Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 304 of 378
Found at i:92094539 original size:25 final size:25
Alignment explanation
Indices: 92094460--92094539 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
92094450 ATTCGGCCTT
*
92094460 ATCACATATATGCATGCTCACATTC
1 ATCACATATATGCATGTTCACATTC
* * *
92094485 ATCACAT-T-GGCCA--TTCGGC-CTC
1 ATCACATATATG-CATGTTC-ACATTC
92094507 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
92094532 ATCACATA
1 ATCACATA
92094540 GGCCATTCGG
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 11 0.27
23 5 0.12
24 5 0.12
25 20 0.49
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACATATATGCATGTTCACATTC
Found at i:92094699 original size:25 final size:25
Alignment explanation
Indices: 92094671--92094746 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 25
92094661 ATGTTCATAT
92094671 TCACCACATTGGCCATTCGGCCTTA
1 TCACCACATTGGCCATTCGGCCTTA
*
92094696 TCA-CACATAT-G-CA-T--GCTCATA
1 TCACCACAT-TGGCCATTCGGC-CTTA
*
92094717 TTCATCACATTGGCCATTCGGCCTTA
1 -TCACCACATTGGCCATTCGGCCTTA
92094743 TCAC
1 TCAC
92094747 ATATATGCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 18
0.65 0.05 0.30
Matches are distributed among these distances:
20 2 0.05
21 3 0.08
22 5 0.13
23 8 0.21
24 8 0.21
25 8 0.21
26 3 0.08
27 2 0.05
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.30
Consensus pattern (25 bp):
TCACCACATTGGCCATTCGGCCTTA
Found at i:92094747 original size:22 final size:22
Alignment explanation
Indices: 92094720--92094795 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
92094710 GCTCATATTC
92094720 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
92094742 ATCACATATATG-CATGCTC-ACATT
1 ATCACAT-T-GGCCAT--TCGGCCTT
92094766 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
92094789 ATCACAT
1 ATCACAT
92094796 ATATACACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:92098123 original size:3 final size:3
Alignment explanation
Indices: 92098115--92098143 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
92098105 TACAACATCA
92098115 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
92098144 AAGGATGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:92100480 original size:44 final size:45
Alignment explanation
Indices: 92100322--92100969 Score: 239
Period size: 44 Copynumber: 14.4 Consensus size: 45
92100312 ATGGCAGATA
*** * *
92100322 TTATCTCCCTGAAGTTGTAGTGGAGCAGA-TGAAGCCA-CTAATC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAATTACCAAACC
* * * *
92100365 TTATCTTCCTGAACTTGTAGTGGAGCAGATTG-AATATAGCAAATC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAAT-TACCAAACC
* * * * *
92100410 TTATCTCTCC-GAAATTGTGGTAGAGCAGATTAAAATTA-TAAACC
1 TTATCTC-CCTGAAGTTGTAGTGGAGCAGATTGAAATTACCAAACC
* * *
92100454 TTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGTTA-CAAATCC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAATTACCAAA-CC
* * *
92100499 -TATAC-CCCTGAAGTTGTAGTGG-G-ATGGGTTGAAATCATTATGGCAAATC
1 TTAT-CTCCCTGAAGTTGTAGTGGAGCA--GATTG-AA--ATTA--CCAAACC
* * * *
92100548 TTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGA-TAGCAAACC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAA-ATTACCAAACC
* * * * *
92100593 TTATCTCTCTGAAATTGTGGTAGAGCAAATT-AAAGTTA-CAAACC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAA-TTACCAAACC
* * * * * *
92100637 TTATCTCCTTGAAGTTGCAATGGAGTAGGTTGAAGTTA-CAAATCC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAATTACCAAA-CC
* * * * *
92100682 -TATAC-CCCTGAAGTTATAATGG-G-ATGGGTTGAAATCATTATGGCAAATC
1 TTAT-CTCCCTGAAGTTGTAGTGGAGCA--GATTG-AA--ATTA--CCAAACC
* * * *
92100731 TTATCTCCTTGAAGTTGCAGTGGAGCAGATTG-AA--GCCATTAATC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAATTACCA--AACC
* * * * * *
92100775 TTATCTTCTTGAAGTTGCAGTGAAGCAGATTGAAGA-TAGCAAATC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAA-ATTACCAAACC
* * * * * **
92100820 TTATCTCTCTGAAGTTGCAGTAGAGCATA-TGAAAATTA-TAAGTC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTG-AAATTACCAAACC
* * * * * * *
92100864 TTATCTCTCTGAAGTCGCAGTGGAGCAGATTGAAGTTA-TAGATC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAATTACCAAACC
* * * * * * *
92100908 TTATCTCTCTAAAGTTATAGTGGAGCATATTGAAATTAGCGAATC
1 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAATTACCAAACC
*
92100953 TTATCTCTCTGAAGTTG
1 TTATCTCCCTGAAGTTG
92100970 CAATAGAGTA
Statistics
Matches: 470, Mismatches: 89, Indels: 90
0.72 0.14 0.14
Matches are distributed among these distances:
42 4 0.01
43 33 0.07
44 228 0.49
45 126 0.27
46 7 0.01
47 10 0.02
48 2 0.00
49 6 0.01
50 50 0.11
51 2 0.00
52 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (45 bp):
TTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAATTACCAAACC
Found at i:92100638 original size:183 final size:183
Alignment explanation
Indices: 92100361--92100765 Score: 639
Period size: 183 Copynumber: 2.2 Consensus size: 183
92100351 TGAAGCCACT
* * * * *
92100361 AATCTTATCTTCCTGAACTTGTAGTGGAGCAGATTGAATATAGCAAATCTTATCTCTCCGAAATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAACCTTATCTCTCCGAAATT
* * * *
92100426 GTGGTAGAGCAGATTAAAATTATAAACCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGTT
66 GTGGTAGAGCAAATTAAAATTACAAACCTTATCTCCCTAAAGTTGCAATGGAGCAGGTTGAAGTT
* *
92100491 ACAAATCCTATACCCCTGAAGTTGTAGTGGGATGGGTTGAAATCATTATGGCA
131 ACAAATCCTATACCCCTGAAGTTATAATGGGATGGGTTGAAATCATTATGGCA
* * *
92100544 AATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAGCAAACCTTATCTCTCTGAAATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAACCTTATCTCTCCGAAATT
* * * *
92100609 GTGGTAGAGCAAATTAAAGTTACAAACCTTATCTCCTTGAAGTTGCAATGGAGTAGGTTGAAGTT
66 GTGGTAGAGCAAATTAAAATTACAAACCTTATCTCCCTAAAGTTGCAATGGAGCAGGTTGAAGTT
92100674 ACAAATCCTATACCCCTGAAGTTATAATGGGATGGGTTGAAATCATTATGGCA
131 ACAAATCCTATACCCCTGAAGTTATAATGGGATGGGTTGAAATCATTATGGCA
*
92100727 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
92100766 CCATTAATCT
Statistics
Matches: 201, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
183 201 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (183 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAACCTTATCTCTCCGAAATT
GTGGTAGAGCAAATTAAAATTACAAACCTTATCTCCCTAAAGTTGCAATGGAGCAGGTTGAAGTT
ACAAATCCTATACCCCTGAAGTTATAATGGGATGGGTTGAAATCATTATGGCA
Found at i:92100654 original size:89 final size:89
Alignment explanation
Indices: 92100364--92100671 Score: 266
Period size: 89 Copynumber: 3.4 Consensus size: 89
92100354 AGCCACTAAT
* * * * * * *
92100364 CTTATCTTCCTGAACTTGTAGTGGAGCAGATTGAATATAGCAAATCTTATCTCTCCGAAATTGTG
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATAGCAAACCTTATCTCTCTGAAATTGTG
*
92100429 GTAGAGCAGATTAAAATTATAAAC
66 GTAGAGCAGATTAAAATTACAAAC
* * * * * * *
92100453 CTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGTTA-CAAATCC-TATAC-CCCTGAAGTTG
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATAGCAAA-CCTTAT-CTCTCTGAAATTG
* * * *
92100515 TAGT-G-GGATGGGTTGAAATCATTATGGCAAAT
64 TGGTAGAGCA--GATT-AAA--ATTA---CAAAC
*
92100547 CTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAGCAAACCTTATCTCTCTGAAATTGTG
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATAGCAAACCTTATCTCTCTGAAATTGTG
* *
92100612 GTAGAGCAAATTAAAGTTACAAAC
66 GTAGAGCAGATTAAAATTACAAAC
* * *
92100636 CTTATCTCCTTGAAGTTGCAATGGAGTAGGTTGAAG
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAG
92100672 TTACAAATCC
Statistics
Matches: 173, Mismatches: 31, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
86 2 0.01
87 1 0.01
88 21 0.12
89 76 0.44
91 4 0.02
92 3 0.02
94 42 0.24
95 21 0.12
96 1 0.01
97 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (89 bp):
CTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGATAGCAAACCTTATCTCTCTGAAATTGTG
GTAGAGCAGATTAAAATTACAAAC
Found at i:92100825 original size:183 final size:183
Alignment explanation
Indices: 92100361--92100838 Score: 570
Period size: 183 Copynumber: 2.6 Consensus size: 183
92100351 TGAAGCCACT
* * * * * * * *
92100361 AATCTTATCTTCCTGAACTTGTAGTGGAGCAGATTGAATATAGCAAATCTTATCTCTCCGAAATT
1 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACAGCAAACCTTATCTCTCTGAAATT
** * * * * * *
92100426 GTGGTAGAGCAGATTAAA-ATTATAAACCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGAAGT
66 GCAGTAGAGCAAATTAAAGA-TACAAACCTTATCTCCTTGAAGTTGCAATGGAGCAGGTTGAAGT
* *
92100490 TACAAATCCTATACCCCTGAAGTTGTAGTGGGATGGGTTGAAATCATTATGGCA
130 TACAAATCCTATACCCCTGAAGTTATAATGGGATGGGTTGAAATCATTATGGCA
* *
92100544 AATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGATAGCAAACCTTATCTCTCTGAAATT
1 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACAGCAAACCTTATCTCTCTGAAATT
** * *
92100609 GTGGTAGAGCAAATTAAAGTTACAAACCTTATCTCCTTGAAGTTGCAATGGAGTAGGTTGAAGTT
66 GCAGTAGAGCAAATTAAAGATACAAACCTTATCTCCTTGAAGTTGCAATGGAGCAGGTTGAAGTT
92100674 ACAAATCCTATACCCCTGAAGTTATAATGGGATGGGTTGAAATCATTATGGCA
131 ACAAATCCTATACCCCTGAAGTTATAATGGGATGGGTTGAAATCATTATGGCA
* * * ** * *
92100727 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCA-TTAATCTTATCT-TCTTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACAGCAAACCTTATCTCTC-TGAAAT
* * *
92100790 TGCAGT-GAAGCAGATTGAAGATAGCAAATCTTATCT-CTCTGAAGTTGCA
65 TGCAGTAG-AGCAAATTAAAGATA-CAAACCTTATCTCCT-TGAAGTTGCA
92100839 GTAGAGCATA
Statistics
Matches: 257, Mismatches: 33, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
181 3 0.01
182 32 0.12
183 222 0.86
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (183 bp):
AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACAGCAAACCTTATCTCTCTGAAATT
GCAGTAGAGCAAATTAAAGATACAAACCTTATCTCCTTGAAGTTGCAATGGAGCAGGTTGAAGTT
ACAAATCCTATACCCCTGAAGTTATAATGGGATGGGTTGAAATCATTATGGCA
Found at i:92100846 original size:89 final size:90
Alignment explanation
Indices: 92100724--92100967 Score: 263
Period size: 89 Copynumber: 2.7 Consensus size: 90
92100714 AATCATTATG
* *
92100724 GCAAATCTTATCTC-CTTGAAGTTGCAGTGGAGCAGATTGAAGCCA-T-TAA-TCTTATCT-TCT
1 GCAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCATATTGAA--AATTATAAGTCTTATCTCTC-
*
92100784 TGAAGTTGCAGTGAAGCAGATTGAAGATA
62 TGAAGTCGCAGTGAAGCAGATTGAAGATA
*
92100813 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCATA-TGAAAATTATAAGTCTTATCTCTCTGAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCATATTGAAAATTATAAGTCTTATCTCTCTGAA
* *
92100877 GTCGCAGTGGAGCAGATTGAAGTTA
66 GTCGCAGTGAAGCAGATTGAAGATA
* * * ** *
92100902 -TAGATCTTATCTCTCTAAAGTTATAGTGGAGCATATTG-AAATTAGCGAA-TCTTATCTCTCTG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCATATTGAAAATTA--TAAGTCTTATCTCTCTG
