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 226 of 378
Found at i:66966933 original size:46 final size:45
Alignment explanation
Indices: 66966883--66967058 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
66966873 TGTTTGGGCA
66966883 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
66966929 TCCGAACTCGTTGAGTTGAGTCCAAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
66966976 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
66967022 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66967059 GCAGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:66967017 original size:93 final size:93
Alignment explanation
Indices: 66966879--66967050 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
66966869 AGGATGTTTG
* *
66966879 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
66966944 TTGAGTCCAAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
* *
66966972 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
66967037 TTGAGTCCGAGTTC
66 TTGAGTCCAAGTTC
66967051 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:66972756 original size:15 final size:15
Alignment explanation
Indices: 66972736--66972765 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
66972726 GGTATAAAAG
66972736 TAATCTTATTTTGAT
1 TAATCTTATTTTGAT
66972751 TAATCTTATTTTGAT
1 TAATCTTATTTTGAT
66972766 ATAACAGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.60
Consensus pattern (15 bp):
TAATCTTATTTTGAT
Found at i:66989206 original size:29 final size:28
Alignment explanation
Indices: 66989173--66989273 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
66989163 ATAGTGAATC
*
66989173 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
*
66989202 CGCACACTTAATGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
66989230 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
66989260 CGCACACTTAGTGC
1 CGCACACTTAGTGC
66989274 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 4 0.06
28 22 0.35
29 17 0.27
30 19 0.31
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:66991191 original size:28 final size:28
Alignment explanation
Indices: 66991150--66991243 Score: 143
Period size: 28 Copynumber: 3.4 Consensus size: 28
66991140 GTGTCCATGA
* * *
66991150 CCCGTGTTTCCCACACGACCATGACTAG
1 CCCGTGTCTCCCACATGGCCATGACTAG
*
66991178 CCCATGTCTCCCACATGGCCATGACTAG
1 CCCGTGTCTCCCACATGGCCATGACTAG
*
66991206 CTCGTGTCTCCCACATGGCCATGACTAG
1 CCCGTGTCTCCCACATGGCCATGACTAG
66991234 CCCGTGTCTC
1 CCCGTGTCTC
66991244 AGCTCGTGTG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.18, C:0.39, G:0.19, T:0.23
Consensus pattern (28 bp):
CCCGTGTCTCCCACATGGCCATGACTAG
Found at i:66992327 original size:48 final size:48
Alignment explanation
Indices: 66992269--66992552 Score: 259
Period size: 48 Copynumber: 5.9 Consensus size: 48
66992259 GGTGAATTAT
* * * *
66992269 CGATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATGTCGAGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGC
* * * ** * * *
66992317 CGATGGCATGTTCCAAACATTGTCTTACACTAGCTTTCGTCTCAATAC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGC
* * * * *
66992365 TGATGCCATG-TCACAGACATAGTCTTACACTAGCCCACATATCAATGC
1 CGATGCCATGTTC-CAAACATGGTCTTACACTGGCTCACATATCAATGC
* * * * * *
66992413 CGATGCCATGTCCCAGACTTGGTCTTACACTGGATCTCAT-TACATTGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATAT-CAATGC
* * *
66992461 CAATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATC-GTGGC
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAT-GC
* * *
66992509 CGATGCCATGTTCCAAATATGGTCTTACAGTGGCACACATATCA
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCA
66992553 CCCAAATGTC
Statistics
Matches: 189, Mismatches: 41, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
47 4 0.02
48 183 0.97
49 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (48 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAATGC
Found at i:66994742 original size:40 final size:39
Alignment explanation
Indices: 66994611--66994794 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
66994601 TACTCGTTCA
* *
66994611 AATGCCTTCGGGACATAGCCCGG-TTATAGAAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCAC
* *
66994650 AGATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCAC
1 A-ATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
*
66994690 AAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCAC
** * * *
66994730 GAATGCCTTC-GGATCTTAGTACGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
66994771 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
66994795 CATCATTCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
39 4 0.03
40 109 0.88
41 11 0.09
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:66998989 original size:15 final size:16
Alignment explanation
Indices: 66998969--66998998 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
66998959 GAAAATTGCC
66998969 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
66998984 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
66998999 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:67011888 original size:71 final size:71
Alignment explanation
Indices: 67011800--67011963 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
67011790 GAGATGTATC
67011800 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
67011865 AGGACA
66 AGGACA
*
67011871 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
67011936 CGGACA
66 AGGACA
67011942 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
67011964 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:67017683 original size:30 final size:30
Alignment explanation
Indices: 67017649--67017746 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 30
67017639 AGCTCACTCC
*
67017649 TAGCTCATATTCAGCTCATGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
67017679 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * *
67017709 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
67017739 TAGCTCAT
1 TAGCTCAT
67017747 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:67019665 original size:27 final size:27
Alignment explanation
Indices: 67019600--67019850 Score: 218
Period size: 27 Copynumber: 9.3 Consensus size: 27
67019590 TTTGGTTTAC
*
67019600 AAAATTACCAAAATACCC-TGCTTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
* * *
67019626 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCTTGATTTGT
*
67019653 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCTTGA-TTTGT
* *
67019680 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
* *
67019707 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
* ** * *
67019734 GAAATTACTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
*** * * *
67019761 AAAATTATTGAAATACCCTCGACTTAT
1 AAAATTACCAAAATACCCTTGATTTGT
* * *
67019788 AAAATTACCAAAGTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTTGATTTGT
* **** *
67019815 AGAATTACCGTTTTACCCTCGATTTGT
1 AAAATTACCAAAATACCCTTGATTTGT
67019842 AAAATTACC
1 AAAATTACC
67019851 GTTTTACCCT
Statistics
Matches: 193, Mismatches: 29, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
26 17 0.09
27 175 0.91
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTGT
Found at i:67019851 original size:27 final size:27
Alignment explanation
Indices: 67019774--67020228 Score: 486
Period size: 27 Copynumber: 16.9 Consensus size: 27
67019764 ATTATTGAAA
* * ****
67019774 TACCCTCGACTTATAAAATTACCAAAG
1 TACCCTCGATTTATAGAATTACCGTTT
67019801 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
67019828 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
67019855 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* **
67019882 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTATAGAATTACCGTTT
67019909 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
67019936 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTATAGAATTACCGTTT
* * * *
67019963 TACCC-CTGATTTACATAATTATCATTT
1 TACCCTC-GATTTATAGAATTACCGTTT
* *
67019990 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * *
67020017 TACCCACAATTTACATAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
67020044 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTATAGAATTACCGTTT
* *
67020071 TACCCTCGACTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
67020098 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
67020125 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
67020152 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * ***
67020179 TACCCTCGATTTACAAAATTACCGAAA
1 TACCCTCGATTTATAGAATTACCGTTT
* *
67020206 TACCCTCAATTTATAAAATTACC
1 TACCCTCGATTTATAGAATTACC
67020229 AAAATACCCC
Statistics
Matches: 372, Mismatches: 50, Indels: 12
0.86 0.12 0.03
Matches are distributed among these distances:
26 3 0.01
27 366 0.98
28 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:67020243 original size:81 final size:81
Alignment explanation
Indices: 67020085--67020247 Score: 191
Period size: 81 Copynumber: 2.0 Consensus size: 81
67020075 CTCGACTTAT
* * *** * * ***
67020085 AGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGT
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACCCTCAATTTATAAAATTACCAA
** *
67020150 TTTACCCTTGATTTAC
66 AATACCCCTGATTTAC
**
67020166 AGAATTACTGTTTTACCCTCGATTTACAAAATTACCGAAATACCCTCAATTTATAAAATTACCAA
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACCCTCAATTTATAAAATTACCAA
67020231 AATACCCCTGATTTAC
66 AATACCCCTGATTTAC
67020247 A
1 A
67020248 AAGTTACAGA
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (81 bp):
AGAATTACCATTTTACCCTCGATTTACAAAATTACCGAAATACCCTCAATTTATAAAATTACCAA
AATACCCCTGATTTAC
Found at i:67020327 original size:27 final size:27
Alignment explanation
Indices: 67019595--67020319 Score: 134
Period size: 27 Copynumber: 26.8 Consensus size: 27
67019585 AATACTTTGG
* *
67019595 TTTACAAAATTACCAAAATACCC-TGC
1 TTTACAAAATTACCGAAATACCCTTGA
** ** *
67019621 TTTGTAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCGAAATACCCTTGA
* * *
67019648 TTTATAAAATTACCAAAATACCCCT-A
1 TTTACAAAATTACCGAAATACCCTTGA
** * * *
67019674 GTTTGTAAAATTACCAAAATACCCCTAA
1 -TTTACAAAATTACCGAAATACCCTTGA
** * * *
67019702 TTTGTAAAATTACCAAAATACCCCTAA
1 TTTACAAAATTACCGAAATACCCTTGA
*** * *
67019729 TTTGTGAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* ** ** *
67019756 CTTGTAAAATTATTGAAATACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * *
67019783 CTTATAAAATTACC-AAAGTACCCTCGA
1 TTTACAAAATTACCGAAA-TACCCTTGA
* * *** *
67019810 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
** *** *
67019837 TTTGTAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * *** *
67019864 TTTATAGAATTACCGTTTTACCC-TCA
1 TTTACAAAATTACCGAAATACCCTTGA
* * ** *
67019890 GTTTACAGAATTA-CTATTTTACCCTCGA
1 -TTTACAAAATTACCGA-AATACCCTTGA
* * *** * *
67019918 TTTATAGAATTACCGTTTTACCCCTAA
1 TTTACAAAATTACCGAAATACCCTTGA
* *** *
67019945 TTTACATAATTACCGTTTTACCCCTGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * ** *
67019972 TTTACATAATTATC-ATTTTACCCTCGA
1 TTTACAAAATTACCGA-AATACCCTTGA
* * *** ***
67019999 CTTACAGAATTACCGTTTTACCCACAA
1 TTTACAAAATTACCGAAATACCCTTGA
* *** *
67020026 TTTACATAATTACCGTTTTACCCCTGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * *** *
67020053 TTTACATAATTATCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * * ** *
67020080 CTTATAGAATTACC-ATTTTACCCTCGA
1 TTTACAAAATTACCGA-AATACCCTTGA
* * *** *
67020107 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * * ***
67020134 TTTATAGAATTACTGTTTTACCCTTGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * *** *
67020161 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
**
67020188 TTTACAAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACCGAAATACCCTTGA
* * *
67020215 TTTATAAAATTACCAAAATACCCCTGA
1 TTTACAAAATTACCGAAATACCCTTGA
* *
67020242 TTTACAAAGTTACAGAAATACCCTTGA
1 TTTACAAAATTACCGAAATACCCTTGA
** * ** *
67020269 CTTTTTA-AAAATTATAGAAGTACTATTGG
1 ---TTTACAAAATTACCGAAATACCCTTGA
*
67020298 TTTACAAAATTACTGAAATACC
1 TTTACAAAATTACCGAAATACC
67020320 TTTGGTTTGT
Statistics
Matches: 581, Mismatches: 101, Indels: 33
0.81 0.14 0.05
Matches are distributed among these distances:
26 29 0.05
27 529 0.91
28 3 0.01
29 16 0.03
30 4 0.01
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTACCGAAATACCCTTGA
Found at i:67020445 original size:27 final size:27
Alignment explanation
Indices: 67020381--67020445 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
67020371 ACCCCTAAAA
*
67020381 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
67020408 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
67020435 GGTAAAATGAC
1 GGTAAAATGAC
67020446 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:67021632 original size:25 final size:25
Alignment explanation
Indices: 67021603--67021650 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
67021593 TTATAATATG
* * *
67021603 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
67021628 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
67021651 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:67021719 original size:20 final size:20
Alignment explanation
Indices: 67021694--67021753 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
67021684 TAAATATGGT
67021694 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
67021714 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
67021734 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
67021754 GTAATCATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:67021830 original size:24 final size:24
Alignment explanation
Indices: 67021803--67021945 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
67021793 GAGGAAGTGA
*
67021803 AAAAGGGCTTATGCCTCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
67021827 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
67021851 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
67021874 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
67021898 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
67021922 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
67021946 ATGATAAAGC
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:67021895 original size:47 final size:47
Alignment explanation
Indices: 67021803--67021945 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
67021793 GAGGAAGTGA
*
67021803 AAAAGGGCTTATGCCTCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
67021851 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
67021898 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
67021946 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 43 0.49
48 33 0.38
49 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:67021919 original size:71 final size:72
Alignment explanation
Indices: 67021803--67021946 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
67021793 GAGGAAGTGA
* *
67021803 AAAAGGGCTTATGCCTCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
67021866 CCAGTTAT
65 CCAGTTAT
** * *
67021874 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
67021939 CAGTTAT
66 CAGTTAT
67021946 A
1 A
67021947 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 53 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:67022172 original size:31 final size:31
Alignment explanation
Indices: 67022137--67022231 Score: 163
Period size: 31 Copynumber: 3.1 Consensus size: 31
67022127 CGTTTACAGT
*
67022137 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
67022168 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* *
67022199 AAATGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
67022230 AA
1 AA
67022232 TATGAAAAGG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:67027973 original size:14 final size:14
Alignment explanation
Indices: 67027926--67027973 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
67027916 GTACGAATGG
*
67027926 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
67027940 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
67027954 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
67027968 ATTGGT
1 AATGGT
67027974 CGGTTTAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:67033299 original size:13 final size:12
Alignment explanation
Indices: 67033281--67033313 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
67033271 TAAATCACTC
*
67033281 TTTTTTTTTCGA
1 TTTTTTTTTTGA
67033293 TTTTTTTTTTGA
1 TTTTTTTTTTGA
67033305 TTTTTTTTT
1 TTTTTTTTT
67033314 AAACTTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTTGA
Found at i:67033721 original size:14 final size:14
Alignment explanation
Indices: 67033687--67033737 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
67033677 GTACGAATGG
**
67033687 AATGGTAGGAATGA
1 AATGGTAGGAACAA
*
67033701 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
67033715 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
67033729 ATTGGTAGG
1 AATGGTAGG
67033738 TTTAGGTTCG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.43, C:0.04, G:0.33, T:0.20
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:67037894 original size:30 final size:30
Alignment explanation
Indices: 67037860--67037956 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
67037850 TAAACTAAAA
* *
67037860 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * * *
67037890 TGAGCTAAAATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* *
67037920 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGATTTAGCTCGTGAGCT-AAAGT
67037950 TGAGCTA
1 TGAGCTA
67037957 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
30 47 0.94
31 3 0.06
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:67042092 original size:20 final size:20
Alignment explanation
Indices: 67042066--67042113 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
67042056 TAGCTGATCT
*
67042066 AGCTTGAT-CTAGCTCAATTA
1 AGCTTGATGATAGCTC-ATTA
*
67042086 GGCTTGATGATAGCTCATTA
1 AGCTTGATGATAGCTCATTA
67042106 AGCTTGAT
1 AGCTTGAT
67042114 TCTATTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (20 bp):
AGCTTGATGATAGCTCATTA
Found at i:67043823 original size:20 final size:20
Alignment explanation
Indices: 67043800--67043845 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
67043790 TAAGCTCGGT
*
67043800 TGAGCTCAAAGGAGCTGAAA
1 TGAGCTAAAAGGAGCTGAAA
* *
67043820 TGAGCTAAAATGAGCTGAAT
1 TGAGCTAAAAGGAGCTGAAA
67043840 TGAGCT
1 TGAGCT
67043846 GGATGGAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.13, G:0.28, T:0.22
Consensus pattern (20 bp):
TGAGCTAAAAGGAGCTGAAA
Found at i:67043846 original size:10 final size:10
Alignment explanation
Indices: 67043800--67043846 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
67043790 TAAGCTCGGT
*
67043800 TGAGCTCAAA
1 TGAGCTGAAA
*
67043810 GGAGCTGAAA
1 TGAGCTGAAA
*
67043820 TGAGCTAAAA
1 TGAGCTGAAA
*
67043830 TGAGCTGAAT
1 TGAGCTGAAA
67043840 TGAGCTG
1 TGAGCTG
67043847 GATGGAGCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (10 bp):
TGAGCTGAAA
Found at i:67046479 original size:15 final size:15
Alignment explanation
Indices: 67046459--67046506 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
67046449 TCAAAGATAG
67046459 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
67046474 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
67046488 GTTTATGGATATAAA
1 GTTTATGGATATGAA
67046503 GTTT
1 GTTT
67046507 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:67046522 original size:29 final size:29
Alignment explanation
Indices: 67046453--67046512 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
67046443 AAGGATTCAA
* *
67046453 AGATAGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
67046482 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
67046511 AG
1 AG
67046513 GTTTGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:67048392 original size:30 final size:30
Alignment explanation
Indices: 67048358--67048454 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
67048348 TAAACTAAAA
*
67048358 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
67048388 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
67048418 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
67048448 TGAGCTA
1 TGAGCTA
67048455 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:67050599 original size:30 final size:29
Alignment explanation
Indices: 67050554--67050638 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 29
67050544 TTCTTTTGTT
*
67050554 TCAATTTCTTTTTCATCTTCTTTTTCACTC
1 TCAATTTCTTTTTCAT-TTCTTTTTCAATC
67050584 TCAAATTTC-TTTTCATTCTCTTTTTCAATC
1 TC-AATTTCTTTTTCATT-TCTTTTTCAATC
