Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 33 of 235
Found at i:10625461 original size:103 final size:103
Alignment explanation
Indices: 10625329--10625535 Score: 414
Period size: 103 Copynumber: 2.0 Consensus size: 103
10625319 AAATTAAAAT
10625329 AATTAATTAATTAATTAATTAATTAATACATCAAACAATTAAAAAATTGAAATTAAATAGACTAT
1 AATTAATTAATTAATTAATTAATTAATACATCAAACAATTAAAAAATTGAAATTAAATAGACTAT
10625394 GGGTTGAATTGGAATTAGAAGGAAAGTTTTGAGCTAAA
66 GGGTTGAATTGGAATTAGAAGGAAAGTTTTGAGCTAAA
10625432 AATTAATTAATTAATTAATTAATTAATACATCAAACAATTAAAAAATTGAAATTAAATAGACTAT
1 AATTAATTAATTAATTAATTAATTAATACATCAAACAATTAAAAAATTGAAATTAAATAGACTAT
10625497 GGGTTGAATTGGAATTAGAAGGAAAGTTTTGAGCTAAA
66 GGGTTGAATTGGAATTAGAAGGAAAGTTTTGAGCTAAA
10625535 A
1 A
10625536 TTATAGTAGA
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.33
Consensus pattern (103 bp):
AATTAATTAATTAATTAATTAATTAATACATCAAACAATTAAAAAATTGAAATTAAATAGACTAT
GGGTTGAATTGGAATTAGAAGGAAAGTTTTGAGCTAAA
Found at i:10627259 original size:89 final size:89
Alignment explanation
Indices: 10627094--10627668 Score: 371
Period size: 89 Copynumber: 6.5 Consensus size: 89
10627084 TAACTTATAG
* * * * * * * ** * *
10627094 CTTCAATTTGCTCCACTGCAACTTCAGGAAAATGAGATTTGCTAT-CTTCAGTCTGTTCCGCTGT
1 CTTCAATCTGTTCCACTGTAACTTCAGGAAGATAAGATTTGCCATACTTGA-TCTACTCCACTGC
* * *
10627158 TACTTTAGGGAGATAAAGCTAGTGA
65 AACTTCAAGGAGATAAAGCTAGTGA
* * *
10627183 CTTCAATCTGTTCCACTGTAACTTTAGGAAGATAAGATTCGCCATAATTGATCTACTCCACTGCA
1 CTTCAATCTGTTCCACTGTAACTTCAGGAAGATAAGATTTGCCATACTTGATCTACTCCACTGCA
* ** *
10627248 ACTTCAAGGAGAT-AAGTTCTTAAA
66 ACTTCAAGGAGATAAAGCTAGT-GA
* * * * * * * *
10627272 CTTCAATATGCTCCACTGCT-ACTTCAGGAGGATGAGATTTGCTAT-CTTTAGTCTGCTCCTCTG
1 CTTCAATCTGTTCCACTG-TAACTTCAGGAAGATAAGATTTGCCATACTTGA-TCTACTCCACTG
* *
10627335 CAACTTCAGAGG-GATAAGGCTAGTGG
64 CAACTTCA-AGGAGATAAAGCTAGTGA
* * * * * * *
10627361 CTTTAATCTGCTT-CGCTGCAACTTCAAGAAGATAGGATTCGCCATATTTGATCTACTCCACTGC
1 CTTCAATCTG-TTCCACTGTAACTTCAGGAAGATAAGATTTGCCATACTTGATCTACTCCACTGC
* * *
10627425 AACTTCAAGGAGATAAGATCT-TTAA
65 AACTTCAAGGAGATAA-AGCTAGTGA
* * * * * * * *** * * * * *
10627450 CTTCAATATGCTCCATTGTTACTTTAGGGAGATGAGATTTTTTAT-CTTCAGTTTGCTCCGCTAC
1 CTTCAATCTGTTCCACTGTAACTTCAGGAAGATAAGATTTGCCATACTTGA-TCTACTCCACTGC
* * *
10627514 AACTTCAAGGAGATAAGGCTGGTGG
65 AACTTCAAGGAGATAAAGCTAGTGA
* * *
10627539 CTTCAATCTGTTTCACTGTAACTTCAGGAAGATAAGATTTTCCATATTTGATCTACTCCACTGCA
1 CTTCAATCTGTTCCACTGTAACTTCAGGAAGATAAGATTTGCCATACTTGATCTACTCCACTGCA
* *
10627604 ACTTCAAGGAGATAACATCT--TCAA
66 ACTTCAAGGAGATAA-AGCTAGT-GA
* * *
10627628 CTTCAATCTGCTCCACTGCT-ACTTCAGGGAGATGAGATTTG
1 CTTCAATCTGTTCCACTG-TAACTTCAGGAAGATAAGATTTG
10627669 TGGATTCACC
Statistics
Matches: 358, Mismatches: 110, Indels: 36
0.71 0.22 0.07
Matches are distributed among these distances:
88 18 0.05
89 317 0.89
90 23 0.06
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (89 bp):
CTTCAATCTGTTCCACTGTAACTTCAGGAAGATAAGATTTGCCATACTTGATCTACTCCACTGCA
ACTTCAAGGAGATAAAGCTAGTGA
Found at i:10627261 original size:45 final size:45
Alignment explanation
Indices: 10627187--10627443 Score: 147
Period size: 45 Copynumber: 5.8 Consensus size: 45
10627177 TAGTGACTTC
* * *
10627187 AATCTGTTCCACTGTAACTT-TAGGAAGATAAGATTCGCCATAATT
1 AATCTGCTCCACTGCAACTTCAAGG-AGATAAGATTCGCCATAATT
* * **
10627232 GATCTACTCCACTGCAACTTCAAGGAGATAAG-TTC-TTA-AACTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCCATAA-TT
* * * * * **
10627275 CAATATGCTCCACTGCTACTTC-AGGAGGATGAGATTTGCTATCTTT
1 -AATCTGCTCCACTGCAACTTCAAGGA-GATAAGATTCGCCATAATT
* * * *
10627321 AGTCTGCTCCTCTGCAACTTCAGAGG-GATAAGGCTAGT-GGC-T--TT
1 AATCTGCTCCACTGCAACTTCA-AGGAGATAA-G--ATTCGCCATAATT
* * * * *
10627365 AATCTGCTTCGCTGCAACTTCAAGAAGATAGGATTCGCCATATTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCCATAATT
* *
10627410 GATCTACTCCACTGCAACTTCAAGGAGATAAGAT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGAT
10627444 CTTTAACTTC
Statistics
Matches: 158, Mismatches: 37, Indels: 34
0.69 0.16 0.15
Matches are distributed among these distances:
41 2 0.01
42 4 0.03
43 11 0.07
44 50 0.32
45 76 0.48
46 9 0.06
47 4 0.03
48 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCCATAATT
Found at i:10627394 original size:178 final size:178
Alignment explanation
Indices: 10627094--10627668 Score: 780
Period size: 178 Copynumber: 3.2 Consensus size: 178
10627084 TAACTTATAG
* * * * * **
10627094 CTTCAATTTGCTCCACTGCAACTTCAGGAAAATGAGATTTGCTATCTTCAGTCTGTTCCGCTGTT
1 CTTCAATATGCTCCACTGCTACTTCAGGGAGATGAGATTTGCTATCTTCAGTCTGCTCCGCTGCA
* * * *
10627159 ACTTTAG-GGAGATAAAGCTAGTGACTTCAATCTGTTCCACTGTAACTTTAGGAAGATAAGATTC
66 ACTTCAGAGGAGATAAGGCTAGTGGCTTCAATCTGTT-CACTGTAACTTCAGGAAGATAAGATTC
* *
10627223 GCCATAATTGATCTACTCCACTGCAACTTCAAGGAGATAAGTTCTTAAA
130 GCCATATTTGATCTACTCCACTGCAACTTCAAGGAGATAAGATCTTAAA
* *
10627272 CTTCAATATGCTCCACTGCTACTTCA-GGAGGATGAGATTTGCTATCTTTAGTCTGCTCCTCTGC
1 CTTCAATATGCTCCACTGCTACTTCAGGGA-GATGAGATTTGCTATCTTCAGTCTGCTCCGCTGC
* * * * *
10627336 AACTTCAGAGG-GATAAGGCTAGTGGCTTTAATCTGCTTCGCTGCAACTTCAAGAAGATAGGATT
65 AACTTCAGAGGAGATAAGGCTAGTGGCTTCAATCTG-TTCACTGTAACTTCAGGAAGATAAGATT
*
10627400 CGCCATATTTGATCTACTCCACTGCAACTTCAAGGAGATAAGATCTTTAA
129 CGCCATATTTGATCTACTCCACTGCAACTTCAAGGAGATAAGATCTTAAA
* * * ** * *
10627450 CTTCAATATGCTCCATTGTTACTTTAGGGAGATGAGATTTTTTATCTTCAGTTTGCTCCGCTACA
1 CTTCAATATGCTCCACTGCTACTTCAGGGAGATGAGATTTGCTATCTTCAGTCTGCTCCGCTGCA
* *
10627515 ACTTCA-AGGAGATAAGGCTGGTGGCTTCAATCTGTTTCACTGTAACTTCAGGAAGATAAGATTT
66 ACTTCAGAGGAGATAAGGCTAGTGGCTTCAATCTG-TTCACTGTAACTTCAGGAAGATAAGATTC
* * *
10627579 TCCATATTTGATCTACTCCACTGCAACTTCAAGGAGATAACATCTTCAA
130 GCCATATTTGATCTACTCCACTGCAACTTCAAGGAGATAAGATCTTAAA
*
10627628 CTTCAATCTGCTCCACTGCTACTTCAGGGAGATGAGATTTG
1 CTTCAATATGCTCCACTGCTACTTCAGGGAGATGAGATTTG
10627669 TGGATTCACC
Statistics
Matches: 346, Mismatches: 46, Indels: 10
0.86 0.11 0.02
Matches are distributed among these distances:
177 5 0.01
178 334 0.97
179 7 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (178 bp):
CTTCAATATGCTCCACTGCTACTTCAGGGAGATGAGATTTGCTATCTTCAGTCTGCTCCGCTGCA
ACTTCAGAGGAGATAAGGCTAGTGGCTTCAATCTGTTCACTGTAACTTCAGGAAGATAAGATTCG
CCATATTTGATCTACTCCACTGCAACTTCAAGGAGATAAGATCTTAAA
Found at i:10627608 original size:45 final size:43
Alignment explanation
Indices: 10627411--10627667 Score: 124
Period size: 44 Copynumber: 5.8 Consensus size: 43
10627401 GCCATATTTG
10627411 ATCTACTCCACTGCAACTTCAAGGAGATAAGATCTTT-AACTTCA
1 ATCTACTCCACTGCAACTTC-AGGAGATAAGAT-TTTCAACTTCA
* * * ** * * * *
10627455 ATATGCTCCATTGTTACTTTAGGGAGATGAGATTTTTTATCTTCA
1 ATCTACTCCACTGCAACTTCA-GGAGATAAGA-TTTTCAACTTCA
* * * * * * ** **
10627500 GTTTGCTCCGCTACAACTTCAAGGAGATAAGGCTGGT-GGCTTCA
1 ATCTACTCCACTGCAACTTC-AGGAGATAA-GATTTTCAACTTCA
** * * **
10627544 ATCTGTTTCACTGTAACTTCAGGAAGATAAGATTTTCCATA-TTTG
1 ATCTACTCCACTGCAACTTCAGG-AGATAAGATTTT-CA-ACTTCA
* *
10627589 ATCTACTCCACTGCAACTTCAAGGAGATAACATCTTCAACTTCA
1 ATCTACTCCACTGCAACTTC-AGGAGATAAGATTTTCAACTTCA
* * *
10627633 ATCTGCTCCACTGCTACTTCAGGGAGATGAGATTT
1 ATCTACTCCACTGCAACTTCA-GGAGATAAGATTT
10627668 GTGGATTCAC
Statistics
Matches: 152, Mismatches: 49, Indels: 24
0.68 0.22 0.11
Matches are distributed among these distances:
43 9 0.06
44 82 0.54
45 56 0.37
46 5 0.03
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (43 bp):
ATCTACTCCACTGCAACTTCAGGAGATAAGATTTTCAACTTCA
Found at i:10628139 original size:46 final size:46
Alignment explanation
Indices: 10628019--10628126 Score: 162
Period size: 46 Copynumber: 2.3 Consensus size: 46
10628009 AAATTTGGTT
* * *
10628019 TCTTCCATCCATCTCACTGCAACTCAAGGGTATCGGATTTGTATCA
1 TCTTCAATCCATCTCACTGCAACTCAGGGGTATAGGATTTGTATCA
* * *
10628065 TCTCCAATCCATCCCACTGCAACTCAGGGGTATAGGATTTGTATCC
1 TCTTCAATCCATCTCACTGCAACTCAGGGGTATAGGATTTGTATCA
10628111 TCTTCAATCCATCTCA
1 TCTTCAATCCATCTCA
10628127 TTGGAGCTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (46 bp):
TCTTCAATCCATCTCACTGCAACTCAGGGGTATAGGATTTGTATCA
Found at i:10628150 original size:46 final size:46
Alignment explanation
Indices: 10628025--10628152 Score: 132
Period size: 46 Copynumber: 2.8 Consensus size: 46
10628015 GGTTTCTTCC
* * *
10628025 ATCCATCTCACTGCAACTCAAGGG-TATCGGATTTGTATCATCTCCA
1 ATCCATCCCACTGCAACTC-AGGGCCATAGGATTTGTATCATCTCCA
** * *
10628071 ATCCATCCCACTGCAACTCAGGGGTATAGGATTTGTATCCTCTTCA
1 ATCCATCCCACTGCAACTCAGGGCCATAGGATTTGTATCATCTCCA
* * * * *
10628117 ATCCATCTCATTGGAGCTCAGGGCCATATGATTTGT
1 ATCCATCCCACTGCAACTCAGGGCCATAGGATTTGT
10628153 GGCTTCTTCA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
45 4 0.06
46 66 0.94
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (46 bp):
ATCCATCCCACTGCAACTCAGGGCCATAGGATTTGTATCATCTCCA
Found at i:10628602 original size:27 final size:27
Alignment explanation
Indices: 10628572--10628657 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 27
10628562 GCTCGAAACA
10628572 AATAAGTTAATCAAAGATAGCAAATGT
1 AATAAGTTAATCAAAGATAGCAAATGT
** * * **
10628599 AATAAG--AAGGAAATTTATTGGGAATG-
1 AATAAGTTAATCAAA--GATAGCAAATGT
10628625 AATAAGTTAATCAAAGATAGCAAATGT
1 AATAAGTTAATCAAAGATAGCAAATGT
10628652 AATAAG
1 AATAAG
10628658 AAGGAACTTG
Statistics
Matches: 42, Mismatches: 12, Indels: 10
0.66 0.19 0.16
Matches are distributed among these distances:
25 5 0.12
26 13 0.31
27 19 0.45
28 5 0.12
ACGTcount: A:0.51, C:0.05, G:0.19, T:0.26
Consensus pattern (27 bp):
AATAAGTTAATCAAAGATAGCAAATGT
Found at i:10628635 original size:53 final size:53
Alignment explanation
Indices: 10628572--10628674 Score: 188
Period size: 53 Copynumber: 1.9 Consensus size: 53
10628562 GCTCGAAACA
*
10628572 AATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTTATTGGGAATG
1 AATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTGATTGGGAATG
*
10628625 AATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAACTTGATTGGGA
1 AATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTGATTGGGA
10628675 GCATAGCCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.49, C:0.05, G:0.21, T:0.25
Consensus pattern (53 bp):
AATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGGAAATTGATTGGGAATG
Found at i:10629566 original size:9 final size:10
Alignment explanation
Indices: 10629538--10629565 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
10629528 TTTTTTATAT
10629538 TTTTTTTTTG
1 TTTTTTTTTG
10629548 TTTTTTTTTG
1 TTTTTTTTTG
10629558 TTTTTTTT
1 TTTTTTTT
10629566 GCTACCTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:10632071 original size:19 final size:19
Alignment explanation