92100964 AAGT
64 AAGT
92100968 TGCAATAGAG
Statistics
Matches: 134, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
86 1 0.01
87 1 0.01
88 42 0.31
89 85 0.63
90 5 0.04
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (90 bp):
GCAAATCTTATCTCTCTGAAGTTGCAGTGGAGCATATTGAAAATTATAAGTCTTATCTCTCTGAA
GTCGCAGTGAAGCAGATTGAAGATA
Found at i:92100895 original size:133 final size:133
Alignment explanation
Indices: 92100729--92100977 Score: 344
Period size: 133 Copynumber: 1.9 Consensus size: 133
92100719 TTATGGCAAA
* * *
92100729 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCATTA-ATCTTATCT-TCTTGAAGTTG
1 TCTTATCTCCTTGAAGTCGCAGTGGAGCAGATTGAAGCCA-TAGATCTTATCTCTC-TAAAGTTA
*
92100792 CAGTGAAGCAGATTGAAGA-TAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCATATGAAAAT
64 CAGTGAAGCAGATTGAA-ATTAGCAAATCTTATCTCTCTGAAGTTGCAATAGAGCATATGAAAAT
92100856 TATAAG
128 TATAAG
** *
92100862 TCTTATCT-CTCTGAAGTCGCAGTGGAGCAGATTGAAGTTATAGATCTTATCTCTCTAAAGTTAT
1 TCTTATCTCCT-TGAAGTCGCAGTGGAGCAGATTGAAGCCATAGATCTTATCTCTCTAAAGTTAC
* * *
92100926 AGTGGAGCATATTGAAATTAGCGAATCTTATCTCTCTGAAGTTGCAATAGAG
65 AGTGAAGCAGATTGAAATTAGCAAATCTTATCTCTCTGAAGTTGCAATAGAG
92100978 TAAATTAAAG
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
132 5 0.05
133 95 0.93
134 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (133 bp):
TCTTATCTCCTTGAAGTCGCAGTGGAGCAGATTGAAGCCATAGATCTTATCTCTCTAAAGTTACA
GTGAAGCAGATTGAAATTAGCAAATCTTATCTCTCTGAAGTTGCAATAGAGCATATGAAAATTAT
AAG
Found at i:92101001 original size:133 final size:133
Alignment explanation
Indices: 92100729--92101030 Score: 328
Period size: 133 Copynumber: 2.3 Consensus size: 133
92100719 TTATGGCAAA
* *
92100729 TCTTATCTC-CTTGAAGTTGCAGTGGAGCAGATTGAAGCCATTAATCTTATCTTCTTGAAGTTGC
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGAAGCCATTAATCTTATCTTCTTAAAGTTAC
* * *
92100793 AGTGAAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCATATGAAAATTA
65 AGTGAAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAATAGAGCAAATGAAAACTA
*
92100858 TAAG
130 GAAG
* **
92100862 TCTTATCTCTCTGAAGTCGCAGTGGAGCAGATTGAAGTTA-TAGATCTTATC-TCTCTAAAGTTA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCCATTA-ATCTTATCTTCT-TAAAGTTA
* * * * * * *
92100925 TAGTGGAGCATATTGAA-ATTAGCGAATCTTATCTCTCTGAAGTTGCAATAGAGTAAATTAAAGC
64 CAGTGAAGCAGATTGAAGA-TAGCAAATCTTATCTCTCTGAAGTTGCAATAGAGCAAATGAAAAC
92100989 TACGAA-
128 TA-GAAG
* * * *
92100995 TGTTATCT-TCCTCAAGTTGCAGCGGAGTAGATTGAA
1 TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTGAA
92101031 ACCACAATTC
Statistics
Matches: 142, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
132 7 0.05
133 132 0.93
134 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (133 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGCCATTAATCTTATCTTCTTAAAGTTACA
GTGAAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAATAGAGCAAATGAAAACTAG
AAG
Found at i:92102785 original size:17 final size:17
Alignment explanation
Indices: 92102763--92102795 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
92102753 CATCTCGCAT
*
92102763 TTTATTTCTTTTATTAC
1 TTTATTTATTTTATTAC
92102780 TTTATTTATTTTATTA
1 TTTATTTATTTTATTA
92102796 TTAATATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTATTTTATTAC
Found at i:92106228 original size:39 final size:40
Alignment explanation
Indices: 92106108--92106328 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
92106098 TCGAATGATG
* * *
92106108 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
92106148 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
92106187 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
92106226 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
92106266 T-CGGGTTAAGTCCCGAAGGCA-TT-TGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
92106304 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
92106329 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 9, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
37 12 0.07
38 46 0.28
39 45 0.28
40 52 0.32
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:92106243 original size:78 final size:80
Alignment explanation
Indices: 92106108--92106328 Score: 287
Period size: 78 Copynumber: 2.8 Consensus size: 80
92106098 TCGAATGATG
* * * *
92106108 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
92106171 TTGTGCGAGTTACT-AA
64 TTGTGCGAGTTACTAAA
*
92106187 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
*
92106251 ATGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
92106266 T-CGGGTTAAGTCCCGAAGGCA-TT-TGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
92106327 TG
65 TG
92106329 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
77 35 0.28
78 61 0.48
79 31 0.24
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:92114636 original size:40 final size:41
Alignment explanation
Indices: 92114591--92114757 Score: 182
Period size: 40 Copynumber: 4.2 Consensus size: 41
92114581 CGGAATATAA
*
92114591 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
92114631 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
92114671 CCGGATATAA-CCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
92114711 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
92114750 CCGGATAT
1 CCGGATAT
92114758 CATTCAATTT
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
39 16 0.15
40 93 0.85
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:92115606 original size:17 final size:19
Alignment explanation
Indices: 92115583--92115628 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
92115573 AAGAAGCATG
92115583 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
92115601 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
92115619 AATCATGCTC
1 AATCATGCTC
92115629 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:92117629 original size:40 final size:40
Alignment explanation
Indices: 92117449--92117664 Score: 228
Period size: 40 Copynumber: 5.4 Consensus size: 40
92117439 ATGATGTCCG
* * * *
92117449 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCC-
1 GGCTAAGTCCCGAAGGCATTTATGC-GAGTTACTAAATCCA
* *
92117488 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AATCCCG
1 GG-CTAAG-TCCCGAAGGCATTTATGCGAGTTACTAAAT-CCA
*
92117529 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCA
1 GGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAAATCCA
*
92117568 GGTTAAGTCCCGAAGGCATTTATGCGAGTTACTAAATCCA
1 GGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAAATCCA
* * * *
92117608 GGTTAAGTCCCGAAGGCATTTACGAGAGTTACTATAA-CCG
1 GGCTAAGTCCCGAAGGCATTTATGCGAGTTACTA-AATCCA
*
92117648 GGCTATGTCCCGAAGGC
1 GGCTAAGTCCCGAAGGC
92117665 GTTTGAACGA
Statistics
Matches: 157, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 36 0.23
40 109 0.69
41 12 0.08
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTATGCGAGTTACTAAATCCA
Found at i:92117676 original size:80 final size:79
Alignment explanation
Indices: 92117498--92117702 Score: 204
Period size: 80 Copynumber: 2.6 Consensus size: 79
92117488 GGACTAAGAT
* * ** *
92117498 CCGAAGGCATTTGTGCGAGTTACT-AATCCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTTGAGCGAGTTACTAAAT-CC-GGTTAAGTCCCGAAGGCATTTACGAGAGTTACT
*
92117561 AAATCCAGGTTAAGTC
64 AAATCCAGGCTAAGTC
92117577 CCGAAGGCATTT-ATGCGAGTTACTAAATCCAGGTTAAGTCCCGAAGGCATTTACGAGAGTTACT
1 CCGAAGGCATTTGA-GCGAGTTACTAAATCC-GGTTAAGTCCCGAAGGCATTTACGAGAGTTACT
* *
92117641 ATAA-CCGGGCTATGTC
64 A-AATCCAGGCTAAGTC
* * * * *
92117657 CCGAAGGCGTTTGAACGAG-TAGCTATATCCGGTTAAATGCCGAAGG
1 CCGAAGGCATTTGAGCGAGTTA-CTAAATCCGGTTAAGTCCCGAAGG
92117703 TACGTGATTT
Statistics
Matches: 106, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
79 46 0.43
80 57 0.54
81 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAGCGAGTTACTAAATCCGGTTAAGTCCCGAAGGCATTTACGAGAGTTACTAA
ATCCAGGCTAAGTC
Found at i:92130833 original size:41 final size:38
Alignment explanation
Indices: 92130782--92130946 Score: 114
Period size: 40 Copynumber: 4.1 Consensus size: 38
92130772 GATTATGCAG
*
92130782 TAGCGGCGTTTGCACAAAAACGCCGCTAAATAACTGAGTAA
1 TAGCGGCGTTTGCAC-AAAACGCCGCT-AA-AACTCAGTAA
* *
92130823 TAGCGGCGTTTTTGCTCCAAACGCCGCTAAAACTCAGTAA
1 TAGCGGCG--TTTGCACAAAACGCCGCTAAAACTCAGTAA
** * * * *
92130863 TAGCGGCGTTTTTGGTCCAAACACCGCTAAAAACTTAGAAA
1 TAGCGGCG--TTTGCACAAAACGCCGCT-AAAACTCAGTAA
** * * *
92130904 TAGCGGCGTTTTTAGTCCAAACGCCGCTAAAACTTAGAAA
1 TAGCGGCGTTTGCA--CAAAACGCCGCTAAAACTCAGTAA
92130944 TAG
1 TAG
92130947 TTGATATATA
Statistics
Matches: 108, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
39 3 0.03
40 50 0.46
41 39 0.36
42 10 0.09
43 6 0.06
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.24
Consensus pattern (38 bp):
TAGCGGCGTTTGCACAAAACGCCGCTAAAACTCAGTAA
Found at i:92130870 original size:40 final size:40
Alignment explanation
Indices: 92130799--92130946 Score: 201
Period size: 40 Copynumber: 3.6 Consensus size: 40
92130789 GTTTGCACAA
* *
92130799 AAACGCCGCTAAATAACTGAGTAATAGCGGCGTTTTTGCTCC
1 AAACGCCGCTAAA-AACTTAGAAATAGCGGCGTTTTTG-TCC
* *
92130841 AAACGCCGCT-AAAACTCAGTAATAGCGGCGTTTTTGGTCC
1 AAACGCCGCTAAAAACTTAGAAATAGCGGCGTTTTT-GTCC
*
92130881 AAACACCGCTAAAAACTTAGAAATAGCGGCGTTTTTAGTCC
1 AAACGCCGCTAAAAACTTAGAAATAGCGGCGTTTTT-GTCC
92130922 AAACGCCGCT-AAAACTTAGAAATAG
1 AAACGCCGCTAAAAACTTAGAAATAG
92130947 TTGATATATA
Statistics
Matches: 98, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
40 49 0.50
41 39 0.40
42 10 0.10
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (40 bp):
AAACGCCGCTAAAAACTTAGAAATAGCGGCGTTTTTGTCC
Found at i:92131098 original size:18 final size:17
Alignment explanation
Indices: 92131066--92131100 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
92131056 ATTTTCTTAT
*
92131066 TTTTGTTTTGAATTTGA
1 TTTTATTTTGAATTTGA
92131083 TTTTATTTTGATATTTGA
1 TTTTATTTTGA-ATTTGA
92131101 AACTGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (17 bp):
TTTTATTTTGAATTTGA
Found at i:92131711 original size:20 final size:18
Alignment explanation
Indices: 92131667--92131705 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
92131657 TAATTAGTAC
92131667 ATGTTTAGAGTATTATAT
1 ATGTTTAGAGTATTATAT
*
92131685 ATGTTTATAGTATTATAT
1 ATGTTTAGAGTATTATAT
92131703 ATG
1 ATG
92131706 GTTTTAGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.51
Consensus pattern (18 bp):
ATGTTTAGAGTATTATAT
Found at i:92134833 original size:64 final size:64
Alignment explanation