*
67050614 TCATTTTCTTTTTCATTTTCTTTTT
1 TCAATTTCTTTTTCA-TTTCTTTTT
67050639 GCTTTTCAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
29 6 0.12
30 35 0.71
31 8 0.16
ACGTcount: A:0.14, C:0.22, G:0.00, T:0.64
Consensus pattern (29 bp):
TCAATTTCTTTTTCATTTCTTTTTCAATC
Found at i:67050638 original size:18 final size:18
Alignment explanation
Indices: 67050589--67050644 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
67050579 CACTCTCAAA
*
67050589 TTTC-TTTTCATTCTCTT
1 TTTCATTTTCATTTTCTT
* *
67050606 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
67050624 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
67050643 TT
1 TT
67050645 CAAAGGCTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 4 0.13
18 22 0.71
19 5 0.16
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:67050645 original size:12 final size:12
Alignment explanation
Indices: 67050614--67050638 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67050604 TTTTTCAATC
67050614 TCATTTTCTTTT
1 TCATTTTCTTTT
67050626 TCATTTTCTTTT
1 TCATTTTCTTTT
67050638 T
1 T
67050639 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:67050747 original size:15 final size:14
Alignment explanation
Indices: 67050710--67050763 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 14
67050700 TTGCCTCTCG
*
67050710 TTTCTTTTTATTTCAT
1 TTTCTTTTT-CTTC-T
67050726 TTTCTTTTTCTTCT
1 TTTCTTTTTCTTCT
67050740 TTTGCTTTTTCTTTTCT
1 TTT-CTTTTTC--TTCT
67050757 TTTCTTT
1 TTTCTTT
67050764 ATTTTCTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 4 0.12
15 10 0.29
16 13 0.38
17 7 0.21
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTCTTTTTCTTCT
Found at i:67052288 original size:30 final size:30
Alignment explanation
Indices: 67052194--67052290 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
67052184 TAAACTAAAA
*
67052194 TGAGCTAAGCTTTAGCTCGTGAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* ** * *
67052224 TGAGCTGAGGCTAAAG-TCCTAAGCTGAAGT
1 TGAGCTAAGG-TTTAGCTCGTGAGCTGAAGT
*
67052254 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGGTTTAGCTCGTGAGCTG-AAGT
67052284 TGAGCTA
1 TGAGCTA
67052291 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 3 0.06
30 43 0.83
31 6 0.12
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:67052361 original size:21 final size:20
Alignment explanation
Indices: 67052320--67052383 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
67052310 TCAGGCAAGA
*
67052320 TGGATTGAGCTCGAATA-AGC
1 TGGATTGAGCTGGAA-AGAGC
67052340 TGGATTTGAGCTGGAAAGAGC
1 TGGA-TTGAGCTGGAAAGAGC
* *
67052361 TCG-TGGAGCTGGAAACGAGC
1 TGGATTGAGCTGGAAA-GAGC
67052381 TGG
1 TGG
67052384 GATCAGCTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
19 11 0.30
20 11 0.30
21 15 0.41
ACGTcount: A:0.27, C:0.14, G:0.38, T:0.22
Consensus pattern (20 bp):
TGGATTGAGCTGGAAAGAGC
Found at i:67056354 original size:42 final size:41
Alignment explanation
Indices: 67056239--67056379 Score: 129
Period size: 43 Copynumber: 3.3 Consensus size: 41
67056229 GTCTGGGACA
* * *
67056239 TCGTGTAAGACCGTGTCTGGGACACAGGCTTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATT-TGATT
* * **
67056281 TACGTATAAGACCATGTCTGGGAAATTGGCATCGTATTTGATT
1 T-CGTGTAAGACCATGTCTGGGACACAGGCATCG-ATTTGATT
* * *
67056324 TCGTGTAAGACCCTATCTGGGACAGAGGCATCGATATTGAATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT-TTG-ATT
* *
67056367 ACATGTAAGACCA
1 TCGTGTAAGACCA
67056380 CGTCCAGGAC
Statistics
Matches: 79, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
41 2 0.03
42 30 0.38
43 44 0.56
44 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTTGATT
Found at i:67057966 original size:15 final size:15
Alignment explanation
Indices: 67057946--67057993 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
67057936 TCAAAGGTGG
67057946 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
67057961 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
67057976 -TTTATGGATATAAA
1 GTTTATGGATATGAA
67057990 GTTT
1 GTTT
67057994 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:67058468 original size:15 final size:15
Alignment explanation
Indices: 67058422--67058469 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
67058412 AAACCTACAA
*
67058422 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
67058437 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
67058451 AAACTTCATATCCAT
1 AAACTTCATATCCAT
67058466 AAAC
1 AAAC
67058470 CCACCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:67062755 original size:31 final size:33
Alignment explanation
Indices: 67062720--67062801 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 33
67062710 CATGAGAGTT
67062720 ACATAATGCATGACATTATT-AA-ATGCAGAAC
1 ACATAATGCATGACATTATTAAATATGCAGAAC
* * * *
67062751 ACATAATGCATGTCATAATTAAAATATGTAGATC
1 ACATAATGCATGACATTATT-AAATATGCAGAAC
67062785 A-ATAATGCATGACATTA
1 ACATAATGCATGACATTA
67062802 ACTAAAGATG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
31 18 0.43
33 16 0.38
34 8 0.19
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.29
Consensus pattern (33 bp):
ACATAATGCATGACATTATTAAATATGCAGAAC
Found at i:67074533 original size:12 final size:12
Alignment explanation
Indices: 67074499--67074560 Score: 72
Period size: 12 Copynumber: 5.2 Consensus size: 12
67074489 TCTTTTTCTC
*
67074499 TTTCAAACTCTT
1 TTTCAATCTCTT
67074511 TTTC-ATCTCTT
1 TTTCAATCTCTT
*
67074522 TTTCAATTTCTT
1 TTTCAATCTCTT
* *
67074534 TTTCAATATCAT
1 TTTCAATCTCTT
*
67074546 TTTCACTCTCTT
1 TTTCAATCTCTT
67074558 TTT
1 TTT
67074561 GTTCTTTTTC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
11 10 0.24
12 32 0.76
ACGTcount: A:0.18, C:0.23, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTCAATCTCTT
Found at i:67074538 original size:35 final size:36
Alignment explanation
Indices: 67074493--67074560 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
67074483 TCAACTTCTT
*
67074493 TTTCTCTTTCAA-ACTCTTTTTCA-TCTCTTTTTCAA
1 TTTCTCTTTCAATA-TCATTTTCACTCTCTTTTTCAA
*
67074528 TTTCTTTTTCAATATCATTTTCACTCTCTTTTT
1 TTTCTCTTTCAATATCATTTTCACTCTCTTTTT
67074561 GTTCTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 19 0.66
36 10 0.34
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (36 bp):
TTTCTCTTTCAATATCATTTTCACTCTCTTTTTCAA
Found at i:67074670 original size:15 final size:15
Alignment explanation
Indices: 67074658--67074699 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
67074648 TCTCTTTTAT
67074658 TTCTTTTTCTTTTTC
1 TTCTTTTTCTTTTTC
*
67074673 TTCTTTTGC-TTTTC
1 TTCTTTTTCTTTTTC
*
67074687 -TCGTTTTCTTTTT
1 TTCTTTTTCTTTTT
67074700 ACAAGAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.76
Consensus pattern (15 bp):
TTCTTTTTCTTTTTC
Found at i:67079942 original size:27 final size:27
Alignment explanation
Indices: 67079877--67080056 Score: 238
Period size: 27 Copynumber: 6.7 Consensus size: 27
67079867 TTTGGTTTAC
67079877 AAAATTACCAAAATACCC-T-GCTTTGT
1 AAAATTACCAAAATACCCTTAG-TTTGT
* * *
67079903 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCTTAGTTTGT
*
67079930 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
67079957 AAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
67079984 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
67080011 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* **
67080038 GAAATTACTGAAATACCCT
1 AAAATTACCAAAATACCCT
67080057 CGACCTGTAA
Statistics
Matches: 137, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
26 17 0.12
27 119 0.87
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAGTTTGT
Found at i:67079999 original size:81 final size:80
Alignment explanation
Indices: 67079877--67080100 Score: 279
Period size: 81 Copynumber: 2.8 Consensus size: 80
67079867 TTTGGTTTAC
* *
67079877 AAAATTACCAAAATACCCTGCTTTGTAAAATTA-CTAAAATACCCTTGGTTTATAAAATTACCAA
1 AAAATTACCAAAATACCCTGATTTGTAAAATTATC-AAAATACCCTTGGTTTGTAAAATTACCAA
*
67079941 AATACCCCTAGTTTGT
65 AATACCCCTAATTTGT
* * *
67079957 AAAATTACCAAAATACCCTTAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTGA-TTTGTAAAATTATCAAAATACCCTTGGTTTGTAAAATTACCAA
67080022 AATACCCCTAATTTGT
65 AATACCCCTAATTTGT
* ** ** ** * *
67080038 GAAATTACTGAAATACCCTCGACCTGTAAAATTATTGAAATACCCTCGATTTGTAAAATTACC
1 AAAATTACCAAAATACCCT-GATTTGTAAAATTATCAAAATACCCTTGGTTTGTAAAATTACC
67080101 GTTTTACCTT
Statistics
Matches: 123, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
80 19 0.15
81 102 0.83
82 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTGATTTGTAAAATTATCAAAATACCCTTGGTTTGTAAAATTACCAAA
ATACCCCTAATTTGT
Found at i:67080108 original size:27 final size:27
Alignment explanation
Indices: 67080078--67080371 Score: 360
Period size: 27 Copynumber: 10.9 Consensus size: 27
67080068 ATTATTGAAA
* *
67080078 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
67080105 TACCTTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
67080132 TACCCTC-AGTTTACAGAATTACCGTTT
1 TACCCTCGA-TTTATAGAATTACCGTTT
67080159 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
67080186 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTATAGAATTACCGTTT
* * *
67080213 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTATAGAATTACCGTTT
* *
67080240 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
67080267 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
67080294 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
67080321 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
67080348 TACCCTCGATTTACAAAATTACCG
1 TACCCTCGATTTATAGAATTACCG
67080372 AAATACCCTC
Statistics
Matches: 239, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.01
27 235 0.98
28 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:67080378 original size:27 final size:27
Alignment explanation
Indices: 67079872--67080488 Score: 192
Period size: 27 Copynumber: 22.8 Consensus size: 27
67079862 AATACTTTGG
* * *
67079872 TTTACAAAATTACCAAAATACCCT-GC
1 TTTATAAAATTACCGAAATACCCTCGA
* ** * *
67079898 TTTGTAAAATTACTAAAATACCCTTGG
1 TTTATAAAATTACCGAAATACCCTCGA
* *
67079925 TTTATAAAATTACCAAAATACCC-CTA
1 TTTATAAAATTACCGAAATACCCTCGA
* * *
67079951 GTTTGTAAAATTACCAAAATACCCT-TA
1 -TTTATAAAATTACCGAAATACCCTCGA
* * * *
67079978 GTTTGTAAAATTATCAAAATACCC-CTA
1 -TTTATAAAATTACCGAAATACCCTCGA
* * *
67080005 GTTTGTAAAATTACCAAAATACCC-CTAA