Indices: 10632049--10632092 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
10632039 TATGAAATTT
*
10632049 AATGCATATG-ATAAAATG
1 AATGCAGATGCATAAAATG
*
10632067 CAATGCAGATGCATGAAATG
1 -AATGCAGATGCATAAAATG
10632087 AATGCA
1 AATGCA
10632093 AAAAGAGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.23
Consensus pattern (19 bp):
AATGCAGATGCATAAAATG
Found at i:10638611 original size:21 final size:21
Alignment explanation
Indices: 10638587--10638626 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10638577 ACAGGGCACA
*
10638587 CCCGTGTGGAAGGGTAACACG
1 CCCGTATGGAAGGGTAACACG
10638608 CCCGTATGGAAGGGTAACA
1 CCCGTATGGAAGGGTAACA
10638627 TGCTTGTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.35, T:0.15
Consensus pattern (21 bp):
CCCGTATGGAAGGGTAACACG
Found at i:10639880 original size:46 final size:46
Alignment explanation
Indices: 10639795--10639965 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
10639785 TCCCGTAGTC
*
10639795 GATGCATGTCCCAGACAAGTCTTACACTA--ACTTACGTCTCAAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTT--GTCTCAAGGCT
* *
10639841 GATGCATGTCCCAGACATGTCTTACACTAGCCCTTGTCTCAATG-T
1 GATGCATGTCCCAGACATGTCTTACACTAGCACTTGTCTCAAGGCT
* * * * * **
10639886 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTTATAAT-GTGGCT
1 -GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTTGT-CTCAAGGCT
10639935 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
10639966 TCACACAAAT
Statistics
Matches: 105, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
45 1 0.01
46 52 0.50
47 26 0.25
48 24 0.23
49 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACTTGTCTCAAGGCT
Found at i:10641265 original size:26 final size:26
Alignment explanation
Indices: 10641236--10641344 Score: 191
Period size: 26 Copynumber: 4.2 Consensus size: 26
10641226 TGGTACAAAT
10641236 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
10641262 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10641288 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10641314 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10641340 TGATA
1 TGATA
10641345 GGCATTTCAT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10642536 original size:8 final size:8
Alignment explanation
Indices: 10642523--10642552 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10642513 AGATCGGCAC
10642523 AAGCCGAA
1 AAGCCGAA
10642531 AAGCCGAA
1 AAGCCGAA
*
10642539 ATGCCGAA
1 AAGCCGAA
10642547 AAGCCG
1 AAGCCG
10642553 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:10642984 original size:27 final size:26
Alignment explanation
Indices: 10642944--10643083 Score: 185
Period size: 27 Copynumber: 5.2 Consensus size: 26
10642934 AGGAAGCGTC
*
10642944 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
10642971 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAT-TATCTGA-T
*
10642998 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
10643025 CTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
10643051 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
10643078 CTGGTG
1 CTGGTG
10643084 ACTTCGTCAC
Statistics
Matches: 102, Mismatches: 4, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
25 6 0.06
26 23 0.23
27 70 0.69
28 3 0.03
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:10643026 original size:54 final size:52
Alignment explanation
Indices: 10642944--10643083 Score: 217
Period size: 54 Copynumber: 2.6 Consensus size: 52
10642934 AGGAAGCGTC
*
10642944 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCT-GT
10642998 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGT
* *
10643051 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
10643084 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
52 7 0.09
53 24 0.30
54 50 0.62
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (52 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGT
Found at i:10644218 original size:30 final size:30
Alignment explanation
Indices: 10644184--10644243 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
10644174 ATGCTATGAC
10644184 TCTAAAATAATAATAAAATAATTTTTTCAA
1 TCTAAAATAATAATAAAATAATTTTTTCAA
10644214 TCTAAAATAATAATAAAATAATTTTTTCAA
1 TCTAAAATAATAATAAAATAATTTTTTCAA
10644244 CTTCAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (30 bp):
TCTAAAATAATAATAAAATAATTTTTTCAA
Found at i:10649676 original size:32 final size:32
Alignment explanation
Indices: 10649635--10649705 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
10649625 TAATTTCTTG
* *
10649635 ATTAATCGGTGAGCTCTTTTCGTTCTTCAATC
1 ATTAATCGGTGAGATCTTTCCGTTCTTCAATC
10649667 ATTAATCGGTGAGATCTTTCCGTTCTTCAATC
1 ATTAATCGGTGAGATCTTTCCGTTCTTCAATC
10649699 ACTTAAT
1 A-TTAAT
10649706 GCATCGTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 31 0.86
33 5 0.14
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.42
Consensus pattern (32 bp):
ATTAATCGGTGAGATCTTTCCGTTCTTCAATC
Found at i:10649956 original size:23 final size:23
Alignment explanation
Indices: 10649895--10649945 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
10649885 TGTTTAGCCC
10649895 TAGAATAGGAGTACTTCATGGAT
1 TAGAATAGGAGTACTTCATGGAT
10649918 TAGAATAGGAGTACTTCATGGAT
1 TAGAATAGGAGTACTTCATGGAT
10649941 TAGAA
1 TAGAA
10649946 AGCTATAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.29
Consensus pattern (23 bp):
TAGAATAGGAGTACTTCATGGAT
Found at i:10659142 original size:42 final size:41
Alignment explanation
Indices: 10659031--10659152 Score: 127
Period size: 43 Copynumber: 2.9 Consensus size: 41
10659021 TACCGTACCA
* * *
10659031 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCATATCG
* * * *
10659073 ATGGCAATAGCCCAGCTACGGTCTTACACGAAGTCTCATATCG
1 AT-GCCATATCCCAGATATGGTCTTACACGAA-TCTCATATCG
* *
10659116 ATGCCATATCCTAGATATGGTCTTACACAAAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACAC-GAATCTCA
10659153 GTAACCCTAA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTCATATCG
Found at i:10663483 original size:67 final size:67
Alignment explanation
Indices: 10663370--10663502 Score: 248
Period size: 67 Copynumber: 2.0 Consensus size: 67
10663360 TCTTCAACCC
10663370 CATGACCGAATATAGCAAGGAGAAACCATGGCTAGGGCTTTTCAAGCTTCCAAGCTCGATTAGCA
1 CATGACCGAATATAGCAAGGAGAAACCATGGCTAGGGCTTTTCAAGCTTCCAAGCTCGATTAGCA
10663435 AT
66 AT
* *
10663437 CATGGCCGAATATAGCAAGGAGAAACCATGGCTAGGGTTTTTCAAGCTTCCAAGCTCGATTAGCA
1 CATGACCGAATATAGCAAGGAGAAACCATGGCTAGGGCTTTTCAAGCTTCCAAGCTCGATTAGCA
10663502 A
66 A
10663503 GGAAAACTAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (67 bp):
CATGACCGAATATAGCAAGGAGAAACCATGGCTAGGGCTTTTCAAGCTTCCAAGCTCGATTAGCA
AT
Found at i:10666168 original size:15 final size:15
Alignment explanation
Indices: 10666130--10666173 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
10666120 CATAGTATCG
* *
10666130 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
10666145 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
10666160 TATCTTGGATTTCT
1 TATCTTGGATTTCT
10666174 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:10673189 original size:84 final size:83
Alignment explanation
Indices: 10673019--10673265 Score: 284
Period size: 84 Copynumber: 3.0 Consensus size: 83
10673009 ATACATGGAA
* * * * *** *
10673019 TCATACCAATGCCATATCCCAGATATGGTCTTTCAGGGGA-TCTCATATCGATGCCAATAG-CCC
1 TCATATCAATGCCATGTCCCAGACATGGTCTTACA-AAAATTCTCATATCGATGCC-AT-GTCCT
*
10673082 AG-CTATGGTCTTACACGATTC
63 AGAC-ATGGTCTTACACGACTC
*
10673103 TCATATCAATGCCATGTCCCAGACATGGTCTTACACAAATTCTCATATCGATGCCATGTCCTAGA
1 TCATATCAATGCCATGTCCCAGACATGGTCTTACAAAAATTCTCATATCGATGCCATGTCCTAGA
10673168 CATGGTCTTACACGAACTC
66 CATGGTCTTACACG-ACTC
** * * *
10673187 TCATATTGATGCCATGTCCCAAACATGGTCTTACAAAAATTCTCATAACGATGCCATATCCTAGA
1 TCATATCAATGCCATGTCCCAGACATGGTCTTACAAAAATTCTCATATCGATGCCATGTCCTAGA
*
10673252 TATGGTCTTACACG
66 CATGGTCTTACACG
10673266 TAAACTCATA
Statistics
Matches: 143, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
82 1 0.01
83 20 0.14
84 122 0.85
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (83 bp):
TCATATCAATGCCATGTCCCAGACATGGTCTTACAAAAATTCTCATATCGATGCCATGTCCTAGA
CATGGTCTTACACGACTC
Found at i:10673274 original size:84 final size:83
Alignment explanation
Indices: 10673059--10673275 Score: 299
Period size: 84 Copynumber: 2.6 Consensus size: 83
10673049 TTTCAGGGGA
* * * *
10673059 TCTCATATCGATGCCAATAGCCCAGCTATGGTCTTACACGATTCTCATATCAATGCCATGTCCCA
1 TCTCATATCGATGCC-ATATCCTAGATATGGTCTTACACGAATCTCATATCAATGCCATGTCCCA
* *
10673124 GACATGGTCTTACACAAAT
65 AACATGGTCTTACAAAAAT
* * **
10673143 TCTCATATCGATGCCATGTCCTAGACATGGTCTTACACGAACTCTCATATTGATGCCATGTCCCA
1 TCTCATATCGATGCCATATCCTAGATATGGTCTTACACGAA-TCTCATATCAATGCCATGTCCCA
10673208 AACATGGTCTTACAAAAAT
65 AACATGGTCTTACAAAAAT
* *
10673227 TCTCATAACGATGCCATATCCTAGATATGGTCTTACACGTAAACTCATA
1 TCTCATATCGATGCCATATCCTAGATATGGTCTTACACG-AATCTCATA
10673276 ACCCTAATGT
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
83 20 0.17
84 95 0.81
85 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (83 bp):
TCTCATATCGATGCCATATCCTAGATATGGTCTTACACGAATCTCATATCAATGCCATGTCCCAA
ACATGGTCTTACAAAAAT
Found at i:10673277 original size:42 final size:41
Alignment explanation
Indices: 10673027--10673275 Score: 216
Period size: 42 Copynumber: 5.9 Consensus size: 41
10673017 AATCATACCA
* * * * *
10673027 ATGCCATATCCCAGATATGGTCTTTCAGGGGATCTCATATCG
1 ATGCCATATCCCAGACATGGTCTTACA-CGAAACTCATATCG
* ** *
10673069 ATGCCAATAGCCCAG-CTATGGTCTTACACGATTCTCATATCA
1 ATGCC-ATATCCCAGAC-ATGGTCTTACACGAAACTCATATCG
*
10673111 ATGCCATGTCCCAGACATGGTCTTACAC-AAATTCTCATATCG
1 ATGCCATATCCCAGACATGGTCTTACACGAAA--CTCATATCG
* * * *
10673153 ATGCCATGTCCTAGACATGGTCTTACACGAACTCTCATATTG
1 ATGCCATATCCCAGACATGGTCTTACACGAA-ACTCATATCG
* * * *
10673195 ATGCCATGTCCCAAACATGGTCTTACA-AAAATTCTCATAACG
1 ATGCCATATCCCAGACATGGTCTTACACGAAA--CTCATATCG
* *
10673237 ATGCCATATCCTAGATATGGTCTTACACGTAAACTCATA
1 ATGCCATATCCCAGACATGGTCTTACACG-AAACTCATA
10673276 ACCCTAATGT
Statistics
Matches: 170, Mismatches: 26, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
40 1 0.01
41 21 0.12
42 125 0.74
43 20 0.12
44 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (41 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAACTCATATCG
Found at i:10675139 original size:20 final size:20
Alignment explanation
Indices: 10675111--10675148 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10675101 CTAGGAATTA
10675111 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
*