Indices: 92134759--92134892 Score: 214
Period size: 64 Copynumber: 2.1 Consensus size: 64
92134749 TTAATATTTT
* * * *
92134759 ATATTTCTATCACGATTTTTAATAAATTTATTTATTGATATAATATGTCTCATCTAATATAAAA
1 ATATTTCTATCACGAATTTTAATAAATTTATTTATTAATATAATAGGTCCCATCTAATATAAAA
* *
92134823 ATATTTCTATCACGAATTTTGATAAATTTATTTATTAATATAATAGGTCCCATCTAATATACAA
1 ATATTTCTATCACGAATTTTAATAAATTTATTTATTAATATAATAGGTCCCATCTAATATAAAA
92134887 ATATTT
1 ATATTT
92134893 AATAAAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (64 bp):
ATATTTCTATCACGAATTTTAATAAATTTATTTATTAATATAATAGGTCCCATCTAATATAAAA
Found at i:92134967 original size:24 final size:24
Alignment explanation
Indices: 92134940--92134986 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
92134930 ATTATTATTG
*
92134940 AAATATTCTC-TTCCGTTTTATCAC
1 AAATATTATCGTT-CGTTTTATCAC
92134964 AAATATTATCGTTCGTTTTATCA
1 AAATATTATCGTTCGTTTTATCA
92134987 TTTAAGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (24 bp):
AAATATTATCGTTCGTTTTATCAC
Found at i:92135451 original size:241 final size:241
Alignment explanation
Indices: 92135028--92135493 Score: 869
Period size: 241 Copynumber: 1.9 Consensus size: 241
92135018 ATACCTTTTT
* * * *
92135028 AAGTTCTATCGAGCTCATTTACTATTGAATATTTATTACCGTGTAGGTTGCTTGTGCATTAAAAT
1 AAGTTCTATCGAGCTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
92135093 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
92135158 CTAGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
131 CTAGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
*
92135223 AACGTCACATATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
196 AACGCCACATATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
92135269 AAGTTCTATCGAGCTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
1 AAGTTCTATCGAGCTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
92135334 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
66 TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
*
92135399 CTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
131 CTAGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
*
92135464 AACGCCACGTATGATGAATCTTAAAAAATT
196 AACGCCACATATGATGAATCTTAAAAAATT
92135494 ACTATATTCA
Statistics
Matches: 218, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 218 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (241 bp):
AAGTTCTATCGAGCTCATTTACTATTGAATATTCATTACCATGTAGCTTGCTTGTCCATTAAAAT
TACAACAATAGCTGACCTTCTCTCCAACCTTTTTTTAAATATTTTAAAGATTCAAAGTATATAGG
CTAGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAAC
AACGCCACATATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAA
Found at i:92135635 original size:9 final size:9
Alignment explanation
Indices: 92135612--92135739 Score: 130
Period size: 9 Copynumber: 13.6 Consensus size: 9
92135602 ATTGATCATT
*
92135612 ACTTAAATA
1 ACTTACATA
*
92135621 AATTACATA
1 ACTTACATA
92135630 ACTTACATA
1 ACTTACATA
*
92135639 ACTTATATA
1 ACTTACATA
92135648 ACTTACATA
1 ACTTACATA
*
92135657 ATTTACATAACA
1 ACTTACAT---A
92135669 ACTTACATA
1 ACTTACATA
*
92135678 ACTCACATA
1 ACTTACATA
92135687 ACTTACATA
1 ACTTACATA
*
92135696 ATTTACATA
1 ACTTACATA
*
92135705 ACTCACATA
1 ACTTACATA
*
92135714 ACGTACATAACA
1 ACTTACAT---A
92135726 ACTTACATA
1 ACTTACATA
92135735 ACTTA
1 ACTTA
92135740 ACTAATACAT
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
9 82 0.84
12 16 0.16
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:92135688 original size:39 final size:39
Alignment explanation
Indices: 92135629--92135706 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
92135619 TAAATTACAT
* *
92135629 AACTTACATAACTTATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
92135668 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
92135707 TCACATAACG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:92135702 original size:48 final size:48
Alignment explanation
Indices: 92135623--92135715 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
92135613 CTTAAATAAA
* * * *
92135623 TTACATAACTTACATAACTTATATAACTTACATAATTTACATAACAAC
1 TTACATAACTCACATAACTTACATAACTTACATAACTCACATAACAAC
*
92135671 TTACATAACTCACATAACTTACATAATTTACATAACTCACATAAC
1 TTACATAACTCACATAACTTACATAACTTACATAACTCACATAAC
92135716 GTACATAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (48 bp):
TTACATAACTCACATAACTTACATAACTTACATAACTCACATAACAAC
Found at i:92135706 original size:57 final size:57
Alignment explanation
Indices: 92135625--92135737 Score: 181
Period size: 57 Copynumber: 2.0 Consensus size: 57
92135615 TAAATAAATT
* * **
92135625 ACATAACTTACATAACTTATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTTACATAACTCACATAACGTACATAACAACTTACATAACTC
*
92135682 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTTACATAACTCACATAACGTACATAACAACTTACATAACT
92135738 TAACTAATAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (57 bp):
ACATAACTTACATAACTTACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:92141637 original size:31 final size:31
Alignment explanation
Indices: 92141591--92141657 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
92141581 TGGTTGTATT
* *
92141591 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
92141622 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
92141653 TTTTA
1 TTTTA
92141658 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:92141793 original size:43 final size:43
Alignment explanation
Indices: 92141732--92141907 Score: 316
Period size: 43 Copynumber: 4.1 Consensus size: 43
92141722 GTAGAAAAAG
92141732 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCAACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCAACAAA
92141775 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCAACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCAACAAA
*
92141818 CGCCGCTAAAAGCCTTGACCTTTTGCGGCGCTTTTCCAACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCAACAAA
* * *
92141861 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTTTCAATAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCAACAAA
92141904 CGCC
1 CGCC
92141908 ACAAATTTTT
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 128 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCAACAAA
Found at i:92144256 original size:17 final size:16
Alignment explanation
Indices: 92144231--92144265 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
92144221 TATTTGGAAC
*
92144231 TTTGTATTTTTAATATT
1 TTTGAATTTTTAAT-TT
92144248 TTTGAATTTTTAATTT
1 TTTGAATTTTTAATTT
92144264 TT
1 TT
92144266 ATAGAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTGAATTTTTAATTT
Found at i:92144264 original size:23 final size:23
Alignment explanation
Indices: 92144198--92144266 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
92144188 AATACATTAT
**
92144198 ATATTTTTCTATTTTT-TTTTTA
1 ATATTTTTGAATTTTTATTTTTA
* *
92144220 ATA-TTTGGAACTTTGTATTTTTA
1 ATATTTTTGAA-TTTTTATTTTTA
92144243 ATATTTTTGAATTTTTAATTTTTA
1 ATATTTTTGAATTTTT-ATTTTTA
92144267 TAGAAAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 4 0.11
22 7 0.19
23 13 0.35
24 13 0.35
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.67
Consensus pattern (23 bp):
ATATTTTTGAATTTTTATTTTTA
Found at i:92146316 original size:25 final size:25
Alignment explanation
Indices: 92146268--92146316 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
92146258 TTATACTAAT
* * **
92146268 TAGAGTTTAAGTGGGAAACTAAAAA
1 TAGAGTTTAACTGGAAAAAGAAAAA
92146293 TAGAGTTTAACTGGAAAAAGAAAA
1 TAGAGTTTAACTGGAAAAAGAAAA
92146317 TCTGAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.51, C:0.04, G:0.22, T:0.22
Consensus pattern (25 bp):
TAGAGTTTAACTGGAAAAAGAAAAA
Found at i:92156434 original size:17 final size:17
Alignment explanation
Indices: 92156412--92156445 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
92156402 TTATAACATA
92156412 TTTTAAAAATTATATTT
1 TTTTAAAAATTATATTT
* *
92156429 TTTTAATAATTTTATTT
1 TTTTAAAAATTATATTT
92156446 ATTATAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAAATTATATTT
Found at i:92156482 original size:19 final size:19
Alignment explanation
Indices: 92156455--92156496 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
92156445 TATTATAATT
* *
92156455 TTTTGAAATATTTTTTATA
1 TTTTAAAATATTTTTTAGA
92156474 TTTTAAAATATTTTTTAGA
1 TTTTAAAATATTTTTTAGA
92156493 TTTT
1 TTTT
92156497 TTTCGAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTAAAATATTTTTTAGA
Found at i:92160707 original size:46 final size:46
Alignment explanation
Indices: 92160657--92160749 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
92160647 TTACTTTAAT
92160657 TAAACTCAATTTATTATCAACATGCTTAATAACATCCGAAAAAACA
1 TAAACTCAATTTATTATCAACATGCTTAATAACATCCGAAAAAACA
*
92160703 TAAACTTAATTTATTATCAACATGCTTAATAACATCCGAAAAAACA
1 TAAACTCAATTTATTATCAACATGCTTAATAACATCCGAAAAAACA
92160749 T
1 T
92160750 TCCATAAAAA
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:0.47, C:0.18, G:0.04, T:0.30
Consensus pattern (46 bp):
TAAACTCAATTTATTATCAACATGCTTAATAACATCCGAAAAAACA
Found at i:92168844 original size:40 final size:40
Alignment explanation
Indices: 92168799--92168965 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
92168789 CGGAATATAA
92168799 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
92168839 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
92168879 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
92168919 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
92168958 CCGGATAT
1 CCGGATAT
92168966 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:92168949 original size:80 final size:79
Alignment explanation
Indices: 92168815--92168965 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
92168805 ATAATCACGT
*
92168815 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
92168880 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
92168895 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
92168958 CCGGATAT
64 CCGGATAT
92168966 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:92170228 original size:56 final size:53
Alignment explanation
Indices: 92170155--92170266 Score: 129
Period size: 56 Copynumber: 2.1 Consensus size: 53
92170145 TCCTCCCCCT
92170155 TTTCCCTAGTAATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTC
1 TTTCCCTAGTAATTTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTT-TTTTC
* ***
92170211 TTTCCTTAGTACA-TTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTC
1 TTTCCCTAGTA-ATTTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTC
92170264 TTT
1 TTT
92170267 TTTTTTTCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
53 8 0.16
54 6 0.12
56 32 0.64
57 4 0.08
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (53 bp):
TTTCCCTAGTAATTTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTC
Found at i:92176855 original size:40 final size:40
Alignment explanation
Indices: 92176810--92176976 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
92176800 CGGAATATAA
92176810 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
92176850 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
92176890 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
92176930 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
92176969 CCGGATAT
1 CCGGATAT
92176977 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:92176960 original size:80 final size:79
Alignment explanation
Indices: 92176826--92176976 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
92176816 ATAATCACGT
*
92176826 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
92176891 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
92176906 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
92176969 CCGGATAT
64 CCGGATAT
92176977 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:92191381 original size:96 final size:95
Alignment explanation
Indices: 92191121--92191439 Score: 329
Period size: 96 Copynumber: 3.3 Consensus size: 95
92191111 GGTGAATTGT
* * **
92191121 CGATGCCATGTTCCAAACATGGTCTTACACTGGCT-TACATGTTGAGGCCGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCATGA--CCGATGCCATGTCCCAG
*
92191185 ACATGGTCTTACACTAGCTCTCATCTCAATGC
64 ACATGGTCTTACACTAGCTCTCATATCAATGC
* * ** ** * * * *
92191217 CAATGCCATATCCCAGACATGGTCTTACACTGGCTCTTATGTTGTGGCTGATACCATGCCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TACATCATGACCGATGCCATGTCCCAGA
* *
92191282 CATGGTTTTACACTAG-TGCACATATCAATGC
65 CATGGTCTTACACTAGCT-CTCATATCAATGC
* * * * * *
92191313 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATCACCAATGCTATGTTCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCATGACCGATGCCATGTCCCAGA
* *
92191378 CATGGTCTTACATTGGCTCTCATATC-ATGGC
65 CATGGTCTTACACTAGCTCTCATATCAAT-GC
*
92191409 CGACGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
92191440 ACCACACATA
Statistics
Matches: 181, Mismatches: 36, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
95 4 0.02
96 171 0.94
97 1 0.01
98 5 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (95 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCATGACCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCTCTCATATCAATGC
Found at i:92191386 original size:144 final size:144
Alignment explanation
Indices: 92191167--92191440 Score: 363
Period size: 144 Copynumber: 1.9 Consensus size: 144
92191157 ACATGTTGAG
* *
92191167 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCAATGCCATATCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCACAATACCAATGCCATATCCCA
* * * ** * * *
92191232 GACATGGTCTTACACTGGCTCTTATGTTGTGGCTGATACCATGCCCCAGACATGGTTTTACACTA
66 AACATGGTCTTACACTGGCTCTCATATCATGGCCGACACCATGCCCCAGACATGGTCTTACACTA
92191297 GTGCACATATCAAT
131 GTGCACATATCAAT
* * * *
92191311 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-CA-ACATCACCAATGCTATGTTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCACA-AT-ACCAATGCCATATCC
* * *
92191374 CAAACATGGTCTTACATTGGCTCTCATATCATGGCCGACGCCATGTCCCAGACATGGTCTTACAC
64 CAAACATGGTCTTACACTGGCTCTCATATCATGGCCGACACCATGCCCCAGACATGGTCTTACAC
92191439 TA
129 TA
92191441 CCACACATAT
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
142 1 0.01
143 3 0.03
144 107 0.96
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (144 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCACAATACCAATGCCATATCCCA
AACATGGTCTTACACTGGCTCTCATATCATGGCCGACACCATGCCCCAGACATGGTCTTACACTA
GTGCACATATCAAT
Found at i:92191450 original size:48 final size:48
Alignment explanation
Indices: 92191121--92191452 Score: 276
Period size: 48 Copynumber: 6.9 Consensus size: 48
92191111 GGTGAATTGT
* * * * * *
92191121 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTTACATGTTGA-GGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCATGGC
* *
92191169 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC-ATGGC
* * * ** * **
92191217 CAATGCCATATCCCAGACATGGTCTTACACTGGCTCTTATGTTGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCATGGC
* * * *
92191265 TGATACCATGCCCCAGACATGGTTTTACACTAG-TGCACATATCAAT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATATC-ATGGC
* * * * **
92191313 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAACATCAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCATGGC
* * * * * * *
92191361 CAATGCTATGTTCCAAACATGGTCTTACATTGGCTCTCATATCATGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCATGGC
* * *
92191409 CGACGCCATGTCCCAGACATGGTCTTACACTACCACACATATCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
92191453 CCCAAATGTC
Statistics
Matches: 223, Mismatches: 54, Indels: 14
0.77 0.19 0.05
Matches are distributed among these distances:
47 5 0.02
48 216 0.97
49 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCATGGC
Found at i:92197568 original size:32 final size:30
Alignment explanation
Indices: 92197494--92197575 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
92197484 GTATACAATT
* *
92197494 GTAACATAAATATTTAATTACTTTTTATTTAA
1 GTAA-ATAGATATTT-ATTACTTATTATTTAA
92197526 GTAAATAGATATTTATTACTTATTATTATTAA
1 GTAAATAGATATTTATTACTTATTA-T-TTAA
92197558 GTTAAA-AGATATTTATTA
1 G-TAAATAGATATTTATTA
92197576 ATTAAATAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 10 0.22
31 10 0.22
32 21 0.47
33 4 0.09
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (30 bp):
GTAAATAGATATTTATTACTTATTATTTAA
Found at i:92197878 original size:14 final size:15
Alignment explanation
Indices: 92197853--92197881 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
92197843 AAAAACTAGG
92197853 GCTTTGAAGCTTTAA
1 GCTTTGAAGCTTTAA
92197868 GCTTT-AAGCTTTAA
1 GCTTTGAAGCTTTAA
92197882 AAGGTAAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (15 bp):
GCTTTGAAGCTTTAA
Found at i:92200326 original size:24 final size:24
Alignment explanation
Indices: 92200299--92200346 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
92200289 AGAAGAAATG
92200299 ATAGAGATGATTCTGATTTATTAT
1 ATAGAGATGATTCTGATTTATTAT
92200323 ATAGAGATGATTCTGATTTATTAT
1 ATAGAGATGATTCTGATTTATTAT
92200347 GAGTAATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (24 bp):
ATAGAGATGATTCTGATTTATTAT
Found at i:92203612 original size:16 final size:16
Alignment explanation
Indices: 92203591--92203622 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
92203581 ATATTAGATA
92203591 GAGAAATAAAAGAGTT
1 GAGAAATAAAAGAGTT
*
92203607 GAGAAATAAACGAGTT
1 GAGAAATAAAAGAGTT
92203623 CCTCTAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.25, T:0.19
Consensus pattern (16 bp):
GAGAAATAAAAGAGTT
Found at i:92211757 original size:29 final size:29
Alignment explanation
Indices: 92211666--92211854 Score: 222
Period size: 29 Copynumber: 6.6 Consensus size: 29
92211656 TACTCGATTT
* *
92211666 CGCACACTTAGTGCCAT-TCGATTT-AAGCC
1 CGCACACTTAGTGCCATAT--ATTTCCAGCA
* *** * *
92211695 CGCACACATAGTGCCATAGCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** *
92211724 CGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
92211753 TGCACACTTAGTG-CATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
92211781 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
92211810 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
92211839 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
92211855 ATCTCGTCAC
Statistics
Matches: 137, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
28 28 0.20
29 109 0.80
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:92211785 original size:86 final size:86
Alignment explanation
Indices: 92211695--92211852 Score: 235
Period size: 86 Copynumber: 1.8 Consensus size: 86
92211685 GATTTAAGCC
* * * *
92211695 CGCACACATAGTGCCATAGCCTTCGAGCTCGCACACCCAGTGCCGTATATTTCCAGCATGCACAC
1 CGCACACATAGTGCCATAGACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCATGCACAC
92211760 TTAGTGCATATATTTCCAGCA
66 TTAGTGCATATATTTCCAGCA
* * * **
92211781 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCATGCACAC
1 CGCACACATAGTGCCATAGACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCATGCACAC
92211846 TTAGTGC
66 TTAGTGC
92211853 CAATCTCGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 63 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (86 bp):
CGCACACATAGTGCCATAGACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCATGCACAC
TTAGTGCATATATTTCCAGCA
Found at i:92218980 original size:29 final size:29
Alignment explanation
Indices: 92218919--92219107 Score: 231
Period size: 29 Copynumber: 6.6 Consensus size: 29
92218909 TACTCGATTT
* *
92218919 CGCACACTTAGTGCCAT-TCGATTT-AAGCC
1 CGCACACTTAGTGCCATAT--ATTTCCAGCA
* *** * *
92218948 CGCACACATAGTGCCATAGCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** *
92218977 CGCACACCCAGTGCCGTATATTT-CAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
92219005 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
92219034 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
92219063 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
92219092 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
92219108 ATCTCGTCAC
Statistics
Matches: 138, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
28 24 0.17
29 114 0.83
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:92219020 original size:86 final size:87
Alignment explanation
Indices: 92218919--92219107 Score: 231
Period size: 86 Copynumber: 2.2 Consensus size: 87
92218909 TACTCGATTT
* * * *
92218919 CGCACACTTAGTGCCAT-TCGATTT-AAGCCCGCACACATAGTGCCATAGCCTTCGAGCTCGCAC
1 CGCACACTTAGTGCCATAT--ATTTCAAGCACGCACACATAGTGCCATAGACTTCCAGCACGCAC
*
92218982 ACCCAGTGCCGTATATTT-CAGCA
64 ACCCAGTGCCATATATTTCCAGCA
* * * * *
92219005 TGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACTTAGTGCCATATATTTCAAGCACGCACACATAGTGCCATAGACTTCCAGCACGCACAC
**
92219070 TTAGTGCCATATATTTCCAGCA
66 CCAGTGCCATATATTTCCAGCA
92219092 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
92219108 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
85 4 0.05
86 62 0.71
87 21 0.24
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (87 bp):