1 -TTTATAAAATTACCGAAATACCCTC-GA
* * *
67080033 TTTGTGAAATTACTGAAATACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
** * **
67080060 CCTGTAAAATTATTGAAATACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* *** *
67080087 TTTGTAAAATTACCGTTTTACCTTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* **
67080114 TTTATAGAATTACC-ATTTTACCCTC-A
1 TTTATAAAATTACCGA-AATACCCTCGA
* * ***
67080140 GTTTACAGAATTACCGTTTTACCCTCGA
1 -TTTATAAAATTACCGAAATACCCTCGA
* *** *
67080168 TTTATAGAATTACCGTTTTACCC-CTAA
1 TTTATAAAATTACCGAAATACCCTC-GA
* * ***
67080195 TTTACATAATTACCGTTTTACCC-CTGA
1 TTTATAAAATTACCGAAATACCCTC-GA
* * * ***
67080222 TTTACATAATTATCGTTTTACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * * ***
67080249 CTTACAGAATTACCGTTTTACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * ***
67080276 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * *** *
67080303 TTTATAGAATTACTGTTTTACCCTTGA
1 TTTATAAAATTACCGAAATACCCTCGA
* * * ***
67080330 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTATAAAATTACCGAAATACCCTCGA
* *
67080357 TTTACAAAATTACCGAAATACCCTCAA
1 TTTATAAAATTACCGAAATACCCTCGA
* *
67080384 TTTGTAAAATTACCAAAATACCC-CTGA
1 TTTATAAAATTACCGAAATACCCTC-GA
* * * *
67080411 TTTACAAAGTTACAGAAATACCCTTGA
1 TTTATAAAATTACCGAAATACCCTCGA
* ** * * * *
67080438 CTTTTTAAAAATTATAGAAGTACCATTGG
1 -TTTAT-AAAATTACCGAAATACCCTCGA
* *
67080467 TTTACAAAATTACTGAAATACC
1 TTTATAAAATTACCGAAATACC
67080489 TTTGGTTTGT
Statistics
Matches: 497, Mismatches: 78, Indels: 31
0.82 0.13 0.05
Matches are distributed among these distances:
26 24 0.05
27 446 0.90
28 10 0.02
29 17 0.03
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTATAAAATTACCGAAATACCCTCGA
Found at i:67080406 original size:81 final size:81
Alignment explanation
Indices: 67080039--67080416 Score: 213
Period size: 81 Copynumber: 4.7 Consensus size: 81
67080029 CTAATTTGTG
* * ** * *** * ** *
67080039 AAATTACTGAAATACCCTCGACCTGTAAAATTATTGAAATACCCTCGATTTGTAAAATTACCGTT
1 AAATTACCGAAATACCCTCAATTTATAAAATTACCAAAATACCCTTGATTTACAGAATTACCGTT
* *
67080104 TTACCTTCGATTTATA
66 TTACCCTCGATTTACA
* ** * * * **** * *
67080120 GAATTACC-ATTTTACCCTCAGTTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCGT
1 AAATTACCGA-AATACCCTCAATTTATAAAATTACCAAAATACCCTTGATTTACAGAATTACCGT
*
67080184 TTTACCC-CTAATTTACA
65 TTTACCCTC-GATTTACA
* *** * * * * **** * *
67080201 TAATTACCGTTTTACCC-CTGATTTACATAATTATCGTTTTACCCTCGACTTACAGAATTACCGT
1 AAATTACCGAAATACCCTC-AATTTATAAAATTACCAAAATACCCTTGATTTACAGAATTACCGT
67080265 TTTACCCTCGATTTACA
65 TTTACCCTCGATTTACA
* *** * * ***** *
67080282 GAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTT
1 AAATTACCGAAATACCCTCAATTTATAAAATTACCAAAATACCCTTGATTTACAGAATTACCGTT
67080347 TTACCCTCGATTTACA
66 TTACCCTCGATTTACA
* *
67080363 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACA
1 AAATTACCGAAATACCCTCAATTTATAAAATTACCAAAATACCCTTGATTTACA
67080417 AAGTTACAGA
Statistics
Matches: 240, Mismatches: 51, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
80 3 0.01
81 235 0.98
82 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (81 bp):
AAATTACCGAAATACCCTCAATTTATAAAATTACCAAAATACCCTTGATTTACAGAATTACCGTT
TTACCCTCGATTTACA
Found at i:67080493 original size:27 final size:26
Alignment explanation
Indices: 67080441--67080496 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
67080431 CCCTTGACTT
*
67080441 TTTAAAAATTATAGAAGTACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
67080467 TTTACAAAATTACT-GAAATACCTTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
67080494 TTT
1 TTT
67080497 GTTGATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:67080614 original size:27 final size:27
Alignment explanation
Indices: 67080550--67080614 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
67080540 ACCCCTAAAA
*
67080550 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
67080577 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
67080604 GGTAAAATGAC
1 GGTAAAATGAC
67080615 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:67081801 original size:25 final size:25
Alignment explanation
Indices: 67081772--67081819 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
67081762 TTATAATATG
* * *
67081772 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
67081797 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
67081820 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:67081888 original size:20 final size:20
Alignment explanation
Indices: 67081863--67081921 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
67081853 TAAATATGGT
67081863 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
67081883 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
67081903 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
67081922 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:67081999 original size:24 final size:24
Alignment explanation
Indices: 67081972--67082114 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
67081962 GAGGAAGTGA
67081972 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
67081996 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
67082020 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
67082043 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
67082067 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
67082091 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
67082115 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:67082065 original size:47 final size:47
Alignment explanation
Indices: 67081972--67082114 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
67081962 GAGGAAGTGA
67081972 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
67082020 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
67082067 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
67082115 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:67082088 original size:71 final size:72
Alignment explanation
Indices: 67081972--67082115 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
67081962 GAGGAAGTGA
*
67081972 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
67082035 CCAGTTAT
65 CCAGTTAT
** * *
67082043 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
67082108 CAGTTAT
66 CAGTTAT
67082115 A
1 A
67082116 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:67082353 original size:30 final size:31
Alignment explanation
Indices: 67082306--67082397 Score: 154
Period size: 30 Copynumber: 3.1 Consensus size: 31
67082296 CGTTTACAGT
67082306 AAAGGCTTCGG-CCAGTAATATGAAAT-TGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
67082335 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
67082366 AAAGGCTTC-GCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
67082396 AA
1 AA
67082398 TATGAAAAGG
Statistics
Matches: 60, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
29 11 0.18
30 37 0.62
31 12 0.20
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:67085180 original size:27 final size:27
Alignment explanation
Indices: 67085115--67085293 Score: 229
Period size: 27 Copynumber: 6.7 Consensus size: 27
67085105 TTTGGTTTAC
67085115 AAAATTACCAAAATACCC-T-GCTTTGT
1 AAAATTACCAAAATACCCTTAG-TTTGT
* * *
67085141 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCTTAGTTTGT
*
67085168 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
67085195 AAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
67085222 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
67085249 AAAATTACC-AAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* **
67085275 GAAATTACTGAAATACCCT
1 AAAATTACCAAAATACCCT
67085294 CGACCTGTAA
Statistics
Matches: 136, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
26 40 0.29
27 95 0.70
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAGTTTGT
Found at i:67085267 original size:80 final size:80
Alignment explanation
Indices: 67085115--67085336 Score: 261
Period size: 80 Copynumber: 2.8 Consensus size: 80
67085105 TTTGGTTTAC
* * * *
67085115 AAAATTACCAAAATACCCTGCTTTGTAAAATTA-CTAAAATACCCTTGGTTTATAAAATTACCAA
1 AAAATTACCAAAATACCCTGATTTGTAAAATTATC-AAAATACCCCTAGTTTGTAAAATTACCAA
*
67085179 AATACCCCTAGTTTGT
65 AATACCCCTAATTTGT
*
67085195 AAAATTACCAAAATACCCTTAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACC-A
1 AAAATTACCAAAATACCCTGA-TTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
67085259 AATACCCCTAATTTGT
65 AATACCCCTAATTTGT
* ** ** ** *
67085275 GAAATTACTGAAATACCCTCGACCTGTAAAATTATTGAAATA-CCCTCGATTTGTAAAATTAC
1 AAAATTACCAAAATACCCT-GATTTGTAAAATTATCAAAATACCCCTAG-TTTGTAAAATTAC
67085337 TGTTTTACCC
Statistics
Matches: 123, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
79 5 0.04
80 80 0.65
81 37 0.30
82 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTGATTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
ATACCCCTAATTTGT
Found at i:67085306 original size:27 final size:27
Alignment explanation
Indices: 67085276--67085338 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
67085266 CTAATTTGTG
67085276 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* **
67085303 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
67085330 AAATTACTG
1 AAATTACTG
67085339 TTTTACCCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:67085345 original size:27 final size:27
Alignment explanation
Indices: 67085315--67085633 Score: 268
Period size: 27 Copynumber: 11.8 Consensus size: 27
67085305 ATTATTGAAA
*
67085315 TACCCTCGATTTGTAAAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* **
67085342 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * *
67085369 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTATAAAATTACTGTTT
* *
67085396 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * * *
67085423 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTATAAAATTACTGTTT
* *
67085450 TACCC-CTGATTTACATAATTA-TCGTTT
1 TACCCTC-GATTTATAAAATTACT-GTTT
* * * *
67085477 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * *
67085504 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
*
67085531 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * * *
67085558 TACCCTTGATTTACAGAATTATTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * ***
67085585 TACCCTCGATTTACAAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACTGTTT
* *
67085612 TACCCTCAATTTGTAAAATTAC
1 TACCCTCGATTTATAAAATTAC
67085634 CAAAATACCC
Statistics
Matches: 253, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.01
27 249 0.98
28 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTGTTT
Found at i:67085616 original size:81 final size:81
Alignment explanation
Indices: 67085315--67085623 Score: 349
Period size: 81 Copynumber: 3.8 Consensus size: 81
67085305 ATTATTGAAA
** * * *
67085315 TACCCTCGATTTGTAAAATTACTGTTTTACCCTCGATTTATAGAATTACC-ATTTTACCCTC-AG
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGA-TTTACCCTCGA-
*
67085378 TTTACAGAATTACTATTT
64 TTTACAGAATTACTGTTT
* * * *
67085396 TACCCTCGATTTATAGAATTACCGTTTTACCC-CTAATTTACATAATTACCGTTTTACCC-CTGA
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTC-GATTTACAGAATTACCGATTTACCCTC-GA
*
67085459 TTTACATAATTA-TCGTTT
64 TTTACAGAATTACT-GTTT
* *
67085477 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGATTTACCCTCGATT
*
67085542 TATAGAATTACTGTTT
66 TACAGAATTACTGTTT
* ** * ** *
67085558 TACCCTTGATTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTACCGAAATACCCTCAATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGATTTACCCTCGATT
67085623 T
66 T
67085624 GTAAAATTAC
Statistics
Matches: 196, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
80 3 0.02
81 189 0.96
82 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGATTTACCCTCGATT
TACAGAATTACTGTTT
Found at i:67085617 original size:54 final size:54
Alignment explanation
Indices: 67085315--67085608 Score: 360
Period size: 54 Copynumber: 5.4 Consensus size: 54
67085305 ATTATTGAAA
** * * * *
67085315 TACCCTCGATTTGTAAAATTACTGTTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
** *
67085369 TACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
* * * *
67085423 TACCC-CTAATTTACATAATTACCGTTTTACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTTTACCCTC-GATTTACAGAATTACCGTTT
*
67085477 TACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
* * * **
67085531 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
*
67085585 TACCCTCGATTTACAAAATTACCG
1 TACCCTCGATTTACAGAATTACCG
67085609 AAATACCCTC
Statistics
Matches: 209, Mismatches: 25, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
53 3 0.01
54 203 0.97
55 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:67085634 original size:27 final size:27
Alignment explanation
Indices: 67085585--67085671 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
67085575 ATTATTGTTT
* *
67085585 TACCCTCGATTTACAAAATTACCGAAA
1 TACCCTCAATTTACAAAATTACCAAAA
**
67085612 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* *
67085639 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-AATTTACAAAATTACCA-AAA
67085666 TACCCT
1 TACCCT
67085672 TGACTTTTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.06
27 46 0.94
ACGTcount: A:0.40, C:0.25, G:0.07, T:0.28
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:67085643 original size:81 final size:81
Alignment explanation
Indices: 67085276--67085653 Score: 204
Period size: 81 Copynumber: 4.7 Consensus size: 81
67085266 CTAATTTGTG
* * ** * *** * ** * *
67085276 AAATTACTGAAATACCCTCGACCTGTAAAATTATTGAAATACCCTCGATTTGTAAAATTACTGTT
1 AAATTACCGAAATACCCTCAATTTATAAAATTACCAAAATACCCTTGATTTACAGAATTACCGTT
*
67085341 TTACCCTCGATTTATA
66 TTACCCTCGATTTACA
* ** * * * * *** * *
67085357 GAATTACC-ATTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGT
1 AAATTACCGA-AATACCCTCAATTTATAAAATTACCAAAATACCCTTGATTTACAGAATTACCGT
*
67085421 TTTACCC-CTAATTTACA
65 TTTACCCTC-GATTTACA
* *** * * * * **** * *
67085438 TAATTACCGTTTTACCC-CTGATTTACATAATTATCGTTTTACCCTCGACTTACAGAATTACCGT
1 AAATTACCGAAATACCCTC-AATTTATAAAATTACCAAAATACCCTTGATTTACAGAATTACCGT
67085502 TTTACCCTCGATTTACA
65 TTTACCCTCGATTTACA
* *** * * ***** **
67085519 GAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTATTGTT
1 AAATTACCGAAATACCCTCAATTTATAAAATTACCAAAATACCCTTGATTTACAGAATTACCGTT
67085584 TTACCCTCGATTTACA
66 TTACCCTCGATTTACA
* *
67085600 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACA
1 AAATTACCGAAATACCCTCAATTTATAAAATTACCAAAATACCCTTGATTTACA
67085654 AAGTTACAGA
Statistics
Matches: 237, Mismatches: 54, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
80 3 0.01
81 232 0.98
82 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (81 bp):
AAATTACCGAAATACCCTCAATTTATAAAATTACCAAAATACCCTTGATTTACAGAATTACCGTT
TTACCCTCGATTTACA
Found at i:67085725 original size:27 final size:26
Alignment explanation
Indices: 67085678--67085733 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
67085668 CCCTTGACTT
*
67085678 TTTAAAAATTATAGAAGTACCATTGG
1 TTTAAAAATTATAGAAATACCATTGG
*
67085704 TTTACAAAATTACTA-AAATACCTTTGG
1 TTTA-AAAATTA-TAGAAATACCATTGG
67085731 TTT
1 TTT
67085734 GTTGATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 20 0.77
28 2 0.08
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (26 bp):
TTTAAAAATTATAGAAATACCATTGG
Found at i:67085817 original size:27 final size:26
Alignment explanation
Indices: 67085787--67085846 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
67085777 ACCCCTAAAA
67085787 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAAAGACCGTAATA--CCCTGTAG
** *
67085814 GGTAAAGTGACCGTAATACCCTGTAT
1 GGTAAAAAGACCGTAATACCCTGTAG
67085840 GGTAAAA
1 GGTAAAA
67085847 TGACGAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 13 0.46
27 14 0.50
28 1 0.04
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (26 bp):
GGTAAAAAGACCGTAATACCCTGTAG
Found at i:67085861 original size:26 final size:26
Alignment explanation
Indices: 67085787--67085850 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
67085777 ACCCCTAAAA
* *
67085787 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAATGACCGTAATA--CCCTGTAT
*
67085814 GGTAAAGTGACCGTAATACCCTGTAT
1 GGTAAAATGACCGTAATACCCTGTAT
67085840 GGTAAAATGAC
1 GGTAAAATGAC
67085851 GAATATGCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 17 0.53
27 14 0.44
28 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (26 bp):
GGTAAAATGACCGTAATACCCTGTAT
Found at i:67087035 original size:24 final size:24
Alignment explanation
Indices: 67087003--67087049 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
67086993 TTATAATATG
* * *
67087003 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
67087027 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
67087050 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:67087118 original size:20 final size:20
Alignment explanation
Indices: 67087093--67087151 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
67087083 TAAATATGGT
67087093 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
67087113 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
67087133 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
67087152 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:67087229 original size:24 final size:24
Alignment explanation
Indices: 67087202--67087320 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
67087192 GAGGAAGTGA
*
67087202 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
67087226 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
67087249 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
67087273 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
67087297 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
67087321 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:67087271 original size:47 final size:48
Alignment explanation
Indices: 67087202--67087320 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
67087192 GAGGAAGTGA
67087202 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
67087249 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
67087297 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
67087321 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:67087548 original size:31 final size:31
Alignment explanation
Indices: 67087512--67087606 Score: 154
Period size: 31 Copynumber: 3.1 Consensus size: 31
67087502 CGTTTACAGT
* *
67087512 AAAGGCTTCGGCCTAGTAATATGAAATCTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
67087543 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* *
67087574 AAAGGCTTCAGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
67087605 AA
1 AA
67087607 TATGAAAAGG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:67088683 original size:24 final size:26
Alignment explanation
Indices: 67088632--67088683 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
67088622 ATCGATAAAA
*
67088632 ATTATAAGTTGAGAAGAATTTATTTTG
1 ATTATAAGTTGAG-AGAATTTATCTTG
*
67088659 ATTATAAGTTGAG-GATTTTA-CTTG
1 ATTATAAGTTGAGAGAATTTATCTTG
67088683 A
1 A
67088684 GGACAAGCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 6 0.26
27 13 0.57
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (26 bp):
ATTATAAGTTGAGAGAATTTATCTTG
Found at i:67096453 original size:93 final size:92
Alignment explanation
Indices: 67096341--67096511 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 92
67096331 CGCCCATAAG
*
67096341 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
67096405 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTC-GATGCCTAGTTACATCTCA
*
67096434 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
67096499 ACGAGTTCGATGC
66 ACGAGTTCGATGC
67096512 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
92 7 0.09
93 68 0.91
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGATGCCTAGTTACATCTCA
Found at i:67096507 original size:46 final size:46
Alignment explanation
Indices: 67096334--67096507 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
67096324 TGTAACCCGC
* *
67096334 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
67096380 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
67096430 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
67096473 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCG
67096508 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 59 0.54
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:67103644 original size:40 final size:40
Alignment explanation
Indices: 67103531--67103647 Score: 197
Period size: 38 Copynumber: 3.0 Consensus size: 40
67103521 GTAAGCATAN
