C:0.09, G:0.07, T:0.83
Consensus pattern (24 bp):
TTTTTTTTTTCTTTTGCTTTTGTA
Found at i:20025711 original size:21 final size:21
Alignment explanation
Indices: 20025685--20025733 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
20025675 ATACTTAAAT
20025685 ATTTAAAAAATAAAATAAAAA
1 ATTTAAAAAATAAAATAAAAA
* * *
20025706 ATTTAAAAAATATAATCATAA
1 ATTTAAAAAATAAAATAAAAA
20025727 ATTTAAA
1 ATTTAAA
20025734 TTTTATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
ATTTAAAAAATAAAATAAAAA
Found at i:20037742 original size:22 final size:23
Alignment explanation
Indices: 20037693--20037768 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
20037683 CAACTCATTG
** *
20037693 GAGCTTACCTTTTCGGCTCGTATA
1 GAGCTTACAATTTCAGCTCG-ATA
20037717 -AGCTTACAATTT-AGCTCGATA
1 GAGCTTACAATTTCAGCTCGATA
* * *
20037738 GAGCTTACCATTTCAACTCAATA
1 GAGCTTACAATTTCAGCTCGATA
20037761 GAGCTTAC
1 GAGCTTAC
20037769 TGTCCATTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 3 0.07
22 16 0.36
23 25 0.57
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (23 bp):
GAGCTTACAATTTCAGCTCGATA
Found at i:20037765 original size:23 final size:23
Alignment explanation
Indices: 20037668--20037768 Score: 71
Period size: 23 Copynumber: 4.4 Consensus size: 23
20037658 TCAAATCGTA
** *
20037668 AGAGCTTACTGTTATCAACTCATT
1 AGAGCTTACCATT-TCAACTCAAT
* * ** *
20037692 GGAGCTTACCTTTTCGGCTCGTAT
1 AGAGCTTACCATTTCAACTC-AAT
* * *
20037716 A-AGCTTACAATTT-AGCTCGAT
1 AGAGCTTACCATTTCAACTCAAT
20037737 AGAGCTTACCATTTCAACTCAAT
1 AGAGCTTACCATTTCAACTCAAT
20037760 AGAGCTTAC
1 AGAGCTTAC
20037769 TGTCCATTAG
Statistics
Matches: 59, Mismatches: 15, Indels: 7
0.73 0.19 0.09
Matches are distributed among these distances:
21 3 0.05
22 15 0.25
23 30 0.51
24 11 0.19
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.34
Consensus pattern (23 bp):
AGAGCTTACCATTTCAACTCAAT
Found at i:20041238 original size:17 final size:18
Alignment explanation
Indices: 20041216--20041250 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
20041206 AATCTAGATG
20041216 TGTGGGCC-ACACAAGCA
1 TGTGGGCCTACACAAGCA
*
20041233 TGTGGGCCTACACGAGCA
1 TGTGGGCCTACACAAGCA
20041251 AGCCACACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.29, G:0.31, T:0.14
Consensus pattern (18 bp):
TGTGGGCCTACACAAGCA
Found at i:20041701 original size:13 final size:12
Alignment explanation
Indices: 20041679--20041722 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 12
20041669 GGGGTAGGAT
20041679 TCTGATTATCTGA
1 TCTG-TTATCTGA
20041692 TCTGTATATCTGA
1 TCTGT-TATCTGA
20041705 CTCTGTTATCTGAA
1 -TCTGTTATCTG-A
20041719 TCTG
1 TCTG
20041723 AAATGGGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 21 0.75
14 6 0.21
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (12 bp):
TCTGTTATCTGA
Found at i:20046298 original size:27 final size:27
Alignment explanation
Indices: 20046242--20046390 Score: 90
Period size: 27 Copynumber: 5.5 Consensus size: 27
20046232 AGTGGATAAG
* *
20046242 TTGTAAATTTACCAAAATACCCTTAGT
1 TTGTAAAATTACCAAAATACCCTGAGT
*
20046269 TTGTAAAATTACCAAAATGCTCCTGA-T
1 TTGTAAAATTACCAAAATAC-CCTGAGT
* * ** * *
20046296 TTGTGAAATTTCTGAAATACCTTCGA-C
1 TTGTAAAATTACCAAAATACCCT-GAGT
* ** *
20046323 CTGTAAAATTACTGAAATACCCTCGA-C
1 TTGTAAAATTACCAAAATACCCT-GAGT
*
20046350 TTGTAAAATTACCAAAGTACCCTCGA-T
1 TTGTAAAATTACCAAAATACCCT-GAGT
**
20046377 TTACAAAATTACCA
1 TTGTAAAATTACCA
20046391 TTTTACCATT
Statistics
Matches: 99, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 2 0.02
27 93 0.94
28 4 0.04
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCTGAGT
Found at i:20046397 original size:27 final size:27
Alignment explanation
Indices: 20046327--20046414 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
20046317 TTCGACCTGT
* * **
20046327 AAAATTACTGAAA-TACCCTCGACTTGT
1 AAAATTAC-CAAAGTACCCTCGATTTAC
20046354 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCTCGATTTAC
*** * *
20046381 AAAATTACCATTTTACCATTGATTTAC
1 AAAATTACCAAAGTACCCTCGATTTAC
20046408 AAAATTA
1 AAAATTA
20046415 TAGAAATACC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.06
27 48 0.94
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCTCGATTTAC
Found at i:20052838 original size:27 final size:27
Alignment explanation
Indices: 20052801--20052982 Score: 217
Period size: 27 Copynumber: 6.8 Consensus size: 27
20052791 AGTGGATAAG
*
20052801 TTGT-AAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGAT
*
20052827 TTGTAAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGAT
20052854 TTGTAAAATTACCAAAATACCCCT-AGT
1 TTGTAAAATTACCAAAATACCCCTGA-T
*
20052881 TTGTAAAATTACCAAAATACTCCTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
* ** * *
20052908 TTGTGAAATTACTGAAATACCCTTGAC
1 TTGTAAAATTACCAAAATACCCCTGAT
* ** *
20052935 CTGTAAAATTACTGAAATA-CCCTCGAC
1 TTGTAAAATTACCAAAATACCCCT-GAT
20052962 TTGTAAAATTACCAAAATACC
1 TTGTAAAATTACCAAAATACC
20052983 TTTGATTTAC
Statistics
Matches: 137, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 7 0.05
27 128 0.93
28 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGAT
Found at i:20053036 original size:27 final size:27
Alignment explanation
Indices: 20052939--20053038 Score: 85
Period size: 27 Copynumber: 3.7 Consensus size: 27
20052929 CTTGACCTGT
* * **
20052939 AAAATTACTGAAATACCCTCGACTTGT
1 AAAATTACAGAAATACCCTCGATTTAC
* *
20052966 AAAATTACCA-AAATACCTTTGATTTAC
1 AAAATTA-CAGAAATACCCTCGATTTAC
* * ***
20052993 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACAGAAATACCCTCGATTTAC
20053020 AAAATTACAGAAATACCCT
1 AAAATTACAGAAATACCCT
20053039 TGTATGGTAG
Statistics
Matches: 53, Mismatches: 18, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
26 1 0.02
27 51 0.96
28 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACAGAAATACCCTCGATTTAC
Found at i:20053082 original size:27 final size:27
Alignment explanation
Indices: 20053022--20053084 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
20053012 CGATTTACAA
* *
20053022 AATTACAGAAATACCCTTGTATGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
20053049 AATTACTGAAATAACCC-TGTAGGGTAG
1 AATTACTGAAAT-ACCCTTGTAGGGTAG
*
20053076 GATTACTGA
1 AATTACTGA
20053085 TTTACCCCTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:20053093 original size:27 final size:27
Alignment explanation
Indices: 20053022--20053101 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
20053012 CGATTTACAA
* * *
20053022 AATTACAGAAATACCCTTGTATGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
20053049 AATTACTGAAATAACCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* **
20053076 GATTACTGATTTACCCCTAG-AGGGTA
1 AATTACTGAAATACCCCT-GTAGGGTA
20053102 AAATGACTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:20053775 original size:27 final size:26
Alignment explanation
Indices: 20053731--20053782 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
20053721 CTCGCTGTAA
*
20053731 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
20053758 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
20053783 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:20055034 original size:38 final size:38
Alignment explanation
Indices: 20054966--20055058 Score: 132
Period size: 38 Copynumber: 2.4 Consensus size: 38
20054956 AACTTTTAAT
* *
20054966 ACACCGGCACTAAGCCTACTAGGCACAAAGCCTGAGTA
1 ACACCGGCACCAAGCCTACTAGGCACAAAGCCTGAATA
* * * *
20055004 ACACCGGCACCAAGTCTGCTAGTCATAAAGCCTGAATA
1 ACACCGGCACCAAGCCTACTAGGCACAAAGCCTGAATA
20055042 ACACCGGCACCAAGCCT
1 ACACCGGCACCAAGCCT
20055059 GAATAGCAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.33, C:0.33, G:0.19, T:0.14
Consensus pattern (38 bp):
ACACCGGCACCAAGCCTACTAGGCACAAAGCCTGAATA
Found at i:20058074 original size:68 final size:67
Alignment explanation
Indices: 20058002--20058151 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
20057992 CATCATGTGT
* * * * *
20058002 ACAAGAGAGCTACAAGACATTTTGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
20058064 ATGTAG
62 ATGTAG
* * *
20058070 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
20058135 AG
66 AG
20058137 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
20058152 GATAAACTGG
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
64 20 0.28
65 6 0.08
66 5 0.07
67 27 0.38
68 13 0.18
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:20062390 original size:20 final size:21
Alignment explanation
Indices: 20062367--20062405 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
20062357 ATACCCTTAA
20062367 CAAAGGATCGATA-CATTTCC
1 CAAAGGATCGATACCATTTCC
*
20062387 CAAAGTATCGATACCATTT
1 CAAAGGATCGATACCATTT
20062406 TACATTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (21 bp):
CAAAGGATCGATACCATTTCC
Found at i:20066181 original size:44 final size:44
Alignment explanation
Indices: 20066129--20066333 Score: 153
Period size: 44 Copynumber: 4.4 Consensus size: 44
20066119 TGCTCCGCTA
20066129 CAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTACTCCACTG
1 CAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTACTCCACTG
* * * **
20066173 CAACTTCAGGAAGATAAGATTTGTCATAATTTATAG-TTCAATCTGTTCCACTG
1 CAACTTCAGGGAGATAAGA-----C-----TTGTGGCTTCAATCTACTCCACTG
* * * * * *
20066226 CCACTTCAGGGAAATAAGA-TTCGCTGTCTTCAGTCTGCTCCGCTG
1 CAACTTCAGGGAGATAAGACTT-G-TGGCTTCAATCTACTCCACTG
* * *
20066271 TAACTTCAGGGAGATAAGACTTGTGGCTTCAATCGACTCCACTA
1 CAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTACTCCACTG
*
20066315 CAACTTCACGGAGATAAGA
1 CAACTTCAGGGAGATAAGA
20066334 TTCGTCATGA
Statistics
Matches: 122, Mismatches: 25, Indels: 28
0.70 0.14 0.16
Matches are distributed among these distances:
42 2 0.02
44 51 0.42
45 31 0.25
46 2 0.02
49 1 0.01
53 31 0.25
54 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGACTTGTGGCTTCAATCTACTCCACTG
Found at i:20066213 original size:142 final size:142
Alignment explanation