CGCACACTTAGTGCCATATATTTCAAGCACGCACACATAGTGCCATAGACTTCCAGCACGCACAC
CCAGTGCCATATATTTCCAGCA
Found at i:92222997 original size:38 final size:39
Alignment explanation
Indices: 92222905--92223003 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 39
92222895 GTGGTTCCTT
*
92222905 ATGGTGTGTAGGGTTGGATGGGTTGATTAAATCCCCATAC
1 ATGGTGTGTAGGGTTGGATGGGTCGATTAAATCCCCA-AC
* * **
92222945 TTGGTGTGTAGGGTTGGGTGGGTCGATTCTATCCCC-AC
1 ATGGTGTGTAGGGTTGGATGGGTCGATTAAATCCCCAAC
92222983 ATGGTGTG-ATGGGTTGGATGG
1 ATGGTGTGTA-GGGTTGGATGG
92223004 AGATGGTGTG
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
37 1 0.02
38 19 0.37
40 31 0.61
ACGTcount: A:0.16, C:0.12, G:0.38, T:0.33
Consensus pattern (39 bp):
ATGGTGTGTAGGGTTGGATGGGTCGATTAAATCCCCAAC
Found at i:92224165 original size:32 final size:30
Alignment explanation
Indices: 92224100--92224172 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 30
92224090 TGTAACATAA
* *
92224100 ATATTTATTTACTTTTTATTTAAGTAGATAG
1 ATATTTA-TTACTTATTATTTAAGTAGAAAG
92224131 ATATTTATTACTTATTATTATTAAGTTA-AAAG
1 ATATTTATTACTTATTA-T-TTAAG-TAGAAAG
92224163 ATATTTATTA
1 ATATTTATTA
92224173 ATTAAATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
30 9 0.24
31 8 0.22
32 18 0.49
33 2 0.05
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (30 bp):
ATATTTATTACTTATTATTTAAGTAGAAAG
Found at i:92224808 original size:21 final size:23
Alignment explanation
Indices: 92224777--92224825 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
92224767 AGTTGAATGT
92224777 AGGAAG-A-AATTAAG-TAGAAA
1 AGGAAGTATAATTAAGTTAGAAA
*
92224797 A-GAAGTATAATTGAGTTAGAAA
1 AGGAAGTATAATTAAGTTAGAAA
92224819 AGGAAGT
1 AGGAAGT
92224826 GAATTTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 2 0.08
21 6 0.25
22 7 0.29
23 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.27, T:0.20
Consensus pattern (23 bp):
AGGAAGTATAATTAAGTTAGAAA
Found at i:92225897 original size:5 final size:5
Alignment explanation
Indices: 92225887--92225918 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
92225877 GTTTAGTAAA
92225887 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
92225919 GTTATATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:92225907 original size:15 final size:14
Alignment explanation
Indices: 92225883--92225918 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
92225873 ATTGGTTTAG
92225883 TAAA-AAAATAAAA
1 TAAATAAAATAAAA
92225896 TAAAATAAAATAAAA
1 T-AAATAAAATAAAA
92225911 TAAATAAA
1 TAAATAAA
92225919 GTTATATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 10 0.48
15 10 0.48
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAATAAAATAAAA
Found at i:92233706 original size:21 final size:21
Alignment explanation
Indices: 92233682--92233730 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
92233672 GAGTGAGTTA
92233682 GATTAATTTATTATTTTAGGT
1 GATTAATTTATTATTTTAGGT
92233703 GATTAATTTATTATTTTAGGT
1 GATTAATTTATTATTTTAGGT
92233724 GATTAAT
1 GATTAAT
92233731 CGGGATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (21 bp):
GATTAATTTATTATTTTAGGT
Found at i:92238161 original size:34 final size:34
Alignment explanation
Indices: 92238118--92238185 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
92238108 GCTTAAGACA
92238118 GTACTAACTTAGGCTCCTATTCTGGTACAGTTTG
1 GTACTAACTTAGGCTCCTATTCTGGTACAGTTTG
92238152 GTACTAACTTAGGCTCCTATTCTGGTACAGTTTG
1 GTACTAACTTAGGCTCCTATTCTGGTACAGTTTG
92238186 AACCTGGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (34 bp):
GTACTAACTTAGGCTCCTATTCTGGTACAGTTTG
Found at i:92244535 original size:14 final size:14
Alignment explanation
Indices: 92244516--92244542 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
92244506 AAATTTTAAC
92244516 AAAGTAAAATAAAT
1 AAAGTAAAATAAAT
92244530 AAAGTAAAATAAA
1 AAAGTAAAATAAA
92244543 GTTCCTATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (14 bp):
AAAGTAAAATAAAT
Found at i:92245238 original size:18 final size:20
Alignment explanation
Indices: 92245201--92245240 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
92245191 ACCTAACATG
*
92245201 AATTAAATTCAAGCCATATC
1 AATTAAATTCAAGACATATC
92245221 AATTAAATT-AA-ACATATC
1 AATTAAATTCAAGACATATC
92245239 AA
1 AA
92245241 CATCACAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 2 0.11
20 9 0.47
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.30
Consensus pattern (20 bp):
AATTAAATTCAAGACATATC
Found at i:92246619 original size:70 final size:70
Alignment explanation
Indices: 92246503--92246643 Score: 255
Period size: 70 Copynumber: 2.0 Consensus size: 70
92246493 TCTCTTTCAT
*
92246503 AGATGGTTTCTCTAGATATAACTAGATAAATATGTATACTGCAGATATGGAGACGACGACATTCA
1 AGATGGTTTCTCTAGATATAACTAGATAAAGATGTATACTGCAGATATGGAGACGACGACATTCA
92246568 TAACA
66 TAACA
* *
92246573 AGATGGTTTCTCTAGATATAACTAGATAAAGATGTATACTGTAGATATGGAGACGACGACATTCG
1 AGATGGTTTCTCTAGATATAACTAGATAAAGATGTATACTGCAGATATGGAGACGACGACATTCA
92246638 TAACA
66 TAACA
92246643 A
1 A
92246644 CTTGGGGAAC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (70 bp):
AGATGGTTTCTCTAGATATAACTAGATAAAGATGTATACTGCAGATATGGAGACGACGACATTCA
TAACA
Found at i:92249505 original size:45 final size:46
Alignment explanation
Indices: 92249438--92249560 Score: 162
Period size: 46 Copynumber: 2.7 Consensus size: 46
92249428 GGGGTAAGGT
*
92249438 GCCGATGCCATGTCCCATACATGGTCTTACACTG-A-CACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGAATCACATCTCG-AG
* *
92249484 GCCGATGCATGTCCCAGACATGTCTTACACTGAATTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAATCACATCTCGAG
*
92249530 GCCGATGCATGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
92249561 AGCACTCGTC
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
44 11 0.16
45 15 0.21
46 44 0.63
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGAATCACATCTCGAG
Found at i:92249571 original size:46 final size:44
Alignment explanation
Indices: 92249438--92249590 Score: 157
Period size: 46 Copynumber: 3.3 Consensus size: 44
92249428 GGGGTAAGGT
* * *
92249438 GCCGATGCCATGTCCCATACATGGTCTTACACTGACACATCTCGTA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGACTCGTCTCG-A
*
92249484 GCCGATG-CATGTCCCAGACATGTCTTACACTGAATTACGTCTCGA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTG-ACT-CGTCTCGA
* *
92249529 GGCCGATG-CATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAA
1 -GCCGATGCCATGTCCCAGACATGTCTTACACT-G-ACTCGTCTCGA
*
92249575 TGCCGATGTCATGTCC
1 -GCCGATGCCATGTCC
92249591 TAAAAAAGGT
Statistics
Matches: 93, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
44 11 0.12
45 15 0.16
46 57 0.61
47 10 0.11
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (44 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGACTCGTCTCGA
Found at i:92253297 original size:94 final size:94
Alignment explanation
Indices: 92253033--92253307 Score: 266
Period size: 94 Copynumber: 2.9 Consensus size: 94
92253023 CAAAACTCAT
* * * ** ** *
92253033 ATCCCTGAAGATGCAATGGATCGAATCAAAACTACAGTAGCGAATCTTATCTCCCTGAAGATATA
1 ATCCCTGAAGTTGCAATAGATCAAATCAAAACTACAACAGAAAATCTTATCTCCCTGAAGATGTA
*
92253098 GTGGAGCAAGATGAAACTACAAATCCTAC
66 GTGGAGCAAGATGAAGCTACAAATCCTAC
* * * * * *
92253127 ATCCCTGAAGTTGCAATAGATCAAATTAAAATTATAACAGTAAATCTTATCTCCCTAAAGTTGTA
1 ATCCCTGAAGTTGCAATAGATCAAATCAAAACTACAACAGAAAATCTTATCTCCCTGAAGATGTA
* *
92253192 GTAGAGCAAGATGAAGCTACAAATCCTAT
66 GTGGAGCAAGATGAAGCTACAAATCCTAC
* * * ** * *
92253221 ATCCTTGAAGTTGCAGTGGAAT-GGATCGAAACTACAA-AGAAAAATCTCATCTCCCTGAAGATG
1 ATCCCTGAAGTTGCAATAG-ATCAAATCAAAACTACAACAG-AAAATCTTATCTCCCTGAAGATG
* * * *
92253284 CAATGGAGTAAGATAAAGCTACAA
64 TAGTGGAGCAAGATGAAGCTACAA
92253308 CCTCAAATCT
Statistics
Matches: 145, Mismatches: 34, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
93 2 0.01
94 141 0.97
95 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (94 bp):
ATCCCTGAAGTTGCAATAGATCAAATCAAAACTACAACAGAAAATCTTATCTCCCTGAAGATGTA
GTGGAGCAAGATGAAGCTACAAATCCTAC
Found at i:92253779 original size:21 final size:21
Alignment explanation
Indices: 92253742--92253783 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
92253732 AGTCCATTTA
*
92253742 CAAGCCCAAATTACTTAAACC
1 CAAGCCCAAAATACTTAAACC
92253763 CAAGCCCAAAA-ATCTTAAACC
1 CAAGCCCAAAATA-CTTAAACC
92253784 TAAACAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.45, C:0.33, G:0.05, T:0.17
Consensus pattern (21 bp):
CAAGCCCAAAATACTTAAACC
Found at i:92268488 original size:28 final size:29
Alignment explanation
Indices: 92268442--92268503 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
92268432 AATTAACTTT
*
92268442 AAAATTTAAAATTTTTAAAAAAATCA-TA
1 AAAATTTAAAATTTATAAAAAAATCATTA
*
92268470 AAAATTATAAAA-TTATAAAAAAATTATTA
1 AAAATT-TAAAATTTATAAAAAAATCATTA
92268499 AAAAT
1 AAAAT
92268504 ATCAATACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (29 bp):
AAAATTTAAAATTTATAAAAAAATCATTA
Found at i:92269636 original size:27 final size:29
Alignment explanation
Indices: 92269605--92269659 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
92269595 TGATATCAAA
* *
92269605 AAATTTAATTTTGAAAAAA-TA-TATTTT
1 AAATTTAAATTTAAAAAAAGTATTATTTT
92269632 AAATTTAAATTTAAAAAAAGTATTATTT
1 AAATTTAAATTTAAAAAAAGTATTATTT
92269660 ATTTTGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.71
28 2 0.08
29 5 0.21
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (29 bp):
AAATTTAAATTTAAAAAAAGTATTATTTT
Found at i:92269649 original size:28 final size:28
Alignment explanation
Indices: 92269605--92269659 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
92269595 TGATATCAAA
**
92269605 AAATTTAATTTTGAAAAAATA-TATTTT
1 AAATTTAATTTAAAAAAAATATTATTTT
*
92269632 AAATTTAAATTTAAAAAAAGTATTATTT
1 AAATTT-AATTTAAAAAAAATATTATTT
92269660 ATTTTGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 6 0.26
28 12 0.52
29 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (28 bp):
AAATTTAATTTAAAAAAAATATTATTTT
Found at i:92270521 original size:3 final size:3
Alignment explanation
Indices: 92270513--92270569 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
92270503 GCTTAAGAAA
92270513 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
92270561 ACC ACC ACC
1 ACC ACC ACC
92270570 GAACAACCAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:92276198 original size:11 final size:11
Alignment explanation
Indices: 92276180--92276214 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
92276170 AACATGGGTT
92276180 TAATTTTTATA
1 TAATTTTTATA
*
92276191 TTATTTTTATA
1 TAATTTTTATA
*
92276202 TAATTTTAATA
1 TAATTTTTATA
