Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 285 of 325
Found at i:93204175 original size:12 final size:13
Alignment explanation
Indices: 93204147--93204183 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
93204137 AATTAATTTT
*
93204147 TAATAAAAAATAT
1 TAATAAAAAATAC
93204160 TAATAAAAAAT-C
1 TAATAAAAAATAC
93204172 TAATAAAAAATA
1 TAATAAAAAATA
93204184 TTTTTAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (13 bp):
TAATAAAAAATAC
Found at i:93208503 original size:3 final size:3
Alignment explanation
Indices: 93208495--93208522 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
93208485 TCAGAAGCAC
93208495 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
93208523 AGTATTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:93217768 original size:19 final size:20
Alignment explanation
Indices: 93217734--93217776 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
93217724 CCTCTTTTTT
*
93217734 CATT-CATTTCATTCATCTG
1 CATTACATTTCATTCATATG
93217753 CATTACATTTCA-TCATATG
1 CATTACATTTCATTCATATG
93217772 CATTA
1 CATTA
93217777 AGTTTCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (20 bp):
CATTACATTTCATTCATATG
Found at i:93225909 original size:44 final size:43
Alignment explanation
Indices: 93225796--93225956 Score: 133
Period size: 44 Copynumber: 3.7 Consensus size: 43
93225786 TATCGTGATG
* * * * **
93225796 AATCTTATCTCCCTGAAGTTGCAGTTGAGTAGATTAAAGCCACA
1 AATCTCATCTCCCTGAAGTTGCAGTGGAGAAG-TTGAAGATACA
* * * ** *
93225840 AACCTTATCTCCCTAAAGTCACAGTGGAGCAAGTTGAAGTTACA
1 AATCTCATCTCCCTGAAGTTGCAGTGGAG-AAGTTGAAGATACA
* * *
93225884 AATCTCATCTCCCTGAAGTTGCAGTGAAGTAAATTGAAGATAGCG
1 AATCTCATCTCCCTGAAGTTGCAGTGGAG-AAGTTGAAGATA-CA
* *
93225929 AATCTCATTTCCCTGAAGTTGTAGTGGA
1 AATCTCATCTCCCTGAAGTTGCAGTGGA
93225957 ACGGATTAAA
Statistics
Matches: 93, Mismatches: 22, Indels: 3
0.79 0.19 0.03
Matches are distributed among these distances:
44 65 0.70
45 28 0.30
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (43 bp):
AATCTCATCTCCCTGAAGTTGCAGTGGAGAAGTTGAAGATACA
Found at i:93226178 original size:88 final size:91
Alignment explanation
Indices: 93226029--93226276 Score: 234
Period size: 88 Copynumber: 2.7 Consensus size: 91
93226019 CTACCATGGA
* * * *** * *
93226029 AAATCTTATCTCCCTGAAGTTTCAATGGAGTAGATTAAAGGCACAAACCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGCGAATCTTATCTCCCTGAAGTT
* *
93226094 -TCAGTGGAGCAGGTT-G-A-AGTTAC
66 GTC-GTGGAACAGATTAGCACAGTTAC
* *
93226117 AAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGCGAATCTTATCTCCCTGAAATT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGCGAATCTTATCTCCCTGAAGTT
93226182 GTCGTGGAACAGATTAAAGCTACGAGTTAC
66 GTCGTGGAACAGATT--AGC-AC-AGTTAC
* ** * * * * * *
93226212 AAATCTTATCTCCCTAAAGTTGCAGAAGAGCAGAGTGTAGATGCGAGTCTAATCTCCTTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGCGAATCTTATCTCCCTGAAGTT
93226277 ACATTGGAAC
Statistics
Matches: 129, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
88 65 0.50
89 2 0.02
91 1 0.01
93 1 0.01
95 60 0.47
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (91 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGCGAATCTTATCTCCCTGAAGTT
GTCGTGGAACAGATTAGCACAGTTAC
Found at i:93226189 original size:44 final size:44
Alignment explanation
Indices: 93226029--93226178 Score: 192
Period size: 44 Copynumber: 3.4 Consensus size: 44
93226019 CTACCATGGA
* * **
93226029 AAATCTTATCTCCCTGAAGTTTCAATGGAGTAGATTAAAGGCAC
1 AAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTGAAGATAC
* * * *
93226073 AAACCTTATCTCCCTGAAGTTTCAGTGGAGCAGGTTGAAGTTAC
1 AAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTGAAGATAC
* * *
93226117 AAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGC
1 AAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTGAAGATAC
*
93226161 GAATCTTATCTCCCTGAA
1 AAATCTTATCTCCCTGAA
93226179 ATTGTCGTGG
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 90 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTTCAGTGGAGTAGATTGAAGATAC
Found at i:93226196 original size:44 final size:45
Alignment explanation
Indices: 93226029--93226196 Score: 182
Period size: 44 Copynumber: 3.8 Consensus size: 45
93226019 CTACCATGGA
* * * **
93226029 AAATCTTATCTCCCTGAAGTT-TCAATGGAGTAGATTAAAGGCAC
1 AAATCTTATCTCCCTGAAGTTGTCAGTGGAGCAGATTGAAGATAC
* * *
93226073 AAACCTTATCTCCCTGAAGTT-TCAGTGGAGCAGGTTGAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGTCAGTGGAGCAGATTGAAGATAC
* * *
93226117 AAATCTCATCTCCCTGAAGTTG-CAGTGGAGTAGATTGAAGATGC
1 AAATCTTATCTCCCTGAAGTTGTCAGTGGAGCAGATTGAAGATAC
* * *
93226161 GAATCTTATCTCCCTGAAATTGTC-GTGGAACAGATT
1 AAATCTTATCTCCCTGAAGTTGTCAGTGGAGCAGATT
93226197 AAAGCTACGA
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
44 103 0.99
45 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (45 bp):
AAATCTTATCTCCCTGAAGTTGTCAGTGGAGCAGATTGAAGATAC
Found at i:93226285 original size:95 final size:95
Alignment explanation
Indices: 93226111--93226291 Score: 229
Period size: 95 Copynumber: 1.9 Consensus size: 95
93226101 AGCAGGTTGA
* ** * * *
93226111 AGTTACAAATCTCATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATGCGAATCTTATCTCCCT
1 AGTTACAAATCTCATCTCCCTAAAGTTGCAGAAGAGCAGAGTGAAGATGCGAATCTAATCTCCCT
*
93226176 GAAATTGTCGTGGAACAGATTAAAGCTACG
66 GAAATTGACGTGGAACAGATTAAAGCTACG
* * * *
93226206 AGTTACAAATCTTATCTCCCTAAAGTTGCAGAAGAGCAGAGTGTAGATGCGAGTCTAATCTCCTT
1 AGTTACAAATCTCATCTCCCTAAAGTTGCAGAAGAGCAGAGTGAAGATGCGAATCTAATCTCCCT
* *
93226271 GAAGTT-ACATTGGAACAGATT
66 GAAATTGAC-GTGGAACAGATT
93226292 GTAAATGCGA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
94 1 0.01
95 71 0.99
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (95 bp):
AGTTACAAATCTCATCTCCCTAAAGTTGCAGAAGAGCAGAGTGAAGATGCGAATCTAATCTCCCT
GAAATTGACGTGGAACAGATTAAAGCTACG
Found at i:93227818 original size:12 final size:12
Alignment explanation
Indices: 93227803--93227837 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
93227793 TTTTAAAAAC
*
93227803 TATTTTATTTAA
1 TATTTCATTTAA
93227815 TATTTCATTTAA
1 TATTTCATTTAA
93227827 TATTTCATTTA
1 TATTTCATTTA
93227838 TTTATTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTTCATTTAA
Found at i:93229662 original size:54 final size:52
Alignment explanation
Indices: 93229538--93229745 Score: 148
Period size: 52 Copynumber: 3.9 Consensus size: 52
93229528 TAATTTTTTT
* * * ** ** *
93229538 GGGTGCTAGGACACTGAT-GATCGACACTCTTGTACCAAATTAAAAATTTTTT
1 GGGTGCTAAGACACTGATAG-TCGGCACCCCAGTACCAAATTAAAAAAATTTG
** * * * * *
93229590 TTGTGCTAATACATTGATAGTCGACACCCCAGTACTAGATTTAAAATAAATTTG
1 GGGTGCTAAGACACTGATAGTCGGCACCCCAGTACCA-AATTAAAA-AAATTTG
* **
93229644 GGGTGCTAAGACACTGATAGTTGGCACCCTTGTACCAAATTAAAAAAATTTG
1 GGGTGCTAAGACACTGATAGTCGGCACCCCAGTACCAAATTAAAAAAATTTG
* * * * * * *
93229696 GGATGTTGAGACACTGATGGTCGGCACCTCAATACCATACTTAAAAAAAT
1 GGGTGCTAAGACACTGATAGTCGGCACCCCAGTACCA-AATTAAAAAAAT
93229746 ATTTTTTTGG
Statistics
Matches: 119, Mismatches: 33, Indels: 7
0.75 0.21 0.04
Matches are distributed among these distances:
52 61 0.51
53 26 0.22
54 32 0.27
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
GGGTGCTAAGACACTGATAGTCGGCACCCCAGTACCAAATTAAAAAAATTTG
Found at i:93236715 original size:15 final size:15
Alignment explanation
Indices: 93236695--93236739 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
93236685 TTATTAAATT
*
93236695 ATAATGATAGTAATA
1 ATAATGATAATAATA
93236710 ATAATGATAATAATA
1 ATAATGATAATAATA
* *
93236725 ATAACGAGAATAATA
1 ATAATGATAATAATA
93236740 CATGTGGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.29
Consensus pattern (15 bp):
ATAATGATAATAATA
Found at i:93236902 original size:3 final size:3
Alignment explanation
Indices: 93236894--93236925 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
93236884 TAAGTACAAG
93236894 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
93236926 ATACATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:93236935 original size:8 final size:7
Alignment explanation
Indices: 93236894--93236937 Score: 51
Period size: 6 Copynumber: 6.7 Consensus size: 7
93236884 TAAGTACAAG
93236894 AATAAT-
1 AATAATA
93236900 AATAAT-
1 AATAATA
93236906 AATAAT-
1 AATAATA
93236912 AATAAT-
1 AATAATA
93236918 AATAATA
1 AATAATA
93236925 AATACATA
1 AATA-ATA
93236933 AATAA
1 AATAA
93236938 ATATTTAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 24 0.67
7 5 0.14
8 7 0.19
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:93243888 original size:43 final size:45
Alignment explanation
Indices: 93243799--93243918 Score: 146
Period size: 43 Copynumber: 2.8 Consensus size: 45
93243789 TGTGATTACA
*
93243799 TGTAAGACCATGTCTGGGACATTGGCAT--TATATTCAGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATAATCAGATTATG
93243842 TGTAAGACCATGTCTGGGACATTGGCATCGT-TAATC-GATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATAATCAGATTAT-G
* *
93243885 TGTAAGACCCTGTAC-GGGACAATGGCATCG-ATAA
1 TGTAAGACCATGT-CTGGGACATTGGCATCGTATAA
93243919 ATAATAACAT
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
42 1 0.01
43 62 0.90
44 5 0.07
45 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATAATCAGATTATG
Found at i:93245770 original size:40 final size:40
Alignment explanation
Indices: 93245711--93245934 Score: 274