Indices: 20066067--20066341 Score: 437
Period size: 142 Copynumber: 1.9 Consensus size: 142
20066057 TATTTGCAGC
20066067 TTCAATCTGTTCCACT-ACAGCTTCAGGGAAAAAAGATTCGCTATATTCAGTCTGCTCCGCTACA
1 TTCAATCTGTTCCACTGACA-CTTCAGGGAAAAAAGATTCGCTATATTCAGTCTGCTCCGCTACA
* * *
20066131 ACTTCAGGGAGATAAGACTTGTGGCTTCAATCTACTCCACTGCAACTTCA-GGAAGATAAGATTT
65 ACTTCAGGGAGATAAGACTTGTGGCTTCAATCGACTCCACTACAACTTCACGG-AGATAAGATTC
20066195 GTCATAATTTATAG
129 GTCATAATTTATAG
* * * * **
20066209 TTCAATCTGTTCCACTGCCACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTCCGCTGTAA
1 TTCAATCTGTTCCACTGACACTTCAGGGAAAAAAGATTCGCTATATTCAGTCTGCTCCGCTACAA
20066274 CTTCAGGGAGATAAGACTTGTGGCTTCAATCGACTCCACTACAACTTCACGGAGATAAGATTCGT
66 CTTCAGGGAGATAAGACTTGTGGCTTCAATCGACTCCACTACAACTTCACGGAGATAAGATTCGT
20066339 CAT
131 CAT
20066342 GATGACTTAA
Statistics
Matches: 122, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
142 118 0.97
143 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (142 bp):
TTCAATCTGTTCCACTGACACTTCAGGGAAAAAAGATTCGCTATATTCAGTCTGCTCCGCTACAA
CTTCAGGGAGATAAGACTTGTGGCTTCAATCGACTCCACTACAACTTCACGGAGATAAGATTCGT
CATAATTTATAG
Found at i:20079402 original size:8 final size:8
Alignment explanation
Indices: 20079391--20079422 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
20079381 TAAAAATAGA
20079391 AAATGAAC
1 AAATGAAC
20079399 AAATGAAC
1 AAATGAAC
20079407 AAATGAAC
1 AAATGAAC
20079415 AAATGAAC
1 AAATGAAC
20079423 CACCTTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.12
Consensus pattern (8 bp):
AAATGAAC
Found at i:20079573 original size:11 final size:12
Alignment explanation
Indices: 20079550--20079585 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
20079540 AATTTGCTCC
20079550 TTTTGCTTGTTG
1 TTTTGCTTGTTG
20079562 TTTTGC-TGTTG
1 TTTTGCTTGTTG
20079573 TTTT-CTTG-TG
1 TTTTGCTTGTTG
20079583 TTT
1 TTT
20079586 ACATGCAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 6 0.26
11 11 0.48
12 6 0.26
ACGTcount: A:0.00, C:0.08, G:0.22, T:0.69
Consensus pattern (12 bp):
TTTTGCTTGTTG
Found at i:20084633 original size:14 final size:15
Alignment explanation
Indices: 20084605--20084635 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
20084595 TAGGTGTTGA
20084605 CATTAAAATATTAAT
1 CATTAAAATATTAAT
20084620 CATTAAAA-ATTAAT
1 CATTAAAATATTAAT
20084634 CA
1 CA
20084636 ACCAAATACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (15 bp):
CATTAAAATATTAAT
Found at i:20085108 original size:3 final size:3
Alignment explanation
Indices: 20085100--20085911 Score: 1624
Period size: 3 Copynumber: 270.7 Consensus size: 3
20085090 CATATTCCCA
20085100 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
20085148 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
20085196 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
20085244 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
20085292 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
20085340 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
20085388 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
20085436 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
20085484 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
20085532 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
20085580 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
20085628 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
20085676 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
20085724 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
20085772 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
20085820 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
20085868 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
20085912 CAATAATTCT
Statistics
Matches: 809, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 809 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:20103677 original size:3 final size:3
Alignment explanation
Indices: 20103669--20103694 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20103659 TTCAATTTGT
20103669 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
20103695 TGGGTTAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:20104431 original size:29 final size:29
Alignment explanation
Indices: 20104389--20104461 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
20104379 AATGACAAGA
20104389 GACCCTCTTCAAACCAAACTTAGCTAAAT
1 GACCCTCTTCAAACCAAACTTAGCTAAAT
20104418 GACCCTCTTCAAACCAAACTTAGCTAAAT
1 GACCCTCTTCAAACCAAACTTAGCTAAAT
20104447 GACCCTCTTCAAACC
1 GACCCTCTTCAAACC
20104462 TCTTCATTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.36, C:0.34, G:0.07, T:0.23
Consensus pattern (29 bp):
GACCCTCTTCAAACCAAACTTAGCTAAAT
Found at i:20121491 original size:17 final size:17
Alignment explanation
Indices: 20121469--20121515 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
20121459 TGTTTGTGGG
*
20121469 TTTATTTAAAAATTTAT
1 TTTATTTAAAAAATTAT
20121486 TTTATTTAAAAAATTA-
1 TTTATTTAAAAAATTAT
20121502 -TTATTTAAATAAAT
1 TTTATTTAAA-AAAT
20121516 ACATTTCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 9 0.32
16 4 0.14
17 15 0.54
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTATTTAAAAAATTAT
Found at i:20132136 original size:40 final size:39
Alignment explanation
Indices: 20132038--20132300 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
20132028 TCCTCGTTCA
* * * *
20132038 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
20132077 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
20132116 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
20132156 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
20132196 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
20132236 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
20132277 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20132301 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:20132260 original size:120 final size:119
Alignment explanation
Indices: 20132038--20132300 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
20132028 TCCTCGTTCA
* * *
20132038 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
20132103 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
20132156 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
20132221 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
20132277 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
20132301 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:20132309 original size:41 final size:41
Alignment explanation
Indices: 20132232--20132309 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
20132222 TTTGTATCTC
* * *
20132232 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
20132273 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
20132310 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:20140126 original size:40 final size:39
Alignment explanation
Indices: 20140028--20140210 Score: 188
Period size: 40 Copynumber: 4.6 Consensus size: 39
20140018 TCCTCGTTCA
* * *
20140028 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACAC
* *
20140067 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACAC
* *
20140106 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACAC
* * * * * *
20140146 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCA-CAC
* *
20140187 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20140211 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 39 0.32
40 76 0.63
41 6 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACAC
Found at i:20143672 original size:34 final size:34
Alignment explanation
Indices: 20143629--20143697 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
20143619 AGAAATTGAA
*
20143629 ATAATGTTTCTAGTCAAGCCTGGCACAAAATAAC
1 ATAATGTTTCTAGTCAAGCCTGACACAAAATAAC
20143663 ATAATGTTTCTAGTCAAGCCTGACACAAAATAAC
1 ATAATGTTTCTAGTCAAGCCTGACACAAAATAAC
20143697 A
1 A
20143698 ATCCTCCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (34 bp):
ATAATGTTTCTAGTCAAGCCTGACACAAAATAAC
Found at i:20153182 original size:17 final size:17
Alignment explanation
Indices: 20153144--20153182 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
20153134 AATTGGGTAG
20153144 AAAAAATAATTTAATTA
1 AAAAAATAATTTAATTA
*
20153161 GAAAAATCAATTTAA-TA
1 AAAAAAT-AATTTAATTA
20153178 AAAAA
1 AAAAA
20153183 TTAACTAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAAAATAATTTAATTA
Found at i:20158449 original size:96 final size:96
Alignment explanation
Indices: 20158340--20158529 Score: 256
Period size: 96 Copynumber: 2.0 Consensus size: 96
20158330 AGGTTGCATG
* * * *
20158340 TTGATTGAATTGAGAAAACCATTACTGT-TGAACAATTTAGGATGGTTTTATAAATCGTTATAGA
1 TTGATTGAATTGAGAAAACCATTACTGTCGGAA-AATCTAAGATGGTGTTATAAATCGTTATAGA
20158404 ATCATCGTTGTCGAGCAACCCAAGGTGACATA
65 ATCATCGTTGTCGAGCAACCCAAGGTGACATA
* * * **
20158436 TTGATTGAATTGAGAAAACCATTGCTGTCGGGAAATCTAAGATGGTGTTATAAATTGTTATAGTG
1 TTGATTGAATTGAGAAAACCATTACTGTCGGAAAATCTAAGATGGTGTTATAAATCGTTATAGAA
* **
20158501 TCATCGTTGTCGTGCAACCCGGGGTGACA
66 TCATCGTTGTCGAGCAACCCAAGGTGACA
20158530 GATCCGTGTA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
96 79 0.98
97 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (96 bp):
TTGATTGAATTGAGAAAACCATTACTGTCGGAAAATCTAAGATGGTGTTATAAATCGTTATAGAA
TCATCGTTGTCGAGCAACCCAAGGTGACATA
Found at i:20159115 original size:17 final size:17
Alignment explanation
Indices: 20159093--20159126 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
20159083 ACTCAACAAT
20159093 TTTTGTTCATTT-TTGGC
1 TTTTGTT-ATTTATTGGC
20159110 TTTTGTTATTTATTGGC
1 TTTTGTTATTTATTGGC
20159127 ATGTACCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.09, C:0.09, G:0.18, T:0.65
Consensus pattern (17 bp):
TTTTGTTATTTATTGGC
Found at i:20169106 original size:19 final size:18
Alignment explanation