92276213 TA
1 TA
92276215 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:92278039 original size:3 final size:3
Alignment explanation
Indices: 92278031--92278073 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
92278021 TAGTTTAAAA
* *
92278031 AAT AAT AAT GAT ATT AAT AAT AAT AAT AAT -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
92278074 CTAAAGTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:92278202 original size:17 final size:18
Alignment explanation
Indices: 92278182--92278227 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
92278172 TATAAATAGA
92278182 AATATAATAATAGTAA-T
1 AATATAATAATAGTAATT
* *
92278199 AATATATTAA-ATTAATT
1 AATATAATAATAGTAATT
*
92278216 AATTTAATAATA
1 AATATAATAATA
92278228 AAATAGAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 4 0.17
17 18 0.78
18 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
AATATAATAATAGTAATT
Found at i:92278928 original size:15 final size:15
Alignment explanation
Indices: 92278910--92278949 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
92278900 TTAAACATAA
92278910 ATGAAATAAAAAAAC
1 ATGAAATAAAAAAAC
*
92278925 ATGAAA-AGAAAAAC
1 ATGAAATAAAAAAAC
92278939 A-G-AATAAAAAA
1 ATGAAATAAAAAA
92278950 TCACTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 2 0.09
13 6 0.27
14 8 0.36
15 6 0.27
ACGTcount: A:0.75, C:0.05, G:0.10, T:0.10
Consensus pattern (15 bp):
ATGAAATAAAAAAAC
Found at i:92280098 original size:37 final size:37
Alignment explanation
Indices: 92280048--92280157 Score: 166
Period size: 37 Copynumber: 3.0 Consensus size: 37
92280038 ACCTTTAGCT
* * *
92280048 CAGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
92280085 CAGACAAAATCTCCACACGTGGTCATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* *
92280122 CGGACATAATCTCCACACGTAGTCATCGGGTCTTAC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTAC
92280158 TCGGAATATA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:92280377 original size:47 final size:47
Alignment explanation
Indices: 92280325--92280604 Score: 434
Period size: 47 Copynumber: 6.0 Consensus size: 47
92280315 TTTCACACTA
* * * *
92280325 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
92280372 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
92280419 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
92280466 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
92280513 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * **
92280560 GCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
92280605 AAAATCCTAA
Statistics
Matches: 213, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 213 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:92280531 original size:22 final size:22
Alignment explanation
Indices: 92280504--92280575 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
92280494 GCTCACATTC
92280504 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
92280526 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
92280550 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
92280573 ATC
1 ATC
92280576 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:92284015 original size:89 final size:92
Alignment explanation
Indices: 92283905--92284085 Score: 208
Period size: 94 Copynumber: 2.0 Consensus size: 92
92283895 GATTCACTAT
* * *
92283905 CTTCAGTCTACTCCACTGCAACTTCAG-GGAGATAAGACTTG-AT-T-TCTTCAATCCATCCCAT
1 CTTCAATCTACTCCACCGCAACTT-AGAGGAGATAAGACTTGCATATAACTTCAATCCATCCCAT
* **
92283966 TGCAACTTCAGGGGTATGGGATTTGTGG
65 TACAACTTCAGGGGTATAAGATTTGTGG
* * * *
92283994 CTTCAATCTGCTCCACCGCAACTTTGAGGAGATAAGATTTGCCATGATAACTTCAATCTATCCCA
1 CTTCAATCTACTCCACCGCAACTTAGAGGAGATAAGACTTG-CAT-ATAACTTCAATCCATCCCA
*
92284059 TTATAACTTCAGGGGTATAAGATTTGT
64 TTACAACTTCAGGGGTATAAGATTTGT
92284086 AACTTGAAGC
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
88 1 0.01
89 34 0.45
91 2 0.03
93 1 0.01
94 37 0.49
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (92 bp):
CTTCAATCTACTCCACCGCAACTTAGAGGAGATAAGACTTGCATATAACTTCAATCCATCCCATT
ACAACTTCAGGGGTATAAGATTTGTGG
Found at i:92285223 original size:25 final size:25
Alignment explanation
Indices: 92285189--92285239 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
92285179 CCCTAGATAT
92285189 CACAGCACGAGCTTCTCCATTCAAA
1 CACAGCACGAGCTTCTCCATTCAAA
92285214 CACAGCACGAGCTTCTCCATTCAAA
1 CACAGCACGAGCTTCTCCATTCAAA
92285239 C
1 C
92285240 TTCTCAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.37, G:0.12, T:0.20
Consensus pattern (25 bp):
CACAGCACGAGCTTCTCCATTCAAA
Found at i:92289126 original size:22 final size:19
Alignment explanation
Indices: 92289100--92289149 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 19
92289090 CATACCATTT
92289100 TAATTAAATTCTTGTCAAAAAA
1 TAATTAAATT-TT-T-AAAAAA
*
92289122 TAATT-AATTTTTATAAAA
1 TAATTAAATTTTTAAAAAA
92289140 TAATTAAATT
1 TAATTAAATT
92289150 ATACTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 10 0.38
19 5 0.19
20 2 0.08
21 4 0.15
22 5 0.19
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
TAATTAAATTTTTAAAAAA
Found at i:92289288 original size:15 final size:15
Alignment explanation
Indices: 92289268--92289303 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
92289258 GACACTGTTT
92289268 GAAGCACAAAACCGA
1 GAAGCACAAAACCGA
92289283 GAAGCACAAAACCGA
1 GAAGCACAAAACCGA
92289298 GAAGCA
1 GAAGCA
92289304 ATTTGAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.53, C:0.25, G:0.22, T:0.00
Consensus pattern (15 bp):
GAAGCACAAAACCGA
Found at i:92321527 original size:29 final size:29
Alignment explanation
Indices: 92321485--92321542 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
92321475 ACTCATCCTC
* *
92321485 GTGATGCTTGTTAGCTTCGTTAACGGCTT
1 GTGATGCTTGTTAGCTTCATTAACAGCTT
92321514 GTGATGCTTGTTAGCTTCATTAACAGCTT
1 GTGATGCTTGTTAGCTTCATTAACAGCTT
92321543 CTCAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.41
Consensus pattern (29 bp):
GTGATGCTTGTTAGCTTCATTAACAGCTT
Found at i:92323279 original size:15 final size:14
Alignment explanation
Indices: 92323261--92323297 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
92323251 TAGTTTAAAA
*
92323261 AATAATAATGATATT
1 AATAATAATAATA-T
92323276 AATAATAATAATAT
1 AATAATAATAATAT
92323290 AATAATAA
1 AATAATAA
92323298 CTAAAGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
AATAATAATAATAT
Found at i:92323425 original size:20 final size:20
Alignment explanation
Indices: 92323402--92323452 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
92323392 TATAAATAGA
92323402 AATATAATAATAATAGTAA-T
1 AATATAATAATAA-AGTAATT
92323422 AATAT-AT--TAAAGTAATT
1 AATATAATAATAAAGTAATT
*
92323439 AATTTAATAATAAA
1 AATATAATAATAAA
92323453 ATAGCAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
16 5 0.19
17 8 0.31
18 2 0.08
19 2 0.08
20 9 0.35
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
AATATAATAATAAAGTAATT
Found at i:92332035 original size:46 final size:46
Alignment explanation
Indices: 92331943--92332151 Score: 203
Period size: 46 Copynumber: 4.5 Consensus size: 46
92331933 ATGTCGATGT
* *
92331943 CATGTCCCAGACATAGTCTTACACTGAC--ACATCTTGTA-GCCAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGGCCAATG
* **
92331988 CATGTCCCAAACATGTCTTACACTGGCTTACATCTCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCAATG
* * * *
92332034 CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGCCAATG
* * * *
92332080 CCATGTCCCAGACATGGTCTTACAATGGCTTTCATAAT-GTGGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTTACAT-CTCGAGGCCAATG
*
92332128 CATGTCTCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
92332152 AGTGCACAAA
Statistics
Matches: 135, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
44 12 0.09
45 14 0.10
46 58 0.43
47 29 0.21
48 21 0.16
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCAATG
Found at i:92332100 original size:94 final size:95
Alignment explanation
Indices: 92331785--92332153 Score: 239
Period size: 94 Copynumber: 3.9 Consensus size: 95
92331775 CATAGCGTAT
* * * * * *
92331785 AATGCCAATGCCACGTTCCAGACATGGTCTTACACTGGC-T-CATCCATCAAGTC-GATGCCATG
1 AATGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTTACAT-AATCGAGGCTGATGCCATG
* * * *
92331847 TCCCAGACATGGTCATACACATA-CTATCAAAATC
65 TCCCAGACATAGTCTTACAC-TAGCTCTC---TTC
* * * * * * * * *
92331881 GAGGCCGATTCCATGGTCCCAAATATGGTCTTACACTAGCTCTCACAT-ATCTATG-TCGATGTC
1 AATGCCAATGCCAT-GTCCCAAACATGGTCTTACACTGGCT-T-ACATAATCGAGGCT-GATGCC
* *
92331944 ATGTCCCAGACATAGTCTTACACT-GACACATCTTG
62 ATGTCCCAGACATAGTCTTACACTAG-CTC-TCTTC
* *
92331979 TA-GCCAATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACAT-CTCGAGGCTGATG-CATGT
1 AATGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATAATCGAGGCTGATGCCATGT
92332039 CCCAGACAT-GTCTTACACTAGCTCTCGTCTC
66 CCCAGACATAGTCTTACACTAGCTCTC-T-TC
* * * * **
92332070 AATGCCAATGCCATGTCCCAGACATGGTCTTACAATGGCTTTCATAAT-GTGGCCAATG-CATGT
1 AATGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATAATCGAGGCTGATGCCATGT
*
92332133 CTCAGACAT-GTCTTACACTAG
66 CCCAGACATAGTCTTACACTAG
92332154 TGCACAAATG
Statistics
Matches: 217, Mismatches: 38, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
89 2 0.01
90 13 0.06
91 17 0.08
92 19 0.09
93 15 0.07
94 62 0.29
95 11 0.05
96 12 0.06
97 26 0.12
98 2 0.01
99 6 0.03
100 27 0.12
101 5 0.02
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (95 bp):
AATGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTTACATAATCGAGGCTGATGCCATGT
CCCAGACATAGTCTTACACTAGCTCTCTTC
Found at i:92340491 original size:40 final size:40
Alignment explanation
Indices: 92340343--92340527 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
92340333 TCGAATGATG
* * *
92340343 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
92340383 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
92340423 TACGGGTTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
92340462 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
92340503 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
92340528 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:92340549 original size:79 final size:79
Alignment explanation
Indices: 92340344--92340560 Score: 230
Period size: 79 Copynumber: 2.7 Consensus size: 79
92340334 CGAATGATGT
* *
92340344 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
92340407 TGTGCGAGTTACTAATTA
62 TGTGCGAGTTACTAATAA
* * *
92340425 -CGGGTTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCAGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