Period size: 40 Copynumber: 5.5 Consensus size: 40
93245701 ACCCAAGTAT
* * *
93245711 CTTCGGGATTTA-TCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* **
93245750 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
93245790 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
* * *
93245830 CTTCGGGACTTAGCCCGGGTGTGGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
* * *
93245873 CTTCGGGACTTAGCCCGGATATAGTAACTTGCAAAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
93245913 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
93245935 CATCCGAATA
Statistics
Matches: 161, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 11 0.07
40 114 0.71
41 1 0.01
43 35 0.22
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:93245894 original size:83 final size:80
Alignment explanation
Indices: 93245711--93245934 Score: 274
Period size: 83 Copynumber: 2.8 Consensus size: 80
93245701 ACCCAAGTAT
* * * *
93245711 CTTCGGGATTTA-TCCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* **
93245774 TCACTAGCATGAATGC
65 GCACTAGCACAAATGC
* *
93245790 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTGT-GG
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGG
93245854 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* * *
93245873 CTTCGGGACTTAGCCCGGATATAGTAACTTGCAAAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
93245935 CATCCGAATA
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
79 13 0.10
80 46 0.37
81 1 0.01
83 65 0.52
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGG
CACTAGCACAAATGC
Found at i:93249104 original size:26 final size:26
Alignment explanation
Indices: 93249075--93249143 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
93249065 CCCGATATAT
93249075 GGCTCTTCGTGAGCTT-CTCGATTAAA
1 GGCTCTTCGTGAGCTTCCT-GATTAAA
** *
93249101 GGCTCTTTATGAGCTTCCTGATTAAT
1 GGCTCTTCGTGAGCTTCCTGATTAAA
*
93249127 GGCTCTCCG-GAGCTTCC
1 GGCTCTTCGTGAGCTTCC
93249144 CGTTATGGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 8 0.22
26 26 0.72
27 2 0.06
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCTGATTAAA
Found at i:93249237 original size:48 final size:49
Alignment explanation
Indices: 93249185--93249293 Score: 114
Period size: 48 Copynumber: 2.2 Consensus size: 49
93249175 GGCTATCTAG
* ** *
93249185 AGCTTCCCATTAATGGCTCTTCTGAGCAACCCGTTAT-TGGCTCGCATA
1 AGCTTCCCATTAATGGCTCTTATGAGCAACCCGTTATACAGCCCGCATA
** ** *
93249233 AGCTTCTTGATT-ATGGCTCTTATGAGCTTCCCGTTATACAGCCCGGATA
1 AGCTTC-CCATTAATGGCTCTTATGAGCAACCCGTTATACAGCCCGCATA
93249282 AGCTTCCCATTA
1 AGCTTCCCATTA
93249294 TATAGCTCAC
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
48 31 0.66
49 16 0.34
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (49 bp):
AGCTTCCCATTAATGGCTCTTATGAGCAACCCGTTATACAGCCCGCATA
Found at i:93249310 original size:25 final size:25
Alignment explanation
Indices: 93249254--93249312 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
93249244 TATGGCTCTT
* **
93249254 ATGAGCTTCCCGTTATACAGCCCGG
1 ATGAGCTTCCCATTATACAGCCCAC
* * *
93249279 ATAAGCTTCCCATTATATAGCTCAC
1 ATGAGCTTCCCATTATACAGCCCAC
93249304 ATGAGCTTC
1 ATGAGCTTC
93249313 TCGCTATATT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (25 bp):
ATGAGCTTCCCATTATACAGCCCAC
Found at i:93249680 original size:55 final size:56
Alignment explanation
Indices: 93249588--93249698 Score: 179
Period size: 55 Copynumber: 1.9 Consensus size: 56
93249578 TCTTGATATT
93249588 CACATGAAGTACATGACTAACTTGTTTCTTGAGATTATATGTGTTTAGGCAAATAGTTTC
1 CACATGAAGTACATGACTAAC----TTCTTGAGATTATATGTGTTTAGGCAAATAGTTTC
93249648 CACATGAAGTACATGACTAAC-TCTTGAGATTATATGTGTTTAGGCAAATAG
1 CACATGAAGTACATGACTAACTTCTTGAGATTATATGTGTTTAGGCAAATAG
93249699 CCAAATTTTC
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
55 30 0.59
60 21 0.41
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (56 bp):
CACATGAAGTACATGACTAACTTCTTGAGATTATATGTGTTTAGGCAAATAGTTTC
Found at i:93252548 original size:25 final size:25
Alignment explanation
Indices: 93252514--93252565 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
93252504 AAGAAAATAC
93252514 CTTACCGGTAATAATCTCGAGTAAA
1 CTTACCGGTAATAATCTCGAGTAAA
93252539 CTTACCGGTAATAATCTCGAGTAAA
1 CTTACCGGTAATAATCTCGAGTAAA
93252564 CT
1 CT
93252566 CTCGAAGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
CTTACCGGTAATAATCTCGAGTAAA
Found at i:93258316 original size:20 final size:20
Alignment explanation
Indices: 93258300--93258347 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
93258290 TGATTGTTTG
93258300 AAAAATAATTTGCTTG-TAC
1 AAAAATAATTTGCTTGTTAC
*
93258319 ATAAATAATTTGCTTGTGTAC
1 AAAAATAATTTGCTTGT-TAC
*
93258340 ATAAATAA
1 AAAAATAA
93258348 ATAAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 15 0.58
21 11 0.42
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (20 bp):
AAAAATAATTTGCTTGTTAC
Found at i:93258324 original size:19 final size:21
Alignment explanation
Indices: 93258302--93258347 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
93258292 ATTGTTTGAA
93258302 AAATAATTTGC-T-TGTACAT
1 AAATAATTTGCTTGTGTACAT
93258321 AAATAATTTGCTTGTGTACAT
1 AAATAATTTGCTTGTGTACAT
93258342 AAATAA
1 AAATAA
93258348 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 11 0.44
20 1 0.04
21 13 0.52
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (21 bp):
AAATAATTTGCTTGTGTACAT
Found at i:93258349 original size:4 final size:4
Alignment explanation
Indices: 93258340--93258373 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
93258330 GCTTGTGTAC
*
93258340 ATAA ATAA ATAA ATAAA ATGA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA A
93258374 GGCTCAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:93259108 original size:5 final size:5
Alignment explanation
Indices: 93259098--93259135 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
93259088 TAGGAAAATC
93259098 TTATT TTATT TTA-T TTATTT TTATTT TTATT TTATT TT
1 TTATT TTATT TTATT TTA-TT TTA-TT TTATT TTATT TT
93259136 TGATTTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.13
5 17 0.55
6 10 0.32
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTATT
Found at i:93260539 original size:21 final size:21
Alignment explanation
Indices: 93260513--93260565 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
93260503 GGATTACATT
93260513 GTGAAAAGTGTAAAATGTGGG
1 GTGAAAAGTGTAAAATGTGGG
93260534 GTGAAAAGTGTAAAATGTGGG
1 GTGAAAAGTGTAAAATGTGGG
*
93260555 GTTAAAAGTGT
1 GTGAAAAGTGT
93260566 GAATAAATGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (21 bp):
GTGAAAAGTGTAAAATGTGGG
Found at i:93261150 original size:43 final size:43
Alignment explanation
Indices: 93261053--93261199 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 43
93261043 ATCGAGATAT
* * *
93261053 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGGCTGGGACATTGGCATCGTAATGA
*
93261096 GATTACATGTAAGACCATGGCTGGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGGCTGGGACATTGGCATCG-TAATGA
* * * * * * * *
93261139 GATTTCGTGTAAGACCTTGTCCGGGACAGTAGCATCGATAAATAA
1 GATTACATGTAAGACCATGGCTGGGACATTGGCATCG-T-AATGA
93261184 GA--ACATGTAAGACCAT
1 GATTACATGTAAGACCAT
93261200 ATCTGGGATA
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
43 77 0.91
44 6 0.07
45 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (43 bp):
GATTACATGTAAGACCATGGCTGGGACATTGGCATCGTAATGA
Found at i:93266246 original size:113 final size:111
Alignment explanation
Indices: 93266101--93266420 Score: 421
Period size: 112 Copynumber: 2.9 Consensus size: 111
93266091 GCACTAGAGA
* * * * *
93266101 CATTT-AAAAAAAATTGGGTGCTGGCAAATAGATGGCCGACACTAAGTATATTTTTCTGCTCTCA
1 CATTTAAAAAAAAATTGGGTGCTGGCAAGTAGATGGCCGGCACCAAGTATATTTTTCGGCTCCCA
*
93266165 AGGCTTTTTTTTTTTTACTTTGGGACACTGATAGCCGGCACCAATGT
66 AGGC-TTTTTTTTTTTACTTTGGGACACTGATAGCCAGCACCAATGT
* *
93266212 CATTTTAAAAAAAAAATGGGTGCTGGCAAGTAGATAGCCGGCACCAAGTATATGTTTT-GGCTCC
1 CA-TTTAAAAAAAAATTGGGTGCTGGCAAGTAGATGGCCGGCACCAAGTATAT-TTTTCGGCTCC
* * *
93266276 CAAGACTTTTTTTTTTTACTTTGGGACACTGATGGCCAGCACCGATGT
64 CAAGGCTTTTTTTTTTTACTTTGGGACACTGATAGCCAGCACCAATGT
* * *
93266324 CATTTAAAAAAAATTTTGGGTGCGGGCCAGTAGATGGCCGGCACCAAGTATA-TTTTCGGCTCCC
1 CATTTAAAAAAAA-ATTGGGTGCTGGCAAGTAGATGGCCGGCACCAAGTATATTTTTCGGCTCCC
* * *
93266388 AATGCACTTTTTTTTTTACTTTGGGACATTGAT
65 AAGGC-TTTTTTTTTTTACTTTGGGACACTGAT
93266421 TGTTGGCACC
Statistics
Matches: 183, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
110 4 0.02
111 23 0.13
112 102 0.56
113 50 0.27
114 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (111 bp):
CATTTAAAAAAAAATTGGGTGCTGGCAAGTAGATGGCCGGCACCAAGTATATTTTTCGGCTCCCA
AGGCTTTTTTTTTTTACTTTGGGACACTGATAGCCAGCACCAATGT
Found at i:93270870 original size:26 final size:26
Alignment explanation
Indices: 93270839--93270907 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
93270829 CTTATAAACG
93270839 TCCCGA-TATATGGCTCTTCATGAGCT
1 TCCCGATTA-ATGGCTCTTCATGAGCT
* **
93270865 TCCCGATTAAAGGCTCTTTGTGAGCT
1 TCCCGATTAATGGCTCTTCATGAGCT
*
93270891 TCCTGATTAATGGCTCT
1 TCCCGATTAATGGCTCT
93270908 CCGGAGCTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 35 0.95
27 2 0.05
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (26 bp):
TCCCGATTAATGGCTCTTCATGAGCT