10675131 TGTGGTCTGAGCTCATGA
1 TGTGATCTGAGCTCATGA
10675149 TATATGTGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.32, T:0.34
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:10677444 original size:34 final size:34
Alignment explanation
Indices: 10677406--10677618 Score: 302
Period size: 34 Copynumber: 6.2 Consensus size: 34
10677396 ATGTGAAGCA
*
10677406 TAGGTATGGTATTTCCATA-TCGAGCTATGATATG
1 TAGGTATGGTATTTCCATACT-GAGCTATGATACG
* * *
10677440 TAGGTATCGTATTTCCAAACTGAGCTATGATACA
1 TAGGTATGGTATTTCCATACTGAGCTATGATACG
*
10677474 TAGGTATTGTATTTCCATACTGAGCTATGATACG
1 TAGGTATGGTATTTCCATACTGAGCTATGATACG
* *
10677508 TAAGTATGGTATTTCCATACTGAGCTATCATACG
1 TAGGTATGGTATTTCCATACTGAGCTATGATACG
* *
10677542 TAGGTATGGTATTTCCATACCGAGTTATGATACG
1 TAGGTATGGTATTTCCATACTGAGCTATGATACG
* *
10677576 TAGGTATGGTATTTTCCATACTGAGTTATGAAACG
1 TAGGTATGGTA-TTTCCATACTGAGCTATGATACG
10677611 TAGGTATG
1 TAGGTATG
10677619 ACATTTTACA
Statistics
Matches: 161, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
34 131 0.81
35 30 0.19
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (34 bp):
TAGGTATGGTATTTCCATACTGAGCTATGATACG
Found at i:10680739 original size:46 final size:45
Alignment explanation
Indices: 10680686--10680861 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
10680676 CATTTGGGCA
*
10680686 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
10680732 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
10680779 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
10680825 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10680862 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 66 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:10680841 original size:93 final size:93
Alignment explanation
Indices: 10680682--10680853 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
10680672 AGGACATTTG
* * * *
10680682 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
10680747 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
10680775 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
10680840 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
10680854 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:10688980 original size:42 final size:42
Alignment explanation
Indices: 10688773--10688969 Score: 220
Period size: 42 Copynumber: 4.7 Consensus size: 42
10688763 AATCATACCA
* * *
10688773 ATGCCATATTCCAGATATGGTCTTACATGGGA-TCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACA-CGAATTCTCATATCG
* *
10688815 ATGCCAATAGCCCAGCTATGGTCTTACAC-AATTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAATTCTCATATCG
* * * *
10688857 ATGCCATGTCCCAAACATTGTCTTACACGAATTCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAATTCTCATATCG
* * * *
10688899 ATGCCATGTCCCAAACATGGTCTTACATGAATTCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACACGAATTCTCAT-ATCG
*
10688941 ATGCCATATCCCAGATATAGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
10688970 TAAACTCATA
Statistics
Matches: 133, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
41 18 0.14
42 94 0.71
43 21 0.16
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATTCTCATATCG
Found at i:10693133 original size:22 final size:22
Alignment explanation
Indices: 10693091--10693133 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
10693081 TGTGATATGT
*
10693091 GTAAGACTATGGCAAGGCCATG
1 GTAAGACTATGGCAAGACCATG
*
10693113 GTAAGA-TATGTGTAAGACCAT
1 GTAAGACTATG-GCAAGACCAT
10693134 AGTTGGGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (22 bp):
GTAAGACTATGGCAAGACCATG
Found at i:10695147 original size:24 final size:24
Alignment explanation
Indices: 10695120--10695168 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
10695110 TCTGCCAGCT
10695120 TGGCTACACATTATCTGAAACGTG
1 TGGCTACACATTATCTGAAACGTG
10695144 TGGCTACACATTATCTGAAACGTG
1 TGGCTACACATTATCTGAAACGTG
10695168 T
1 T
10695169 CATAATGGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (24 bp):
TGGCTACACATTATCTGAAACGTG
Found at i:10716829 original size:22 final size:22
Alignment explanation
Indices: 10716771--10716840 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
10716761 CTTGAGCTGA
* **
10716771 TGAAGAATAAGCTCTATTAAGC
1 TGAACAATAAGCTCTATCGAGC
**
10716793 TGAAACGGTAAGCTCTATCGAGC
1 TG-AACAATAAGCTCTATCGAGC
10716816 TGAACAATAAGCTCT-TACGAGC
1 TGAACAATAAGCTCTAT-CGAGC
10716838 TGA
1 TGA
10716841 TATATCGGTA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 1 0.03
22 21 0.54
23 17 0.44
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (22 bp):
TGAACAATAAGCTCTATCGAGC
Found at i:10719820 original size:10 final size:10
Alignment explanation
Indices: 10719805--10719856 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
10719795 ATTATTAACG
10719805 TAATTAATTT
1 TAATTAATTT
10719815 TAATTAATTTT
1 TAATTAA-TTT
*
10719826 ATAATAAATTT
1 -TAATTAATTT
*
10719837 TAATTAGTTT
1 TAATTAATTT
*
10719847 TGATT-ATTT
1 TAATTAATTT
10719856 T
1 T
10719857 TGACAGAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
9 4 0.11
10 19 0.54
11 6 0.17
12 6 0.17
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (10 bp):
TAATTAATTT
Found at i:10719830 original size:22 final size:22
Alignment explanation
Indices: 10719805--10719847 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10719795 ATTATTAACG
*
10719805 TAATTAATTTTAATTAATTTTA
1 TAATAAATTTTAATTAATTTTA
*
10719827 TAATAAATTTTAATTAGTTTT
1 TAATAAATTTTAATTAATTTT
10719848 GATTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TAATAAATTTTAATTAATTTTA
Found at i:10720726 original size:21 final size:20
Alignment explanation
Indices: 10720681--10720726 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
10720671 TTGTTGGAAT
10720681 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
10720700 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
10720721 GGTTGA
1 GGTTGA
10720727 TTGTATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:10733142 original size:46 final size:46
Alignment explanation
Indices: 10733075--10733238 Score: 167
Period size: 46 Copynumber: 3.5 Consensus size: 46
10733065 TGTAACCCGC
10733075 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACAT
*
10733121 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGG--G-C--GTTCACAT
* * * * *
10733171 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACAT
* *
10733214 CCATAAGTGAACTGGGACTCAACTC
1 CCATAAGCGAACTCGGACTCAACTC
10733239 GACGAGTTCA
Statistics
Matches: 98, Mismatches: 9, Indels: 22
0.76 0.07 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 51 0.52
47 26 0.27
48 1 0.01
49 1 0.01
50 6 0.06
51 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACAT
Found at i:10733157 original size:20 final size:20
Alignment explanation
Indices: 10733086--10733157 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 20
10733076 CATAAGCGAA
10733086 CTCGGACTCAACTCAATGAG
1 CTCGGACTCAACTCAATGAG
* *
10733106 CTCGGGCGTTC-ACATCCATAAGTGAA
1 CTCGGAC--TCAAC-T-C--AA-TGAG
10733132 CTCGGACTCAACTCAATGAG
1 CTCGGACTCAACTCAATGAG
10733152 CTCGGA
1 CTCGGA
10733158 TGCCTAGTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 16
0.67 0.07 0.27
Matches are distributed among these distances:
20 15 0.38
21 4 0.10
22 3 0.08
23 2 0.05
24 3 0.08
25 4 0.10
26 9 0.22
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (20 bp):
CTCGGACTCAACTCAATGAG
Found at i:10733253 original size:93 final size:93
Alignment explanation
Indices: 10733082--10733254 Score: 256
Period size: 93 Copynumber: 1.9 Consensus size: 93
10733072 CGCCCATAAG
* * *
10733082 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
* *
10733147 ATGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCAGATGCCTAGTTACATCTCT
* * * *
10733175 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTGGGACTCAACTCG
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
*
10733240 ACGAGTTCAGATGCC
66 ACGAGCTCAGATGCC
10733255 CAAATATCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCT
Found at i:10738223 original size:27 final size:26
Alignment explanation
Indices: 10738167--10738317 Score: 115
Period size: 27 Copynumber: 5.6 Consensus size: 26
10738157 AAATTGTACA
* * *
10738167 GCACTAAGTGTGCG-ATTCTACTTTGTT
1 GCACTAAGTGTGCGAAAT-GACTATG-T
*
10738194 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAAATGACTATG-T
* * *
10738221 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAAATGACTATG-T
*
10738248 GCACTAAGTGTGCGAGATGGACTATGT
1 GCACTAAGTGTGCGAAAT-GACTATGT
** * *
10738275 GGCACTAAGTGTGCGATTTGATTACGT
1 -GCACTAAGTGTGCGAAATGACTATGT
*
10738302 GGCACTAAATGTGCGA
1 -GCACTAAGTGTGCGA
10738318 GTTGATTATA
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
27 78 0.76
28 24 0.24
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (26 bp):
GCACTAAGTGTGCGAAATGACTATGT
Found at i:10738227 original size:54 final size:54
Alignment explanation
Indices: 10738167--10738292 Score: 148
Period size: 54 Copynumber: 2.3 Consensus size: 54
10738157 AAATTGTACA
* ** **
10738167 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAAT-GAATATGAT-
1 GCACTAAGTGTGCGATT-GACCATGCGGCACTAAGTGTGCGAAATGGAATATG-TG
* *
10738221 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGATGGACTATGTG
1 GCACTAAGTGTGCG-ATTGACCATGCGGCACTAAGTGTGCGAAATGGAATATGTG
10738276 GCACTAAGTGTGCGATT
1 GCACTAAGTGTGCGATT
10738293 TGATTACGTG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
54 39 0.63
55 23 0.37
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGATTGACCATGCGGCACTAAGTGTGCGAAATGGAATATGTG
Found at i:10738290 original size:55 final size:54
Alignment explanation
Indices: 10738194--10738343 Score: 160
Period size: 55 Copynumber: 2.8 Consensus size: 54
10738184 CTACTTTGTT
* *
10738194 GCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGATGAATATGATGCACTAAGTGTGCGAATTGACCACGCG
* * ** *
10738248 GCACTAAGTGTGCGAGATGGACTATG-TGGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGAT-GAATATGAT-GCACTAAGTGTGCGAATTGACCACGCG
* * * *
10738303 GCACTAAATGTGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGATGAATATGAT-GCACTAAGTGTGCG
10738344 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
54 37 0.46
55 44 0.54
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGATGAATATGATGCACTAAGTGTGCGAATTGACCACGCG
Found at i:10738307 original size:82 final size:81
Alignment explanation
Indices: 10738167--10738322 Score: 188
Period size: 82 Copynumber: 1.9 Consensus size: 81
10738157 AAATTGTACA
* * * * * *