92340487 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAATAA
* ** *
92340503 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
92340561 TACGTGATTC
Statistics
Matches: 114, Mismatches: 13, Indels: 20
0.78 0.09 0.14
Matches are distributed among these distances:
78 4 0.04
79 66 0.58
80 44 0.39
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATAA
Found at i:92348443 original size:40 final size:40
Alignment explanation
Indices: 92348359--92348543 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
92348349 TCGAATGATG
* *
92348359 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
92348398 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
92348439 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
92348478 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
92348517 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
92348544 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 36 0.29
40 80 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:92348495 original size:79 final size:81
Alignment explanation
Indices: 92348359--92348541 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
92348349 TCGAATGATG
* *
92348359 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
92348423 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
92348438 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
*
92348500 TTTGTGTGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
92348518 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
92348542 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:92348565 original size:79 final size:78
Alignment explanation
Indices: 92348360--92348576 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 78
92348350 CGAATGATGT
* *
92348360 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
92348423 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
92348440 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
*
92348503 GTGTGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
92348519 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
92348577 TACGTGATTC
Statistics
Matches: 116, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
78 3 0.03
79 67 0.58
80 46 0.40
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:92349419 original size:80 final size:80
Alignment explanation
Indices: 92349322--92349481 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
92349312 CTAAAAATAG
92349322 TAGGAATGGAATTAAATAGTGAA-AAATTATGTAATCGAACCTTGATGAATCTATTTTCATAGGA
1 TAGGAATGGAATTAAATAGTGAATAAATTATGTAATCGAACCTTGATGAATCTATTTTCATA-GA
92349386 AAGTAACGAAATGTTC
65 AAGTAACGAAATGTTC
92349402 TAGGAATGGAATTAAATAGTGAATAAATTATGTAATCGAACCTTGATGAATCTATTTTCATAGAA
1 TAGGAATGGAATTAAATAGTGAATAAATTATGTAATCGAACCTTGATGAATCTATTTTCATAGAA
92349467 AGTAACGAAATGTTC
66 AGTAACGAAATGTTC
92349482 ATATGAACAG
Statistics
Matches: 79, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
80 41 0.52
81 38 0.48
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (80 bp):
TAGGAATGGAATTAAATAGTGAATAAATTATGTAATCGAACCTTGATGAATCTATTTTCATAGAA
AGTAACGAAATGTTC
Found at i:92350841 original size:34 final size:37
Alignment explanation
Indices: 92350773--92350844 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
92350763 ATATTAACTG
* *
92350773 ATTATTATTATTACTATATCATATTCATTAATATATT
1 ATTATCATTATTACTATACCATATTCATTAATATATT
*
92350810 ATTATCATTTTTACTAT-CCATATT-ATTATATATAT
1 ATTATCATTATTACTATACCATATTCATTA-ATATAT
92350845 AATACTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 4 0.13
36 12 0.39
37 15 0.48
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (37 bp):
ATTATCATTATTACTATACCATATTCATTAATATATT
Found at i:92363334 original size:179 final size:179
Alignment explanation
Indices: 92363031--92363503 Score: 849
Period size: 179 Copynumber: 2.6 Consensus size: 179
92363021 GGTAGCAGGC
* *
92363031 TGAAGATTTACAAATCTTAA-CCTCCTAAGCAGTAGGGAAACAGATCAAAGAAGATAATGAGCTT
1 TGAAGATTTATAGATCTTAATCC-CCTAAGCAGTAGGGAAACAGATC---GAAGATAATGAGCTT
92363095 TAACCCCCTAAGTAGTAGGGTAATAAGCTGAAAATTACAGATTTTGTCTCCCTGAAGTTGCAGTG
62 TAACCCCCTAAGTAGTAGGGTAATAAGCTGAAAATTACAGATTTTGTCTCCCTGAAGTTGCAGTG
92363160 GAACAAATCGAATCCAGCGAATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGAT
127 GAACAAATCGAATCCAGCGAATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGAT
92363213 TGAAGATTTATAGATCTTAATCCCCTAAGCAGTAGGGAAACAGATCGAAGATAATGAGCTTTAAC
1 TGAAGATTTATAGATCTTAATCCCCTAAGCAGTAGGGAAACAGATCGAAGATAATGAGCTTTAAC
92363278 CCCCTAAGTAGTAGGGTAATAAGCTGAAAATTACAGATTTTGTCTCCCTGAAGTTGCAGTGGAAC
66 CCCCTAAGTAGTAGGGTAATAAGCTGAAAATTACAGATTTTGTCTCCCTGAAGTTGCAGTGGAAC
*
92363343 AAATCGAATCCAGCGAATTTTGTCTTCCTGAAGTTGCAGTGAAGCAGAT
131 AAATCGAATCCAGCGAATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGAT
92363392 TGAAGATTTATAGATCTTAATCCCCTAAGCAGTAGGGAAACAGATCGAAGATAATGAGCTTTAAC
1 TGAAGATTTATAGATCTTAATCCCCTAAGCAGTAGGGAAACAGATCGAAGATAATGAGCTTTAAC
* * *
92363457 CCCCTAAGTAGTAGGGTAATAAGTTGAAAATTACAGATCTTGCCTCC
66 CCCCTAAGTAGTAGGGTAATAAGCTGAAAATTACAGATTTTGTCTCC
92363504 TCGAATGCAG
Statistics
Matches: 284, Mismatches: 6, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
179 241 0.85
182 41 0.14
183 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.27
Consensus pattern (179 bp):
TGAAGATTTATAGATCTTAATCCCCTAAGCAGTAGGGAAACAGATCGAAGATAATGAGCTTTAAC
CCCCTAAGTAGTAGGGTAATAAGCTGAAAATTACAGATTTTGTCTCCCTGAAGTTGCAGTGGAAC
AAATCGAATCCAGCGAATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGAT
Found at i:92363655 original size:42 final size:43
Alignment explanation
Indices: 92363580--92363741 Score: 120
Period size: 42 Copynumber: 3.8 Consensus size: 43
92363570 ATGTTCATAG
** *
92363580 GATCTTAAACCCCTAAGCAGTAG-GGAAACAGATCAAATTGTA
1 GATCTTATCCCCCTAAGCAGTAGTGGTAACAGATCAAATTGTA
** *
92363622 GATCTTATCCCCCTAAGCAGTAGTGGT-GTAGATCGAAGA-AGAATA
1 GATCTTATCCCCCTAAGCAGTAGTGGTAACAGATC-AA-ATTG--TA
* ** * * *
92363667 -ACCTTAAACCCCTAAGCAGTAG-GGTAACAGGTTAAATTGCA
1 GATCTTATCCCCCTAAGCAGTAGTGGTAACAGATCAAATTGTA
* *
92363708 GATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATC
1 GATCTTATCCCCCTAAGCAGTAGTGGTAACAGATC
92363742 GAAGACGAAG
Statistics
Matches: 89, Mismatches: 22, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
41 1 0.01
42 50 0.56
43 13 0.15
44 23 0.26
45 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (43 bp):
GATCTTATCCCCCTAAGCAGTAGTGGTAACAGATCAAATTGTA
Found at i:92363777 original size:86 final size:85
Alignment explanation
Indices: 92363583--92363869 Score: 326
Period size: 86 Copynumber: 3.3 Consensus size: 85
92363573 TTCATAGGAT
* * * * *
92363583 CTTAAACCCCTAAGCAGTAGGGAAACAGATCAAATTGTAGATCTTATCCCCCTAAGCAGTAGTGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCACCCTAAGCAGTAGTGG
* *
92363648 TGTAGATCGAAGAAGAATAAC
66 AGCAGATCGAAGAAGAA-AAC
*
92363669 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCACCCTAAGCAGTAGTGG
*
92363734 AGCAGATCGAAGACGAAGAAC
66 AGCAGATCGAAGAAGAA-AAC
* * * * **
92363755 CTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAGTATACAGATC-TAAAACCCTAAGCAGTAG-G
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAAT-TGCAGATCTTATCACCCTAAGCAGTAGTG
* * * *
92363818 GAAACAGATCAAAGATGACAAGC
65 G-AGCAGATCGAAGAAGA-AAAC
* *
92363841 CTTAATCCCTTAAGCAGTAGGGTAACAGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGG
92363870 CTGAAAATTA
Statistics
Matches: 175, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
85 2 0.01
86 165 0.94
87 8 0.05
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (85 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTGCAGATCTTATCACCCTAAGCAGTAGTGG
AGCAGATCGAAGAAGAAAAC
Found at i:92365369 original size:15 final size:14
Alignment explanation
Indices: 92365349--92365403 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
92365339 TAGCATTATT
92365349 TATTATTATATTAAC
1 TATTATTATATT-AC
*
92365364 TGTTATTATTATTAC
1 TATTATTA-TATTAC
*
92365379 TATTATCATATT-C
1 TATTATTATATTAC
*
92365392 -ATTAATATATTA
1 TATTATTATATTA
92365404 TTATCATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
12 9 0.27
13 1 0.03
14 4 0.12
15 15 0.45
16 4 0.12
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (14 bp):
TATTATTATATTAC
Found at i:92367052 original size:2 final size:2
Alignment explanation
Indices: 92367045--92367096 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
92367035 TTTAACTTTA
92367045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92367087 AT AT AT AT AT
1 AT AT AT AT AT
92367097 GATTTAAAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92374878 original size:42 final size:42
Alignment explanation
Indices: 92374828--92374921 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 42
92374818 TCGTATTCTA
**
92374828 GGAA-TATTTTATTTTATCTTTTAGTAGTTTATTAGAATAAG
1 GGAATTATTTTACCTTATCTTTTAGTAGTTTATTAGAATAAG
* *
92374869 GGAATTATTTTCCCTTATGTTTTAGTAGTTTATTAGAATAAG
1 GGAATTATTTTACCTTATCTTTTAGTAGTTTATTAGAATAAG
*
92374911 AGAATTATTTT
1 GGAATTATTTT
92374922 TCAATTAGGA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 4 0.09
42 43 0.91
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (42 bp):
GGAATTATTTTACCTTATCTTTTAGTAGTTTATTAGAATAAG
Found at i:92378122 original size:19 final size:19
Alignment explanation
Indices: 92378094--92378137 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
92378084 AAATTAAATG
*
92378094 GAGATATTCGATCTTGAGA
1 GAGATCTTCGATCTTGAGA
*
92378113 GAGATCTTCGATCTTGAGG
1 GAGATCTTCGATCTTGAGA
92378132 GAGATC
1 GAGATC
92378138 CTTTTCCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (19 bp):
GAGATCTTCGATCTTGAGA
Found at i:92379222 original size:3 final size:3
Alignment explanation
Indices: 92379214--92379250 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
92379204 ACCAAATGTG
92379214 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
92379251 TTAAAATGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:92381171 original size:2 final size:2
Alignment explanation
Indices: 92381164--92381225 Score: 97
Period size: 2 Copynumber: 30.0 Consensus size: 2
92381154 ATCAATGAAA
92381164 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
92381206 AT AT AT CAT AC AGT AT AT AT
1 AT AT AT -AT AT A-T AT AT AT
92381226 TTTTGGGCAC
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
2 53 0.95
3 3 0.05
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:92389302 original size:43 final size:43
Alignment explanation