Found at i:93270919 original size:26 final size:26
Alignment explanation
Indices: 93270850--93270922 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
93270840 CCCGATATAT
* *
93270850 GGCTCTTCATGAGCTTCCCGATTAAA
1 GGCTCTCCGTGAGCTTCCCGATTAAA
** * *
93270876 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTCCGTGAGCTTCCCGATTAAA
*
93270902 GGCTCTCCG-GAGCTTTCCGAT
1 GGCTCTCCGTGAGCTTCCCGAT
93270923 ATGACTCGCT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
25 10 0.26
26 29 0.74
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.34
Consensus pattern (26 bp):
GGCTCTCCGTGAGCTTCCCGATTAAA
Found at i:93276655 original size:21 final size:21
Alignment explanation
Indices: 93276632--93276670 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
93276622 AAATTATCTT
93276632 TTTTTTC-CATTTAAATTTAA
1 TTTTTTCTCATTTAAATTTAA
*
93276652 TTTTTTCTCATTTCAATTT
1 TTTTTTCTCATTTAAATTT
93276671 TTTTCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTTCTCATTTAAATTTAA
Found at i:93276655 original size:22 final size:22
Alignment explanation
Indices: 93276616--93276670 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
93276606 TCATTCCATT
* *
93276616 TCATTTAAA-TTATCTTTTTTT
1 TCATTTAAATTTATATTTTTTC
93276637 TCCATTTAAATTTA-ATTTTTTC
1 T-CATTTAAATTTATATTTTTTC
*
93276659 TCATTTCAATTT
1 TCATTTAAATTT
93276671 TTTTCATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 11 0.38
22 15 0.52
23 3 0.10
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (22 bp):
TCATTTAAATTTATATTTTTTC
Found at i:93276673 original size:18 final size:18
Alignment explanation
Indices: 93276630--93276726 Score: 58
Period size: 18 Copynumber: 5.2 Consensus size: 18
93276620 TTAAATTATC
*
93276630 TTTTTTTTC-CATTTAAA
1 TTTTTTTTCTCATTTCAA
93276647 TTTAATTTTTTCTCATTTCAA
1 -TT--TTTTTTCTCATTTCAA
*
93276668 -TTTTTTTCAT-ATAGCTCATA
1 TTTTTTTTC-TCAT--TTCA-A
* *
93276688 TTTTTTTTTTCATTTCAG
1 TTTTTTTTCTCATTTCAA
93276706 TTTTTGTTT-TCATTTCAA
1 TTTTT-TTTCTCATTTCAA
93276724 TTT
1 TTT
93276727 ATAATTTATT
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
17 9 0.14
18 19 0.30
19 10 0.16
20 9 0.14
21 16 0.25
ACGTcount: A:0.20, C:0.12, G:0.03, T:0.65
Consensus pattern (18 bp):
TTTTTTTTCTCATTTCAA
Found at i:93276818 original size:28 final size:27
Alignment explanation
Indices: 93276751--93276821 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
93276741 TTTAAACTTC
* *
93276751 CATTCCATTTCATAATAATTACAAATT
1 CATTTCATTTCATATTAATTACAAATT
93276778 CATTTCATTTCATATTAATTACAAATT
1 CATTTCATTTCATATTAATTACAAATT
93276805 ACATTTCATTTCATATT
1 -CATTTCATTTCATATT
93276822 TATTTAACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 25 0.61
28 16 0.39
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (27 bp):
CATTTCATTTCATATTAATTACAAATT
Found at i:93276939 original size:17 final size:17
Alignment explanation
Indices: 93276917--93276954 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
93276907 GTAGTCTCAT
93276917 TTCAATTTTTTTTTCAA
1 TTCAATTTTTTTTTCAA
93276934 TTCAATTTTTTTTTCAA
1 TTCAATTTTTTTTTCAA
93276951 TTCA
1 TTCA
93276955 TTTCATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (17 bp):
TTCAATTTTTTTTTCAA
Found at i:93277284 original size:28 final size:27
Alignment explanation
Indices: 93277247--93277323 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 27
93277237 TTTTGTTTTC
*
93277247 ATTTCATTTTCATTTCCATTT-CATTTA
1 ATTTC-TTTTCATTTCCATTTAAATTTA
**
93277274 ATTTATCTTTTTTTTTCCATTTAAATTTA
1 A-TT-TCTTTTCATTTCCATTTAAATTTA
*
93277303 ATTTCTTTCTCATTTCAATTT
1 ATTTCTTT-TCATTTCCATTT
93277324 TTTTCTCATT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
27 6 0.15
28 26 0.65
29 8 0.20
ACGTcount: A:0.22, C:0.16, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTCTTTTCATTTCCATTTAAATTTA
Found at i:93277290 original size:22 final size:22
Alignment explanation
Indices: 93277265--93277374 Score: 68
Period size: 22 Copynumber: 5.0 Consensus size: 22
93277255 TTCATTTCCA
93277265 TTTCATTTAATTTATCTTTTTT
1 TTTCATTTAATTTATCTTTTTT
* *
93277287 TTTCCATTTAAATTTA-ATTTCTT
1 TTT-CATTT-AATTTATCTTTTTT
* *
93277310 TCTCATTTCAATTT-T-TTTCTCAT
1 TTTCATTT-AATTTATCTTT-T-TT
*
93277333 TTT-ATTTAAGTTATC-TTTTT
1 TTTCATTTAATTTATCTTTTTT
* *
93277353 TTCCATTTTAATTTATGTTTTT
1 TTTCA-TTTAATTTATCTTTTT
93277375 CCCATATTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 19
0.68 0.12 0.20
Matches are distributed among these distances:
20 3 0.05
21 9 0.14
22 29 0.44
23 19 0.29
24 6 0.09
ACGTcount: A:0.20, C:0.12, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTCATTTAATTTATCTTTTTT
Found at i:93277322 original size:17 final size:16
Alignment explanation
Indices: 93277298--93277339 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
93277288 TTCCATTTAA
93277298 ATTTAATTTCTTTCTC
1 ATTTAATTTCTTTCTC
*
93277314 ATTTCAATTTTTTTCTC
1 ATTT-AATTTCTTTCTC
*
93277331 ATTTTATTT
1 ATTTAATTT
93277340 AAGTTATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTAATTTCTTTCTC
Found at i:93277379 original size:21 final size:21
Alignment explanation
Indices: 93277349--93277389 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
93277339 TAAGTTATCT
* *
93277349 TTTTTTCCATTTTAATTTATG
1 TTTTTCCCATATTAATTTATG
93277370 TTTTTCCCATATTAATTTAT
1 TTTTTCCCATATTAATTTAT
93277390 ATATTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTTCCCATATTAATTTATG
Found at i:93277396 original size:23 final size:21
Alignment explanation
Indices: 93277349--93277396 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
93277339 TAAGTTATCT
* * *
93277349 TTTTTTCCATTTTAATTTATG
1 TTTTTCCCATATTAATTTATA
93277370 TTTTTCCCATATTAATTTATA
1 TTTTTCCCATATTAATTTATA
93277391 TATTTT
1 T-TTTT
93277397 AATCTTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.10, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTTCCCATATTAATTTATA
Found at i:93280668 original size:51 final size:50
Alignment explanation
Indices: 93280604--93280703 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 50
93280594 TCTGATAAAT
*
93280604 TTGGTGCCAGCCATC-TGATTCCCAAAATTAAG-AAAACTAATTTTTTAATAC
1 TTGGTGCCAGCCATCATG-TT-CCAAAA-TAAGAAAAAATAATTTTTTAATAC
* *
93280655 TTGGTGCCGGCCATCAATGTTCCAAAATAAGAAAAAATATTTTTTTAAT
1 TTGGTGCCAGCCATC-ATGTTCCAAAATAAGAAAAAATAATTTTTTAAT
93280704 CTAATAAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
50 4 0.09
51 35 0.81
52 2 0.05
53 2 0.05
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (50 bp):
TTGGTGCCAGCCATCATGTTCCAAAATAAGAAAAAATAATTTTTTAATAC
Found at i:93281093 original size:118 final size:116
Alignment explanation
Indices: 93280785--93281143 Score: 404
Period size: 120 Copynumber: 3.0 Consensus size: 116
93280775 TAGTGTTGGC
*
93280785 GCCATCAGTGTCCCAAAG-T--AAAAAAAAAAGTGCATTGGGAGCTGAAAAATGTACTTGGTGCC
1 GCCATCAGTGTCCCAAAGTTAAAAAAAAAAAAGTGCATTGGGAGCTAAAAAATGTACTTGGTGCC
* * * ** *
93280847 GATCATCTACTGGCTAACATCGAAAATTTTTTTTTAAATGACACTGATGCCG
66 GACCATCTACTGGCCAGCA-CCCAAATTTTTTTTTAAATGACACTGGTGCCG
*
93280899 GCCATCAGTGTCCCAAAGTAAAAAAAAAGTAAAAAAGTGCATTGGGAG-TAGAAAAATGTACTTG
1 GCCATCAGTGTCCCAAAGT--TAAAAAA--AAAAAAGTGCATTGGGAGCTA-AAAAATGTACTTG
*
93280963 GTGCCGACCATCTACTGGCCAGCACCCAAATTTTTTTTTAAATGACACTGGTGCAG
61 GTGCCGACCATCTACTGGCCAGCACCCAAATTTTTTTTTAAATGACACTGGTGCCG
* * *
93281019 GCCATCAGTATCCCAAAGTTAAATAATAAAAAAAGTGTC-TTGGGAGCCAAAAAATGTACTTGAT
1 GCCATCAGTGTCCCAAAGTTAAA-AA-AAAAAAAGTG-CATTGGGAGCTAAAAAATGTACTTGGT
* * ** * * * *
93281083 GTCGGCCATCTGTTGGTCAGTACCCTAAATTTTTTTTCTAAATGCCTCTGGTGCCG
63 GCCGACCATCTACTGGCCAGCACCC-AAATTTTTTTT-TAAATGACACTGGTGCCG
93281139 GCCAT
1 GCCAT
93281144 TACATGGTCA
Statistics
Matches: 209, Mismatches: 22, Indels: 22
0.83 0.09 0.09
Matches are distributed among these distances:
114 18 0.09
118 52 0.25
119 19 0.09
120 68 0.33
121 52 0.25
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (116 bp):
GCCATCAGTGTCCCAAAGTTAAAAAAAAAAAAGTGCATTGGGAGCTAAAAAATGTACTTGGTGCC
GACCATCTACTGGCCAGCACCCAAATTTTTTTTTAAATGACACTGGTGCCG
Found at i:93283799 original size:18 final size:17
Alignment explanation
Indices: 93283775--93283809 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
93283765 ATTAAGAGTT
93283775 ATTTTTTTAACTTCATG
1 ATTTTTTTAACTTCATG
*
93283792 ATTTTTTTAACTTTATG
1 ATTTTTTTAACTTCATG
93283809 A
1 A
93283810 ATTATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.60
Consensus pattern (17 bp):
ATTTTTTTAACTTCATG
Found at i:93283941 original size:15 final size:14
Alignment explanation
Indices: 93283916--93283947 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
93283906 TTTATTAAAT
93283916 ATTTTAAAAAAAAA
1 ATTTTAAAAAAAAA
*
93283930 ATTTTGAAAAAAAA
1 ATTTTAAAAAAAAA
93283944 ATTT
1 ATTT
93283948 AATAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
ATTTTAAAAAAAAA
Found at i:93285700 original size:23 final size:24
Alignment explanation
Indices: 93285661--93285706 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
93285651 ATATTATGTG
**
93285661 ATTATATATAATTTATT-TTTAAT
1 ATTATATATAAAATATTGTTTAAT
93285684 ATTATATATAAAATATTGTTTAA
1 ATTATATATAAAATATTGTTTAA
93285707 AAATGTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTATATATAAAATATTGTTTAAT
Found at i:93285796 original size:18 final size:18
Alignment explanation