10738167 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAATCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
10738232 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
10738248 GCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAAT
1 GCACTAAGTGTGCGA-ATCGACTATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAAT
*
10738312 GTGCGAGTTGA
64 GTGCGAATTGA
10738323 TTATATAGCA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
81 16 0.26
82 46 0.74
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATCGACTATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:10738322 original size:27 final size:27
Alignment explanation
Indices: 10738194--10738343 Score: 113
Period size: 27 Copynumber: 5.5 Consensus size: 27
10738184 CTACTTTGTT
** * *
10738194 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAGTTGATTACG-TG
* ** * *
10738221 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGATTACGTG
* * *
10738248 GCACTAAGTGTGCGAGATGGACTATGTG
1 GCACTAAGTGTGCGAG-TTGATTACGTG
*
10738276 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAGTTGATTACGTG
* ** *
10738303 GCACTAAATGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGTTGATTACGTG
*
10738330 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
10738344 GGCTCAATAT
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
27 79 0.77
28 23 0.23
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGTTGATTACGTG
Found at i:10752515 original size:17 final size:17
Alignment explanation
Indices: 10752495--10752530 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10752485 CTAACGAATT
*
10752495 AATACATCTAATTAATG
1 AATACAACTAATTAATG
*
10752512 AATATAACTAATTAATG
1 AATACAACTAATTAATG
10752529 AA
1 AA
10752531 CCACAAAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (17 bp):
AATACAACTAATTAATG
Found at i:10758101 original size:95 final size:96
Alignment explanation
Indices: 10757950--10758219 Score: 276
Period size: 95 Copynumber: 2.8 Consensus size: 96
10757940 GTCGAGGCCG
* * * * * * *
10757950 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTTAATATTGATGCCATGTCCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGTCGATGTCATGTCCCAAACA
* * * **
10758015 TTGTCTTACATTGGCTCTCATAATGT-GACA
66 TGGTCTTACACTGGCTCTCACAACATCGACA
* * **
10758045 ATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGCCGATGTCATGTCCCTGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGTCGATGTCATGTCCCAAACA
*
10758110 TGGTCTTACACTGGCTCTCACAACATCGCCA
66 TGGTCTTACACTGGCTCTCACAACATCGACA
* * * * * *
10758141 ATGCCATGTTCCAAAAATGGTCTTATACT-GACTCCCATATC-GTGGTCGATGTCATGTCCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCACATATCAAT-GTCGATGTCATGTCCCAAA
* *
10758204 CGTGGTCTTACGCTGG
64 CATGGTCTTACACTGG
10758220 TACACATATC
Statistics
Matches: 143, Mismatches: 29, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
95 77 0.54
96 66 0.46
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGTCGATGTCATGTCCCAAACA
TGGTCTTACACTGGCTCTCACAACATCGACA
Found at i:10758149 original size:48 final size:47
Alignment explanation
Indices: 10757902--10758165 Score: 174
Period size: 48 Copynumber: 5.5 Consensus size: 47
10757892 TGAGTTGCTG
* * * * *** * *
10757902 ATGCCATGTTCCAAACATGGACTTACACTAGCTCACATGTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAAC-ATGCCA
* *
10757950 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTTAATATTG---
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-AC--AACA-TGCCA
* * * * * ** *
10757998 ATGCCATGTCCCAAACATTGTCTTACATTGGCTCTCATAATGTGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAACATGCCA
* * * * *
10758045 ATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAAC-ATGCCA
* * *
10758093 ATGTCATGTCCCTGACATGGTCTTACACTGGCTCTCACAACATCGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAACAT-GCCA
* * *
10758141 ATGCCATGTTCCAAAAATGGTCTTA
1 ATGCCATGTCCCAGACATGGTCTTA
10758166 TACTGACTCC
Statistics
Matches: 166, Mismatches: 41, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
44 2 0.01
45 3 0.02
47 35 0.21
48 124 0.75
50 1 0.01
51 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAACATGCCA
Found at i:10758164 original size:143 final size:142
Alignment explanation
Indices: 10757902--10758165 Score: 334
Period size: 143 Copynumber: 1.8 Consensus size: 142
10757892 TGAGTTGCTG
* * * *
10757902 ATGCCATGTTCCAAACATGGACTTACACTAGCTCACATGTCGAGGCCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAAACATGGACTTACACTAGCGCACATATCAAGGCCGATGCCATGTCCCAGACA
* * * * *
10757967 TGGTCTTACACTAGCTCTCGTCTTAATATTGATGCCATGTCCCAAACATTGTCTTACATTGGCTC
66 TGGTCTTACACTAGCTCTCGAC-TAACATCGATGCCATGTCCCAAAAATGGTCTTACATTGGCTC
10758032 TCATAATGTGACA
130 TCATAATGTGACA
* * * * *
10758045 ATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGCCGATGTCATGTCCCTGACA
1 ATGCCATGTCCCAAACATGGACTTACACTAGCGCACATATCAAGGCCGATGCCATGTCCCAGACA
* *
10758110 TGGTCTTACACTGGCTCTC-AC-AACATCGCCAATGCCATGTTCCAAAAATGGTCTTA
66 TGGTCTTACACTAGCTCTCGACTAACATCG---ATGCCATGTCCCAAAAATGGTCTTA
10758166 TACTGACTCC
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
140 5 0.05
142 1 0.01
143 96 0.94
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (142 bp):
ATGCCATGTCCCAAACATGGACTTACACTAGCGCACATATCAAGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCTCTCGACTAACATCGATGCCATGTCCCAAAAATGGTCTTACATTGGCTCT
CATAATGTGACA
Found at i:10758180 original size:96 final size:95
Alignment explanation
Indices: 10757997--10758219 Score: 234
Period size: 96 Copynumber: 2.3 Consensus size: 95
10757987 TCTTAATATT
* * * * ** * *
10757997 GATGCCATGTCCCAAACATTGTCTTACATTGGCTCTCATAATGTGACAATGCCATGTCCCAGACA
1 GATGTCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACATGACAATGCCATGTCCCAAAAA
10758062 TGGTCTTACACTAGCGCACATATCAAT-GCC
66 TGGTCTTACACTAGCGCACATATC-ATGGCC
** * *
10758092 GATGTCATGTCCCTGACATGGTCTTACACTGGCTCTCACAACATCGCCAATGCCATGTTCCAAAA
1 GATGTCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACAT-GACAATGCCATGTCCCAAAA
* * * * *
10758157 ATGGTCTTATACT-GACTCCCATATCGTGGTC
65 ATGGTCTTACACTAG-CGCACATATCATGGCC
* *
10758188 GATGTCATGTCCCAAACGTGGTCTTACGCTGG
1 GATGTCATGTCCCAAACATGGTCTTACACTGG
10758220 TACACATATC
Statistics
Matches: 104, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
95 38 0.37
96 66 0.63
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (95 bp):
GATGTCATGTCCCAAACATGGTCTTACACTGGCTCTCACAACATGACAATGCCATGTCCCAAAAA
TGGTCTTACACTAGCGCACATATCATGGCC
Found at i:10764182 original size:40 final size:40
Alignment explanation
Indices: 10764127--10764234 Score: 119
Period size: 30 Copynumber: 3.0 Consensus size: 40
10764117 TATATATATA
10764127 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
10764167 TATAACTGGGTTAAGT--------C--TCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
10764197 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
10764235 GTTACATCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 20
0.69 0.05 0.26
Matches are distributed among these distances:
30 28 0.52
32 1 0.02
38 1 0.02
40 24 0.44
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:10768051 original size:42 final size:42
Alignment explanation
Indices: 10767951--10768121 Score: 177
Period size: 43 Copynumber: 4.0 Consensus size: 42
10767941 AGCTCGTACA
* *
10767951 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATTAAATATTG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATA-TG
10767994 ATGCC-ACTGTCCCAGACAG-GGTCTTACATGAAATCAAATATG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGAAATCAAATATG
* * *
10768036 ATGCCAACATCCCAGACGTGGTCTTATACGTAAATCATAAGT-TG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG-AAATCA-AA-TATG
** * * *
10768080 ATGCCAACGTCCCAGACGCAGTCTTACACGAAAACACATATG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATG
10768122 GGATCCTATG
Statistics
Matches: 109, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
41 2 0.02
42 29 0.27
43 46 0.42
44 31 0.28
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAAATATG
Found at i:10768106 original size:86 final size:85
Alignment explanation
Indices: 10767951--10768121 Score: 204
Period size: 86 Copynumber: 2.0 Consensus size: 85
10767941 AGCTCGTACA
* * * *
10767951 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATTAAATATTGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACATCCCAGACGTGGTCTTACACGTAATCAAATATTGATGCCACTGTCCCAGACAGAGT
* *
10768016 CTTACATGAAATCAAATATG
66 CTTACACGAAAACAAATATG
* *
10768036 ATGCCAACATCCCAGACGTGGTCTTATACGTAAATCATAA-GTTGATGCCAAC-GTCCCAGAC-G
1 ATGCCAACATCCCAGACGTGGTCTTACACGT-AATCA-AATATTGATGCC-ACTGTCCCAGACAG
*
10768098 CAGTCTTACACGAAAACACATATG
63 -AGTCTTACACGAAAACAAATATG
10768122 GGATCCTATG
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 29 0.40
86 40 0.55
87 4 0.05
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (85 bp):
ATGCCAACATCCCAGACGTGGTCTTACACGTAATCAAATATTGATGCCACTGTCCCAGACAGAGT
CTTACACGAAAACAAATATG
Found at i:10775665 original size:43 final size:42
Alignment explanation
Indices: 10775617--10775725 Score: 139
Period size: 43 Copynumber: 2.6 Consensus size: 42
10775607 AAAGCCAAAG
* *
10775617 TCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCC-ACTA
1 TCCCAGACGTGGTCTTACACGAAATCAAATAT-GATGCCAAC-A
** *
10775660 TCCCAGACAAGGTCTTACACGAAATCAAATATGATGCCAACG
1 TCCCAGACGTGGTCTTACACGAAATCAAATATGATGCCAACA
*
10775702 TCCCAGACGTGGTCATACACGAAA
1 TCCCAGACGTGGTCTTACACGAAA
10775726 ACACATATCG
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 27 0.47
43 30 0.53
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (42 bp):
TCCCAGACGTGGTCTTACACGAAATCAAATATGATGCCAACA
Found at i:10775709 original size:42 final size:43
Alignment explanation
Indices: 10775610--10775735 Score: 148
Period size: 42 Copynumber: 3.0 Consensus size: 43
10775600 CTCATACAAA
* * *
10775610 GCCAAAGTCCCAGACGTGGTCTTACATGTAATCAAATATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCGAT
* **
10775653 GCC-ACTATCCCAGACAAGGTCTTACACGAAATCAAATAT-GAT
1 GCCAAC-GTCCCAGACGTGGTCTTACACGAAATCAAATATCGAT
* * *
10775695 GCCAACGTCCCAGACGTGGTCATACACGAAAACACATATCG
1 GCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCG
10775736 GATCCTATGT
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 34 0.50
43 34 0.50
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACACGAAATCAAATATCGAT
Found at i:10779164 original size:48 final size:48
Alignment explanation
Indices: 10779056--10779329 Score: 230
Period size: 48 Copynumber: 5.7 Consensus size: 48
10779046 GAGGGTGAGT
* * * * * * * **