Indices: 20169084--20169127 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
20169074 ATTTTTAAAA
20169084 ATTAAAAACTATTAAAATT
1 ATTAAAAACTA-TAAAATT
* *
20169103 ATTAAAAAGTATAAATTT
1 ATTAAAAACTATAAAATT
20169121 A-TAAAAA
1 ATTAAAAA
20169128 AATATGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 7 0.30
19 10 0.43
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
ATTAAAAACTATAAAATT
Found at i:20172100 original size:96 final size:96
Alignment explanation
Indices: 20171948--20172129 Score: 256
Period size: 96 Copynumber: 1.9 Consensus size: 96
20171938 GCTCCTCTTA
* * * * *
20171948 GCCCTTTTGGCTTCAGCATTTCCCTTGCTCGAACCAAGCATCTTGGGATCCTTGTCTGCTCTATT
1 GCCCTCTTGGCTTCAGCATTTCCCTTGCTCGAACCAAGCATCTTGGGATCCGTGTCTACTCCATC
* * *
20172013 TTTCCCTTCGATGACAGACTTGCTCCCCATT
66 GTTCACATCGATGACAGACTTGCTCCCCATT
* * * *
20172044 GCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCGTGTCTACTCCATC
1 GCCCTCTTGGCTTCAGCATTTCCCTTGCTCGAACCAAGCATCTTGGGATCCGTGTCTACTCCATC
20172109 GTTCACATCGATGACAGACTT
66 GTTCACATCGATGACAGACTT
20172130 CTTCGGACAC
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.14, C:0.33, G:0.18, T:0.35
Consensus pattern (96 bp):
GCCCTCTTGGCTTCAGCATTTCCCTTGCTCGAACCAAGCATCTTGGGATCCGTGTCTACTCCATC
GTTCACATCGATGACAGACTTGCTCCCCATT
Found at i:20182261 original size:20 final size:19
Alignment explanation
Indices: 20182236--20182285 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
20182226 GACCATTTGC
20182236 TTAATTAATTTAAGGTTTAA
1 TTAATTAATTT-AGGTTTAA
* * *
20182256 TTAATTAAATTATGTTTGA
1 TTAATTAATTTAGGTTTAA
20182275 TTAACTTAATT
1 TTAA-TTAATT
20182286 ATATATAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (19 bp):
TTAATTAATTTAGGTTTAA
Found at i:20182277 original size:19 final size:19
Alignment explanation
Indices: 20182231--20182287 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
20182221 AATGGGACCA
* * *
20182231 TTTGCTTAATTAATTTAAGG
1 TTTGATTAATTAAATT-ATG
*
20182251 TTTAATTAATTAAATTATG
1 TTTGATTAATTAAATTATG
20182270 TTTGATTAACTT-AATTAT
1 TTTGATTAA-TTAAATTAT
20182288 ATATAATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTGATTAATTAAATTATG
Found at i:20186687 original size:20 final size:21
Alignment explanation
Indices: 20186664--20186710 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
20186654 TACAAACTGT
20186664 AATTCATTC-ATATAACCAGC
1 AATTCATTCTATATAACCAGC
* * *
20186684 AATTGA-TCTGTATAACCAGT
1 AATTCATTCTATATAACCAGC
20186704 AATTCAT
1 AATTCAT
20186711 CAGTAATAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (21 bp):
AATTCATTCTATATAACCAGC
Found at i:20186925 original size:24 final size:23
Alignment explanation
Indices: 20186870--20186995 Score: 121
Period size: 23 Copynumber: 5.4 Consensus size: 23
20186860 AAGTCATGGT
*
20186870 CGGTAAGCTCCTCTTGAGCTGATAAA
1 CGGTAAGCT-CTATTGAGCTG--AAA
*
20186896 CAGTAAGCTCTATTGAGCTGAAAA
1 CGGTAAGCTCTATTGAGCTG-AAA
*
20186920 CGGTAAGCTCTATTAAGCTGAAA
1 CGGTAAGCTCTATTGAGCTGAAA
* *
20186943 --GTAAGCTCTATCGAGCTGAAT
1 CGGTAAGCTCTATTGAGCTGAAA
* * *
20186964 CGGTAAGCTCCAATAAGCTGAAA
1 CGGTAAGCTCTATTGAGCTGAAA
*
20186987 CAGTAAGCT
1 CGGTAAGCT
20186996 TTTACGGGCT
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
21 18 0.21
23 27 0.32
24 21 0.25
25 10 0.12
26 8 0.10
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (23 bp):
CGGTAAGCTCTATTGAGCTGAAA
Found at i:20186959 original size:45 final size:46
Alignment explanation
Indices: 20186893--20186995 Score: 147
Period size: 44 Copynumber: 2.3 Consensus size: 46
20186883 TTGAGCTGAT
* * *
20186893 AAACAGTAAGCTCTATTGAGCTGAAAACGGTAAGCTCTATTAAGCTG
1 AAACAGTAAGCTCTATCGAGCTG-AAACGGTAAGCTCCAATAAGCTG
*
20186940 -AA-AGTAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATAAGCTG
1 AAACAGTAAGCTCTATCGAGCTGAAACGGTAAGCTCCAATAAGCTG
20186984 AAACAGTAAGCT
1 AAACAGTAAGCT
20186996 TTTACGGGCT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
44 20 0.40
45 20 0.40
46 10 0.20
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.23
Consensus pattern (46 bp):
AAACAGTAAGCTCTATCGAGCTGAAACGGTAAGCTCCAATAAGCTG
Found at i:20186973 original size:23 final size:23
Alignment explanation
Indices: 20186870--20187029 Score: 98
Period size: 23 Copynumber: 6.9 Consensus size: 23
20186860 AAGTCATGGT
* *
20186870 CGGTAAGCTCCTCTTGAGCTGATAAA
1 CGGTAAGCT-CTATCGAGCTG--AAA
* *
20186896 CAGTAAGCTCTATTGAGCTGAAAA
1 CGGTAAGCTCTATCGAGCTG-AAA
**
20186920 CGGTAAGCTCTATTAAGCTGAAA
1 CGGTAAGCTCTATCGAGCTGAAA
*
20186943 --GTAAGCTCTATCGAGCTGAAT
1 CGGTAAGCTCTATCGAGCTGAAA
* *
20186964 CGGTAAGCTCCAAT-AAGCTGAAA
1 CGGTAAGCT-CTATCGAGCTGAAA
* * *
20186987 CAGTAAGCT-TTTACGGGCT-AAA
1 CGGTAAGCTCTAT-CGAGCTGAAA
20187009 TCGGTAAGCTC-ATACGAGCTG
1 -CGGTAAGCTCTAT-CGAGCTG
20187030 TGGTGAGTCT
Statistics
Matches: 107, Mismatches: 19, Indels: 18
0.74 0.13 0.12
Matches are distributed among these distances:
21 19 0.18
22 3 0.03
23 43 0.40
24 24 0.22
25 10 0.09
26 8 0.07
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (23 bp):
CGGTAAGCTCTATCGAGCTGAAA
Found at i:20187011 original size:46 final size:44
Alignment explanation
Indices: 20186897--20187019 Score: 140
Period size: 46 Copynumber: 2.7 Consensus size: 44
20186887 GCTGATAAAC
* * * *
20186897 AGTAAGCTCTATTGAGCTGAAAACGGTAAGCTCTATTAAGCTGAA
1 AGTAAGCTCTATCGAGCT-AAATCGGTAAGCTCCAATAAGCTGAA
*
20186942 AGTAAGCTCTATCGAGCTGAATCGGTAAGCTCCAATAAGCTGAAA
1 AGTAAGCTCTATCGAGCTAAATCGGTAAGCTCCAATAAGCTG-AA
* *
20186987 CAGTAAGCT-TTTACGGGCTAAATCGGTAAGCTC
1 -AGTAAGCTCTAT-CGAGCTAAATCGGTAAGCTC
20187020 ATACGAGCTG
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
44 20 0.30
45 21 0.31
46 26 0.39
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (44 bp):
AGTAAGCTCTATCGAGCTAAATCGGTAAGCTCCAATAAGCTGAA
Found at i:20187849 original size:21 final size:21
Alignment explanation
Indices: 20187802--20187851 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
20187792 AAATCACTTT
*
20187802 ATAAAAC-TTATTAATCTAGC
1 ATAAAACATTAATAATCTAGC
* * *
20187822 TTCAAACATTAATAATCTATC
1 ATAAAACATTAATAATCTAGC
20187843 ATAAAACAT
1 ATAAAACAT
20187852 ATAAAAAACC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (21 bp):
ATAAAACATTAATAATCTAGC
Found at i:20197314 original size:20 final size:20
Alignment explanation
Indices: 20197289--20197327 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20197279 ATGGACTAAA
* *
20197289 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
20197309 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
20197328 TATGGATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:20206638 original size:18 final size:18
Alignment explanation
Indices: 20206615--20206679 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
20206605 GCGACTCAGT
* *
20206615 GGTAGCTGGTGCAATAGA
1 GGTAGCAGGTGGAATAGA
20206633 GGTAGCAGGTGGAATAGA
1 GGTAGCAGGTGGAATAGA
* *
20206651 GGTAGCAGATGGAACAGA
1 GGTAGCAGGTGGAATAGA
20206669 GGTAGCTAGGT
1 GGTAGC-AGGT
20206680 TGAGAGTTAG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
18 38 0.93
19 3 0.07
ACGTcount: A:0.31, C:0.09, G:0.42, T:0.18
Consensus pattern (18 bp):
GGTAGCAGGTGGAATAGA
Found at i:20211737 original size:35 final size:35
Alignment explanation
Indices: 20211691--20211762 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
20211681 GTTTGGTATC
20211691 TTGAGACGGGGTTAGCCATTATCTTGAATTTATTG
1 TTGAGACGGGGTTAGCCATTATCTTGAATTTATTG
*
20211726 TTGAGATGGGGTTAGCCATTATCTTGAATTTATTG
1 TTGAGACGGGGTTAGCCATTATCTTGAATTTATTG
20211761 TT
1 TT
20211763 TACTTATGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.43
Consensus pattern (35 bp):
TTGAGACGGGGTTAGCCATTATCTTGAATTTATTG
Found at i:20214855 original size:9 final size:10
Alignment explanation
Indices: 20214828--20214852 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
20214818 TTTTTTTTTT
20214828 ATAAAATTAC
1 ATAAAATTAC
20214838 ATAAAATTAC
1 ATAAAATTAC
20214848 ATAAA
1 ATAAA
20214853 TTATATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (10 bp):
ATAAAATTAC
Found at i:20214941 original size:30 final size:29
Alignment explanation
Indices: 20214891--20214951 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
20214881 GTATAATTTT
* *
20214891 AAAATTAATCTCATAATTTATAACTATAAAA
1 AAAATTAATCTAAAAATTTATAA-T-TAAAA
20214922 AAAATTAAT-TAAAAATTTATAATTAAAA
1 AAAATTAATCTAAAAATTTATAATTAAAA
20214950 AA
1 AA
20214952 TGCTAATGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.25
29 1 0.04
30 11 0.39
31 9 0.32
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (29 bp):
AAAATTAATCTAAAAATTTATAATTAAAA
Found at i:20216860 original size:16 final size:15
Alignment explanation
Indices: 20216839--20216868 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
20216829 CTTTAAAAGT
20216839 TATAAAAAATATAAAC
1 TATAAAAAAT-TAAAC
20216855 TATAAAAAATTAAA
1 TATAAAAAATTAAA
20216869 ATTTCATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
TATAAAAAATTAAAC
Found at i:20218247 original size:18 final size:19
Alignment explanation
Indices: 20218217--20218252 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
20218207 AGGATTTTTA
20218217 CATGTGAAACCCTAGGTAT
1 CATGTGAAACCCTAGGTAT
20218236 CATGTG-AACCCTAGGTA
1 CATGTGAAACCCTAGGTA
20218253 ATATGCGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (19 bp):
CATGTGAAACCCTAGGTAT
Found at i:20218262 original size:18 final size:18
Alignment explanation
Indices: 20218224--20218262 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20218214 TTACATGTGA
*
20218224 AACCCTAGGTATCATGTG
1 AACCCTAGGTATCATGCG
20218242 AACCCTAGGTAAT-ATGCG
1 AACCCTAGGT-ATCATGCG
20218260 AAC
1 AAC
20218263 ATTGTATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (18 bp):
AACCCTAGGTATCATGCG
Found at i:20218590 original size:21 final size:21
Alignment explanation
Indices: 20218539--20218593 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
20218529 TAGAACTAAC
*
20218539 TATGCGAACACTATAATATGA