*
67103531 TCAACTCGCACGAA-GCCTTCGGCTC-TAGCCCGGATATA
1 TCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATA
67103569 TCAACTCGCACG-ATGCCTTC-GGTCTTAGCCCGGATATA
1 TCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATA
67103607 TCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATA
1 TCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATA
67103647 T
1 T
67103648 TTCCAATGTT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
37 4 0.05
38 43 0.58
39 8 0.11
40 19 0.26
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (40 bp):
TCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATA
Found at i:67110211 original size:39 final size:40
Alignment explanation
Indices: 67110140--67110317 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
67110130 GCTCGATTGT
* * * *
67110140 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
*
67110180 CTTCGGGA-TTAGCCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
* *
67110219 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
* * * * *
67110259 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGGTTTTAGTAAC-TCGCACAAATGC
67110300 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
67110318 ACACCATTCG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.28
40 60 0.50
41 25 0.21
42 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGTTTTAGTAACTCGCACAAATGC
Found at i:67110237 original size:79 final size:81
Alignment explanation
Indices: 67110140--67110317 Score: 227
Period size: 79 Copynumber: 2.2 Consensus size: 81
67110130 GCTCGATTGT
* * * * *
67110140 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGG-ATT-AGCCCGGTTTTGG
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAG
* *
67110203 TAAC-TCGCACAAATGC
65 TAACTTAGCACAAAAGC
* * *
67110219 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
*
67110284 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
67110300 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
67110318 ACACCATTCG
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
79 41 0.49
80 15 0.18
81 28 0.33
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAAGC
Found at i:67115167 original size:46 final size:46
Alignment explanation
Indices: 67115115--67115245 Score: 208
Period size: 46 Copynumber: 2.8 Consensus size: 46
67115105 GATGGTTGAG
*
67115115 CATCCGAAATCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
**
67115161 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *
67115207 CACCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
67115246 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:67120836 original size:27 final size:26
Alignment explanation
Indices: 67120801--67120912 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
67120791 AGCATGGCTG
* *
67120801 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
67120827 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
67120855 CCAGAATAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
67120882 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
67120909 CCAG
1 CCAG
67120913 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.69
28 17 0.23
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:67130885 original size:14 final size:14
Alignment explanation
Indices: 67130866--67130898 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
67130856 CAACTAAGTT
67130866 AACAACATCTTATA
1 AACAACATCTTATA
67130880 AACAACATCTTATA
1 AACAACATCTTATA
67130894 AACAA
1 AACAA
67130899 TATCAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (14 bp):
AACAACATCTTATA
Found at i:67132567 original size:12 final size:12
Alignment explanation
Indices: 67132545--67132579 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
67132535 TTTATTTTTT
67132545 TCATT-TTATTA
1 TCATTATTATTA
*
67132556 TCCTTATTATTA
1 TCATTATTATTA
67132568 TCATTATTATTA
1 TCATTATTATTA
67132580 AAGTTACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTATTATTA
Found at i:67134102 original size:27 final size:27
Alignment explanation
Indices: 67134048--67134158 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
67134038 AGCATGGCTG
* *
67134048 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
67134074 CCAGAACAGATAATTGTGGTAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
67134101 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
67134128 CCA-AATCAGATAAATGTGGCATAGCCA
1 CCAGAA-CAGATAATTGTGGCAGAGCCA
67134155 CCAG
1 CCAG
67134159 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 18 0.24
27 54 0.73
28 2 0.03
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.15
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:67139928 original size:12 final size:12
Alignment explanation
Indices: 67139911--67139935 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67139901 TCTTAGACAT
67139911 ATTTCTTTTGAA
1 ATTTCTTTTGAA
67139923 ATTTCTTTTGAA
1 ATTTCTTTTGAA
67139935 A
1 A
67139936 GAATTCTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (12 bp):
ATTTCTTTTGAA
Found at i:67143293 original size:3 final size:3
Alignment explanation
Indices: 67143282--67143331 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
67143272 TATTATGTTT
* * *
67143282 TTA TT- TTA TTA TCT- TTA TTA TTA TTA TTA TTA TCA TCA TCA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
67143326 TTA TTA
1 TTA TTA
67143332 AAGTTACTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 3 0.07
3 38 0.90
4 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:67143300 original size:9 final size:8
Alignment explanation
Indices: 67143270--67143312 Score: 52
Period size: 9 Copynumber: 5.1 Consensus size: 8
67143260 TTTCTATTTC
67143270 TTTATTAT
1 TTTATTAT
67143278 GTTT-TTAT
1 -TTTATTAT
67143286 TTTATTAT
1 TTTATTAT
67143294 CTTTATTAT
1 -TTTATTAT
67143303 TATTATTAT
1 T-TTATTAT
67143312 T
1 T
67143313 ATCATCATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 3 0.10
8 9 0.29
9 19 0.61
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (8 bp):
TTTATTAT
Found at i:67143531 original size:16 final size:16
Alignment explanation
Indices: 67143510--67143541 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
67143500 AACTTCTAAT
*
67143510 TTCAAAAAATTCATTA
1 TTCAAAAAATTAATTA
67143526 TTCAAAAAATTAATTA
1 TTCAAAAAATTAATTA
67143542 GCTACCTAAC
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:0.09, G:0.00, T:0.38
Consensus pattern (16 bp):
TTCAAAAAATTAATTA
Found at i:67145939 original size:26 final size:27
Alignment explanation
Indices: 67145901--67145952 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
67145891 TCTCCAGTAA
67145901 TTTTTATGTTATAATTT-TTT-ATTATG
1 TTTTTATGTTAT-ATTTATTTAATTATG
67145927 TTTTTAT-TATATATTTATTTAATTAT
1 TTTTTATGT-TATATTTATTTAATTAT
67145953 TTCTAATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 5 0.22
26 13 0.57
27 5 0.22
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (27 bp):
TTTTTATGTTATATTTATTTAATTATG
Found at i:67147344 original size:20 final size:20
Alignment explanation
Indices: 67147280--67147344 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
67147270 GTTTGGGCAA
* * *
67147280 CTTGTCTACCATTTTGGTGG
1 CTTGTCTGCAATTCTGGTGG
* ***
67147300 CTTGTCTGCAATACTGGAAA
1 CTTGTCTGCAATTCTGGTGG
*
67147320 TTTGTCTGCAATTCTGGTGG
1 CTTGTCTGCAATTCTGGTGG
67147340 CTTGT
1 CTTGT
67147345 TGATCTACCA
Statistics
Matches: 32, Mismatches: 13, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.42
Consensus pattern (20 bp):
CTTGTCTGCAATTCTGGTGG
Found at i:67151193 original size:29 final size:29
Alignment explanation
Indices: 67151105--67151212 Score: 105
Period size: 29 Copynumber: 3.8 Consensus size: 29
67151095 ATGAATTTGG
* **
67151105 TTTGGGCCTAACGGGCTGTATGAATGTA-A
1 TTTGGGCCTAATGGGCCATATGAATG-AGA
* *
67151134 TTTGGGCCTAATAGGCCATACGAAT-ATGA
1 TTTGGGCCTAATGGGCCATATGAATGA-GA
67151163 TTTGGGCCTAATGGGCCATATGAATGAGA
1 TTTGGGCCTAATGGGCCATATGAATGAGA
* * *
67151192 -TTAGACCTAGTGGGCCATATG
1 TTTGGGCCTAATGGGCCATATG
67151213 CATGTATGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
27 1 0.02
28 18 0.27
29 46 0.70
30 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (29 bp):
TTTGGGCCTAATGGGCCATATGAATGAGA
Found at i:67154911 original size:27 final size:27
Alignment explanation
Indices: 67154881--67155017 Score: 152
Period size: 27 Copynumber: 5.1 Consensus size: 27
67154871 AACAAATTAG
* *
67154881 GAAAGAAAAGCTTTTGTGGCAAACTTT
1 GAAAGAAAAGCCTTTGTGGTAAACTTT
* *
67154908 GAAAGAAAA-CCTTTTATGGTGAACTTT
1 GAAAGAAAAGCC-TTTGTGGTAAACTTT
* *
67154935 GAAAG-AAAGCCTTTATGGTGAACTTT
1 GAAAGAAAAGCCTTTGTGGTAAACTTT
* *
67154961 GAAAGAAAAGCCTTTGCGGTAAACTCT
1 GAAAGAAAAGCCTTTGTGGTAAACTTT
* * *
67154988 GAAAGAAAACCCTTTGTGGCAAACTCT
1 GAAAGAAAAGCCTTTGTGGTAAACTTT
67155015 GAA
1 GAA
67155018 TGGACTGTCT
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
26 24 0.25
27 72 0.75
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGTAAACTTT
Found at i:67158727 original size:38 final size:40
Alignment explanation
Indices: 67158617--67158797 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
67158607 GACTCGCTCA
** ** *
67158617 AATGCCTTCGGGACGAAGCCCGG-TTATAGCGACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCACG
*
67158657 AATGCCTTCGGGACTTAACCCGG-TTTAGTAACTTGCAC-
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCACG
* *
67158695 AATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCACG
* * * *
67158734 AATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCACG
*
67158774 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
67158798 CATCATTCGA
Statistics
Matches: 117, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
37 9 0.08
38 27 0.23
39 19 0.16
40 55 0.47
41 7 0.06
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCACG
Found at i:67158730 original size:77 final size:80
Alignment explanation
Indices: 67158648--67158797 Score: 209
Period size: 77 Copynumber: 1.9 Consensus size: 80
67158638 GGTTATAGCG
* * *
67158648 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGG-TTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
67158709 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
67158725 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
67158790 AGCCCGGA
66 AGCCCGGA
67158798 CATCATTCGA