10779056 TGCCGATGCCATGTTCCAAACATGGTCTTACACTGGTTCACATGTTGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAA
* * * * *
10779104 GGCTGATACCATGTCCTAGACATGGTCTTACACTAGCTCTCGTCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAA
* *
10779152 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACGTATCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAA
* * ** *
10779200 TGTCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCACAAC-A
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAA
* * * * *
10779247 T-CATCGATGCCATGTTCCAAACATGGTCTTACACTGGCCCTCATATC-A
1 TGC--CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAA
* * * *
10779295 TGGTCGATGCCATTTCCCTGACTTGGTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
10779330 GGCACACATA
Statistics
Matches: 181, Mismatches: 41, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
47 2 0.01
48 179 0.99
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAA
Found at i:10779221 original size:96 final size:95
Alignment explanation
Indices: 10779059--10779329 Score: 264
Period size: 96 Copynumber: 2.8 Consensus size: 95
10779049 GGTGAGTTGC
* * ** * * * * *
10779059 CGATGCCATGTTCCAAACATGGTCTTACACTGGTTCACATGT--TGAGGCTGATACCATGTCCTA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCCCACATATCATG-GTC-GATGCCATATCCCA
* *
10779122 GACATGGTCTTACACTAGCTCTCGTC-TCAATGC-
64 GACATGGTCTTACACTAGCTCTC-ACAAC-AT-CA
* * *
10779155 CGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACGTATCAAT-GTCGATGCCATATCCCAG
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCCCACATATC-ATGGTCGATGCCATATCCCAG
10779219 ACATGGTCTTACACTAGCTCTCACAACATCA
65 ACATGGTCTTACACTAGCTCTCACAACATCA
* * * * *
10779250 TCGATGCCATGTTCCAAACATGGTCTTACACTGGCCCTCATATCATGGTCGATGCCATTTCCCTG
1 -CGATGCCATGTCCCAAACATGGTCTTACACTAGCCCACATATCATGGTCGATGCCATATCCCAG
*
10779315 ACTTGGTCTTACACT
65 ACATGGTCTTACACT
10779330 GGCACACATA
Statistics
Matches: 146, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
94 1 0.01
95 5 0.03
96 137 0.94
97 2 0.01
99 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (95 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCCCACATATCATGGTCGATGCCATATCCCAGA
CATGGTCTTACACTAGCTCTCACAACATCA
Found at i:10781701 original size:27 final size:27
Alignment explanation
Indices: 10781671--10781848 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
10781661 ATATTGAGCC
* * * *
10781671 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
10781698 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
10781725 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
10781753 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
10781780 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
10781807 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
10781834 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10781849 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:10781810 original size:82 final size:81
Alignment explanation
Indices: 10781692--10781847 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
10781682 TGCTATATAA
* *
10781692 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
10781757 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
10781774 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
10781838 CACTTAGTGC
65 CACTTAGTGC
10781848 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:10790931 original size:21 final size:21
Alignment explanation
Indices: 10790907--10790976 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
10790897 TGATCTAAAC
*
10790907 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAAT
* *
10790928 TCA-TGATATTTGTGGCATCTGAAC
1 TCATTG--AGTTGTGG--TCTGAAT
* *
10790952 TCATTGAGTTATGGTCTGACT
1 TCATTGAGTTGTGGTCTGAAT
10790973 TCAT
1 TCAT
10790977 GATGTATATG
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
20 2 0.05
21 12 0.32
22 7 0.19
23 6 0.16
24 8 0.22
25 2 0.05
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.41
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAAT
Found at i:10792615 original size:28 final size:29
Alignment explanation
Indices: 10792561--10792622 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 29
10792551 GAAAGCATGT
*
10792561 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
*
10792590 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
10792618 ATATG
1 ATATG
10792623 CATGTATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 20 0.65
29 11 0.35
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGGCC
Found at i:10795503 original size:30 final size:29
Alignment explanation
Indices: 10795467--10795527 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
10795457 AAACAGAAGT
* *
10795467 TTTGGCAGTAAGTGTGCTATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
10795497 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
10795526 TT
1 TT
10795528 CGGCTACTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:10805031 original size:27 final size:26
Alignment explanation
Indices: 10804993--10805052 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
10804983 ACATATATAT
* *
10804993 ATATTTGTTCTGGTGGCCTAGTCACA
1 ATATCTGTTCTGGTGACCTAGTCACA
* *
10805019 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGTCACA
10805046 ATATCTG
1 ATATCTG
10805053 GGAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGTCACA
Found at i:10810735 original size:26 final size:27
Alignment explanation
Indices: 10810706--10810765 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
10810696 CCACATATAT
* *
10810706 ATATCTG-TTCTGGTGGCCTAGCCACA
1 ATATCTGCATCTGGTGACCTAGCCACA
* * *
10810732 ATATCTGCATCTGGTGACTTCGTCACA
1 ATATCTGCATCTGGTGACCTAGCCACA
10810759 ATATCTG
1 ATATCTG
10810766 GCAGCCTCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (27 bp):
ATATCTGCATCTGGTGACCTAGCCACA
Found at i:10812866 original size:27 final size:28
Alignment explanation
Indices: 10812821--10812877 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
10812811 ATTATTTTTT
*
10812821 TTTATAGTATAATAGCTAGAACTAATTA
1 TTTATAGTATAATAACTAGAACTAATTA
*
10812849 TTTATA-TTTAATAACTAGAACTAATTA
1 TTTATAGTATAATAACTAGAACTAATTA
10812876 TT
1 TT
10812878 CCATTCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (28 bp):
TTTATAGTATAATAACTAGAACTAATTA
Found at i:10812973 original size:48 final size:48
Alignment explanation
Indices: 10812915--10813008 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 48
10812905 ATAATTCAAA
10812915 TTTTTGAGTCTAAAAAGAGTTTCATTCTAATTATCTAGACTTATAACG
1 TTTTTGAGTCTAAAAAGAGTTTCATTCTAATTATCTAGACTTATAACG
* *
10812963 TTTTTTAGTCTAAAAAGAGTTTTATTCTAATTATCTAGACTTATAA
1 TTTTTGAGTCTAAAAAGAGTTTCATTCTAATTATCTAGACTTATAA
10813009 TGTATCATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (48 bp):
TTTTTGAGTCTAAAAAGAGTTTCATTCTAATTATCTAGACTTATAACG
Found at i:10813586 original size:27 final size:26
Alignment explanation
Indices: 10813556--10813635 Score: 90
Period size: 26 Copynumber: 3.0 Consensus size: 26
10813546 AATCTCATAT
*
10813556 CTGTAGGCTAGTATTACTGAAATACCC
1 CTGTAGG-TAGAATTACTGAAATACCC
* *
10813583 CTGTAGGGTAGAATTACTAAAAT-GCC
1 CTGTA-GGTAGAATTACTGAAATACCC
*
10813609 CTATAAGGTAGAATTACTGAAATACCC
1 CTGT-AGGTAGAATTACTGAAATACCC
10813636 TTGGTTTACA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
26 21 0.48
27 21 0.48
28 2 0.05
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (26 bp):
CTGTAGGTAGAATTACTGAAATACCC
Found at i:10813654 original size:27 final size:27
Alignment explanation
Indices: 10813620--10814043 Score: 327
Period size: 27 Copynumber: 15.7 Consensus size: 27
10813610 TATAAGGTAG
* * **
10813620 AATTACTGAAATACCCTTGGTTTACAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * *
10813647 AATTACTG-AATACCCTTGGTTTATAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * * *
10813673 AATTACCAAAATACCCTCGATTAGAAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * *
10813700 AATTACCAAAATACCCCT-AGTTTGTCA
1 AATTACCGAAATACCCTTGA-TTTGTAA
* * *
10813727 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCGAAATACCCTTGATTTGTAA
* * ** *
10813754 AATTACTGAAATACCCTCGACCTATAA
1 AATTACCGAAATACCCTTGATTTGTAA
* * *
10813781 AATTATCGAAATA-CTTTCATCTTGTAA
1 AATTACCGAAATACCCTTGAT-TTGTAA
* ** *
10813808 AATTATCGAAATACCCTCAACTTGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
* *
10813835 AATTACCGAAATACCCTCGATTTGGAA
1 AATTACCGAAATACCCTTGATTTGTAA
* *
10813862 AATTACCAAAATACCCTTGATTTGGAA
1 AATTACCGAAATACCCTTGATTTGTAA
*
10813889 AATTACCGAAATACCCTTGATTTGGAA
1 AATTACCGAAATACCCTTGATTTGTAA
* **
10813916 AATTACAGAAATAGCCC-TGATTTACAA
1 AATTACCGAAATA-CCCTTGATTTGTAA
* * *
10813943 AATTACAGAAATATCTTTGACTTT-TAAA
1 AATTACCGAAATACCCTTGA-TTTGT-AA
** * *
10813971 AATTACAAAAATACCATTGGTTTGTAA
1 AATTACCGAAATACCCTTGATTTGTAA
* *
10813998 AATTACCGAAATACCCTTGGTTTGTAG
1 AATTACCGAAATACCCTTGATTTGTAA
* * *
10814025 ATTTACCAAAACACCCTTG
1 AATTACCGAAATACCCTTG
10814044 TAGGGTGAAA
Statistics
Matches: 329, Mismatches: 58, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
26 28 0.09
27 272 0.83
28 29 0.09
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGATTTGTAA
Found at i:10814325 original size:41 final size:40
Alignment explanation
Indices: 10814280--10814399 Score: 125
Period size: 41 Copynumber: 2.9 Consensus size: 40
10814270 GGAGGAAGAA
*
10814280 ATTGAGGATCGCATGGTTGCTTGACA-ATCGTGGATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGACACA--GTGGATCCACCG
** * * *
10814321 ATTGAGGATCGTGTGGTTACTTGACGGCTGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGAC-ACAGTGGATCCACCG
* *
10814362 ATTAAGGATTGCATGGTTGCTTGACGACAGTGGATCCA
1 ATTGAGGATCGCATGGTTGCTTGAC-ACAGTGGATCCA
10814400 TCGGTGACTT
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (40 bp):
ATTGAGGATCGCATGGTTGCTTGACACAGTGGATCCACCG
Found at i:10818008 original size:6 final size:6
Alignment explanation
Indices: 10817981--10818046 Score: 71
Period size: 6 Copynumber: 10.8 Consensus size: 6
10817971 TATCAAAACT
* * * *
10817981 AGAATC AAAATG AGAATC AGAATT AGAATC AGGTGAT- AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
10818030 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
10818047 GTGAATGCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
5 2 0.04
6 43 0.88
7 2 0.04
8 2 0.04
ACGTcount: A:0.50, C:0.11, G:0.20, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:10818234 original size:27 final size:27
Alignment explanation
Indices: 10818162--10818236 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
10818152 TAGCATGGCT
* **