Indices: 93285756--93285803 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
93285746 TTTTTTTTAA
* *
93285756 AAAAATAAAATATTATAT
1 AAAAATAAAAAAGTATAT
* *
93285774 GAAAATAAAAAAGTATCT
1 AAAAATAAAAAAGTATAT
93285792 AAAAATAAAAAA
1 AAAAATAAAAAA
93285804 AAGTATTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAAATAAAAAAGTATAT
Found at i:93285963 original size:20 final size:20
Alignment explanation
Indices: 93285940--93285977 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
93285930 AAAAAAAATT
*
93285940 AAAATATTATATAAAAATAA
1 AAAAAATTATATAAAAATAA
*
93285960 AAAAAATTATCTAAAAAT
1 AAAAAATTATATAAAAAT
93285978 TTTAAAAAAG
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:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAATTATATAAAAATAA
Found at i:93285984 original size:20 final size:20
Alignment explanation
Indices: 93285931--93285985 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
93285921 TTAAATTTTA
*
93285931 AAAAAAATTAAAATATTATAT
1 AAAAATATTAAAA-ATTATAT
** *
93285952 AAAAATAAAAAAAATTATCT
1 AAAAATATTAAAAATTATAT
*
93285972 AAAAATTTTAAAAA
1 AAAAATATTAAAAA
93285986 AGTATTTAAC
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATATTAAAAATTATAT
Found at i:93286068 original size:182 final size:178
Alignment explanation
Indices: 93285683--93286129 Score: 718
Period size: 182 Copynumber: 2.5 Consensus size: 178
93285673 TTATTTTTAA
* * * *
93285683 TATT-ATATATAAAATATTGTTTAAAAATGTAAACAAATCATATATAATATGTAAATAATTCAAT
1 TATTCATAAATAAAATATTGTTTAAAATTTTAAACAAATCATATATAATATATAAATAATT-AA-
* * *
93285747 TTTTTTTAAAAAAA-TAAAATATTATATGAAAATAAAAAAGTATCTAAAAATAAAAAAAAGTATT
64 -ATTTTAAAAAAAATTAAAATATTATATAAAAATAAAAAAGTATCTAAAAATAAAAAAAAGTATT
93285811 TAACTTTTAAAAATTGAAAAAACTTAATTTTCAAAAATACATTCTAATTTT
128 TAACTTTTAAAAATTGAAAAAACTTAATTTTCAAAAATACATTCTAATTTT
93285862 TATTCATAAATAAAATATTGTTTAAAATTTTAAACAAATCATATATAATATATAAATAATTAAAT
1 TATTCATAAATAAAATATTGTTTAAAATTTTAAACAAATCATATATAATATATAAATAATTAAAT
* **
93285927 TTTAAAAAAAATTAAAATATTATATAAAAATAAAAAAAATTATCTAAAAATTTTAAAAAAGTATT
66 TTTAAAAAAAATTAAAATATTATATAAAAAT--AAAAAAGTATCTAAAAA-TAAAAAAAAGTATT
*
93285992 TAACTTTTAAAATTTGAAAAAACTTAATTTTTCAAAAATACATTCTAATTTT
128 TAACTTTTAAAAATTGAAAAAACTTAA-TTTTCAAAAATACATTCTAATTTT
93286044 TATTCATAAATAAAATATTGTTTAAAATTTTAAACAAATCATATATAATATATAAATAATTAAAT
1 TATTCATAAATAAAATATTGTTTAAAATTTTAAACAAATCATATATAATATATAAATAATTAAAT
93286109 TTTAAAAAAAATTAAAATATT
66 TTTAAAAAAAATTAAAATATT
93286130 TTTTTTCATA
Statistics
Matches: 251, Mismatches: 11, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
177 11 0.04
178 18 0.07
179 6 0.02
180 68 0.27
181 38 0.15
182 110 0.44
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.38
Consensus pattern (178 bp):
TATTCATAAATAAAATATTGTTTAAAATTTTAAACAAATCATATATAATATATAAATAATTAAAT
TTTAAAAAAAATTAAAATATTATATAAAAATAAAAAAGTATCTAAAAATAAAAAAAAGTATTTAA
CTTTTAAAAATTGAAAAAACTTAATTTTCAAAAATACATTCTAATTTT
Found at i:93286337 original size:23 final size:23
Alignment explanation
Indices: 93286299--93286369 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 23
93286289 TTTTTATATA
93286299 ATATTT-TA-ATTTTTAAACTTT
1 ATATTTATATATTTTTAAACTTT
*
93286320 ATATTTATATATTTTTAAATTTT
1 ATATTTATATATTTTTAAACTTT
** *
93286343 ATA-AAATATATTTTTTAACTTT
1 ATATTTATATATTTTTAAACTTT
93286365 -TATTT
1 ATATTT
93286370 TTTTGAATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
21 8 0.20
22 17 0.43
23 15 0.38
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATTTATATATTTTTAAACTTT
Found at i:93286351 original size:22 final size:23
Alignment explanation
Indices: 93286307--93286367 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
93286297 TAATATTTTA
* **
93286307 ATTTTTAAACTTTATATTTATAT
1 ATTTTTAAATTTTATATAAATAT
93286330 ATTTTTAAATTTTATA-AAATAT
1 ATTTTTAAATTTTATATAAATAT
*
93286352 ATTTTTTAACTTTTAT
1 A-TTTTTAAATTTTAT
93286368 TTTTTTGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 5 0.15
23 28 0.85
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTTTAAATTTTATATAAATAT
Found at i:93286956 original size:17 final size:17
Alignment explanation
Indices: 93286934--93287021 Score: 65
Period size: 14 Copynumber: 5.0 Consensus size: 17
93286924 CTTGGGCAGT
93286934 AGAAGAATAAGAGAAAA
1 AGAAGAATAAGAGAAAA
93286951 AGAAGAATAAGAGAAGAAACAA
1 AGAAGAAT-A-AG-AG-AA-AA
* *
93286973 AGAAGAAGAATAAGAAAA
1 AGAAGAATAA-GAGAAAA
* *
93286991 AGAAGAGTATGAG---A
1 AGAAGAATAAGAGAAAA
93287005 AGAAGAATAAGAGAAAA
1 AGAAGAATAAGAGAAAA
93287022 TGGAAGGAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
14 12 0.22
17 11 0.20
18 10 0.19
19 4 0.07
20 5 0.09
21 3 0.06
22 9 0.17
ACGTcount: A:0.67, C:0.01, G:0.25, T:0.07
Consensus pattern (17 bp):
AGAAGAATAAGAGAAAA
Found at i:93293194 original size:89 final size:86
Alignment explanation
Indices: 93293043--93293220 Score: 284
Period size: 89 Copynumber: 2.0 Consensus size: 86
93293033 CACCTCACCC
* *
93293043 AATTATAGTTTTAATCTTTTATTTACGCAGTGGTGTATTTTTCTTAAGGAATGAACTTGACTTGG
1 AATTATAGTTTTAATCTTTTATTTACGCAGCGGTGTATTTTTCTTAAGGAATAAACTTGACTTGG
*
93293108 AATACCTATATTTTAAATAAGTTA
66 -A-A-CTATATTTTAAATAAATTA
* *
93293132 AATTATAGTTTTAATCTTTTATTTATGCAGCGGTGTATTTTTCTTAAGGTATAAACTTGACTTGG
1 AATTATAGTTTTAATCTTTTATTTACGCAGCGGTGTATTTTTCTTAAGGAATAAACTTGACTTGG
93293197 AACTATATTTTAAATAAATTA
66 AACTATATTTTAAATAAATTA
93293218 AAT
1 AAT
93293221 ATGTACGGAA
Statistics
Matches: 84, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
86 21 0.25
87 1 0.01
88 1 0.01
89 61 0.73
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (86 bp):
AATTATAGTTTTAATCTTTTATTTACGCAGCGGTGTATTTTTCTTAAGGAATAAACTTGACTTGG
AACTATATTTTAAATAAATTA
Found at i:93293264 original size:19 final size:19
Alignment explanation
Indices: 93293242--93293304 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
93293232 ATTTATATTA
93293242 TTTTACTAAATTAATTAAT
1 TTTTACTAAATTAATTAAT
*
93293261 TTTTAC-ACAATATAATTTTAT
1 TTTTACTA-AAT-TAA-TTAAT
* * *
93293282 TTTGAATAAGTTAATTAAT
1 TTTTACTAAATTAATTAAT
93293301 TTTT
1 TTTT
93293305 GTCCAATATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
18 1 0.03
19 16 0.47
20 6 0.18
21 10 0.29
22 1 0.03
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTACTAAATTAATTAAT
Found at i:93293298 original size:40 final size:39
Alignment explanation
Indices: 93293239--93293323 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 39
93293229 AAAATTTATA
*
93293239 TTATTTTACTAAATTAATTAATTTTT-ACACAATATAATT
1 TTATTTTAATAAATTAATTAATTTTTGAC-CAATATAATT
* *
93293278 TTATTTTGAATAAGTTAATTAATTTTTGTCCAATATAATT
1 TTATTTT-AATAAATTAATTAATTTTTGACCAATATAATT
93293318 TCTATT
1 T-TATT
93293324 AGTAAAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
39 7 0.17
40 28 0.70
41 5 0.12
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (39 bp):
TTATTTTAATAAATTAATTAATTTTTGACCAATATAATT
Found at i:93299308 original size:20 final size:21
Alignment explanation
Indices: 93299285--93299336 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
93299275 TAAAAATTCC
* *
93299285 AAAATT-TATATTTTTTTGAA
1 AAAATTATAAATTTTTTTAAA
93299305 AAAATTATAAATTTTTTTAAA
1 AAAATTATAAATTTTTTTAAA
*
93299326 AAAATTCTAAA
1 AAAATTATAAA
93299337 GAATATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
AAAATTATAAATTTTTTTAAA
Found at i:93302160 original size:44 final size:44
Alignment explanation
Indices: 93302112--93302198 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
93302102 AAGTAAAATA
* *
93302112 GAAGTTGTGCTAATTATACATTTAAAAATAATTATAATATAATC
1 GAAGTTGTGATAATAATACATTTAAAAATAATTATAATATAATC
* * *
93302156 GAAGTTGTTATAATAATACATTTTAAAATAATTATAATTTAAT
1 GAAGTTGTGATAATAATACATTTAAAAATAATTATAATATAAT
93302199 ATACATTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (44 bp):
GAAGTTGTGATAATAATACATTTAAAAATAATTATAATATAATC
Found at i:93312812 original size:6 final size:6
Alignment explanation
Indices: 93312797--93312827 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
93312787 GTGAAACTAA
*
93312797 ATGTGC ATGTGT ATGTGT ATGTGT ATGTGT A
1 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT A
93312828 ATAATATGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.03, G:0.32, T:0.45
Consensus pattern (6 bp):
ATGTGT
Found at i:93314547 original size:19 final size:19
Alignment explanation
Indices: 93314523--93314562 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
93314513 TATACATTTT
93314523 AACTTT-TACTTATTATAAA
1 AACTTTCTACTTATT-TAAA
*
93314542 AACTTTCTAGTTATTTAAA
1 AACTTTCTACTTATTTAAA
93314561 AA
1 AA
93314563 TAATTTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (19 bp):
AACTTTCTACTTATTTAAA
Found at i:93320905 original size:15 final size:15
Alignment explanation
Indices: 93320882--93320911 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
93320872 TCCAGTGACA
93320882 CCACAGCCTCCACCT
1 CCACAGCCTCCACCT
*
93320897 CCACCGCCTCCACCT
1 CCACAGCCTCCACCT
93320912 AATAGAACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.63, G:0.07, T:0.13
Consensus pattern (15 bp):
CCACAGCCTCCACCT
Found at i:93334943 original size:46 final size:46
Alignment explanation
Indices: 93334833--93335099 Score: 277
Period size: 46 Copynumber: 5.6 Consensus size: 46
93334823 TTTGACATGA
* * *
93334833 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGT
1 TGCCATAGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
*
93334883 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* *
93334929 TGCCATAGTGTCTTTCAACTATGGTCTTACGCATTCATTTTC-TGTCACGT
1 TGCCATAGTATCTTTCAACCATGGTCTT----ATTC-TTTTCATGTCACGT
** * *
93334979 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* ** * * *
93335025 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
*
93335071 TGCCATGGTATCTTTCAACCATGGTCTTA
1 TGCCATAGTATCTTTCAACCATGGTCTTA
93335100 CACATTTCAT
Statistics
Matches: 195, Mismatches: 15, Indels: 18
0.86 0.07 0.08
Matches are distributed among these distances:
45 9 0.05
46 118 0.61
47 1 0.01
49 1 0.01
50 61 0.31
51 5 0.03
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
Found at i:93334997 original size:96 final size:95
Alignment explanation
Indices: 93334833--93335113 Score: 408
Period size: 96 Copynumber: 3.0 Consensus size: 95
93334823 TTTGACATGA
*
93334833 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTAC-CATTCATTTTCTGTCACGTTGCCATGGTATCTTT
** * *
93334898 CAACCATGGTCTTATTCTTTTCATGTCACGT
65 CAACCATGGTCTTACACATTTCATATCACGT
*
93334929 TGCCATAGTGTCTTTCAACTATGGTCTTACGCATTCATTTTCTGTCACGTTGCCATAGTATCTTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTAC-CATTCATTTTCTGTCACGTTGCCATGGTATCTTT
93334994 CAACCATGGTCTTACACATTTCATATCACGT
65 CAACCATGGTCTTACACATTTCATATCACGT
* * * * *
93335025 TGCCATGGTATCTTTCAACCATGGTCTTA-CA--CA-TTTCATATCAGGTTGCCATGGTATCTTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACCATTCATTTTC-TGTCACGTTGCCATGGTATCTTT
93335086 CAACCATGGTCTTACACATTTCATATCA
65 CAACCATGGTCTTACACATTTCATATCA
93335114 GATAGCACAC
Statistics
Matches: 171, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
91 4 0.02
92 50 0.29
94 2 0.01
96 115 0.67
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (95 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTACCATTCATTTTCTGTCACGTTGCCATGGTATCTTTC
AACCATGGTCTTACACATTTCATATCACGT
Found at i:93335046 original size:142 final size:144
Alignment explanation
Indices: 93334833--93335105 Score: 381
Period size: 142 Copynumber: 1.9 Consensus size: 144
93334823 TTTGACATGA
* * * *
93334833 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
1 TGCCATAGTATCTTTCAACCATGGTCTTAC-CA-TCATTTTCTATCACGTTGCCATGGTATCTTT
** * * * * *
93334898 CAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATAGTGTCTTTCAACTATGGTCTTACGCAT
64 CAACCATGGTCTTACACATTTCATATCACGTTGCCATAGTATCTTTCAACCATGGTCTTACACAT
93334963 TCATTTTCTGTCACGT
129 TCATTTTCTGTCACGT
93334979 TGCCATAGTATCTTTCAACCATGGTCTTA-CA-CA-TTTCATATCACGTTGCCATGGTATCTTTC
1 TGCCATAGTATCTTTCAACCATGGTCTTACCATCATTTTC-TATCACGTTGCCATGGTATCTTTC
* *
93335041 AACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
65 AACCATGGTCTTACACATTTCATATCACGTTGCCATAGTATCTTTCAACCATGGTCTTACACATT
93335106 TCATATCAGA
Statistics
Matches: 113, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
141 4 0.04
142 80 0.71
144 2 0.02
146 27 0.24
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (144 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACCATCATTTTCTATCACGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACATTTCATATCACGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTC
ATTTTCTGTCACGT
Found at i:93335114 original size:46 final size:46
Alignment explanation
Indices: 93334881--93335113 Score: 324
Period size: 46 Copynumber: 5.0 Consensus size: 46
93334871 TTTCTGTCAT
** * *
93334881 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* * * *
93334927 GTTGCCATAGTGTCTTTCAACTATGGTCTTACGCATTCATTTTC-TGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCAC
*
93334977 GTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
*
93335023 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
93335069 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
93335114 GATAGCACAC
Statistics
Matches: 170, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
45 4 0.02
46 124 0.73
48 2 0.01
50 36 0.21
51 4 0.02
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
Found at i:93337207 original size:16 final size:17
Alignment explanation
Indices: 93337186--93337218 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
93337176 AAATCCAATT
93337186 TTTCCC-TTTTTCCTTC
1 TTTCCCTTTTTTCCTTC
93337202 TTTCCCTTTTTTCCTTC
1 TTTCCCTTTTTTCCTTC
93337219 CTTCTTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTCCCTTTTTTCCTTC
Found at i:93337291 original size:16 final size:17
Alignment explanation
Indices: 93337260--93337305 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 17
93337250 TCATCCTTTC
*
93337260 TTTCTTTTTCTATTCTT
1 TTTCTTTTTATATTCTT
93337277 TTTCTTTTTAT-TTCTT
1 TTTCTTTTTATATTCTT
*
93337293 TTACTTTTTATAT
1 TTTCTTTTTATAT
93337306 ATATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCTTTTTATATTCTT
Found at i:93337294 original size:10 final size:10
Alignment explanation
Indices: 93337256--93337293 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
93337246 GGTTTCATCC
93337256 TTTCTTTCTT
1 TTTCTTTCTT
93337266 TTTCTATTCTT
1 TTTCT-TTCTT
93337277 TTTCTTT-TT
1 TTTCTTTCTT
93337286 ATTTCTTT
1 -TTTCTTT
93337294 TACTTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.08
10 14 0.54
11 10 0.38
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:93337533 original size:27 final size:27
Alignment explanation
Indices: 93337496--93337550 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
93337486 GCCCGTTTGG
*
93337496 CCCCTAGCCCAAAACCCATTTTCTAAC
1 CCCCTAGCCCAAAACCCATCTTCTAAC
* *
93337523 CCCCTAGCCCAAAATCTATCTTCTAAC
1 CCCCTAGCCCAAAACCCATCTTCTAAC
93337550 C
1 C
93337551 TACAAAGCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.44, G:0.04, T:0.24
Consensus pattern (27 bp):
CCCCTAGCCCAAAACCCATCTTCTAAC
Found at i:93337981 original size:17 final size:17
Alignment explanation
Indices: 93337959--93337992 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
93337949 ATCCCGTCAA
*
93337959 TCTTTTTTTATTTATTT
1 TCTTTTATTATTTATTT
93337976 TCTTTTATTATTTATTT
1 TCTTTTATTATTTATTT
93337993 ATTTATTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (17 bp):
TCTTTTATTATTTATTT
Found at i:93338701 original size:25 final size:23
Alignment explanation
Indices: 93338649--93338712 Score: 58
Period size: 25 Copynumber: 2.7 Consensus size: 23
93338639 ACCATTTTTT
*
93338649 TATTTTAAATATTATTGATTATTC
1 TATTTT-ACTATTATTGATTATTC
**
93338673 TATTTTTGTATTATT-ATTATTAGC
1 TATTTTACTATTATTGATTATT--C
93338697 ATATTTTACTATTATT
1 -TATTTTACTATTATT
93338713 TAGACATCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
22 6 0.18
23 7 0.21
24 7 0.21
25 13 0.39
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (23 bp):
TATTTTACTATTATTGATTATTC
Found at i:93338914 original size:9 final size:9
Alignment explanation
Indices: 93338896--93338933 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
93338886 ATATATTTTT
*
93338896 TTATAAATA
1 TTATATATA
93338905 TTATATATA
1 TTATATATA
93338914 TT-TAATATA
1 TTAT-ATATA
93338923 TTATATATA
1 TTATATATA
93338932 TT
1 TT
93338934 GTGTACATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 1 0.04
9 24 0.92
10 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TTATATATA
Found at i:93339373 original size:12 final size:12
Alignment explanation
Indices: 93339351--93339401 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
93339341 ATATATTGTA
*
93339351 TATTCTTACTAT
1 TATTATTACTAT
*
93339363 TATCATTACTA-
1 TATTATTACTAT
*
93339374 TATTTATTATTAT
1 TA-TTATTACTAT
*
93339387 TATTATTATTAT
1 TATTATTACTAT
93339399 TAT
1 TAT
93339402 AGCAATCCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 2 0.06
12 29 0.88
13 2 0.06
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:93339385 original size:3 final size:3
Alignment explanation
Indices: 93339377--93339401 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
93339367 ATTACTATAT
93339377 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
93339402 AGCAATCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:93345628 original size:50 final size:51
Alignment explanation
Indices: 93345525--93345641 Score: 173
Period size: 50 Copynumber: 2.3 Consensus size: 51
93345515 TGAGTACTTC
* *
93345525 TGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
1 TGATAAGTGACAAATGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
* *
93345576 TGATAAGTGACAAATGATAAGTGGTAG-CTTAGCTACTCTTATCTGATCAG
1 TGATAAGTGACAAATGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
* *
93345626 TGACAAGTGATAAATG
1 TGATAAGTGACAAATG
93345642 TGATCAGTGT
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 35 0.58
51 25 0.42
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
TGATAAGTGACAAATGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAG
Found at i:93349507 original size:46 final size:46
Alignment explanation
Indices: 93349397--93349663 Score: 277
Period size: 46 Copynumber: 5.6 Consensus size: 46
93349387 TTTGACATGA
* * * *
93349397 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
*
93349447 TGCTATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
* * *
93349493 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTC-TTTTCATGTCACGT
** * *
93349543 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