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
76 3 0.05
77 25 0.40
78 9 0.14
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:67165365 original size:40 final size:40
Alignment explanation
Indices: 67165257--67165366 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
67165247 ATTGAATGAT
* * * * *
67165257 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
67165297 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
67165337 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
67165367 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:67165381 original size:40 final size:39
Alignment explanation
Indices: 67165257--67165406 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
67165247 ATTGAATGAT
* * * * * * *
67165257 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
67165297 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
67165337 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
67165377 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
67165407 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:67169960 original size:40 final size:40
Alignment explanation
Indices: 67169863--67170078 Score: 135
Period size: 40 Copynumber: 5.5 Consensus size: 40
67169853 GAATCACGTA
* * * * * *
67169863 CCTTCGGAATTTAA-CCGGATATAACGACTCGCTCAAATG
1 CCTTCGGGACTTAACCCGGTTATAGCAACTCGCACAAATG
* *
67169902 CCTTCGGGAC-GAAGCCCGGTTATAGCGACTCGCACAAATG
1 CCTTCGGGACTTAA-CCCGGTTATAGCAACTCGCACAAATG
* *
67169942 CCTTCGGGACTTAACCCGGGTT-TAGTAACTTGCAC-AATG
1 CCTTCGGGACTTAACCC-GGTTATAGCAACTCGCACAAATG
* ** *
67169981 CCTTCGGG-CTTAGCCCGGATT-TATTAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGG-TTATAGCAACTCGCACAAATG
* ** * *
67170020 CCTTC-GGATCCTAGTCCGGATATAGTC-ACTTAGCACAAA-G
1 CCTTCGGGA-CTTAACCCGGTTATAG-CAAC-TCGCACAAATG
*
67170060 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAACCCGG
67170079 ACATCATTCG
Statistics
Matches: 143, Mismatches: 22, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
37 2 0.01
38 24 0.17
39 30 0.21
40 71 0.50
41 16 0.11
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGTTATAGCAACTCGCACAAATG
Found at i:67170020 original size:39 final size:39
Alignment explanation
Indices: 67169889--67170079 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
67169879 GGATATAACG
* ** **
67169889 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
67169929 ACTCGCACAAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
67169969 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
67170007 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
67170047 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
67170080 CATCATTCGA
Statistics
Matches: 125, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 70 0.56
41 10 0.08
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:67170025 original size:78 final size:80
Alignment explanation
Indices: 67169929--67170079 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 80
67169919 GGTTATAGCG
* * * *
67169929 ACTCGCACAAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACAAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
67169991 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
* ** *
67170007 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
67170072 AGCCCGGA
66 AGCCCGGA
67170080 CATCATTCGA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 3 0.05
78 33 0.53
79 15 0.24
80 11 0.18
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:67179725 original size:29 final size:29
Alignment explanation
Indices: 67179683--67179775 Score: 132
Period size: 29 Copynumber: 3.2 Consensus size: 29
67179673 GGAGGAGGGA
67179683 AAGTATCCACCAAGTAAAGTTTGCAAGTC
1 AAGTATCCACCAAGTAAAGTTTGCAAGTC
*
67179712 AAGTATCCACCAAGTAAACTTTGCAAGTC
1 AAGTATCCACCAAGTAAAGTTTGCAAGTC
* * ** *
67179741 AAGTATCCGCCAAGTAGAGTTCCCAAATC
1 AAGTATCCACCAAGTAAAGTTTGCAAGTC
67179770 AAGTAT
1 AAGTAT
67179776 TCGCCAAATG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.24
Consensus pattern (29 bp):
AAGTATCCACCAAGTAAAGTTTGCAAGTC
Found at i:67183170 original size:29 final size:29
Alignment explanation
Indices: 67183128--67183188 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
67183118 AGTGAATGTT
67183128 AATAAAAACGACTAGTAAATCAACATCCA
1 AATAAAAACGACTAGTAAATCAACATCCA
67183157 AATAAAAACGACTAGTAAATCAACATCCA
1 AATAAAAACGACTAGTAAATCAACATCCA
67183186 AAT
1 AAT
67183189 CATGCTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.56, C:0.20, G:0.07, T:0.18
Consensus pattern (29 bp):
AATAAAAACGACTAGTAAATCAACATCCA
Found at i:67184676 original size:12 final size:12
Alignment explanation
Indices: 67184644--67184682 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
67184634 ATTTAAAATC
67184644 TTTAAAATGATTT
1 TTTAAAAT-ATTT
67184657 TTTGAAAATATTT
1 TTT-AAAATATTT
67184670 TTTAAAAT-TTT
1 TTTAAAATATTT
67184681 TT
1 TT
67184683 GGATTATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.20
12 5 0.20
13 10 0.40
14 5 0.20
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (12 bp):
TTTAAAATATTT
Found at i:67185885 original size:37 final size:37
Alignment explanation
Indices: 67185835--67185908 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
67185825 AAAATGTTCC
67185835 TAGATACACCATATCTTTCTTTCCTAATAGGAGTTTA
1 TAGATACACCATATCTTTCTTTCCTAATAGGAGTTTA
67185872 TAGATACACCATATCTTTCTTTCCTAATAGGAGTTTA
1 TAGATACACCATATCTTTCTTTCCTAATAGGAGTTTA
67185909 ACTCTGGCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (37 bp):
TAGATACACCATATCTTTCTTTCCTAATAGGAGTTTA
Found at i:67189241 original size:6 final size:6
Alignment explanation
Indices: 67189230--67189417 Score: 163
Period size: 6 Copynumber: 30.8 Consensus size: 6
67189220 TATCATAACT
*
67189230 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AG-GTGAC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C
* * * *
67189279 AGAATC AAAATC AGAACC AGAATC AGAATT AG-GT- AGCAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
* * *
67189326 AGTATC AGGTAA-C AGAATC AGAATC AGAACC AGAATC AGAATT AGGTAA-C
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC
* *
67189376 AGAATC AGAATC AGTATC AGGTAAT- AGAATC AAAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
67189418 GTGAATGCAA
Statistics
Matches: 148, Mismatches: 19, Indels: 30
0.75 0.10 0.15
Matches are distributed among these distances:
4 2 0.01
5 9 0.06
6 119 0.80
7 12 0.08
8 6 0.04
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:67189285 original size:37 final size:39
Alignment explanation
Indices: 67189241--67189389 Score: 150
Period size: 37 Copynumber: 3.9 Consensus size: 39
67189231 GAATCAGAAT
67189241 CAGAATCAGAATCA-G-AATCAGAATCAGAATCAGGTGA-
1 CAGAATCAGAATCAGGTAA-CAGAATCAGAATCAGGTGAC
* * *
67189278 CAGAATCAAAATCA-G-AACCAGAATCAGAATTAGGTAGCAAT
1 CAGAATCAGAATCAGGTAA-CAGAATCAGAATCAGGT-G--AC
* *
67189319 CAGAATCAGTATCAGGTAACAGAATCAGAATCA-G-AAC
1 CAGAATCAGAATCAGGTAACAGAATCAGAATCAGGTGAC
*
67189356 CAGAATCAGAATTAGGTAACAGAATCAGAATCAG
1 CAGAATCAGAATCAGGTAACAGAATCAGAATCAG
67189390 TATCAGGTAA
Statistics
Matches: 95, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
37 64 0.67
38 1 0.01
40 1 0.01
41 13 0.14
42 14 0.15
43 2 0.02
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (39 bp):
CAGAATCAGAATCAGGTAACAGAATCAGAATCAGGTGAC
Found at i:67189324 original size:23 final size:24
Alignment explanation
Indices: 67189296--67189354 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
67189286 AAATCAGAAC
* *
67189296 CAGAATCAGAATTAGGTAGC-AAT
1 CAGAATCAGAATCAGGTAACAAAT
*
67189319 CAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGGTAACA-AAT
67189344 CAGAATCAGAA
1 CAGAATCAGAA
67189355 CCAGAATCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 17 0.57
25 13 0.43
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (24 bp):
CAGAATCAGAATCAGGTAACAAAT
Found at i:67189384 original size:25 final size:25
Alignment explanation
Indices: 67189225--67189417 Score: 138
Period size: 25 Copynumber: 7.8 Consensus size: 25
67189215 AACATTATCA
67189225 TAACTAGAATCAGAATCAGAATCA-G
1 TAAC-AGAATCAGAATCAGAATCAGG
67189250 -AATCAGAATCAGAATCAGAATCAGG
1 TAA-CAGAATCAGAATCAGAATCAGG
* * *
67189275 TGACAGAATCAAAATCAGAACCA-G
1 TAACAGAATCAGAATCAGAATCAGG
* *
67189299 -AATCAGAATTAG-GT-AGCAATCA-G
1 TAA-CAGAATCAGAATCAG-AATCAGG
*
67189322 -AATCAGTATCAGGTAA-CAGAATCA-G
1 TAA-CAGAATCA-G-AATCAGAATCAGG
* *
67189347 -AATCAGAACCAGAATCAGAATTAGG
1 TAA-CAGAATCAGAATCAGAATCAGG
*
67189372 TAACAGAATCAGAATCAGTATCAGG
1 TAACAGAATCAGAATCAGAATCAGG
* *
67189397 TAATAGAATCAAAATCAGAAT
1 TAACAGAATCAGAATCAGAAT
67189418 GTGAATGCAA
Statistics
Matches: 136, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
22 2 0.01
23 18 0.13
24 38 0.28
25 73 0.54
26 5 0.04
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.19
Consensus pattern (25 bp):
TAACAGAATCAGAATCAGAATCAGG
Found at i:67189407 original size:19 final size:19
Alignment explanation
Indices: 67189241--67189389 Score: 148
Period size: 19 Copynumber: 7.8 Consensus size: 19
67189231 GAATCAGAAT
67189241 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
67189258 TCAGAATCAGAATCAGGTGA
1 -CAGAATCAGAATCAGGTAA
*
67189278 CAGAATCAAAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
67189295 CCAGAATCAGAATTAGGTAGCAA
1 -CAGAATCAGAATCAGGT---AA
*
67189318 TCAGAATCAGTATCAGGTAA
1 -CAGAATCAGAATCAGGTAA
67189338 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
67189355 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
67189375 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
67189390 TATCAGGTAA
Statistics
Matches: 109, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
17 3 0.03
18 41 0.38
19 43 0.39
20 5 0.05
23 17 0.16
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:67189578 original size:27 final size:26
Alignment explanation
Indices: 67189536--67189587 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
67189526 GCGAGGCTGC
*
67189536 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
67189562 CAGATATATGTGGCGAAGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
67189588 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:67189628 original size:67 final size:67
Alignment explanation
Indices: 67189520--67189673 Score: 299
Period size: 67 Copynumber: 2.3 Consensus size: 67