10818162 ACCAGAA-CAGATATTGTGACAGAGTC
1 ACCAGAATCAGATATTGTGGCAGAACC
10818188 ACCAG-ATACAGATATTGTGGCAGAACC
1 ACCAGAAT-CAGATATTGTGGCAGAACC
*
10818215 ACCAGAATCAGATAATGTGGCA
1 ACCAGAATCAGATATTGTGGCA
10818237 AAGCCACTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 1 0.02
26 5 0.12
27 34 0.81
28 2 0.05
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.19
Consensus pattern (27 bp):
ACCAGAATCAGATATTGTGGCAGAACC
Found at i:10818365 original size:22 final size:22
Alignment explanation
Indices: 10818339--10818392 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
10818329 CGGGACACAA
10818339 CCATAATCAGGTTGGCACAAAG
1 CCATAATCAGGTTGGCACAAAG
* **
10818361 CCAT-ATGTAGGTTGGTGCAAAG
1 CCATAAT-CAGGTTGGCACAAAG
10818383 CCATAATCAG
1 CCATAATCAG
10818393 AATAATTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (22 bp):
CCATAATCAGGTTGGCACAAAG
Found at i:10818937 original size:27 final size:27
Alignment explanation
Indices: 10818907--10819047 Score: 194
Period size: 27 Copynumber: 5.2 Consensus size: 27
10818897 GGGCAAAATG
* * *
10818907 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
10818934 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
10818961 GT-ATTCTTACCCTATAAGGGTATTTCG
1 GTAATTC-TACCCTACAAGGGTATTTCA
*
10818988 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
10819015 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
10819042 GTAATT
1 GTAATT
10819048 TTGTAAATTA
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
26 4 0.04
27 93 0.92
28 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:10818953 original size:54 final size:54
Alignment explanation
Indices: 10818906--10819047 Score: 214
Period size: 54 Copynumber: 2.6 Consensus size: 54
10818896 GGGGCAAAAT
* *
10818906 GGTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
10818960 GGT-ATTCTTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATT-TTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
10819014 AGTAATTCTACCCTACAAGGGTATTTCAGTAATT
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATT
10819048 TTGTAAATTA
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 3 0.04
54 72 0.92
55 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (54 bp):
GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:10820831 original size:41 final size:41
Alignment explanation
Indices: 10820691--10820874 Score: 217
Period size: 41 Copynumber: 4.5 Consensus size: 41
10820681 GGTGTTACAA
* *
10820691 CAGGCTTCGTGCCGGTGTATATTATTAGGCTTT-ATGCTTAC
1 CAGGCTTCGTGCCGGTGTATATTATTAGGCTTTGA-GCCTAG
** * * * *
10820732 CAGGCTTTATGCCGATGAAGATTATTAGGCTTTGTGCCTAG
1 CAGGCTTCGTGCCGGTGTATATTATTAGGCTTTGAGCCTAG
*
10820773 CAGGCTTCGAGCCGGTGTATATTATTAGGCTTTGAGCCTAG
1 CAGGCTTCGTGCCGGTGTATATTATTAGGCTTTGAGCCTAG
* * * **
10820814 CAGGCTTCGTGCTGGTGTATATTATCAGGCCTAAAGCCTAG
1 CAGGCTTCGTGCCGGTGTATATTATTAGGCTTTGAGCCTAG
*
10820855 CAGGCTTCGTGCCGATGTAT
1 CAGGCTTCGTGCCGGTGTAT
10820875 TATATCAAGT
Statistics
Matches: 119, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
41 119 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (41 bp):
CAGGCTTCGTGCCGGTGTATATTATTAGGCTTTGAGCCTAG
Found at i:10824065 original size:18 final size:18
Alignment explanation
Indices: 10824042--10824078 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
10824032 TGATGTATGT
10824042 ATGGAATATGAAACCATG
1 ATGGAATATGAAACCATG
10824060 ATGGAATATGAAACCATG
1 ATGGAATATGAAACCATG
10824078 A
1 A
10824079 CATTGAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.22
Consensus pattern (18 bp):
ATGGAATATGAAACCATG
Found at i:10827856 original size:13 final size:13
Alignment explanation
Indices: 10827838--10827863 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10827828 ATACACATGA
10827838 CCTATTTATACAT
1 CCTATTTATACAT
10827851 CCTATTTATACAT
1 CCTATTTATACAT
10827864 ATACTTTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
CCTATTTATACAT
Found at i:10828120 original size:43 final size:43
Alignment explanation
Indices: 10828054--10828137 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
10828044 AAATCGTACA
** *
10828054 ATGCCAACGTCCCAGACGTGGTCTTACATGTAACCACATATTG
1 ATGCCAACGTCCCAGACAAGGTCTTACATGTAAACACATATTG
* *
10828097 ATGCC-ACTGTCCCAGACAAGGTCTTACTTTTAAACACATAT
1 ATGCCAAC-GTCCCAGACAAGGTCTTACATGTAAACACATAT
10828138 CGGAATCACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 2 0.06
43 33 0.94
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAAGGTCTTACATGTAAACACATATTG
Found at i:10831993 original size:42 final size:42
Alignment explanation
Indices: 10831947--10832031 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
10831937 TTCCCCCTAC
10831947 TTAGCCCATGCTTGCCCACAAGTATGGTTCTATTCCACTATG
1 TTAGCCCATGCTTGCCCACAAGTATGGTTCTATTCCACTATG
10831989 TTAGCCCATGCTTGCCCACAAGTATGGTTCTATTCCACTATG
1 TTAGCCCATGCTTGCCCACAAGTATGGTTCTATTCCACTATG
10832031 T
1 T
10832032 AATTTAGATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.34
Consensus pattern (42 bp):
TTAGCCCATGCTTGCCCACAAGTATGGTTCTATTCCACTATG
Found at i:10832499 original size:104 final size:102
Alignment explanation
Indices: 10832311--10832513 Score: 237
Period size: 104 Copynumber: 2.0 Consensus size: 102
10832301 ATATATTTTA
* * * *
10832311 TTTAAGAATGTAGTGGTCCTTTTGACGTGAAGTGGGATAACAACCCAAGCACCCCACCCCAATTA
1 TTTAAGAATGTAGTGGACCTTTTGACGCGAAGTGGAATAACAACCCAAGCACCCCACCCCAACTA
*** *
10832376 CTCAGCTTGACATGATCCTAATTTATTATTATTATTATT
66 CTCAGCCCAACATCATCCTAATTTATT-TT-TTATTATT
* * * * ***
10832415 TTTAAGAATGTATTGGACCTTTTGACGCGAAGTGGAATGACAACCTAAGCACCTCACCCTGGCTA
1 TTTAAGAATGTAGTGGACCTTTTGACGCGAAGTGGAATAACAACCCAAGCACCCCACCCCAACTA
10832480 CTCAGCCCAACA-CACTCCTAATTTATTTTTTATT
66 CTCAGCCCAACATCA-TCCTAATTTATTTTTTATT
10832514 TCTAGAATTC
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
102 5 0.06
103 3 0.04
104 75 0.90
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (102 bp):
TTTAAGAATGTAGTGGACCTTTTGACGCGAAGTGGAATAACAACCCAAGCACCCCACCCCAACTA
CTCAGCCCAACATCATCCTAATTTATTTTTTATTATT
Found at i:10850009 original size:44 final size:44
Alignment explanation
Indices: 10849946--10850035 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
10849936 GGGAGATAGG
10849946 AAAAAAGAGAGGGGTAAGCATTTACATGCTTAGTAAGCTCGAAT
1 AAAAAAGAGAGGGGTAAGCATTTACATGCTTAGTAAGCTCGAAT
* *
10849990 AAAAGAGAGTGGGGTAAGCATTTACATGCTTAGTAAGCTCGAAT
1 AAAAAAGAGAGGGGTAAGCATTTACATGCTTAGTAAGCTCGAAT
10850034 AA
1 AA
10850036 CAGGAAAGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (44 bp):
AAAAAAGAGAGGGGTAAGCATTTACATGCTTAGTAAGCTCGAAT
Found at i:10861246 original size:56 final size:56
Alignment explanation
Indices: 10861137--10861249 Score: 156
Period size: 56 Copynumber: 2.0 Consensus size: 56
10861127 TGTACTCCTC
* * * **
10861137 ATTCCTGCGATCAATCTCATCAAAATAGGGTTTTAATCAGGTGTTGTTTACCTTAA
1 ATTCCTGCGATCAATCTCATCAAAATAAGGTTTTAAACAGGTATTGTGCACCTTAA
*
10861193 ATTCCTGCTATCAATCTCATCAAAATAAGGTTTTAAAC-GTGTATTGTGCACCTTAA
1 ATTCCTGCGATCAATCTCATCAAAATAAGGTTTTAAACAG-GTATTGTGCACCTTAA
10861249 A
1 A
10861250 AGTGCCGAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
55 1 0.02
56 49 0.98
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (56 bp):
ATTCCTGCGATCAATCTCATCAAAATAAGGTTTTAAACAGGTATTGTGCACCTTAA
Found at i:10864978 original size:25 final size:25
Alignment explanation
Indices: 10864946--10864996 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
10864936 ATCAAATATA
*
10864946 ATCTCGATTAGCCACTCCAATGGAT
1 ATCTCGATTAGCCACTCCAATAGAT
10864971 ATCTCGATTAGCCACTCCAATAGAT
1 ATCTCGATTAGCCACTCCAATAGAT
10864996 A
1 A
10864997 ATCATTCTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (25 bp):
ATCTCGATTAGCCACTCCAATAGAT
Found at i:10865409 original size:46 final size:46
Alignment explanation
Indices: 10865342--10865469 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
10865332 TGTAACCCAC
* *
10865342 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCGGGC-TTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTT-GCAT
* *
10865388 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
*
10865434 CCATAAGCGAACTCGGACCCAACTCAACGAGCTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
10865470 ATACCTAGTT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
46 71 0.96
47 3 0.04
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
Found at i:10871141 original size:46 final size:46
Alignment explanation
Indices: 10871074--10871246 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
10871064 TGTAACCCGC
* *
10871074 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCAT
* * * *
10871120 CCATAAGTGAACTTAGACTCAACTCAACGAGTTCGGATGCCTAATT-ACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGG--G-C--ATTCGCAT
* * * *
10871170 -C-TCA-CAAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCAT
* *
10871213 CCATAAGCGAACTCGGACTCAACTCAATGAGCTC
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTC
10871247 AGATGCCTAG
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 3 0.03
46 56 0.55
47 25 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:10871192 original size:47 final size:47
Alignment explanation
Indices: 10871135--10871294 Score: 150
Period size: 47 Copynumber: 3.4 Consensus size: 47
10871125 AGTGAACTTA
*
10871135 GACTCAACTCAACGAGTTCGGATGCCTAATTACATCTCACAAACTCG
1 GACTCAACTCAACGAGTTCGGATGCCTAATTACATCTCACGAACTCG
* *
10871182 GACTCAACTCAACGAGTTCGG--G-C--ATTCGCATCCATAAGCGAACTCG
1 GACTCAACTCAACGAGTTCGGATGCCTAATT-ACAT-C-TCA-CGAACTCG
* * * * * *
10871228 GACTCAACTCAATGAGCTCAGATGCCTAGTTACATCTCATGAACTCA
1 GACTCAACTCAACGAGTTCGGATGCCTAATTACATCTCACGAACTCG
* *
10871275 GACTTAACTCAACAAGTTCG
1 GACTCAACTCAACGAGTTCG
10871295 AACGTTCGCA
Statistics
Matches: 88, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 3 0.03
46 25 0.28
47 42 0.48
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (47 bp):
GACTCAACTCAACGAGTTCGGATGCCTAATTACATCTCACGAACTCG
Found at i:10871192 original size:93 final size:93
Alignment explanation
Indices: 10871083--10871345 Score: 330
Period size: 93 Copynumber: 2.8 Consensus size: 93
10871073 CCCATAAGCG
* *
10871083 AACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTTAGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTTAGACTCAACTCAAC
*
10871148 GAGTTCGGATGCCTAATTACATCTCACA
66 GAGTTCAGATGCCTAATTACATCTCACA
* * * ** *
10871176 AACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGCGAACTCGGACTCAACTCAAT
1 AACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTTAGACTCAACTCAAC
* * **