Indices: 92389209--92389377 Score: 157
Period size: 43 Copynumber: 4.0 Consensus size: 43
92389199 CACATAAGCT
* * * * *
92389209 AGTACAATGCC-ATATCCCAGATATGATCTTACATGCT-ATCAC
1 AGTACGATGCCAATGTCCCAGACATGGTCTTACATG-TAATCTC
* * * * *
92389251 ATGT-CGATGCCACTATCCCAGACAGGGTCTTACATGAAATC-G
1 A-GTACGATGCCAATGTCCCAGACATGGTCTTACATGTAATCTC
* * *
92389293 ATTAACGATGCTAATGTCCCAGACATGGTCTTACACGTAATCTC
1 AGT-ACGATGCCAATGTCCCAGACATGGTCTTACATGTAATCTC
*
92389337 AGTACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 AGTACGATGCCAATGTCCCAGACATGGTCTTACATGTAATC
92389378 ACATCTTAAT
Statistics
Matches: 102, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 91 0.89
44 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
AGTACGATGCCAATGTCCCAGACATGGTCTTACATGTAATCTC
Found at i:92390055 original size:11 final size:11
Alignment explanation
Indices: 92390039--92390064 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
92390029 GTAAACAACA
92390039 AAAATAATTTT
1 AAAATAATTTT
92390050 AAAATAATTTT
1 AAAATAATTTT
92390061 AAAA
1 AAAA
92390065 CATCAGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:92391178 original size:19 final size:19
Alignment explanation
Indices: 92391154--92391192 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
92391144 GTCGAAACTT
*
92391154 TGTCGACTACGTTCAAGGG
1 TGTCGAATACGTTCAAGGG
92391173 TGTCGAATACGTTCAAGGG
1 TGTCGAATACGTTCAAGGG
92391192 T
1 T
92391193 CAATCACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (19 bp):
TGTCGAATACGTTCAAGGG
Found at i:92398385 original size:41 final size:41
Alignment explanation
Indices: 92398251--92398411 Score: 164
Period size: 41 Copynumber: 3.8 Consensus size: 41
92398241 TACCGTACCA
** *
92398251 ATGCCATATCTTAGATATGGTCTTACATGTGAG-CTCATATCG
1 ATGCCATATCCCAGCTATGGTCTTACA-GT-AGTCTCATATCG
* * *
92398293 TTGCCAATAGCTCAGCTATGGTCTTACA-TGAGGTCTCATATCG
1 ATGCC-ATATCCCAGCTATGGTCTTACAGT-A-GTCTCATATCG
* *
92398336 ATGCCATATCCTAGCTATGGTCTTACAGTAGTCTCATATTG
1 ATGCCATATCCCAGCTATGGTCTTACAGTAGTCTCATATCG
* *
92398377 ATGTCATATCCCAGATATGGTCTTACACGTAGTCT
1 ATGCCATATCCCAGCTATGGTCTTACA-GTAGTCT
92398412 TAGTAACCCT
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
41 37 0.36
42 32 0.31
43 33 0.32
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (41 bp):
ATGCCATATCCCAGCTATGGTCTTACAGTAGTCTCATATCG
Found at i:92400965 original size:19 final size:19
Alignment explanation
Indices: 92400929--92400973 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
92400919 TTCCACTTAT
92400929 ATTAATTAAAGATGGATTAA
1 ATTAA-TAAAGATGGATTAA
*
92400949 GTTAATAAAGTAT-GATTAA
1 ATTAATAAAG-ATGGATTAA
92400968 ATTAAT
1 ATTAAT
92400974 TTAATTATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (19 bp):
ATTAATAAAGATGGATTAA
Found at i:92401751 original size:269 final size:269
Alignment explanation
Indices: 92401272--92401765 Score: 821
Period size: 269 Copynumber: 1.8 Consensus size: 269
92401262 ATTGATATAT
* * * *
92401272 TTTAAGCTAGATTATAAAAAAAGACTAGATTGTGACATTTAATTGTTAGTTTTGTACATATGGAT
1 TTTAAGCTAGATTATAAAAAAAGACTAAATTGTAACATTTAATTGTTAGTTTTGCACATATGGAC
* * * *
92401337 TAAAGTGAATAAAATGTGAAATTGTTGTGAAATTTTAGTATAAATAGAAAGTAGAGTGTCCCTAA
66 TAAAGTGAATAAAATGTGAAACTGTTATGAAATTTCAGTATAAATAGAAAGTAGAGGGTCCCTAA
* *
92401402 TGAATGTATTTGAAGTCAGATTTTAAATCGAGGTTAGGAATTGGAAGTTATTGATATTTTGAATT
131 TGAATGTATTTGAAGTCAAATTTTAAATCGAGGTTAGGAATTGGAAGTTATTGATATTTCGAATT
* *
92401467 TAGGGACTAAATTGAATAAAATATAAAACTGATAAAGCTTTAGAAAGTTTCCTTTGTTGATTTCT
196 CAGAGACTAAATTGAATAAAATATAAAACTGATAAAGCTTTAGAAAGTTTCCTTTGTTGATTTCT
92401532 TGAAAAATA
261 TGAAAAATA
*
92401541 TTTAAGCTTAGATTAT-GAAAAAGACTAAATTGTAACATTTAATTGTTAGTTTTGCACATATGGA
1 TTTAAGC-TAGATTATAAAAAAAGACTAAATTGTAACATTTAATTGTTAGTTTTGCACATATGGA
92401605 CTAAAGTGAATAAAATGTGAAACTGTTATGAAATTTCAGTATAAATAGAAAGTAGAGGGTCCCTA
65 CTAAAGTGAATAAAATGTGAAACTGTTATGAAATTTCAGTATAAATAGAAAGTAGAGGGTCCCTA
*
92401670 ATGAATGTATTTGAAGTCAAATTTTAAA-CTGAGGTTAGGAATTGGAAGTTATTGCTATTTCGAA
130 ATGAATGTATTTGAAGTCAAATTTTAAATC-GAGGTTAGGAATTGGAAGTTATTGATATTTCGAA
*
92401734 TTCAGAGACTAAATTGAATAAAATGTAAAACT
194 TTCAGAGACTAAATTGAATAAAATATAAAACT
92401766 TTATGTAACG
Statistics
Matches: 208, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
268 1 0.00
269 199 0.96
270 8 0.04
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (269 bp):
TTTAAGCTAGATTATAAAAAAAGACTAAATTGTAACATTTAATTGTTAGTTTTGCACATATGGAC
TAAAGTGAATAAAATGTGAAACTGTTATGAAATTTCAGTATAAATAGAAAGTAGAGGGTCCCTAA
TGAATGTATTTGAAGTCAAATTTTAAATCGAGGTTAGGAATTGGAAGTTATTGATATTTCGAATT
CAGAGACTAAATTGAATAAAATATAAAACTGATAAAGCTTTAGAAAGTTTCCTTTGTTGATTTCT
TGAAAAATA
Found at i:92402128 original size:26 final size:26
Alignment explanation
Indices: 92402099--92402181 Score: 139
Period size: 26 Copynumber: 3.2 Consensus size: 26
92402089 TGATACAAAT
*
92402099 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
92402125 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
92402151 TTATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
92402177 TGATA
1 TGATA
92402182 GGAATTTCAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:92409729 original size:17 final size:18
Alignment explanation
Indices: 92409707--92409745 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
92409697 ATTAACTATA
92409707 AAAAAAAT-GA-AACAAAG
1 AAAAAAATGGAGAA-AAAG
92409724 AAAAAAATGGAGAAAAAG
1 AAAAAAATGGAGAAAAAG
92409742 AAAA
1 AAAA
92409746 TCAAAGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 10 0.50
19 2 0.10
ACGTcount: A:0.77, C:0.03, G:0.15, T:0.05
Consensus pattern (18 bp):
AAAAAAATGGAGAAAAAG
Found at i:92411511 original size:8 final size:8
Alignment explanation
Indices: 92411500--92411537 Score: 58
Period size: 9 Copynumber: 4.5 Consensus size: 8
92411490 AAAAATTAGA
92411500 AAAAATAT
1 AAAAATAT
92411508 AAAAATTAT
1 AAAAA-TAT
92411517 AAAATATAT
1 AAAA-ATAT
92411526 AAAAATAT
1 AAAAATAT
92411534 AAAA
1 AAAA
92411538 TTTTACAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 13 0.46
9 14 0.50
10 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAATAT
Found at i:92411512 original size:18 final size:18
Alignment explanation
Indices: 92411489--92411531 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
92411479 ATGCTTTTAT
92411489 TAAAAATTAGAAAAAATA
1 TAAAAATTAGAAAAAATA
* *
92411507 TAAAAATTATAAAATATA
1 TAAAAATTAGAAAAAATA
92411525 TAAAAAT
1 TAAAAAT
92411532 ATAAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
TAAAAATTAGAAAAAATA
Found at i:92411547 original size:18 final size:17
Alignment explanation
Indices: 92411501--92411549 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
92411491 AAAATTAGAA
*
92411501 AAAATATA-AAAATTAT
1 AAAATATACAAAAATAT
*
92411517 AAAATATATAAAAATAT
1 AAAATATACAAAAATAT
*
92411534 AAAATTTTACAAAAAT
1 AAAA-TATACAAAAAT
92411550 CGTAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 8 0.29
17 11 0.39
18 9 0.32
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATATACAAAAATAT
Found at i:92411578 original size:29 final size:28
Alignment explanation
Indices: 92411545--92411630 Score: 93
Period size: 28 Copynumber: 3.0 Consensus size: 28
92411535 AAATTTTACA
*
92411545 AAAATCGTAAAAAAATTATAAAATATAT
1 AAAATCATAAAAAAATTATAAAATATAT
* *
92411573 AGAAAT-ATAAAAAAATTATAATATTTAAT
1 A-AAATCATAAAAAAATTATAAAATAT-AT
*
92411602 AAAATCATAAGAAAATTATTCAAAATATA
1 AAAATCATAAAAAAATTA-T-AAAATATA
92411631 AATAAATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
28 22 0.47
29 18 0.38
30 2 0.04
31 5 0.11
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (28 bp):
AAAATCATAAAAAAATTATAAAATATAT
Found at i:92411583 original size:28 final size:27
Alignment explanation
Indices: 92411552--92411642 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 27
92411542 ACAAAAATCG
92411552 TAAAAAAATTATAAAATATATAGAAATA
1 TAAAAAAATTATAAAATATATA-AAATA
* *
92411580 TAAAAAAATTATAATATTTAATAAAATCA
1 TAAAAAAATTATAAAATAT-ATAAAAT-A
* *
92411609 TAAGAAAATTATTCAAAATATAAATAAATA
1 TAAAAAAATTA-T-AAAATATATA-AAATA
92411639 TAAA
1 TAAA
92411643 TTTCGTAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
28 21 0.41
29 14 0.27
30 7 0.14
31 9 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (27 bp):
TAAAAAAATTATAAAATATATAAAATA
Found at i:92411606 original size:57 final size:56
Alignment explanation
Indices: 92411499--92411642 Score: 152
Period size: 57 Copynumber: 2.5 Consensus size: 56
92411489 TAAAAATTAG
* *
92411499 AAAAAA-TATAAAA-ATTATAAAATATATAAAAATATAAAATTTTACAAAAATCGTA
1 AAAAAATTATAAAATA-TATAAAATATAAAAAAATATAAAATTTTACAAAAATCATA
*
92411554 AAAAAATTATAAAATATATAGAAATATAAAAAAAT-TATAATATTTA-ATAAAATCATA
1 AAAAAATTATAAAATATATA-AAATATAAAAAAATATAAAAT-TTTACA-AAAATCATA
* *
92411611 AGAAAATTATTCAAAATATAAATAAATATAAA
1 AAAAAATTA-T-AAAATATATA-AAATATAAA
92411643 TTTCGTAAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
55 6 0.08
56 17 0.22
57 34 0.45
58 1 0.01
59 18 0.24
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (56 bp):
AAAAAATTATAAAATATATAAAATATAAAAAAATATAAAATTTTACAAAAATCATA
Found at i:92411862 original size:37 final size:38
Alignment explanation
Indices: 92411791--92411862 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
92411781 TAGGTCATTA
* *
92411791 ATTTCTTATGATTTTTATGAAAATTTACAATTTTTTTT
1 ATTTCTTATGATTTTTATAAAAAATTACAATTTTTTTT
*
92411829 ATTT-TTATGATTTTTATAAAAAATT-CAAGTTTTT
1 ATTTCTTATGATTTTTATAAAAAATTACAATTTTTT
92411863 AATAAATTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 8 0.26
37 19 0.61
38 4 0.13
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (38 bp):
ATTTCTTATGATTTTTATAAAAAATTACAATTTTTTTT
Found at i:92411929 original size:19 final size:17
Alignment explanation
Indices: 92411879--92411929 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
92411869 TTCCAAATTT
92411879 TTTATATTTTTATTAAAA
1 TTTATATTTTTA-TAAAA
*
92411897 TTTAATAATTTTATAAAA
1 TTT-ATATTTTTATAAAA
92411915 TTTATTATTTATTAT
1 TTTA-TATTT-TTAT
92411930 TTTTATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 1 0.04
18 15 0.54
19 12 0.43
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTATATTTTTATAAAA
Found at i:92411945 original size:20 final size:20
Alignment explanation
Indices: 92411917--92411954 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
92411907 TTATAAAATT
*
92411917 TATTATTTATTATTTTTATA
1 TATTATTTATAATTTTTATA
*
92411937 TATTTTTTATAATTTTTA
1 TATTATTTATAATTTTTA
92411955 ATAAAAGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TATTATTTATAATTTTTATA
Done.