67189510 CACCACAGAA
*
67189520 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAAATATATGTGGCGAAGCCACC
67189585 AG
66 AG
67189587 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAAATATATGTGGCGAAGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAAATATATGTGGCGAAGCCACC
67189652 AG
66 AG
67189654 ATTGCAGCGAGGCTGCCAGA
1 ATTGCAGCGAGGCTGCCAGA
67189674 ACGCTTCCTC
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 86 1.00
ACGTcount: A:0.31, C:0.23, G:0.29, T:0.18
Consensus pattern (67 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAAATATATGTGGCGAAGCCACC
AG
Found at i:67189982 original size:27 final size:27
Alignment explanation
Indices: 67189899--67190305 Score: 486
Period size: 27 Copynumber: 15.3 Consensus size: 27
67189889 GGGGCAAAAT
* * * *
67189899 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
67189925 GGTAATTCCACCCTACA-GGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
67189951 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
67189978 GGTAATTCTACCCTATAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
67190005 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
67190032 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
67190059 AGTAATTCTACCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
67190085 GGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
67190112 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
67190139 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
67190166 GGTAATTCTACCCTAC-GGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
67190191 GGTAATTCTACCTTACTA-GGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* * *
67190218 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * ** * *
67190245 GGCAATTTTA-CAAACTAGGGGTGTTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
**
67190272 GGTAATTCTACCCTATGGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
67190299 AGTAATT
1 GGTAATT
67190306 TCACAATCGA
Statistics
Matches: 329, Mismatches: 44, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
25 18 0.05
26 73 0.22
27 236 0.72
28 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:67190081 original size:107 final size:106
Alignment explanation
Indices: 67189917--67190243 Score: 455
Period size: 107 Copynumber: 3.1 Consensus size: 106
67189907 TACCCCACAA
* * * *
67189917 GGTATCTCGGTAATTCCACCCTACA-GGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGT
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACA-GGGTATTTCGGT
*
67189981 AATTCTACCCTATAGGGGTATTGCGATAATTCTACCCTACAGG
65 AATTCTACCTTATAGGGGTATT-CGATAATTCTACCCTACAGG
67190024 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGTATTTCGGTA
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGTATTTCGGTA
* * *
67190089 ATTTTACCTTACAGGGGTATTTCGGTAATTCTACCCTACAGG
66 ATTCTACCTTATAGGGGTA-TTCGATAATTCTACCCTACAGG
* *
67190131 GGTATTTC-AGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACGGGGTA-TTCGGT
1 GGTATTTCGA-TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGTATTTCGGT
** *
67190194 AATTCTACCTTACTA-GGGTATTTTAGTAATTCTACCCTACAAG
65 AATTCTACCTTA-TAGGGGTATTCGA-TAATTCTACCCTACAGG
67190237 GGTATTT
1 GGTATTT
67190244 TGGCAATTTT
Statistics
Matches: 199, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
105 2 0.01
106 46 0.23
107 124 0.62
108 27 0.14
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (106 bp):
GGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGTATTTCGGTA
ATTCTACCTTATAGGGGTATTCGATAATTCTACCCTACAGG
Found at i:67190449 original size:55 final size:54
Alignment explanation
Indices: 67190379--67190509 Score: 131
Period size: 55 Copynumber: 2.4 Consensus size: 54
67190369 AGGGTAAAAT
* * * ** *
67190379 AGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACCAGTCGA-GGGTATTTC
1 AGTAATTTTACAAATCGAGGGTACTTTAGTAA-TTTTA-CAAACAAGGGGTATTTC
* * *
67190434 AGTAATTTTACAAATCAGGGGGTATTTTAGTAATTTTACAAACAAGGGGTATTTT
1 AGTAATTTTACAAATC-GAGGGTACTTTAGTAATTTTACAAACAAGGGGTATTTC
67190489 AGTAATTTT-CTAAATCGAGGG
1 AGTAATTTTAC-AAATCGAGGG
67190510 AAAAATGGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
54 9 0.14
55 41 0.65
56 13 0.21
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.37
Consensus pattern (54 bp):
AGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACAAGGGGTATTTC
Found at i:67190456 original size:28 final size:27
Alignment explanation
Indices: 67190425--67190497 Score: 119
Period size: 28 Copynumber: 2.7 Consensus size: 27
67190415 TACCAGTCGA
* *
67190425 GGGTATTTCAGTAATTTTACAAATCAGG
1 GGGTATTTTAGTAATTTTACAAA-CAAG
67190453 GGGTATTTTAGTAATTTTACAAACAAG
1 GGGTATTTTAGTAATTTTACAAACAAG
67190480 GGGTATTTTAGTAATTTT
1 GGGTATTTTAGTAATTTT
67190498 CTAAATCGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
27 21 0.49
28 22 0.51
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAACAAG
Found at i:67190509 original size:28 final size:28
Alignment explanation
Indices: 67190378--67190509 Score: 107
Period size: 28 Copynumber: 4.8 Consensus size: 28
67190368 GAGGGTAAAA
* * *
67190378 TAGTAATTCTATAAATCGA-GGGTACTT
1 TAGTAATTTTCTAAATCGAGGGGTATTT
* *
67190405 TGGTAATTTT-TACCAGTCGA-GGGTATTT
1 TAGTAATTTTCTA--AATCGAGGGGTATTT
*
67190433 CAGTAATTTTAC-AAATC-AGGGGGTATTT
1 TAGTAATTTT-CTAAATCGA-GGGGTATTT
*
67190461 TAGTAATTTTAC-AAA-CAAGGGGTATTT
1 TAGTAATTTT-CTAAATCGAGGGGTATTT
67190488 TAGTAATTTTCTAAATCGAGGG
1 TAGTAATTTTCTAAATCGAGGG
67190510 AAAAATGGTA
Statistics
Matches: 87, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
26 4 0.05
27 34 0.39
28 48 0.55
29 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (28 bp):
TAGTAATTTTCTAAATCGAGGGGTATTT
Found at i:67190740 original size:27 final size:27
Alignment explanation
Indices: 67190310--67190727 Score: 349
Period size: 27 Copynumber: 15.4 Consensus size: 27
67190300 GTAATTTCAC
*
67190310 AATCGAGGGTAAAA-CGATAATTTTGTA
1 AATCGAGGGTAAAATAG-TAATTTTGTA
* *
67190337 AATCAAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* * *
67190364 AATTGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTGTA
*** *
67190391 AATCGAGGGTACTTTGGTAATTTT-TA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* ** **
67190417 CCAGTCGAGGGT-ATTTCAGTAATTTTACA
1 --AATCGAGGGTAAAAT-AGTAATTTTGTA
* *** **
67190446 AATCAGGGGGTATTTTAGTAATTTTACA
1 AATC-GAGGGTAAAATAGTAATTTTGTA
* *** *
67190474 AA-CAAGGGGTATTTTAGTAATTTTCTA
1 AATCGA-GGGTAAAATAGTAATTTTGTA
* * * *
67190501 AATCGAGGGAAAAATGGTAATTCTCTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* * *
67190528 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTGTA
** *
67190555 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
67190582 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* * * *
67190609 ATTCAAGGGTAAAATAGTAACTCTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
*
67190636 AATCGAGGGTGAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* * *
67190663 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTGTA
*
67190690 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
67190717 AATCGAGGGTA
1 AATCGAGGGTA
67190728 CTTTAATAAT
Statistics
Matches: 328, Mismatches: 54, Indels: 18
0.82 0.14 0.05
Matches are distributed among these distances:
26 2 0.01
27 283 0.86
28 39 0.12
29 4 0.01
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTTTGTA
Found at i:67190765 original size:54 final size:52
Alignment explanation
Indices: 67190706--67190880 Score: 172
Period size: 54 Copynumber: 3.3 Consensus size: 52
67190696 GGGTAAAATG
* * *
67190706 GTAATTTTGTAAATCGAGGGTACTTTAATAATTTTACATGTTGAGGGTATTTCA
1 GTAATTTTGTAAA-CGAGGGTACTTTGATAATTTTACA-ATTGAGGATATTTCA
* * * * **
67190760 ATAATTTTGCAAACTGAGGGTA-TTTCGATAATTTTACAAATCGAGGACATTTGG
1 GTAATTTTGTAAAC-GAGGGTACTTT-GATAATTTTAC-AATTGAGGATATTTCA
* * *
67190814 GTAATTTTATAAACCGAGGGTACTTTGGTAATTTTACAACTGAGGATATTTCA
1 GTAATTTTGTAAA-CGAGGGTACTTTGATAATTTTACAATTGAGGATATTTCA
*
67190867 GTAATTTGGTAAAC
1 GTAATTTTGTAAAC
67190881 TAAAGTATTC
Statistics
Matches: 96, Mismatches: 20, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
52 1 0.01
53 26 0.27
54 64 0.67
55 5 0.05
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (52 bp):
GTAATTTTGTAAACGAGGGTACTTTGATAATTTTACAATTGAGGATATTTCA
Found at i:67190870 original size:26 final size:26
Alignment explanation
Indices: 67190721--67190873 Score: 96
Period size: 27 Copynumber: 5.7 Consensus size: 26
67190711 TTTGTAAATC
* **
67190721 GAGGGTACTTT-AATAATTTTACATGTT
1 GAGGGTA-TTTCAGTAATTTTACA-ACT
* *
67190748 GAGGGTATTTCAATAATTTTGCAAACT
1 GAGGGTATTTCAGTAATTTTAC-AACT
*
67190775 GAGGGTATTTC-GATAATTTTACAAAT
1 GAGGGTATTTCAG-TAATTTTACAACT
** ** * *
67190801 CGAGGACATTTGGGTAATTTTATAAACC
1 -GAGGGTATTTCAGTAATTTTA-CAACT
*
67190829 GAGGGTACTTT-GGTAATTTTACAACT
1 GAGGGTA-TTTCAGTAATTTTACAACT
*
67190855 GAGGATATTTCAGTAATTT
1 GAGGGTATTTCAGTAATTT
67190874 GGTAAACTAA
Statistics
Matches: 100, Mismatches: 18, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
25 3 0.03
26 22 0.22
27 68 0.68
28 7 0.07
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (26 bp):
GAGGGTATTTCAGTAATTTTACAACT
Found at i:67198285 original size:23 final size:24
Alignment explanation
Indices: 67198250--67198317 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
67198240 TACTATTTTT
* *
67198250 AGCTCATTGGAGCTTACCGGT-TC
1 AGCTCAATAGAGCTTACCGGTATC
* *
67198273 AGCTCAATAGAGCTTACTGTTCATC
1 AGCTCAATAGAGCTTACCGGT-ATC
*
67198298 AGCTCAAAAAGAGCTTACCG
1 AGCTC-AATAGAGCTTACCG
67198318 ATCATGGCTC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 17 0.47
25 7 0.19
26 12 0.33
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (24 bp):
AGCTCAATAGAGCTTACCGGTATC
Found at i:67198322 original size:26 final size:25
Alignment explanation
Indices: 67198259--67198335 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 25
67198249 TAGCTCATTG
* *
67198259 GAGCTTACCGGT--TCAGCTCAATA
1 GAGCTTACCGATCATCAGCTCAAAA
* *
67198282 GAGCTTACTGTTCATCAGCTCAAAAA
1 GAGCTTACCGATCATCAGCTC-AAAA
* *
67198308 GAGCTTACCGATCAT-GGCTCGAAA
1 GAGCTTACCGATCATCAGCTCAAAA
67198332 GAGC
1 GAGC
67198336 ATAAATGATA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
23 10 0.23
24 7 0.16
25 11 0.25
26 16 0.36
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (25 bp):
GAGCTTACCGATCATCAGCTCAAAA
Done.