** * * *
93349589 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
93349635 TGCCATGGTATCTTTCAACCATGGTCTTA
1 TGCCATGGTATCTTTCAACCATGGTCTTA
93349664 CACATTTCAT
Statistics
Matches: 193, Mismatches: 17, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
45 9 0.05
46 116 0.60
47 3 0.02
49 3 0.02
50 57 0.30
51 5 0.03
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
Found at i:93349561 original size:96 final size:96
Alignment explanation
Indices: 93349397--93349677 Score: 428
Period size: 96 Copynumber: 3.0 Consensus size: 96
93349387 TTTGACATGA
*
93349397 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCTATGGTATCTTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
** * *
93349462 CAACCATGGTCTTATTCTTTTCATGTCACGT
66 CAACCATGGTCTTACACATTTCATATCACGT
*
93349493 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCACGTTGCCATGGTATCTTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
93349558 CAACCATGGTCTTACACATTTCATATCACGT
66 CAACCATGGTCTTACACATTTCATATCACGT
* * * *
93349589 TGCCATGGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCATGTTGCCATGGTATCTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGTTGCCATGGTATCTT
93349649 TCAACCATGGTCTTACACATTTCATATCA
65 TCAACCATGGTCTTACACATTTCATATCA
93349678 GATAGCACAC
Statistics
Matches: 173, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
91 4 0.02
92 51 0.29
94 2 0.01
96 116 0.67
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (96 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTCTGTCATGTTGCCATGGTATCTTT
CAACCATGGTCTTACACATTTCATATCACGT
Found at i:93349664 original size:46 final size:46
Alignment explanation
Indices: 93349445--93349677 Score: 324
Period size: 46 Copynumber: 5.0 Consensus size: 46
93349435 TTTCTGTCAT
* ** * *
93349445 GTTGCTATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* * * *
93349491 GTTGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCAC
93349541 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
*
93349587 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
93349633 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
93349678 GATAGCACAC
Statistics
Matches: 169, Mismatches: 12, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
45 4 0.02
46 124 0.73
48 2 0.01
50 35 0.21
51 4 0.02
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
Found at i:93351759 original size:17 final size:16
Alignment explanation
Indices: 93351739--93351778 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
93351729 AATTTTTCCC
*
93351739 TTTTTCCTTCTTTCCTT
1 TTTTTCCTTCCTT-CTT
93351756 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
93351772 TCTTTCC
1 TTTTTCC
93351779 CCTGCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:93351838 original size:16 final size:17
Alignment explanation
Indices: 93351807--93351852 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
93351797 TCATCCTTTC
*
93351807 TTTCTTTTTCTATTCTT
1 TTTCTTTTTATATTCTT
93351824 TTTCTTTTTAT-TTCTT
1 TTTCTTTTTATATTCTT
* *
93351840 TTACTTTATATAT
1 TTTCTTTTTATAT
93351853 ATATATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTTTATATTCTT
Found at i:93351841 original size:10 final size:10
Alignment explanation
Indices: 93351803--93351840 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
93351793 GGTTTCATCC
93351803 TTTCTTTCTT
1 TTTCTTTCTT
93351813 TTTCTATTCTT
1 TTTCT-TTCTT
93351824 TTTCTTT-TT
1 TTTCTTTCTT
93351833 ATTTCTTT
1 -TTTCTTT
93351841 TACTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.08
10 14 0.54
11 10 0.38
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:93360848 original size:19 final size:19
Alignment explanation
Indices: 93360807--93360848 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
93360797 GATTTGTTTT
*
93360807 TTTATTTTTGAATTATAGT
1 TTTATTTTTGAATTATAGA
93360826 TTTATTTTATGAATT-TAGA
1 TTTATTTT-TGAATTATAGA
93360845 TTTA
1 TTTA
93360849 AAAAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.62
Consensus pattern (19 bp):
TTTATTTTTGAATTATAGA
Found at i:93364331 original size:2 final size:2
Alignment explanation
Indices: 93364324--93364350 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
93364314 AATTTTAAAT
93364324 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
93364351 TTTTATACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93368462 original size:20 final size:21
Alignment explanation
Indices: 93368423--93368462 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
93368413 AGTGTTTGCT
* *
93368423 TTCCGTTTAGCTCTTATGAGC
1 TTCCGTTTAACTCATATGAGC
93368444 TTCCG-TTAACTCATATGAG
1 TTCCGTTTAACTCATATGAG
93368463 TTTCAGTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (21 bp):
TTCCGTTTAACTCATATGAGC
Found at i:93368547 original size:21 final size:21
Alignment explanation
Indices: 93368522--93368586 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
93368512 TAGCCTTCGG
*
93368522 GCTTCCGTTTAGCAGTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
93368543 GCTTCAG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
93368561 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
93368582 GCTTC
1 GCTTC
93368587 AGCTAGACTT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 7 0.21
19 7 0.21
20 8 0.24
21 12 0.35
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:93368548 original size:39 final size:39
Alignment explanation
Indices: 93368504--93368604 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
93368494 GCTCTGATGA
*
93368504 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCAGTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
93368543 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
93368582 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
93368605 AGATCACGAT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.13, C:0.26, G:0.25, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:93370312 original size:24 final size:25
Alignment explanation
Indices: 93370277--93370324 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 25
93370267 TTTAAAATCT
93370277 TTTTCATAAATATTTCAAAAAAAAG
1 TTTTCATAAATATTTCAAAAAAAAG
93370302 TTTTCAT-AATATTTCAAAAAAAA
1 TTTTCATAAATATTTCAAAAAAAA
93370325 AAAGTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (25 bp):
TTTTCATAAATATTTCAAAAAAAAG
Found at i:93370325 original size:25 final size:26
Alignment explanation
Indices: 93370277--93370334 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 26
93370267 TTTAAAATCT
93370277 TTTTCATAAATATTTC-AAAAAAAAG
1 TTTTCATAAATATTTCAAAAAAAAAG
93370302 TTTTCAT-AATATTTCAAAAAAAAAAAG
1 TTTTCATAAATATTTC--AAAAAAAAAG
93370329 TTTTCA
1 TTTTCA
93370335 AGTAAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.27
25 7 0.23
27 15 0.50
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (26 bp):
TTTTCATAAATATTTCAAAAAAAAAG
Found at i:93378689 original size:14 final size:15
Alignment explanation
Indices: 93378670--93378700 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
93378660 CTTTGAACTC
93378670 ATGTCATAAT-ATAT
1 ATGTCATAATAATAT
93378684 ATGTCATAATAATAT
1 ATGTCATAATAATAT
93378699 AT
1 AT
93378701 ATTATGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (15 bp):
ATGTCATAATAATAT
Found at i:93395255 original size:19 final size:18
Alignment explanation
Indices: 93395231--93395272 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
93395221 TATTAGTAGT
*
93395231 AATAATAATAATAATAGAA
1 AATAATAACAATAATA-AA
*
93395250 AATAATAACAATATTAAA
1 AATAATAACAATAATAAA
93395268 AATAA
1 AATAA
93395273 CACTCTTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AATAATAACAATAATAAA
Found at i:93395667 original size:22 final size:22
Alignment explanation
Indices: 93395636--93395715 Score: 110
Period size: 22 Copynumber: 3.6 Consensus size: 22
93395626 TTTGTAGGCA
*
93395636 AGTGGAGTGGTTAGGGAT-GTTT
1 AGTGGGGTGGTT-GGGATGGTTT
*
93395658 AGTGGGGTGGTTGGGGTGGTTT
1 AGTGGGGTGGTTGGGATGGTTT
93395680 AGTGGGGTGGTT-GGAGTGGTTT
1 AGTGGGGTGGTTGGGA-TGGTTT
93395702 AGTGGGGTGGTTGG
1 AGTGGGGTGGTTGG
93395716 AGTGAAGATA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
21 6 0.12
22 45 0.87
23 1 0.02
ACGTcount: A:0.10, C:0.00, G:0.55, T:0.35
Consensus pattern (22 bp):
AGTGGGGTGGTTGGGATGGTTT
Found at i:93395687 original size:13 final size:13
Alignment explanation
Indices: 93395654--93395713 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 13
93395644 GGTTAGGGAT
93395654 GTTTAGTGGGGTG
1 GTTTAGTGGGGTG
93395667 G--T--TGGGGTG
1 GTTTAGTGGGGTG
93395676 GTTTAGTGGGGTG
1 GTTTAGTGGGGTG
*
93395689 G--T--TGGAGTG
1 GTTTAGTGGGGTG
93395698 GTTTAGTGGGGTG
1 GTTTAGTGGGGTG
93395711 GTT
1 GTT
93395714 GGAGTGAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 16
0.67 0.04 0.29
Matches are distributed among these distances:
9 15 0.41
11 4 0.11
13 18 0.49
ACGTcount: A:0.07, C:0.00, G:0.55, T:0.38
Consensus pattern (13 bp):
GTTTAGTGGGGTG
Found at i:93395716 original size:22 final size:22
Alignment explanation
Indices: 93395654--93395719 Score: 123
Period size: 22 Copynumber: 3.0 Consensus size: 22
93395644 GGTTAGGGAT
*
93395654 GTTTAGTGGGGTGGTTGGGGTG
1 GTTTAGTGGGGTGGTTGGAGTG
93395676 GTTTAGTGGGGTGGTTGGAGTG
1 GTTTAGTGGGGTGGTTGGAGTG
93395698 GTTTAGTGGGGTGGTTGGAGTG
1 GTTTAGTGGGGTGGTTGGAGTG