10871241 GAGCTCAGATGCCTAGTTACATCTCATG
66 GAGTTCAGATGCCTAATTACATCTCACA
* * ** * *
10871269 AACTCAGACTTAACTCAACAAGTTCGAACGTTCGCATCCATAAGTGCAC-TAGGACTCAATTCAA
1 AACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTTA-GACTCAACTCAA
*
10871333 CAAGTTCAGATGC
65 CGAGTTCAGATGC
10871346 TCAAATATCT
Statistics
Matches: 142, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
93 142 1.00
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTTAGACTCAACTCAAC
GAGTTCAGATGCCTAATTACATCTCACA
Found at i:10874604 original size:34 final size:33
Alignment explanation
Indices: 10874523--10874614 Score: 96
Period size: 34 Copynumber: 2.8 Consensus size: 33
10874513 GCATACTGTG
* * *
10874523 CTGATTCTGTAATGGGCTTAGGCCCCACTGTTA
1 CTGATTCTGAAATGGGCTAAGGCCCCACTATTA
* * * *
10874556 CTG-TTACTAAAATGGACTCAGGCCCACACTATTT
1 CTGATT-CTGAAATGGGCTAAGGCCC-CACTATTA
10874590 CTGATTCTGAAATGGGCTAAGGCCC
1 CTGATTCTGAAATGGGCTAAGGCCC
10874615 TAACTAAAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
32 2 0.04
33 18 0.38
34 25 0.53
35 2 0.04
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (33 bp):
CTGATTCTGAAATGGGCTAAGGCCCCACTATTA
Found at i:10875421 original size:21 final size:21
Alignment explanation
Indices: 10875397--10875481 Score: 80
Period size: 21 Copynumber: 3.9 Consensus size: 21
10875387 CCCTAAAATG
*
10875397 TGAATTTGATTGAATTGAATA
1 TGAATTTGATTAAATTGAATA
* *
10875418 TGAATTTTATTAAATTGAGTTAAA
1 TGAATTTGATTAAATTGA---ATA
* *
10875442 TTTAATTTGATTGAATTGAATA
1 -TGAATTTGATTAAATTGAATA
*
10875464 TGAATTTCATTAAATTGA
1 TGAATTTGATTAAATTGA
10875482 GTTAAATTTA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
21 31 0.62
22 2 0.04
24 2 0.04
25 15 0.30
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (21 bp):
TGAATTTGATTAAATTGAATA
Found at i:10875466 original size:46 final size:46
Alignment explanation
Indices: 10875399--10875491 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
10875389 CTAAAATGTG
*
10875399 AATTTGATTGAATTGAATATGAATTTTATTAAATTGAGTTAAATTT
1 AATTTGATTGAATTGAATATGAATTTCATTAAATTGAGTTAAATTT
10875445 AATTTGATTGAATTGAATATGAATTTCATTAAATTGAGTTAAATTT
1 AATTTGATTGAATTGAATATGAATTTCATTAAATTGAGTTAAATTT
10875491 A
1 A
10875492 CTCGATAGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.46
Consensus pattern (46 bp):
AATTTGATTGAATTGAATATGAATTTCATTAAATTGAGTTAAATTT
Found at i:10876090 original size:23 final size:24
Alignment explanation
Indices: 10876064--10876110 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10876054 GAGTTACTTG
*
10876064 TTAAGCTC-AATGAGCTTCCTGTT
1 TTAAACTCTAATGAGCTTCCTGTT
* *
10876087 TTAAACTCTTATGAGTTTCCTGTT
1 TTAAACTCTAATGAGCTTCCTGTT
10876111 ATAGCCTGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (24 bp):
TTAAACTCTAATGAGCTTCCTGTT
Found at i:10880403 original size:18 final size:17
Alignment explanation
Indices: 10880367--10880409 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
10880357 TGAATATTGA
*
10880367 TTGTATGTGATAGGAAT
1 TTGTATGTGACAGGAAT
*
10880384 TTGTATGTGAGCATGAAT
1 TTGTATGTGA-CAGGAAT
*
10880402 TTGAATGT
1 TTGTATGT
10880410 AACTGGGCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.42
Consensus pattern (17 bp):
TTGTATGTGACAGGAAT
Found at i:10880445 original size:28 final size:29
Alignment explanation
Indices: 10880413--10880513 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 29
10880403 TGAATGTAAC
* *
10880413 TGGGCCTAA-GTGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATATGATT
* * *
10880441 TGGGCCTAATGGGCCATCTACATATTATT
1 TGGGCCTAATGGGCCATATAAATATGATT
*
10880470 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATATGATT
* *
10880498 TGGGCTTAATCGGCCA
1 TGGGCCTAATGGGCCA
10880514 GATACAGGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 24 0.39
29 37 0.61
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATATGATT
Found at i:10885935 original size:16 final size:16
Alignment explanation
Indices: 10885914--10885944 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10885904 TGTAACGGCC
10885914 CAAAAATCCCGAAATT
1 CAAAAATCCCGAAATT
10885930 CAAAAATCCCGAAAT
1 CAAAAATCCCGAAAT
10885945 CTTGAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.26, G:0.06, T:0.16
Consensus pattern (16 bp):
CAAAAATCCCGAAATT
Found at i:10887459 original size:29 final size:28
Alignment explanation
Indices: 10887375--10887475 Score: 82
Period size: 28 Copynumber: 3.6 Consensus size: 28
10887365 TGAATGTGAC
* *
10887375 TGGGCCTAACGGGCCAAATAAATGTGATT
1 TGGGCCTAATGGGCC-AATAAATATGATT
**
10887404 TGGGAAT-ATGGGCCAA-AAATAGGTGATT
1 TGGGCCTAATGGGCCAATAAATA--TGATT
*
10887432 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCA-ATAAATATGATT
* *
10887460 TGAGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
10887476 GATACAAGTA
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
26 4 0.07
27 2 0.03
28 31 0.53
29 16 0.28
30 1 0.02
31 4 0.07
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.26
Consensus pattern (28 bp):
TGGGCCTAATGGGCCAATAAATATGATT
Found at i:10908204 original size:29 final size:28
Alignment explanation
Indices: 10908149--10908263 Score: 122
Period size: 29 Copynumber: 4.0 Consensus size: 28
10908139 GTGAGCATGA
* * *
10908149 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
10908177 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
10908206 ATATACAGGTGATTTGGGCCTAATGGGCT
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * **
10908235 ATATGAATATGATTGGGTTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
10908263 A
1 A
10908264 GATACAAGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 25 0.34
29 48 0.66
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:10908582 original size:27 final size:25
Alignment explanation
Indices: 10908545--10908601 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
10908535 AAAACCATAA
* **
10908545 TTAAGGGAAAATTACTGAAATACCC
1 TTAAGGGAAAATGACCAAAATACCC
10908570 TTAAGGGTAAAAATGACCAAAATACCC
1 TTAAGGG--AAAATGACCAAAATACCC
*
10908597 CTAAG
1 TTAAG
10908602 TGTTGAATGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 7 0.27
27 19 0.73
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.21
Consensus pattern (25 bp):
TTAAGGGAAAATGACCAAAATACCC
Found at i:10921002 original size:30 final size:30
Alignment explanation
Indices: 10920968--10921029 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
10920958 ATTCCCGAGC
*
10920968 TTAGGGGCAAAAGTGTAAATATGCAAAAGT
1 TTAGGGGAAAAAGTGTAAATATGCAAAAGT
* * * *
10920998 TTAGGGGAAAAATTGTAATTTTTCAAAAGT
1 TTAGGGGAAAAAGTGTAAATATGCAAAAGT
10921028 TT
1 TT
10921030 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (30 bp):
TTAGGGGAAAAAGTGTAAATATGCAAAAGT
Found at i:10924373 original size:16 final size:18
Alignment explanation
Indices: 10924352--10924384 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
10924342 CATACTAGCT
10924352 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
10924368 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
10924385 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:10924968 original size:45 final size:45
Alignment explanation
Indices: 10924911--10925091 Score: 238
Period size: 45 Copynumber: 4.0 Consensus size: 45
10924901 ACCCGAGTTC
*
10924911 ATTTCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCAAATAGT
1 ATTTCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGT
* * * *
10924956 ATTTCACTGGCATTGTAGCCTGCTAGGATCAAAGGCCCGAATAGT
1 ATTTCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGT
* * * *
10925001 ATCTCACCAGCATCATAGCTTGA-TAGGCTCAAAGGCCCGAATAGT
1 ATTTCACCGGCATTATAGCCT-ACTAGGCTCAAAGGCCCGAATAGT
* * *
10925046 ATTTCATCGGCATTGTAGCCTGCTAGGCTCAAAGGCCCGAATAGT
1 ATTTCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGT
10925091 A
1 A
10925092 CTATACGAAA
Statistics
Matches: 114, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
45 114 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (45 bp):
ATTTCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGT
Found at i:10929558 original size:22 final size:20
Alignment explanation
Indices: 10929514--10929557 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
10929504 TTCTAGGCTA
10929514 TGTGGCAAGACACACGCCCG
1 TGTGGCAAGACACACGCCCG
*
10929534 TGTGGCAAGATACACGCCCG
1 TGTGGCAAGACACACGCCCG
10929554 TGTG
1 TGTG
10929558 TCTACCCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.30, G:0.32, T:0.16
Consensus pattern (20 bp):
TGTGGCAAGACACACGCCCG
Found at i:10940230 original size:15 final size:15
Alignment explanation
Indices: 10940206--10940236 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10940196 ACAGGTTGAA
10940206 GAATCAGGGGAGGTG
1 GAATCAGGGGAGGTG
*
10940221 GAATCGGGGGAGGTG
1 GAATCAGGGGAGGTG
10940236 G
1 G
10940237 GGGAGGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.58, T:0.13
Consensus pattern (15 bp):
GAATCAGGGGAGGTG
Found at i:10943904 original size:214 final size:214
Alignment explanation
Indices: 10943535--10943947 Score: 826
Period size: 214 Copynumber: 1.9 Consensus size: 214
10943525 AGTTCTTGTA
10943535 AACATTTCACACAACCATTTCATATAACCATTCGTCATCTGATAAGTATTACCTAAATATCAATT
1 AACATTTCACACAACCATTTCATATAACCATTCGTCATCTGATAAGTATTACCTAAATATCAATT
10943600 GTTCAATAGATGTCATAGCGTCTCCCATCCACGGTCTTATTTATCTTTGACATGATGCCATAGTG
66 GTTCAATAGATGTCATAGCGTCTCCCATCCACGGTCTTATTTATCTTTGACATGATGCCATAGTG
10943665 TCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCAGGTTGCCATGGTATCTTTCAACCATGGT
131 TCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCAGGTTGCCATGGTATCTTTCAACCATGGT
10943730 CTTATTCTTTTCATGTCAC
196 CTTATTCTTTTCATGTCAC
10943749 AACATTTCACACAACCATTTCATATAACCATTCGTCATCTGATAAGTATTACCTAAATATCAATT
1 AACATTTCACACAACCATTTCATATAACCATTCGTCATCTGATAAGTATTACCTAAATATCAATT
10943814 GTTCAATAGATGTCATAGCGTCTCCCATCCACGGTCTTATTTATCTTTGACATGATGCCATAGTG
66 GTTCAATAGATGTCATAGCGTCTCCCATCCACGGTCTTATTTATCTTTGACATGATGCCATAGTG
10943879 TCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCAGGTTGCCATGGTATCTTTCAACCATGGT
131 TCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCAGGTTGCCATGGTATCTTTCAACCATGGT
10943944 CTTA
196 CTTA
10943948 CACATTTCAT
Statistics
Matches: 199, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 199 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.38
Consensus pattern (214 bp):
AACATTTCACACAACCATTTCATATAACCATTCGTCATCTGATAAGTATTACCTAAATATCAATT
GTTCAATAGATGTCATAGCGTCTCCCATCCACGGTCTTATTTATCTTTGACATGATGCCATAGTG
TCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCAGGTTGCCATGGTATCTTTCAACCATGGT