1 TATGCGAACCCTATAATATGA
20218560 TATGCGAACCCTATAATATGA
1 TATGCGAACCCTATAATATGA
20218581 TATGCGAACCCTA
1 TATGCGAACCCTA
20218594 GGAATATGTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (21 bp):
TATGCGAACCCTATAATATGA
Found at i:20220673 original size:16 final size:15
Alignment explanation
Indices: 20220639--20220683 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
20220629 ATTTTATTTC
* *
20220639 TTTTAGTTTTATTTAG
1 TTTTA-TTTTTTTTTG
20220655 TTTTATTTTCTTTTTG
1 TTTTATTTT-TTTTTG
20220671 TTTTATTTTTTTT
1 TTTTATTTTTTTT
20220684 ATTTTTCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.11, C:0.02, G:0.07, T:0.80
Consensus pattern (15 bp):
TTTTATTTTTTTTTG
Found at i:20220692 original size:26 final size:26
Alignment explanation
Indices: 20220630--20220688 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
20220620 TGTTAATAAA
20220630 TTTTA-TTTCTTTTAGTTTTATTTAG
1 TTTTATTTTCTTTTAGTTTTATTTAG
* *
20220655 TTTTATTTTCTTTTTGTTTTATTT-T
1 TTTTATTTTCTTTTAGTTTTATTTAG
20220680 TTTTATTTT
1 TTTTATTTT
20220689 TCTTGTCCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 14 0.45
26 17 0.55
ACGTcount: A:0.12, C:0.03, G:0.05, T:0.80
Consensus pattern (26 bp):
TTTTATTTTCTTTTAGTTTTATTTAG
Found at i:20231408 original size:8 final size:8
Alignment explanation
Indices: 20231395--20231420 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
20231385 TGATTCAATA
20231395 AATTAAAT
1 AATTAAAT
20231403 AATTAAAT
1 AATTAAAT
20231411 AATTAAAT
1 AATTAAAT
20231419 AA
1 AA
20231421 AATTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AATTAAAT
Found at i:20231492 original size:20 final size:20
Alignment explanation
Indices: 20231462--20231499 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
20231452 ACCACCCTTT
20231462 CTAAAAAAATTAA-GAACTC
1 CTAAAAAAATTAATGAACTC
20231481 CTAAAAATAATTAATGAAC
1 CTAAAAA-AATTAATGAAC
20231500 AAAAAAGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.24
Consensus pattern (20 bp):
CTAAAAAAATTAATGAACTC
Found at i:20232006 original size:17 final size:18
Alignment explanation
Indices: 20231979--20232012 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20231969 AATTAAATAT
20231979 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
20231997 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
20232013 TAAACAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:20232354 original size:29 final size:30
Alignment explanation
Indices: 20232298--20232355 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
20232288 CTTTTGAAAA
* * * *
20232298 TATTTACAAAAAGAAGCATCTAATTTTTAT
1 TATTCACAAAAAGAAGCAACCAAATTTTAT
20232328 TATTCACAAAAA-AAGCAACCAAATTTTA
1 TATTCACAAAAAGAAGCAACCAAATTTTA
20232356 AAAATAGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (30 bp):
TATTCACAAAAAGAAGCAACCAAATTTTAT
Found at i:20239529 original size:14 final size:14
Alignment explanation
Indices: 20239510--20239540 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20239500 TCTCCTTGGC
*
20239510 CGGTTCGGTTCACT
1 CGGTTCGGTTCAAT
20239524 CGGTTCGGTTCAAT
1 CGGTTCGGTTCAAT
20239538 CGG
1 CGG
20239541 ACCATTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.26, G:0.32, T:0.32
Consensus pattern (14 bp):
CGGTTCGGTTCAAT
Found at i:20247134 original size:38 final size:40
Alignment explanation
Indices: 20247085--20247163 Score: 101
Period size: 38 Copynumber: 2.0 Consensus size: 40
20247075 GGTCCTAAAA
*
20247085 ATATTATTTTAGAAAATTCT-AAAATTTTAACTT-TTTTAT
1 ATATTATTTTAG-AAATTCTAAAAATTTTAAATTGTTTTAT
* *
20247124 ATATT-TTTTAGAATTTTTAAAAATTTTAAATTGTTTTAT
1 ATATTATTTTAGAAATTCTAAAAATTTTAAATTGTTTTAT
20247163 A
1 A
20247164 AAATATGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 5 0.14
38 18 0.51
39 12 0.34
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (40 bp):
ATATTATTTTAGAAATTCTAAAAATTTTAAATTGTTTTAT
Found at i:20247167 original size:20 final size:19
Alignment explanation
Indices: 20247104--20247167 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
20247094 TAGAAAATTC
*
20247104 TAAAATTTTAACTTTTTTA
1 TAAAATTTTAAATTTTTTA
**
20247123 TATATTTTTTAGAA-TTTTTA
1 TA-AAATTTTA-AATTTTTTA
20247143 -AAAATTTTAAATTGTTTTA
1 TAAAATTTTAAATT-TTTTA
20247162 TAAAAT
1 TAAAAT
20247168 ATGAATGTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
17 2 0.06
18 7 0.20
19 8 0.23
20 17 0.49
21 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (19 bp):
TAAAATTTTAAATTTTTTA
Found at i:20247311 original size:9 final size:9
Alignment explanation
Indices: 20247297--20247329 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
20247287 CAAATCTGTC
20247297 ATTCAAGTT
1 ATTCAAGTT
*
20247306 ATTCAAATT
1 ATTCAAGTT
20247315 ATTCAAGTT
1 ATTCAAGTT
20247324 ATTCAA
1 ATTCAA
20247330 ATTGTGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (9 bp):
ATTCAAGTT
Found at i:20247320 original size:18 final size:18
Alignment explanation
Indices: 20247297--20247332 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
20247287 CAAATCTGTC
20247297 ATTCAAGTTATTCAAATT
1 ATTCAAGTTATTCAAATT
20247315 ATTCAAGTTATTCAAATT
1 ATTCAAGTTATTCAAATT
20247333 GTGAAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (18 bp):
ATTCAAGTTATTCAAATT
Found at i:20254341 original size:30 final size:31
Alignment explanation
Indices: 20254305--20254376 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
20254295 GGTTTCATTT
* *
20254305 CAGTCACTCAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACT-AACGTTATAAAAAAGTAACAAAA
*
20254335 CAGTCACTAACGTTATAAAAAAGTGACAAAA
1 CAGTCACTAACGTTATAAAAAAGTAACAAAA
*
20254366 CAGTCATTAAC
1 CAGTCACTAAC
20254377 TAACGGTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 3 0.08
30 16 0.44
31 17 0.47
ACGTcount: A:0.49, C:0.19, G:0.10, T:0.22
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAAGTAACAAAA
Found at i:20254510 original size:3 final size:3
Alignment explanation
Indices: 20254504--20254549 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
20254494 CTTTTAATAG
* *
20254504 AGA AGA AGA AGA AGA AAA AGCA A-A AGC AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA AGA AGA AGA AGA AGA
20254549 A
1 A
20254550 ACTTTCGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.67, C:0.04, G:0.28, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:20255435 original size:21 final size:21
Alignment explanation
Indices: 20255409--20255449 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
20255399 CTATGTGGCA
20255409 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
*
20255430 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
20255450 GGTTCTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:20255723 original size:20 final size:19
Alignment explanation
Indices: 20255698--20255737 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
20255688 TAATTGATTT
*
20255698 AATCAATCCGATCAATATAA
1 AATCAATCCAATC-ATATAA
*
20255718 AATCAATTCAATCATATAA
1 AATCAATCCAATCATATAA
20255737 A
1 A
20255738 TAAAATATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.28
Consensus pattern (19 bp):
AATCAATCCAATCATATAA
Found at i:20256778 original size:30 final size:31
Alignment explanation
Indices: 20256744--20256806 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
20256734 ACTTATTTTA
20256744 TTGTTAA-TTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTTGTTATTATTTTAAAGGCAT
* * *
20256774 TTGTTAATTTTTTTTATTATTTTAGAGGTAT
1 TTGTTAATTTTTGTTATTATTTTAAAGGCAT
20256805 TT
1 TT
20256807 TCTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.62
Consensus pattern (31 bp):
TTGTTAATTTTTGTTATTATTTTAAAGGCAT
Found at i:20258632 original size:85 final size:85
Alignment explanation
Indices: 20258484--20258668 Score: 257
Period size: 85 Copynumber: 2.2 Consensus size: 85
20258474 AACACTCCAC
** * **
20258484 ATACTTGTGTTGTTATAGGTATGTCACAGGATCATCTCAAATTTGATTCTAACCTTATCTCTAAT
1 ATACTTGTGTTGTTGCAGGTATGCCACAAAATCATCTCAAATTTGATTCTAACCTTATCTCTAAT
*
20258549 ATTGTCTTACGTATGATGAA
66 ATTGTCTTACATATGATGAA
* *
20258569 ATACTTGTGTTGTTGCAGGTATGCCACAAAATCATC-CTAAA-TTGAATTCTGACCTTATTTCTA
1 ATACTTGTGTTGTTGCAGGTATGCCACAAAATCATCTC-AAATTTG-ATTCTAACCTTATCTCTA
*
20258632 ATATTGTCTTACATATGGTGAA
64 ATATTGTCTTACATATGATGAA
20258654 ATACTTGTGTTGTTG
1 ATACTTGTGTTGTTG
20258669 TAAAGAAAGA
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
84 4 0.04
85 85 0.96
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (85 bp):
ATACTTGTGTTGTTGCAGGTATGCCACAAAATCATCTCAAATTTGATTCTAACCTTATCTCTAAT
ATTGTCTTACATATGATGAA
Found at i:20264246 original size:3 final size:3
Alignment explanation
Indices: 20264240--20264265 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
20264230 ACTAAAAAAA
20264240 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
20264266 AAAAAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:20266383 original size:21 final size:20
Alignment explanation
Indices: 20266320--20266377 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
20266310 TTTAGTTATT
*
20266320 TTAATTTTTAATTTCTAAATT-
1 TTAAATTTTAATTT-T-AATTA
*
20266341 TGAAATTTTAATTTTAATTA
1 TTAAATTTTAATTTTAATTA
20266361 TTAAATTATTAAGTTTT
1 TTAAATT-TTAA-TTTT
20266378 GATATTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 4 0.13
20 7 0.23
21 16 0.52
22 4 0.13
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (20 bp):
TTAAATTTTAATTTTAATTA
Found at i:20271531 original size:47 final size:47
Alignment explanation
Indices: 20271478--20271569 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
20271468 ACAATTAGGG
20271478 TTTTCATACTTATAGGGTTCACATATATGTATATAAGTAAAGATTGA
1 TTTTCATACTTATAGGGTTCACATATATGTATATAAGTAAAGATTGA
*
20271525 TTTTCATACTTATAGGGTTCACATATATGTATATAAGTAAGGATT
1 TTTTCATACTTATAGGGTTCACATATATGTATATAAGTAAAGATT
20271570 CACATACGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (47 bp):
TTTTCATACTTATAGGGTTCACATATATGTATATAAGTAAAGATTGA