93395720 AAGATATTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.08, C:0.00, G:0.56, T:0.36
Consensus pattern (22 bp):
GTTTAGTGGGGTGGTTGGAGTG
Found at i:93395835 original size:16 final size:15
Alignment explanation
Indices: 93395794--93395838 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
93395784 CTTTGGAGGT
** *
93395794 TGTTGGGTTTTGGGC
1 TGTTGGGTTTTTAGA
93395809 TGTTGGGTTTTTAGA
1 TGTTGGGTTTTTAGA
93395824 TGTTGGGCTTTTTAG
1 TGTTGGG-TTTTTAG
93395839 CCCGGGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.07, C:0.04, G:0.38, T:0.51
Consensus pattern (15 bp):
TGTTGGGTTTTTAGA
Found at i:93396577 original size:206 final size:206
Alignment explanation
Indices: 93396209--93397292 Score: 1900
Period size: 206 Copynumber: 5.3 Consensus size: 206
93396199 CAAATCTGCT
* * * *
93396209 TCTTCAATTTGTTACTTGTAAGCACAAGGATGCCAAATCGTCTTGGATCTTGCTTCTGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCTGTATAAAC
* * *
93396274 ATCTGAAGGCCAGATCTGCTATGTATCTGCTTTCCGTCGAAATGGAGATACCAAACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
*
93396339 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACACGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
* *
93396404 AATTAGCTATA
196 AATCAGCTATG
**
93396415 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAATATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCTGTATAAAC
* *
93396480 ATCTAAAGGCCAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
*
93396545 TTCTCTGAAAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
*
93396610 AATCAGCTATA
196 AATCAGCTATG
*
93396621 TCTTCGATTTGCTCATTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCTGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCTGTATAAAC
*
93396686 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCTTCGAAATGGAGATGCCAGACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
93396751 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
93396816 AATCAGCTATG
196 AATCAGCTATG
**
93396827 TCTTCGATTTGCTTATTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCTGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCTGTATAAAC
93396892 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
*
93396957 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAACGTAAGCACGCGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
93397022 AATCAGCTATG
196 AATCAGCTATG
* * * *
93397033 TCTTCGATTTGCTCCTTGCAAGCATAAGGATGCCAAATCATATTGGATCTTGCTTCAGTATAAAC
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCTGTATAAAC
*
93397098 ATCTGAAGGCCAAATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
66 ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
93397163 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
131 TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
93397228 AATCAGCTATG
196 AATCAGCTATG
* * *
93397239 TCTTCGATTTGCTCCTTGGAAGTACAAGGATGCCAAACCATCTTGGATC-TGCTT
1 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTT
93397293 TAGCCAGATC
Statistics
Matches: 840, Mismatches: 38, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
205 5 0.01
206 835 0.99
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (206 bp):
TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCTGTATAAAC
ATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGACTTCGACTTG
TTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCACGCGAAAGCCA
AATCAGCTATG
Found at i:93406649 original size:23 final size:23
Alignment explanation
Indices: 93406623--93406707 Score: 73
Period size: 23 Copynumber: 3.6 Consensus size: 23
93406613 ACAAAAAAAG
93406623 AAAATATAATAATAATAATAGTA
1 AAAATATAATAATAATAATAGTA
* * *
93406646 AAAATACAATAGTAATAATAATGA
1 AAAATATAATAATAATAATAGT-A
* *
93406670 AAATGTATTATAAT-ATAATAGTA
1 AAA-ATATAATAATAATAATAGTA
* *
93406693 ACAATGATGATAATA
1 AAAAT-ATAATAATA
93406708 GTGGTATTAG
Statistics
Matches: 47, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
22 1 0.02
23 29 0.62
24 11 0.23
25 6 0.13
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (23 bp):
AAAATATAATAATAATAATAGTA
Found at i:93407018 original size:13 final size:13
Alignment explanation
Indices: 93407000--93407032 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
93406990 AAAAGAAACC
93407000 TCTTTTGCTTTGA
1 TCTTTTGCTTTGA
93407013 TCTTTTGCTTTGA
1 TCTTTTGCTTTGA
93407026 TCTTTTG
1 TCTTTTG
93407033 ATTAATCTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.06, C:0.15, G:0.15, T:0.64
Consensus pattern (13 bp):
TCTTTTGCTTTGA
Found at i:93407167 original size:22 final size:21
Alignment explanation
Indices: 93407136--93407206 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 21
93407126 TTTGTAGGCA
*
93407136 AGTGGAGTGGTTAGGATGGTTT
1 AGTGGGGTGGTT-GGATGGTTT
*
93407158 AGTGGGGTGGTTGGGGTGGTTT
1 AGTGGGGTGGTT-GGATGGTTT
93407180 AGTGGGGTGGTTGGAGTGGTTT
1 AGTGGGGTGGTTGGA-TGGTTT
93407202 AGTGG
1 AGTGG
93407207 AGTAGTTTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 2 0.05
22 42 0.95
ACGTcount: A:0.11, C:0.00, G:0.54, T:0.35
Consensus pattern (21 bp):
AGTGGGGTGGTTGGATGGTTT
Found at i:93407185 original size:13 final size:13
Alignment explanation
Indices: 93407152--93407226 Score: 67
Period size: 13 Copynumber: 6.4 Consensus size: 13
93407142 GTGGTTAGGA
93407152 TGGTTTAGTGGGG
1 TGGTTTAGTGGGG
93407165 TGG--T--TGGGG
1 TGGTTTAGTGGGG
93407174 TGGTTTAGTGGGG
1 TGGTTTAGTGGGG
*
93407187 TGG--T--TGGAG
1 TGGTTTAGTGGGG
*
93407196 TGGTTTAGTGGAG
1 TGGTTTAGTGGGG
*
93407209 TAGTTTAGTGGGG
1 TGGTTTAGTGGGG
93407222 TGGTT
1 TGGTT
93407227 GGAGTGAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
9 15 0.30
11 4 0.08
13 31 0.62
ACGTcount: A:0.09, C:0.00, G:0.52, T:0.39
Consensus pattern (13 bp):
TGGTTTAGTGGGG
Found at i:93407352 original size:16 final size:15
Alignment explanation
Indices: 93407311--93407355 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
93407301 CTTTGGAGGT
** *
93407311 TGTTGGGTTTTGGGC
1 TGTTGGGTTTTTAGA
93407326 TGTTGGGTTTTTAGA
1 TGTTGGGTTTTTAGA
93407341 TGTTGGGCTTTTTAG
1 TGTTGGG-TTTTTAG
93407356 CCCGGGCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.07, C:0.04, G:0.38, T:0.51
Consensus pattern (15 bp):
TGTTGGGTTTTTAGA
Found at i:93408226 original size:29 final size:29
Alignment explanation
Indices: 93408194--93408251 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
93408184 ACACCCACAA
* *
93408194 GTAGGGTTGTAAATAAACTAAGCTTGAAT
1 GTAGGGCTATAAATAAACTAAGCTTGAAT
*
93408223 GTAGGGCTATAAATGAACTAAGCTTGAAT
1 GTAGGGCTATAAATAAACTAAGCTTGAAT
93408252 AAATAAACCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (29 bp):
GTAGGGCTATAAATAAACTAAGCTTGAAT
Found at i:93418190 original size:27 final size:27
Alignment explanation
Indices: 93418160--93418228 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
93418150 AAAGAATGCC
* *
93418160 AAATTGTACATAAATAAATTTTAAAGA
1 AAATTATACATAAATAAATTTAAAAGA
*
93418187 AAA-TATATATACAATAAATTTAAAAGA
1 AAATTATACATA-AATAAATTTAAAAGA
*
93418214 AAATATTTACATAAA
1 AAAT-TATACATAAA
93418229 ATAATTTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
26 6 0.18
27 20 0.59
28 2 0.06
29 6 0.18
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (27 bp):
AAATTATACATAAATAAATTTAAAAGA
Found at i:93420176 original size:44 final size:43
Alignment explanation
Indices: 93420123--93420273 Score: 114
Period size: 44 Copynumber: 3.5 Consensus size: 43
93420113 AGTCTGCTTC
*
93420123 CTGCGACTTCAGGAAGATAAGACTTGCATATTGAGCCTGCTCCA
1 CTGCAACTTCAGGAAGATAAGACTTGCATATTGA-CCTGCTCCA
* * ** *
93420167 CTGCAACTTCAGGGAGATAAGGCTTGTCACT-TCAACCTACTCCA
1 CTGCAACTTCAGGAAGATAAGACTTG-CA-TATTGACCTGCTCCA
* ** * *
93420211 CAGCAACTTCAAGG-AGATAAGGTTTGC-TA-TGATCTGCTCAA
1 CTGCAACTTC-AGGAAGATAAGACTTGCATATTGACCTGCTCCA
*
93420252 CTGCCACTTCA-GAGAGATAAGA
1 CTGCAACTTCAGGA-AGATAAGA
93420274 TATGTTTATT
Statistics
Matches: 85, Mismatches: 16, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 23 0.27
43 1 0.01
44 51 0.60
45 7 0.08
46 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (43 bp):
CTGCAACTTCAGGAAGATAAGACTTGCATATTGACCTGCTCCA
Found at i:93420186 original size:176 final size:175
Alignment explanation
Indices: 93419758--93420188 Score: 524
Period size: 176 Copynumber: 2.4 Consensus size: 175
93419748 CTCTACATCC
* * * * *
93419758 TCAGTCTGCTTCATTGCGACTTCAGGGAGATAAAATTTGTAATTTTGAACCTGCTCCACTGCAAC
1 TCAGTCTGCTTC-CTGCGACTTCAGGAAGATAAGACTTG-AATATTGAACCTGCTCCACTGCAAC
* * * *
93419823 TTCAGGGAGACAAGGATGGTGGCTTAAATCTGCTCCATTGCCGAACACAGAGATAAGACTCACCG
64 TTCAGGGAGATAAGGATGGTAGCTTAAATCTGCTCCATTACCGAACACAGAGATAAAACTCACCG
** *
93419888 TCTTTGATCAACTCCACTACTGCTTAGTGAGATAAGATCTGTAAATT
129 TCTACGATCAACTCCACTACTGCTTAGGGAGATAAGATCTGTAAATT
* * * * * * * *
93419935 TCAGTCTGCTTCCTGCAACTTCAGGAAGACAAGACTTGTATCTTCAACCTGCTCTC-TTGCTACC
1 TCAGTCTGCTTCCTGCGACTTCAGGAAGATAAGACTTGAATATTGAACCTGCTC-CACTGCAACT
* * * ** *
93419999 TCAGAGAGATAAGGTTGGTAG-TTAAAATCTGCTCCATTATCGATACATGGAGATAAAATTCACC
65 TCAGGGAGATAAGGATGGTAGCTT-AAATCTGCTCCATTACCGA-ACACAGAGATAAAACTCACC
** *
93420063 GTCTACGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT
128 GTCTACGATCAACTCCACTACTGCTTAGGGAGATAAGATCTGTAAATT
* *
93420111 TCAGTCTGCTTCCTGCGACTTCAGGAAGATAAGACTTGCATATTGAGCCTGCTCCACTGCAACTT