CTTATTCTTTTCATGTCAC
Found at i:10949180 original size:15 final size:15
Alignment explanation
Indices: 10949162--10949199 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10949152 CATAACAGAA
*
10949162 AAATCC-ACAATATAG
1 AAATCCAAC-ATAAAG
10949177 AAATCCAACATAAAG
1 AAATCCAACATAAAG
10949192 AAATCCAA
1 AAATCCAA
10949200 AAGAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.58, C:0.21, G:0.05, T:0.16
Consensus pattern (15 bp):
AAATCCAACATAAAG
Found at i:10949779 original size:22 final size:22
Alignment explanation
Indices: 10949752--10949803 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
10949742 TAATCTTTAA
10949752 ATCATCTTGATATCTTTCTAGT
1 ATCATCTTGATATCTTTCTAGT
*
10949774 ATCATCCTGATATCTTTCTAGT
1 ATCATCTTGATATCTTTCTAGT
10949796 -TCTATCTT
1 ATC-ATCTT
10949804 TACTTATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 2 0.07
22 25 0.93
ACGTcount: A:0.21, C:0.21, G:0.08, T:0.50
Consensus pattern (22 bp):
ATCATCTTGATATCTTTCTAGT
Found at i:10958143 original size:30 final size:30
Alignment explanation
Indices: 10958107--10958168 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
10958097 ATCAAAGCAG
10958107 TAACATCAGTATCAAGTAGAAAAAATGTAC
1 TAACATCAGTATCAAGTAGAAAAAATGTAC
*
10958137 TAACATCAGTATCAAGTAGAAAGAATGTAC
1 TAACATCAGTATCAAGTAGAAAAAATGTAC
10958167 TA
1 TA
10958169 GTAATGACGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.24
Consensus pattern (30 bp):
TAACATCAGTATCAAGTAGAAAAAATGTAC
Found at i:10963574 original size:40 final size:39
Alignment explanation
Indices: 10963476--10963645 Score: 173
Period size: 40 Copynumber: 4.3 Consensus size: 39
10963466 TCCTCGTTCA
* * *
10963476 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
**
10963515 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
* *
10963554 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
* * * *
10963594 AAAGGCCTT-TGGAGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGA-CATAACCCGG-ATTTAGTAACTCGCAC
*
10963634 AAAAGCCTTCGG
1 -AATGCCTTCGG
10963646 ATCTTAGTCC
Statistics
Matches: 113, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
39 37 0.33
40 71 0.63
41 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCAC
Found at i:10963707 original size:41 final size:41
Alignment explanation
Indices: 10963630--10963707 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
10963620 TTTGTATCTC
* * *
10963630 GCACAAAAGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
10963671 GCAC-AAAGCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAAGCCTTC-GGATCTTAGCCCGGACA-CATTCA
10963708 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:10974259 original size:20 final size:18
Alignment explanation
Indices: 10974234--10974281 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
10974224 TAGGTAGTTC
*
10974234 TGGGCCATGTTGGGCCTAGA
1 TGGGCCATG-TGGGCCCA-A
*
10974254 TGGGCCGTGTGGGCCCAA
1 TGGGCCATGTGGGCCCAA
10974272 TGGGCTCATG
1 TGGGC-CATG
10974282 GGCCCCACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.25
19 10 0.42
20 8 0.33
ACGTcount: A:0.12, C:0.23, G:0.42, T:0.23
Consensus pattern (18 bp):
TGGGCCATGTGGGCCCAA
Found at i:10975167 original size:23 final size:23
Alignment explanation
Indices: 10975141--10975199 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
10975131 GTATATATAC
10975141 TAGCAGCTTTGCTGCGTTACTAT
1 TAGCAGCTTTGCTGCGTTACTAT
10975164 TAGCAGCTTTGCTGCGTTACTAT
1 TAGCAGCTTTGCTGCGTTACTAT
* *
10975187 TAGTAGCTATGCT
1 TAGCAGCTTTGCT
10975200 ACGATATTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (23 bp):
TAGCAGCTTTGCTGCGTTACTAT
Found at i:10986590 original size:55 final size:55
Alignment explanation
Indices: 10986451--10986592 Score: 149
Period size: 55 Copynumber: 2.6 Consensus size: 55
10986441 AAGGTCCACG
* * ** * *
10986451 CCCGTGTTATTTTGGCAGGTTCACCCACGGCTTCTTGGCACGGGCGTGTCGCACG
1 CCCGTGTTATTTTGGCAAGTTCGCCCACGGCTTCAAGGCACGGGCATGTCGCACA
* * * ** * * *
10986506 CCAGTGTTAATTTGACAAGTTCGGTCACGGTTTCAAGGCACGGGCATGTTGTACA
1 CCCGTGTTATTTTGGCAAGTTCGCCCACGGCTTCAAGGCACGGGCATGTCGCACA
*
10986561 CCCGTGTTGTTTTGGCAAGTTCGCCCACGGCT
1 CCCGTGTTATTTTGGCAAGTTCGCCCACGGCT
10986593 ATGTCACACA
Statistics
Matches: 66, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.15, C:0.27, G:0.29, T:0.29
Consensus pattern (55 bp):
CCCGTGTTATTTTGGCAAGTTCGCCCACGGCTTCAAGGCACGGGCATGTCGCACA
Found at i:10986977 original size:64 final size:64
Alignment explanation
Indices: 10986876--10986999 Score: 239
Period size: 64 Copynumber: 1.9 Consensus size: 64
10986866 CTCATTCCTA
10986876 CTATCATTCTCATCAAAATAAGGTTTTAGACGGGTGTTGTTTACCTTAAAAGTGTCGAACCCTG
1 CTATCATTCTCATCAAAATAAGGTTTTAGACGGGTGTTGTTTACCTTAAAAGTGTCGAACCCTG
*
10986940 CTATCATTTTCATCAAAATAAGGTTTTAGACGGGTGTTGTTTACCTTAAAAGTGTCGAAC
1 CTATCATTCTCATCAAAATAAGGTTTTAGACGGGTGTTGTTTACCTTAAAAGTGTCGAAC
10987000 TTGGGATGGC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (64 bp):
CTATCATTCTCATCAAAATAAGGTTTTAGACGGGTGTTGTTTACCTTAAAAGTGTCGAACCCTG
Found at i:10989018 original size:40 final size:40
Alignment explanation
Indices: 10988475--10989004 Score: 927
Period size: 40 Copynumber: 13.3 Consensus size: 40
10988465 TCCTCGTTCA
* * * * *
10988475 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
10988514 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
10988554 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10988594 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10988634 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10988674 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10988714 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10988754 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10988794 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10988834 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
10988874 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
10988914 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
10988954 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
10988994 AAGGCCTTCGG
1 AATGCCTTCGG
10989005 ATCTTAGTCC
Statistics
Matches: 475, Mismatches: 15, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
39 34 0.07
40 441 0.93
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:10994696 original size:42 final size:42
Alignment explanation
Indices: 10994568--10994723 Score: 127
Period size: 42 Copynumber: 3.6 Consensus size: 42
10994558 TAAGATGCCA
*
10994568 ATGCCATATCCTAGATATGGTCTTACATGG-GATCACATATATCG
1 ATGCCATATCCTAGACATGGTCTTACA-GGAGATCA-A-ATATCG
* * * * * ***
10994612 ATGTCGATAGCCCAG-CTATGGTCTTACACGATATCTCGTATCG
1 ATG-CCATATCCTAGAC-ATGGTCTTACAGGAGATCAAATATCG
*
10994655 ATGCCATGTCCTAGACATGGTCTTACAGGAGATCAAATATCG
1 ATGCCATATCCTAGACATGGTCTTACAGGAGATCAAATATCG
* * * *
10994697 ATGTCATATCCAAGATATGGTTTTACA
1 ATGCCATATCCTAGACATGGTCTTACA
10994724 CGAAATCACA
Statistics
Matches: 85, Mismatches: 23, Indels: 10
0.72 0.19 0.08
Matches are distributed among these distances:
42 50 0.59
43 9 0.11
44 4 0.05
45 22 0.26
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCTAGACATGGTCTTACAGGAGATCAAATATCG
Found at i:10996496 original size:61 final size:60
Alignment explanation
Indices: 10996401--10996517 Score: 225
Period size: 61 Copynumber: 1.9 Consensus size: 60
10996391 TATTTACAAA
10996401 CCATAATCACTAAACCCCAAAACTTACTCATCCATGCTCAAACCATGTCCCTAAANAAAAG
1 CCATAATCACTAAACCCCAAAACTTACTCATCCATGCTCAAACCATGTCCCTAAA-AAAAG
10996462 CCATAATCACTAAACCCCAAAACTTACTCATCCATGCTCAAACCATGTCCCTAAAA
1 CCATAATCACTAAACCCCAAAACTTACTCATCCATGCTCAAACCATGTCCCTAAAA
10996518 GCCTTTGAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
60 1 0.02
61 55 0.98
ACGTcount: A:0.40, C:0.34, G:0.04, T:0.21
Consensus pattern (60 bp):
CCATAATCACTAAACCCCAAAACTTACTCATCCATGCTCAAACCATGTCCCTAAAAAAAG
Found at i:10998695 original size:24 final size:24
Alignment explanation
Indices: 10998668--10998716 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
10998658 ATATATTTTT
*
10998668 AGTATGGATCATGGATATTATATA
1 AGTATGAATCATGGATATTATATA
* *
10998692 AGTATGAATTATGTATATTATATA
1 AGTATGAATCATGGATATTATATA
10998716 A
1 A
10998717 AATAAAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (24 bp):
AGTATGAATCATGGATATTATATA
Found at i:10999106 original size:55 final size:56
Alignment explanation
Indices: 10999018--10999128 Score: 181
Period size: 55 Copynumber: 2.0 Consensus size: 56
10999008 AGGGGTAGGT
10999018 GATAAAACTCTGAACTGGGTTCACATGTTCTTTGCCTTTT-TGGTTGCTCTTCCTGC
1 GATAAAACTCTGAACTGGGTTCACATGTTCTTTG-CTTTTCTGGTTGCTCTTCCTGC
* *
10999074 GATAAAAGTCTGAACT-GGTTCACATGTTCTTTGCTTTTCTTGTTGCTCTTCCTGC
1 GATAAAACTCTGAACTGGGTTCACATGTTCTTTGCTTTTCTGGTTGCTCTTCCTGC
10999129 TGATTGTTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
54 5 0.10
55 32 0.62
56 15 0.29
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (56 bp):
GATAAAACTCTGAACTGGGTTCACATGTTCTTTGCTTTTCTGGTTGCTCTTCCTGC
Found at i:11018255 original size:26 final size:26
Alignment explanation
Indices: 11018223--11018274 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11018213 CTTTAATTAC
11018223 TAATTTACTAAACTAACCTTATTAAT
1 TAATTTACTAAACTAACCTTATTAAT
11018249 TAATTTACTAAACTAACCTTATTAAT
1 TAATTTACTAAACTAACCTTATTAAT
11018275 ATAACTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (26 bp):
TAATTTACTAAACTAACCTTATTAAT
Found at i:11020209 original size:31 final size:31
Alignment explanation
Indices: 11020174--11020237 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
11020164 CCTTTTCATA
*
11020174 TTTCATATTTCATAACACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCAAAGCCT
** *
11020205 TTTCATATTTCATATTACTGGGCCAAAGCCT
1 TTTCATATTTCATAACACTAGGCCAAAGCCT
11020236 TT
1 TT
11020238 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCAAAGCCT
Found at i:11020481 original size:24 final size:24
Alignment explanation
Indices: 11020445--11020572 Score: 215
Period size: 24 Copynumber: 5.4 Consensus size: 24
11020435 TTGGAGGCCT
*
11020445 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
11020470 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
11020494 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
11020517 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
11020541 AGCCC-TTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
11020564 AGCCCTTTT
1 AGCCCTTTT
11020573 TCACTTCCTC
Statistics
Matches: 99, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
23 45 0.45
24 50 0.51
25 4 0.04
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Done.