Found at i:20277587 original size:21 final size:21
Alignment explanation
Indices: 20277535--20277580 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
20277525 AACAGAGTCG
*
20277535 GTGTCGCAACACGGAATCCCA
1 GTGTAGCAACACGGAATCCCA
*
20277556 GTGTAGCAACACGGAATCCCT
1 GTGTAGCAACACGGAATCCCA
20277577 GTGT
1 GTGT
20277581 TACAACATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (21 bp):
GTGTAGCAACACGGAATCCCA
Found at i:20287041 original size:47 final size:47
Alignment explanation
Indices: 20286975--20287450 Score: 826
Period size: 47 Copynumber: 10.1 Consensus size: 47
20286965 GAAATGATAG
20286975 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20287022 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20287069 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20287116 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATATGTGA
20287165 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20287212 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20287259 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
20287306 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20287353 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
20287400 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
20287447 TAAG
1 TAAG
20287451 TCCCGAAGGG
Statistics
Matches: 410, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 363 0.89
49 47 0.11
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:20287298 original size:190 final size:188
Alignment explanation
Indices: 20286975--20287450 Score: 826
Period size: 190 Copynumber: 2.5 Consensus size: 188
20286965 GAAATGATAG
20286975 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
20287040 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
20287105 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGA
131 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--GTGTATATATGTGA
20287165 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
20287230 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
20287295 TATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
131 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * *
20287353 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACGGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * *
20287418 GTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAG
20287451 TCCCGAAGGG
Statistics
Matches: 274, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
188 102 0.37
190 172 0.63
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (188 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:20296573 original size:26 final size:26
Alignment explanation
Indices: 20296526--20296577 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
20296516 CATATTTGGC
*
20296526 CATAACATATATAAATTCTAACATTT
1 CATAACACATATAAATTCTAACATTT
20296552 CATAACAGCATATAAATT-TAACATTT
1 CATAACA-CATATAAATTCTAACATTT
20296578 AATTACCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (26 bp):
CATAACACATATAAATTCTAACATTT
Found at i:20298583 original size:4 final size:4
Alignment explanation
Indices: 20298574--20298600 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
20298564 CGGGCCCGCG
20298574 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
20298601 AAACAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:20312110 original size:220 final size:219
Alignment explanation
Indices: 20311730--20312166 Score: 698
Period size: 220 Copynumber: 2.0 Consensus size: 219
20311720 AAATCTGACC
* * * *
20311730 TTCAGGTGTTTATGTTGAAGTAGGTCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAAT
1 TTCACGTGTTTATGCTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
*
20311795 TGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGTAGATCTAAC
66 TGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGTAGATCAAAC
* * *
20311860 TTTCGGATGTTGTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGTGTTTA-CA-AGGAG
131 CTTCGGATGTTGTCACATCAAAGCAGATCCAAGATGATTTGGCATCCTTGTATTTATCAGA-GAG
*
20311923 CAGATCGAAGACATAGCAGATTTGGAT
195 CAGATCGAAG--ATAACAGATTTGGAT
*
20311950 TTCACGTGTTTATGCTGAAGTAGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
1 TTCACGTGTTTATGCTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
20312015 TGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGTAGATCAAAC
66 TGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGTAGATCAAAC
* ** *
20312080 CTTCGGATGTTTTTGCATCGAAGCAGATCCAAGATGATTTGGCATCCTTGTATTTATCAGAGAGC
131 CTTCGGATGTTGTCACATCAAAGCAGATCCAAGATGATTTGGCATCCTTGTATTTATCAGAGAGC
*
20312145 AGATTGAAGATAACAGATTTGG
196 AGATCGAAGATAACAGATTTGG
20312167 CGTCTCTATA
Statistics
Matches: 200, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
219 12 0.06
220 173 0.87
221 14 0.07
222 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (219 bp):
TTCACGTGTTTATGCTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
TGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGTAGATCAAAC
CTTCGGATGTTGTCACATCAAAGCAGATCCAAGATGATTTGGCATCCTTGTATTTATCAGAGAGC
AGATCGAAGATAACAGATTTGGAT
Found at i:20312189 original size:44 final size:44
Alignment explanation
Indices: 20312136--20312257 Score: 190
Period size: 44 Copynumber: 2.8 Consensus size: 44
20312126 CTTGTATTTA
*
20312136 TCAGAGAGCAGATTGAAGATAACAGATTTGGCGTCTCTATATTG
1 TCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTG
* * *
20312180 TCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTG
1 TCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTG
* *
20312224 TCAGAGAGCGGATCGAAGATAACAGATCTGGCGT
1 TCAGAGAGCAGATCGAAGATAACAGATTTGGCGT
20312258 TCCTGAGTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 70 1.00
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (44 bp):
TCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATATTG
Found at i:20314260 original size:46 final size:46
Alignment explanation
Indices: 20314210--20314385 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
20314200 TGGTTAAGCA
20314210 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *** * *
20314256 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
20314303 TCCGAGCTCGTTGAGTTGAGTCCGAGATCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
20314349 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20314386 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.63
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:20314366 original size:93 final size:93
Alignment explanation
Indices: 20314207--20314377 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
20314197 GGATGGTTAA
* *
20314207 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGATCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
*
20314272 TGAGTCTGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
20314300 GCATCCGAGCTCGTTGAGTTGAGTCCGAGATCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGATCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
20314365 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
20314378 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGATCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:20316666 original size:28 final size:26
Alignment explanation
Indices: 20316605--20316692 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 26
20316595 ACTTTATAAT
20316605 TCATTTTATTA-TATT-TATA-TATA
1 TCATTTTATTATTATTATATATTATA
* *
20316628 T-A-TGTA-AATTATTATATATTATA
1 TCATTTTATTATTATTATATATTATA
* *
20316651 TCATCTTTATTTATTATTTTATTTTATA
1 TCAT-TTTA-TTATTATTATATATTATA
20316679 TCATTTTATTATTA
1 TCATTTTATTATTA
20316693 ACTATTTATT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
20 1 0.02
21 7 0.14
22 5 0.10
23 6 0.12
24 1 0.02
26 9 0.18
27 4 0.08
28 18 0.35
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (26 bp):
TCATTTTATTATTATTATATATTATA
Found at i:20316686 original size:15 final size:15
Alignment explanation
Indices: 20316646--20316688 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
20316636 TTATTATATA
20316646 TTATATCATCTTTA-T
1 TTATATCAT-TTTATT
20316661 TTAT-T-ATTTTATT
1 TTATATCATTTTATT
20316674 TTATATCATTTTATT
1 TTATATCATTTTATT
20316689 ATTAACTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 7 0.28
14 2 0.08
15 12 0.48
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATCATTTTATT
Found at i:20322375 original size:77 final size:77
Alignment explanation
Indices: 20322248--20322401 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
20322238 TTGGTGATAT
20322248 CTGGAATATCCAACAAGAAAACAATATCACTCTTTTCCAGCCAGTCGATCCAACATATGATCAAC
1 CTGGAATATCCAACAAGAAAACAATATCACTCTTTTCCAGCCAGTCGATCCAACATATGATCAAC
20322313 AGAAGGAAGAGG
66 AGAAGGAAGAGG
20322325 CTGGAATATCCAACAAGAAAACAATATCACTCTTTTCCAGCCAGTCGATCCAACATATGATCAAC
1 CTGGAATATCCAACAAGAAAACAATATCACTCTTTTCCAGCCAGTCGATCCAACATATGATCAAC
20322390 AGAAGGAAGAGG
66 AGAAGGAAGAGG
20322402 AAAATGATCA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.19
Consensus pattern (77 bp):
CTGGAATATCCAACAAGAAAACAATATCACTCTTTTCCAGCCAGTCGATCCAACATATGATCAAC
AGAAGGAAGAGG
Found at i:20322473 original size:57 final size:57
Alignment explanation
Indices: 20322402--20322516 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
20322392 AAGGAAGAGG
20322402 AAAATGATCATTTTTTGTCGCATCATTTAGCTTTCTGTAATCAATTCATACCTTCCA
1 AAAATGATCATTTTTTGTCGCATCATTTAGCTTTCTGTAATCAATTCATACCTTCCA
* *
20322459 AAAATGATCCTTTTTTGTCGCATCGTTTAGCTTTCTGTAATCAATTCATACCTTCCA
1 AAAATGATCATTTTTTGTCGCATCATTTAGCTTTCTGTAATCAATTCATACCTTCCA
20322516 A
1 A
20322517 CCATTGACTG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.42
Consensus pattern (57 bp):
AAAATGATCATTTTTTGTCGCATCATTTAGCTTTCTGTAATCAATTCATACCTTCCA
Found at i:20327561 original size:18 final size:18
Alignment explanation
Indices: 20327538--20327576 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
20327528 GGTGTATGAG
*
20327538 CCACACAGGCGTGTGGAC