1 TCAGTCTGCTTCCTGCGACTTCAGGAAGATAAGACTTGAATATTGAACCTGCTCCACTGCAACTT
93420176 CAGGGAGATAAGG
66 CAGGGAGATAAGG
93420189 CTTGTCACTT
Statistics
Matches: 212, Mismatches: 38, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
174 2 0.01
175 53 0.25
176 145 0.68
177 12 0.06
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (175 bp):
TCAGTCTGCTTCCTGCGACTTCAGGAAGATAAGACTTGAATATTGAACCTGCTCCACTGCAACTT
CAGGGAGATAAGGATGGTAGCTTAAATCTGCTCCATTACCGAACACAGAGATAAAACTCACCGTC
TACGATCAACTCCACTACTGCTTAGGGAGATAAGATCTGTAAATT
Found at i:93420358 original size:45 final size:44
Alignment explanation
Indices: 93420289--93420413 Score: 146
Period size: 45 Copynumber: 2.8 Consensus size: 44
93420279 TTATTTATAG
* * *
93420289 CTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TT-CGCTA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTAC-C-A
* *
93420333 TCTTCAGTCTGCTCCTCTACAACTTCAGGGAGATAAGACTTACCA
1 -CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTACCA
* *
93420378 CTTTAACCTGCTCCACTACAACTTCAGGGAGATAAG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAG
93420414 GTTTGTAATC
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
44 32 0.46
45 33 0.48
46 3 0.04
47 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTACCA
Found at i:93425198 original size:21 final size:21
Alignment explanation
Indices: 93425156--93425199 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
93425146 GAAATGCAAG
* * *
93425156 AAAATAATATTTGCTTAAAAT
1 AAAAGAATATTTACTCAAAAT
*
93425177 AAAAGAATATTTACTCAGAAT
1 AAAAGAATATTTACTCAAAAT
93425198 AA
1 AA
93425200 GACATAAAGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAGAATATTTACTCAAAAT
Found at i:93432638 original size:27 final size:27
Alignment explanation
Indices: 93432608--93432676 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
93432598 AAAGAATGCC
* *
93432608 AAATTGTACATAAATAAATTTTAAAGA
1 AAATTATACATAAATAAATTTAAAAGA
*
93432635 AAA-TATATATACAATAAATTTAAAAGA
1 AAATTATACATA-AATAAATTTAAAAGA
*
93432662 AAATATTTACATAAA
1 AAAT-TATACATAAA
93432677 ATAATTTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
26 6 0.18
27 20 0.59
28 2 0.06
29 6 0.18
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (27 bp):
AAATTATACATAAATAAATTTAAAAGA
Found at i:93439802 original size:14 final size:14
Alignment explanation
Indices: 93439783--93439812 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
93439773 TTATATCGAG
93439783 ACCAATCCAATTCA
1 ACCAATCCAATTCA
93439797 ACCAATCCAATTCA
1 ACCAATCCAATTCA
93439811 AC
1 AC
93439813 ATATTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (14 bp):
ACCAATCCAATTCA
Found at i:93458809 original size:12 final size:12
Alignment explanation
Indices: 93458789--93458820 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
93458779 ATTAGTTTAT
93458789 TTTTC-TTTTTC
1 TTTTCTTTTTTC
93458800 TTTTCTTTTTTC
1 TTTTCTTTTTTC
93458812 TTTT-TTTTT
1 TTTTCTTTTT
93458821 ATTAATTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:93461944 original size:23 final size:22
Alignment explanation
Indices: 93461898--93461945 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
93461888 TACGTTTTTT
*
93461898 ATTTTAAATAATATATTTTATA
1 ATTTTAAATAATATATTATATA
93461920 ATTTTAAA-AATATATATATACTA
1 ATTTTAAATAATATAT-TATA-TA
93461943 ATT
1 ATT
93461946 ATATCAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 11 0.48
23 5 0.22
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTTAAATAATATATTATATA
Found at i:93462748 original size:17 final size:16
Alignment explanation
Indices: 93462726--93462760 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
93462716 ATTTATCTAA
93462726 ATATATTCAATGATTTT
1 ATATATT-AATGATTTT
*
93462743 ATATATTTATGATTTT
1 ATATATTAATGATTTT
93462759 AT
1 AT
93462761 TTGTGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (16 bp):
ATATATTAATGATTTT
Found at i:93463233 original size:2 final size:2
Alignment explanation
Indices: 93463222--93463260 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
93463212 ACAAACACAC
*
93463222 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93463261 AGGATAATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:93468520 original size:18 final size:17
Alignment explanation
Indices: 93468478--93468521 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
93468468 AAAATATTAT
*
93468478 ATTATATTTAAGAAATAA
1 ATTAT-TTTAAAAAATAA
*
93468496 ATAATTTTAAAAAATAAA
1 ATTATTTTAAAAAAT-AA
93468514 ATTATTTT
1 ATTATTTT
93468522 TATCAACCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
ATTATTTTAAAAAATAA
Found at i:93469525 original size:22 final size:21
Alignment explanation
Indices: 93469484--93469527 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
93469474 AAATAATTTA
93469484 TAATTAATTGTAAATTTAAAAT
1 TAATTAATTGTAAA-TTAAAAT
93469506 TAATTAATTTGTAACA-TAAAAT
1 TAATTAA-TTGTAA-ATTAAAAT
93469528 ATTGTTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 6 0.30
24 1 0.05
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (21 bp):
TAATTAATTGTAAATTAAAAT
Found at i:93471161 original size:21 final size:21
Alignment explanation
Indices: 93471135--93471177 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
93471125 CTTAACGGGA
93471135 TAGTTGACGTGGCCAGTTAAC
1 TAGTTGACGTGGCCAGTTAAC
*
93471156 TAGTTGATGTGGCCAGTTAAC
1 TAGTTGACGTGGCCAGTTAAC
93471177 T
1 T
93471178 TGCCACATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (21 bp):
TAGTTGACGTGGCCAGTTAAC
Found at i:93471262 original size:22 final size:22
Alignment explanation
Indices: 93471237--93471287 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
93471227 GGTTGAGGTA
* *
93471237 AAAATAAGAATAGGAGAAGAAG
1 AAAAGAAGAAGAGGAGAAGAAG
93471259 AAAAGAAGAAGAGGAGAAGAAG
1 AAAAGAAGAAGAGGAGAAGAAG
*
93471281 AATAGAA
1 AAAAGAA
93471288 AATGGAGGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (22 bp):
AAAAGAAGAAGAGGAGAAGAAG
Found at i:93472285 original size:20 final size:22
Alignment explanation
Indices: 93472260--93472301 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
93472250 ACGAAGCTCC
*
93472260 TTCCA-TT-TTCTCTTTTTCTT
1 TTCCATTTCTTCTCTTATTCTT
93472280 TTCCATTTCTTCTCTTATTCTT
1 TTCCATTTCTTCTCTTATTCTT
93472302 CTTTTTCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.07, C:0.26, G:0.00, T:0.67
Consensus pattern (22 bp):
TTCCATTTCTTCTCTTATTCTT
Found at i:93474034 original size:43 final size:43
Alignment explanation
Indices: 93473982--93474069 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
93473972 AAAACATCGC
* * *
93473982 AAAAGATCATGTTCTTTAGCGGTGTTTGT-AGTAAAAGTGCCTCT
1 AAAAGATCATGTTCTATAGCGGCGTTTGTGAG-AAAA-TGCCACT
*
93474026 AAAA-ATCATGTTCTATAGTGGCGTTTGTGAGAAAATGCCACT
1 AAAAGATCATGTTCTATAGCGGCGTTTGTGAGAAAATGCCACT
93474068 AA
1 AA
93474070 CATTAATAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 8 0.21
43 25 0.64
44 6 0.15
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (43 bp):
AAAAGATCATGTTCTATAGCGGCGTTTGTGAGAAAATGCCACT
Found at i:93476544 original size:44 final size:41
Alignment explanation
Indices: 93476417--93476606 Score: 177
Period size: 41 Copynumber: 4.6 Consensus size: 41
93476407 AATATTCGTA
* * *
93476417 GCGTTTATGGGCAAAACGCCGCTATTGCTTTACCTTTAGAG
1 GCGTTTATGGGAAAAACGCCGCTATTGTTTTACCTTTAGCG
* * ** * *
93476458 GCGTATATGAGAAAAATACTGCTATTGTTTTACCTTTTGCG
1 GCGTTTATGGGAAAAACGCCGCTATTGTTTTACCTTTAGCG
*
93476499 GCGTTTATGGGAAAAACGCGGCTATTGTTGTTATACCTTTAGCG
1 GCGTTTATGGGAAAAACGCCGCTATTG-T-TT-TACCTTTAGCG
* * * * *
93476543 GCGTTTA-GGGAAAAATGACGCTATT-TCTTTACTTTTTGTG
1 GCGTTTATGGGAAAAACGCCGCTATTGT-TTTACCTTTAGCG
**
93476583 GTATTTATGGGAAAAACGCCGCTA
1 GCGTTTATGGGAAAAACGCCGCTA
93476607 ACGTTGCTCC
Statistics
Matches: 119, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
40 13 0.11
41 71 0.60
42 1 0.01
43 17 0.14
44 17 0.14
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (41 bp):
GCGTTTATGGGAAAAACGCCGCTATTGTTTTACCTTTAGCG
Found at i:93476590 original size:84 final size:82
Alignment explanation
Indices: 93476420--93476606 Score: 218
Period size: 84 Copynumber: 2.3 Consensus size: 82
93476410 ATTCGTAGCG
*
93476420 TTTATGGGCAAAACGCCGCTATTGCTTTACCTTTAGAGGCGTATATGAGAAAAATACTGCTATTG
1 TTTATGGGAAAAACGCCGCTATTGCTTTACCTTTAGAGGCGTATATGAGAAAAATACTGCTATTG
*
93476485 TTTTACCTTTTGCGGCG
66 TTTTACCTTTTGCGGCA
* * * * *
93476502 TTTATGGGAAAAACGCGGCTATTGTTGTTATACCTTTAGCGGCGTTTA-GGGAAAAATGAC-GCT
1 TTTATGGGAAAAACGCCGCTATTG--CTT-TACCTTTAGAGGCGTATATGAGAAAAAT-ACTGCT
* * *
93476565 ATT-TCTTTACTTTTTGTGGTA
62 ATTGT-TTTACCTTTTGCGGCA
93476586 TTTATGGGAAAAACGCCGCTA
1 TTTATGGGAAAAACGCCGCTA
93476607 ACGTTGCTCC
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
82 22 0.25
83 1 0.01
84 48 0.54
85 18 0.20
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (82 bp):
TTTATGGGAAAAACGCCGCTATTGCTTTACCTTTAGAGGCGTATATGAGAAAAATACTGCTATTG
TTTTACCTTTTGCGGCA
Found at i:93478502 original size:22 final size:22
Alignment explanation
Indices: 93478457--93478499 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
93478447 ATTAAATCTC
*
93478457 TTAAAATCTTAAAAAATTTTAA
1 TTAAAATCTTAAAAAATTTAAA
*
93478479 TTAAAATCTT-CAAAATTTAAA
1 TTAAAATCTTAAAAAATTTAAA
93478500 ATTTCTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (22 bp):
TTAAAATCTTAAAAAATTTAAA
Done.