1 CCACACAGGCATGTGGAC
* *
20327556 CCACACTGGCATGTGGGC
1 CCACACAGGCATGTGGAC
20327574 CCA
1 CCA
20327577 TCATACTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.31, T:0.13
Consensus pattern (18 bp):
CCACACAGGCATGTGGAC
Found at i:20353911 original size:20 final size:20
Alignment explanation
Indices: 20353886--20353927 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
20353876 TCTGTTATTG
* *
20353886 TTTGACGTATAAATGGTAAA
1 TTTGACATATAAATGGAAAA
20353906 TTTGACATATAAATGGAAAA
1 TTTGACATATAAATGGAAAA
20353926 TT
1 TT
20353928 AAGTATAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.36
Consensus pattern (20 bp):
TTTGACATATAAATGGAAAA
Found at i:20360264 original size:13 final size:13
Alignment explanation
Indices: 20360246--20360270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20360236 TTGGGATTTT
20360246 TTAATTATTTTAG
1 TTAATTATTTTAG
20360259 TTAATTATTTTA
1 TTAATTATTTTA
20360271 AAAATCGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTAATTATTTTAG
Found at i:20365616 original size:15 final size:16
Alignment explanation
Indices: 20365589--20365618 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20365579 TAATATTAAA
20365589 TTATTTTTAAATTTTT
1 TTATTTTTAAATTTTT
20365605 TTATTTTT-AATTTT
1 TTATTTTTAAATTTT
20365619 AAGTAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTATTTTTAAATTTTT
Found at i:20366556 original size:6 final size:7
Alignment explanation
Indices: 20366541--20366566 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
20366531 CGCTTTGAAA
20366541 TTTTATT
1 TTTTATT
20366548 TTTTATT
1 TTTTATT
20366555 TTTTATT
1 TTTTATT
20366562 TTTTA
1 TTTTA
20366567 AAAGGGAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:20366666 original size:19 final size:19
Alignment explanation
Indices: 20366642--20366679 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20366632 GAAATGAATA
20366642 ATTTCAGGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
*
20366661 ATTTCATGCAAATAGGTTG
1 ATTTCAGGCAAATAGGTTG
20366680 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (19 bp):
ATTTCAGGCAAATAGGTTG
Found at i:20367878 original size:15 final size:17
Alignment explanation
Indices: 20367844--20367886 Score: 63
Period size: 15 Copynumber: 2.6 Consensus size: 17
20367834 GAGGTTAGGT
*
20367844 TTTTTTCTTTTTCTTCA
1 TTTTTTATTTTTCTTCA
20367861 TTTTTTATTTTT-TT-A
1 TTTTTTATTTTTCTTCA
20367876 TTTTTTATTTT
1 TTTTTTATTTT
20367887 GGGTTGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 12 0.48
16 2 0.08
17 11 0.44
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTATTTTTCTTCA
Found at i:20368236 original size:44 final size:44
Alignment explanation
Indices: 20368177--20368894 Score: 1083
Period size: 44 Copynumber: 16.5 Consensus size: 44
20368167 CCCCGTCTAA
* *
20368177 TACAGAGACGTCAAATCCGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
20368221 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCTGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
20368265 TACAGAGACGCCAAATCTATTATCTTCGATTTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
20368309 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
20368353 TACAGAGACGCCAAATCTGTTATCTTCAATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
20368397 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
20368437 TACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
20368481 TACAGAGATGCCAAATCTATTATCTTCTATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * *
20368525 TACAGAGAAGCCAAATCTGCTATCTTCGATCTACTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
20368569 TACAGAGACGTCAAATCTGTTATCTTCGATCTACTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
20368613 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
20368653 TACAGAGATGCCAAATCTGTTATCTTCGATTTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
20368697 TACAGAGACGCCAAATCTGTTATCTTCGACCTGTTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
20368741 TACAGAGACGCCAAATCTATTATCTTCGATTTGCTCTCCGTCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
20368785 TACAGAGATGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * **
20368829 TACAGAGATGCCAAATCTGTTATCTTCGATCTGTTCTCTTCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
20368873 TACAGAGACGCCAAATCATGTT
1 TACAGAGACGCCAAATC-TGTT
20368895 GGATTTGCTT
Statistics
Matches: 616, Mismatches: 49, Indels: 17
0.90 0.07 0.02
Matches are distributed among these distances:
40 77 0.12
44 535 0.87
45 4 0.01
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (44 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:20368572 original size:216 final size:216
Alignment explanation
Indices: 20368198--20368894 Score: 1124
Period size: 216 Copynumber: 3.2 Consensus size: 216
20368188 CAAATCCGTT
*
20368198 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCT
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
*
20368263 GCTACAGAGACGCCAAATCTATTATCTTCGATTTGCTCTCCGCCGCTACAGAGACGCCAAATCTG
66 GCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTG
*
20368328 TTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCAATCTGCTCTCCG
131 TTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
20368393 CCGCTACAGAGATGCCAAATC
196 CCGCTACAGAGATGCCAAATC
*
20368414 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCC
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
* * *
20368479 GCTACAGAGATGCCAAATCTATTATCTTCTATCTGCTCTCCGCCGCTACAGAGAAGCCAAATCTG
66 GCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTG
* * * *
20368544 CTATCTTCGATCTACTCTCTGCCGCTACAGAGACGTCAAATCTGTTATCTTCGATCTACTCTCCG
131 TTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
20368609 CCGCTACAGAGATGCCAAATC
196 CCGCTACAGAGATGCCAAATC
* *
20368630 ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATTTGCTCTCCGCC
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
* * * *
20368695 GCTACAGAGACGCCAAATCTGTTATCTTCGACCTGTTCTCCGCCGCTACAGAGACGCCAAATCTA
66 GCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTG
* * * * *
20368760 TTATCTTCGATTTGCTCTCCGTCGCTACAGAGATGCCAAATTTGTTATCTTCGATCTGCTCTCCG
131 TTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
20368825 CCGCTACAGAGATGCCAAATC
196 CCGCTACAGAGATGCCAAATC
* **
20368846 TGTTATCTTCGATCTGTTCTCTTCCGCTACAGAGACGCCAAATCATGTT
1 ----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC-TGTT
20368895 GGATTTGCTT
Statistics
Matches: 442, Mismatches: 34, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
216 402 0.91
220 36 0.08
221 4 0.01
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.29
Consensus pattern (216 bp):
ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
GCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTG
TTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCG
CCGCTACAGAGATGCCAAATC
Found at i:20369919 original size:53 final size:52
Alignment explanation
Indices: 20369840--20369941 Score: 161
Period size: 53 Copynumber: 1.9 Consensus size: 52
20369830 AAACCCCTTT
* *
20369840 GGTCTCAAAGTGCCCTTTTGCGGGTTTTCACCTTGGCCTTTCCATTTTTTTTTG
1 GGTCTCAAAGCGCCCTTTTGCGGGTTTTCACCTCGGCCTTT-C-TTTTTTTTTG
20369894 GGTCTCAAAGCGCCC-TTTGCGGGTTTTCACCTCGGCCTTTCTTTTTTT
1 GGTCTCAAAGCGCCCTTTTGCGGGTTTTCACCTCGGCCTTTCTTTTTTT
20369942 AGGTAAAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
51 7 0.15
52 1 0.02
53 24 0.52
54 14 0.30
ACGTcount: A:0.09, C:0.26, G:0.21, T:0.44
Consensus pattern (52 bp):
GGTCTCAAAGCGCCCTTTTGCGGGTTTTCACCTCGGCCTTTCTTTTTTTTTG
Found at i:20377484 original size:22 final size:24
Alignment explanation
Indices: 20377435--20377483 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
20377425 TCATACTTCA
*
20377435 CGCTTAGTGTGTCCGTCTGAACCG
1 CGCTCAGTGTGTCCGTCTGAACCG
20377459 CGCTCAGTGTGTCCGTCTGAACCG
1 CGCTCAGTGTGTCCGTCTGAACCG
20377483 C
1 C
20377484 TAAAGTTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.33, G:0.29, T:0.27
Consensus pattern (24 bp):
CGCTCAGTGTGTCCGTCTGAACCG
Found at i:20380907 original size:134 final size:134
Alignment explanation
Indices: 20380708--20380974 Score: 507
Period size: 134 Copynumber: 2.0 Consensus size: 134
20380698 CCCAACTATC
* *
20380708 TGGTCCAACGAAAAATCGATACCCAGCACAGTAGGGCATGGTTCCTCGAATTTCCAAACATTGAC
1 TGGTCCAACGAAAAATCGATACCCAGCACAATAGGGCATGATTCCTCGAATTTCCAAACATTGAC
20380773 CATTGCCTCACCTTAGAAGATACGAGTGAAATTCCGAAGAGACATTCGATTATTTTGAACAAACG
66 CATTGCCTCACCTTAGAAGATACGAGTGAAATTCCGAAGAGACATTCGATTATTTTGAACAAACG
20380838 GGAT
131 GGAT
20380842 TGGTCCAACGAAAAATCGATACCCAGCACAATAGGGCATGATTCCTCGAATTTCCAAACATTGAC
1 TGGTCCAACGAAAAATCGATACCCAGCACAATAGGGCATGATTCCTCGAATTTCCAAACATTGAC
*
20380907 CATTGCCTCTCCTTAGAAGATACGAGTGAAATTCCGAAGAGACATTCGATTATTTTGAACAAACG
66 CATTGCCTCACCTTAGAAGATACGAGTGAAATTCCGAAGAGACATTCGATTATTTTGAACAAACG
20380972 GGA
131 GGA
20380975 GATTGCAACC
Statistics
Matches: 130, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 130 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (134 bp):
TGGTCCAACGAAAAATCGATACCCAGCACAATAGGGCATGATTCCTCGAATTTCCAAACATTGAC
CATTGCCTCACCTTAGAAGATACGAGTGAAATTCCGAAGAGACATTCGATTATTTTGAACAAACG
GGAT
Found at i:20381421 original size:232 final size:232
Alignment explanation
Indices: 20381009--20381472 Score: 892
Period size: 232 Copynumber: 2.0 Consensus size: 232
20380999 ACTATTCCCT
*
20381009 GAATTTCCAAACATCGAACATTTCTTTCATTTTAAAGAGTTTTTAGAAAACGTGAGTGAAATTCC
1 GAATTGCCAAACATCGAACATTTCTTTCATTTTAAAGAGTTTTTAGAAAACGTGAGTGAAATTCC
20381074 AAAGGGATCTTCGATCATTTTGAACAAATGAAAAAGCGCAACCCGACACGATAGGACACAACATT
66 AAAGGGATCTTCGATCATTTTGAACAAATGAAAAAGCGCAACCCGACACGATAGGACACAACATT
*
20381139 TCAAATCCTCGATACAAGATCATTTTATAATTTCCAAAACTCGTGCATTTGAAATTTCAAAAGGA
131 TCAAATCCTCGATACAAGATCATTTTATAATTTCCAAAACTCATGCATTTGAAATTTCAAAAGGA
20381204 TATTTAGTTATTTAGGTTAAACAAGAAAAATTGAAAC
196 TATTTAGTTATTTAGGTTAAACAAGAAAAATTGAAAC
20381241 GAATTGCCAAACATCGAACATTTCTTTCATTTTAAAGAGTTTTTAGAAAACGTGAGTGAAATTCC
1 GAATTGCCAAACATCGAACATTTCTTTCATTTTAAAGAGTTTTTAGAAAACGTGAGTGAAATTCC
* *
20381306 AAAGGGATCTTTGATCATTTTGAACAAATGAAAAAGCGCAACCCGGCACGATAGGACACAACATT
66 AAAGGGATCTTCGATCATTTTGAACAAATGAAAAAGCGCAACCCGACACGATAGGACACAACATT
20381371 TCAAATCCTCGATACAAGATCATTTTATAATTTCCAAAACTCATGCATTTGAAATTTCAAAAGGA
131 TCAAATCCTCGATACAAGATCATTTTATAATTTCCAAAACTCATGCATTTGAAATTTCAAAAGGA
20381436 TATTTAGTTATTTAGGTTAAACAAGAAAAATTGAAAC
196 TATTTAGTTATTTAGGTTAAACAAGAAAAATTGAAAC
20381473 CTAGTAAGTT
Statistics
Matches: 228, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
232 228 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (232 bp):
GAATTGCCAAACATCGAACATTTCTTTCATTTTAAAGAGTTTTTAGAAAACGTGAGTGAAATTCC
AAAGGGATCTTCGATCATTTTGAACAAATGAAAAAGCGCAACCCGACACGATAGGACACAACATT
TCAAATCCTCGATACAAGATCATTTTATAATTTCCAAAACTCATGCATTTGAAATTTCAAAAGGA
TATTTAGTTATTTAGGTTAAACAAGAAAAATTGAAAC
Found at i:20381746 original size:110 final size:110
Alignment explanation
Indices: 20381553--20381772 Score: 422
Period size: 110 Copynumber: 2.0 Consensus size: 110
20381543 AACATGGACG
*
20381553 AAATCTCGAGAGAATATTTATTTGGTCAAACAGAAAATCGAAACACAACATGTTAGGGCACAATT
1 AAATCTCGAGAGAATATTTATTTGGTCAAACAGAAAATCGAAACACAACACGTTAGGGCACAATT
20381618 TCTCGAATTACCAAACACGAAATATTACCTCGCTTTGAAATTTTA
66 TCTCGAATTACCAAACACGAAATATTACCTCGCTTTGAAATTTTA
*
20381663 AAATCTCGAGAGAATATTTATTTGGTCAAACAGAAAATCGAAACCCAACACGTTAGGGCACAATT
1 AAATCTCGAGAGAATATTTATTTGGTCAAACAGAAAATCGAAACACAACACGTTAGGGCACAATT
20381728 TCTCGAATTACCAAACACGAAATATTACCTCGCTTTGAAATTTTA
66 TCTCGAATTACCAAACACGAAATATTACCTCGCTTTGAAATTTTA
20381773 TTTTTTATTT
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.28
Consensus pattern (110 bp):
AAATCTCGAGAGAATATTTATTTGGTCAAACAGAAAATCGAAACACAACACGTTAGGGCACAATT
TCTCGAATTACCAAACACGAAATATTACCTCGCTTTGAAATTTTA
Found at i:20381783 original size:6 final size:7
Alignment explanation
Indices: 20381768--20381793 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
20381758 CGCTTTGAAA
20381768 TTTTATT
1 TTTTATT
20381775 TTTTATT
1 TTTTATT
20381782 TTTTATT
1 TTTTATT
20381789 TTTTA
1 TTTTA
20381794 AAAGGGAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:20381893 original size:19 final size:19
Alignment explanation
Indices: 20381869--20381906 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20381859 GAAATGAATA
*
20381869 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
20381888 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
20381907 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:20390852 original size:132 final size:132
Alignment explanation
Indices: 20390599--20391204 Score: 623
Period size: 132 Copynumber: 4.6 Consensus size: 132
20390589 AGATTTGTAG
* * * * * ** * * * *
20390599 CTTCGATATACTCCGCTACTGCTGAGAGAGATAAGATCTACAATCTCCGGCCTG-TTCACTGCTA
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTG
* ** * * * * *
20390663 CTCAAAGAGATAAGGCTAGTCACTTACATCTGCTTTCCTACTACCCCGGTAAAATAAGATTCGCC
66 CTCAAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCC
20390728 GT
131 GT
* * * *
20390730 CTTTGATTTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCAATGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTG
* * **
20390795 CTCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAATATAAGATTCGTT
66 CTCAAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCC
20390860 GT
131 GT
* * * * ** *
20390862 CTTTGATCTACTCCACTACTACTTAGGGAGATAAGACCTACAATCTTCAGCCTGCT-CACTGTTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTG
* *
20390926 CTC-AGAGAGATAAGGCTAGTGGCTTAAATTTGCTTCCCTACTACCTCGGGAAGATAAGATTCAC
66 CTCAAG-GAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGC
20390990 CGT
130 CGT
* **
20390993 CTTCGATCTGCTGCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTTTGCTCCACTGCTG
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTG
* * * * ** ** *
20391058 CTTAAGGAGATCAGGCTGGTGGCTTAAATCTGC-TCCATTGT-CGCTATATGG-AGATAAGATTT
66 CTCAAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTAC-C--TCGGGAAGATAAGATTC
20391120 GCCGT
128 GCCGT
* * * * *
20391125 CTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGTCTGCTCTACTG-TA
1 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCT-
*
20391189 ACTTCAAGGAGATAAG
65 GC-TCAAGGAGATAAG
20391205 ACTTGTATCT
Statistics
Matches: 396, Mismatches: 70, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
130 3 0.01
131 161 0.41
132 216 0.55
133 16 0.04
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (132 bp):
CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCACTGCTG
CTCAAGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCC
GT
Found at i:20391117 original size:263 final size:263
Alignment explanation
Indices: 20390599--20391160 Score: 700
Period size: 263 Copynumber: 2.1 Consensus size: 263
20390589 AGATTTGTAG
* * * * * * *
20390599 CTTCGATATACTCCGCTACTGCTGAGAGAGATAAGATCTACAATCTCCGGCCTGTTCACTGCTAC
1 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGACCTACAATCTCCAGCCTGCTCACTGCTAC
* * * *
20390664 TCAAAGAGATAAGGCTAGTCACTTACATCTGCTTTCCTACTACCCCGGTAAAATAAGATTCGCCG
66 TCAAAGAGATAAGGCTAGTCACTTAAATCTGCTTCCCTACTACCCCGGGAAAATAAGATTCACCG
* *
20390729 TCTTTGATTTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCAATGCT
131 TCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCAATGCT
* * * *
20390794 GCTCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAATATAAGATTCGT
196 GCTCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCATACTACCTAGGGAAGATAAGATTCGC
*
20390859 TGT
261 CGT
* * * * *
20390862 CTTTGATCTACTCCACTACTACTTAGGGAGATAAGACCTACAATCTTCAGCCTGCTCACTGTTGC
1 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGACCTACAATCTCCAGCCTGCTCACTGCTAC
* ** * * *
20390927 TCAGAGAGATAAGGCTAGTGGCTTAAATTTGCTTCCCTACTACCTCGGGAAGATAAGATTCACCG
66 TCAAAGAGATAAGGCTAGTCACTTAAATCTGCTTCCCTACTACCCCGGGAAAATAAGATTCACCG
** *
20390992 TCTTCGATCTGCTGC-ACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTTTGCTCCACTGC
131 TCTTCGATCTGCT-CTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCAATGC
* * ** *
20391056 TGCTTAAGGAGATCAGGCTGGTGGCTTAAATCTGC-TCCATTGT-CGCTATATGG-AGATAAGAT
195 TGCTCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCATACTAC-C--TAGGGAAGATAAGAT
*
20391118 TTGCCGT
257 TCGCCGT
**
20391125 CTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGA
1 CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGA
20391161 TTTGTAATTT
Statistics
Matches: 253, Mismatches: 42, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
261 1 0.00
262 6 0.02
263 242 0.96
264 4 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (263 bp):
CTTCGATCTACTCCACTACTGCTTAGGGAGATAAGACCTACAATCTCCAGCCTGCTCACTGCTAC
TCAAAGAGATAAGGCTAGTCACTTAAATCTGCTTCCCTACTACCCCGGGAAAATAAGATTCACCG
TCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTGCTCCAATGCT
GCTCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCATACTACCTAGGGAAGATAAGATTCGC
CGT
Found at i:20391211 original size:45 final size:44
Alignment explanation
Indices: 20391151--20391248 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
20391141 TACTGCTTAG
* * ** *
20391151 GGAGATAAGATTTGTAATTTTCAGTCTGCTCTACTGTAACTTCAA
1 GGAGATAAGACTTGT-ATCTTCAACCTGCTCTACTGCAACTTCAA
* *
20391196 GGAGATAAGACTTGTATCTTGAACCTGCTCTACTGCAACTTCAG
1 GGAGATAAGACTTGTATCTTCAACCTGCTCTACTGCAACTTCAA
20391240 GGAGATAAG
1 GGAGATAAG
20391249 GCTGGTTGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 32 0.70
45 14 0.30
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (44 bp):
GGAGATAAGACTTGTATCTTCAACCTGCTCTACTGCAACTTCAA
Found at i:20391268 original size:44 final size:44
Alignment explanation
Indices: 20391175--20391271 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
20391165 TAATTTTCAG
* * *
20391175 TCTGCTCTACTGTAACTTCAAGGAGATAAGACTTGTATCTTGAA
1 TCTGCTCTACTGCAACTTCAAGGAGATAAGACTGGTATCTTAAA
* * *
20391219 CCTGCTCTACTGCAACTTCAGGGAGATAAGGCTGGT-TGCTTAAA
1 TCTGCTCTACTGCAACTTCAAGGAGATAAGACTGGTAT-CTTAAA
20391263 TCTGCTCTA
1 TCTGCTCTA
20391272 TTGCCGCTAC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 1 0.02
44 44 0.98
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (44 bp):
TCTGCTCTACTGCAACTTCAAGGAGATAAGACTGGTATCTTAAA
Found at i:20391330 original size:88 final size:88
Alignment explanation
Indices: 20391020--20391336 Score: 257
Period size: 88 Copynumber: 3.6 Consensus size: 88
20391010 ACTGCTTAGG
* * * * * * * *
20391020 GAGATAAGATCTGTAATCTTC-AGTTTGCTCCACTGCTGCTTAAGGAGATCAGGCTGGTGGCTTA
1 GAGATAAGATTTGTCATCTTCGA-TCTGCTCCACTACTACTTAGGGAGATAAGGCTGGTTGCTTA
* * *
20391084 AATCTGCTCCATTGTCGCTATATG
65 AATCTGCTCTATTGTCGCTACATA
* * * * ** * *
20391108 GAGATAAGATTTGCCGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATTTGTAAT-TTT
1 GAGATAAGATTTGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGGCTGGT--TGCTT
* * * ** *
20391172 CAGTCTGCTCTACTGTAACTTCA-A
64 AAATCTGCTCTATTGTCGCTACATA
* * * * *
20391196 GGAGATAAGACTTGT-ATCTT-GAACCTGCTCTACTGCAACTTCAGGGAGATAAGGCTGGTTGCT
1 -GAGATAAGATTTGTCATCTTCG-ATCTGCTCCACTACTACTT-AGGGAGATAAGGCTGGTTGCT
*
20391259 TAAATCTGCTCTATTGCCGCTACATA
63 TAAATCTGCTCTATTGTCGCTACATA
*
20391285 GAGATAAGATTTGTCTTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAG
1 GAGATAAGATTTGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAG
20391337 ATCTGTGAAT
Statistics
Matches: 170, Mismatches: 49, Indels: 20
0.71 0.21 0.08
Matches are distributed among these distances:
87 2 0.01
88 103 0.61
89 64 0.38
90 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (88 bp):
GAGATAAGATTTGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGGCTGGTTGCTTAA
ATCTGCTCTATTGTCGCTACATA
Found at i:20391333 original size:44 final size:43
Alignment explanation
Indices: 20391107--20391338 Score: 116
Period size: 44 Copynumber: 5.3 Consensus size: 43
20391097 GTCGCTATAT
** * * *
20391107 GGAGATAAGATTTGCCGTCTTCGATCTGTTCCACTACTGCTTAG
1 GGAGATAAGATTTG-TTTCTTCGATCTGCTCTACTACTACTTAG
* *
20391151 GGAGATAAGATTTGTAATT-TTC-AGTCTGCTCTACT-GTAACTTCAA
1 GGAGATAAGATTTGT--TTCTTCGA-TCTGCTCTACTACT-ACTT-AG
* * * * *
20391196 GGAGATAAGACTTGTATCTT-GAACCTGCTCTACTGCAACTTCAG
1 GGAGATAAGATTTGTTTCTTCG-ATCTGCTCTACTACTACTT-AG
** * * ** ** *
20391240 GGAGATAAGGCTGGTTGCTTAAATCTGCTCTATTGCCGCTACATA-
1 GGAGATAAGATTTGTTTCTTCGATCTGCTCTA---CTACTACTTAG
*
20391285 -GAGATAAGATTTGTCTTCTTCGATCTGCTCCACTACTACTTAG
1 GGAGATAAGATTTGT-TTCTTCGATCTGCTCTACTACTACTTAG
20391328 GGAGATAAGAT
1 GGAGATAAGAT
20391339 CTGTGAATTC
Statistics
Matches: 140, Mismatches: 32, Indels: 32
0.69 0.16 0.16
Matches are distributed among these distances:
42 7 0.05
43 3 0.02
44 93 0.66
45 30 0.21
46 1 0.01
47 6 0.04
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (43 bp):
GGAGATAAGATTTGTTTCTTCGATCTGCTCTACTACTACTTAG
Found at i:20391783 original size:46 final size:46
Alignment explanation
Indices: 20391696--20391786 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
20391686 TTTGTCTATC
* * *
20391696 TATCCCACTGCAACTAAGGGGTATAGGATTTGTATCATCTTCAATT
1 TATCCCACTACAACTAAGGGATATAGGATTTGTAGCATCTTCAATT
* * * *
20391742 TATCCCACTATAACTTAGGGATATAGGATTTGTGGCTTCTTCAAT
1 TATCCCACTACAACTAAGGGATATAGGATTTGTAGCATCTTCAAT
20391787 CAATTGATCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (46 bp):
TATCCCACTACAACTAAGGGATATAGGATTTGTAGCATCTTCAATT
Found at i:20396504 original size:229 final size:228
Alignment explanation
Indices: 20396094--20396513 Score: 673
Period size: 229 Copynumber: 1.8 Consensus size: 228
20396084 AAAAGAAAAG
* * *
20396094 AAAAGAAAGAAAGGCGTTGATTTTGAATTCAATTATATTAGAACAACTTTTCTAGAAAACAAATT
1 AAAAAAAAGAAAGGCGTTGATTCTGAATACAATTATATTAGAACAACTTTTCTAGAAAACAAATT
* * *
20396159 CATTTACATAAAACGAATTACATATGCGGCCCTACCTTCATATTCCGGGCGAAGACACCGATCCC
66 CATTTACATAAAACGAATTACATATGCGGCCCTACCTTCATATTCCAGGCAAAGACACCAATCCC
* *
20396224 TTTCCTTCTTAAAAGTCAATTCTCACAAACTTTCAATAGATGTCTCCACTAGCTCTTTTTTAAAA
131 TTTCCTTCTTAAAAGTCAAATCTCACAAACTTTCAATAGATGTCTCCACTAGCTCCTTTTTAAAA
20396289 AAGATGAAATGCTAATGCATGGAAGGGATACAA
196 AAGATGAAATGCTAATGCATGGAAGGGATACAA
* *
20396322 AAAAAAAAGAAAAGGCGTTGATTCTGAATACAATTCTATTAGAACAACTTTTCTAGAAAATAAAT
1 AAAAAAAAG-AAAGGCGTTGATTCTGAATACAATTATATTAGAACAACTTTTCTAGAAAACAAA-
* * *
20396387 TTC-TTTACATAAAATGAATTACATATGCGGCCCTGCCTTCATATTCCAGGCAAAGGCACCAATC
64 TTCATTTACATAAAACGAATTACATATGCGGCCCTACCTTCATATTCCAGGCAAAGACACCAATC
*
20396451 CCTTTCCTTCTTAAAAGTCAAATCTCGCAAAC-TTCTAATAGATGTCTCCACTAGCTCCTTTTT
129 CCTTTCCTTCTTAAAAGTCAAATCTCACAAACTTTC-AATAGATGTCTCCACTAGCTCCTTTTT
20396514 GCTTGATCTA
Statistics
Matches: 175, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
228 11 0.06
229 161 0.92
230 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.30
Consensus pattern (228 bp):
AAAAAAAAGAAAGGCGTTGATTCTGAATACAATTATATTAGAACAACTTTTCTAGAAAACAAATT
CATTTACATAAAACGAATTACATATGCGGCCCTACCTTCATATTCCAGGCAAAGACACCAATCCC
TTTCCTTCTTAAAAGTCAAATCTCACAAACTTTCAATAGATGTCTCCACTAGCTCCTTTTTAAAA
AAGATGAAATGCTAATGCATGGAAGGGATACAA
Found at i:20398250 original size:3 final size:3
Alignment explanation
Indices: 20398242--20398302 Score: 70
Period size: 3 Copynumber: 20.0 Consensus size: 3
20398232 AAATAGCTTA
* * *
20398242 AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT GAT AAT ATT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
20398289 AAAT AAT AAGT AAT
1 -AAT AAT AA-T AAT
20398303 CTAAAACTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 42 0.86
4 5 0.10
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:20399042 original size:15 final size:15
Alignment explanation
Indices: 20399022--20399051 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20399012 ATTGCATTTT
20399022 TCTTTTTGCAGGCAA
1 TCTTTTTGCAGGCAA
20399037 TCTTTTTGCAGGCAA
1 TCTTTTTGCAGGCAA
20399052 GTGAGGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (15 bp):
TCTTTTTGCAGGCAA
Found at i:20400307 original size:101 final size:101
Alignment explanation
Indices: 20400100--20400501 Score: 724
Period size: 101 Copynumber: 4.0 Consensus size: 101
20400090 AATGCAAAGA
* * *
20400100 CAGGCTAAAAGGATATTTAGTGTTCTAATAAAATCCTGAAACAAGA-GCAGTAC-A---ACTCTT
1 CAGGCTAAAAGGATATGTAGTGTTCTAATAAAATTCTGAAACAA-ATGCAGTACGACTGACTGTT
20400160 TCACTTTTGAGACAACAGACCCTTTATTCTTTTCACT
65 TCACTTTTGAGACAACAGACCCTTTATTCTTTTCACT
20400197 CAGGCTAAAAGGATATGTAGTGTTCTAATAAAATTCTGAAACAAATGCAGTACGACTGACTGTTT
1 CAGGCTAAAAGGATATGTAGTGTTCTAATAAAATTCTGAAACAAATGCAGTACGACTGACTGTTT
20400262 CACTTTTGAGACAACAGACCCTTTATTCTTTTCACT
66 CACTTTTGAGACAACAGACCCTTTATTCTTTTCACT
20400298 CAGGCTAAAAGGATATGTAGTGTTCTAATAAAATTCTGAAACAAATGCAGTACGACTGACTGTTT
1 CAGGCTAAAAGGATATGTAGTGTTCTAATAAAATTCTGAAACAAATGCAGTACGACTGACTGTTT
20400363 CACTTTTGAGACAACAGACCCTTTATTCTTTTCACT
66 CACTTTTGAGACAACAGACCCTTTATTCTTTTCACT
20400399 CAGGCTAAAAGGATATGTAGTGTTCTAATAAAATTCTGAAACAAATGCAGTACGACTGACTGTTT
1 CAGGCTAAAAGGATATGTAGTGTTCTAATAAAATTCTGAAACAAATGCAGTACGACTGACTGTTT
*
20400464 CACTTTTGAGACAACAGACCCTTTATTATTTTCACT
66 CACTTTTGAGACAACAGACCCTTTATTCTTTTCACT
20400500 CA
1 CA
20400502 CTAGAAAGTC
Statistics
Matches: 296, Mismatches: 4, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
96 1 0.00
97 49 0.17
98 1 0.00
101 245 0.83
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (101 bp):
CAGGCTAAAAGGATATGTAGTGTTCTAATAAAATTCTGAAACAAATGCAGTACGACTGACTGTTT
CACTTTTGAGACAACAGACCCTTTATTCTTTTCACT
Found at i:20408279 original size:63 final size:62
Alignment explanation
Indices: 20408178--20408305 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 62
20408168 CTAATCATTT
20408178 TACTCAATCTAAGGAAACAAACTAGGTGGTAAATTATTTATCTAAGTAGGTGTAACATCCTA
1 TACTCAATCTAAGGAAACAAACTAGGTGGTAAATTATTTATCTAAGTAGGTGTAACATCCTA
20408240 TANCTCAATCTAAGGAAACAAACTAGGTGGTAAATTATTTATCTAAGTAGGTGTAACATCCTA
1 TA-CTCAATCTAAGGAAACAAACTAGGTGGTAAATTATTTATCTAAGTAGGTGTAACATCCTA
20408303 TAC
1 TAC
20408306 CCGTAACCCA
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
62 3 0.05
63 62 0.95
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.30
Consensus pattern (62 bp):
TACTCAATCTAAGGAAACAAACTAGGTGGTAAATTATTTATCTAAGTAGGTGTAACATCCTA
Found at i:20409772 original size:47 final size:48
Alignment explanation
Indices: 20409698--20409868 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 48
20409688 AGGTAAGGTA
*
20409698 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTC-AAG
1 CCGACGCCATGTCCCAGACATGGTCTTACACTGGCT-ATCATCTCGAAG
* * * *
20409745 TCGACGCCATGTCCCAAACATGGTCTTACACTGACTATCATCTCGTAG
1 CCGACGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCGAAG
* * *
20409793 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTCTCGAGG
1 CCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAT-CATCTCGAAG
* *
20409839 CCGATG-CATGTCCTAGACAT-GTCTTACACT
1 CCGACGCCATGTCCCAGACATGGTCTTACACT
20409869 AGCTCACACT
Statistics
Matches: 108, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
45 1 0.01
46 51 0.47
47 50 0.46
48 6 0.06
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
CCGACGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTCGAAG
Found at i:20409835 original size:46 final size:47
Alignment explanation
Indices: 20409698--20409868 Score: 199
Period size: 47 Copynumber: 3.7 Consensus size: 47
20409688 AGGTAAGGTA
* * *
20409698 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
* * * *
20409745 TCGACGCCATGTCCCAAACATGGTCTTACACTGAC-TATCATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTCG-AG
*
20409793 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGA-G
*
20409839 CCGATG-CATGTCCTAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
20409869 AGCTCACACT
Statistics
Matches: 107, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
45 1 0.01
46 49 0.46
47 51 0.48
48 6 0.06
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
Found at i:20415626 original size:47 final size:47
Alignment explanation
Indices: 20415572--20415748 Score: 184
Period size: 47 Copynumber: 3.8 Consensus size: 47
20415562 GGTAAGGTGC
*
20415572 CGATGCCATATCCCAGACATGGTCTTACACTGGCTCATATCTTCAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTTCAGT
* * * *
20415619 CGATGCCATGTACCAAACATGGTCTTACACTGGCT-ATTATCTTGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-TATCTT-CAGT
* *
20415667 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTC-TCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTTC-A-GT
** *
20415713 CGATGCCATGTCCCAGACATCATCTTAAACTGGCTC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
20415749 TCATAATGTG
Statistics
Matches: 108, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
45 3 0.03
46 22 0.20
47 64 0.59
48 19 0.18
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTTCAGT
Found at i:20415715 original size:94 final size:93
Alignment explanation
Indices: 20415570--20415795 Score: 267
Period size: 94 Copynumber: 2.4 Consensus size: 93
20415560 TAGGTAAGGT
* *
20415570 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCATATCTTCAGTCGATGCCATGTACCAA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATATCTTCAGTCGATGCCATGTACCAA
** * * **
20415635 ACATGGTCTTACACTGGCTATTATCTTGTA
64 ACATCATCTTAAACTGGCTATCATAATGTA
* *
20415665 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC-TCGTC-TCAATGTCGATGCCATGTCCCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCAT-ATCTTC-A-GTCGATGCCATGTACCA
* * *
20415728 GACATCATCTTAAACTGGCTCTCATAATGTG
63 AACATCATCTTAAACTGGCTATCATAATGTA
*
20415759 GCCGATGCATGTCCGAGACATGTCTTACACTAGCTCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCA
20415796 CACTCAAATG
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
92 3 0.03
93 17 0.15
94 86 0.76
95 7 0.06
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (93 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATATCTTCAGTCGATGCCATGTACCAAAC
ATCATCTTAAACTGGCTATCATAATGTA
Done.