Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 161 of 373
Found at i:53933172 original size:27 final size:26
Alignment explanation
Indices: 53933124--53933175 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
53933114 GCGAGGCTGC
*
53933124 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
53933150 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
53933176 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:53933450 original size:27 final size:27
Alignment explanation
Indices: 53933420--53933614 Score: 275
Period size: 27 Copynumber: 7.3 Consensus size: 27
53933410 GGGGTAAAAT
* * *
53933420 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53933447 GGTAATTCTATCCTACAAGGGTATTT-
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53933473 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53933500 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53933527 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
53933554 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
53933581 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
53933608 GGTAATT
1 GGTAATT
53933615 TTGTAAATCA
Statistics
Matches: 148, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 24 0.16
27 124 0.84
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:53933592 original size:81 final size:80
Alignment explanation
Indices: 53933424--53933614 Score: 312
Period size: 81 Copynumber: 2.4 Consensus size: 80
53933414 TAAAATGGTA
* * *
53933424 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTATCCTACAAGGGTATTTAGTAATTCTACCCTA
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTAGTAATTCTACCCTA
53933488 CAAGGGTATTTCGAT
66 CAAGGGTATTTCGAT
*
53933503 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTA-TTTAGTAATTCTACCCT
* *
53933568 ACAGGGGTATTTCGGT
65 ACAAGGGTATTTCGAT
53933584 ATTTCTACCCTACAAGGGTATTTCGGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATT
53933615 TTGTAAATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
79 4 0.04
80 38 0.37
81 62 0.60
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (80 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTAGTAATTCTACCCTA
CAAGGGTATTTCGAT
Found at i:53933683 original size:27 final size:27
Alignment explanation
Indices: 53933653--53934045 Score: 475
Period size: 27 Copynumber: 14.6 Consensus size: 27
53933643 TGTAAATCAG
* **
53933653 GGGTACTTTGGTAATTTTACAAGTCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*** *** *
53933680 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
53933707 GGGTATTTTAGTAATTTTACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
53933734 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
53933761 GGGTATTTTGATGATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
53933788 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* **
53933815 -GGTATTTTGGAAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
53933841 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
53933868 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
53933895 GGGTATTTTAGTAATTTTACAAATC-G
1 GGGTATTTTGGTAATTTTACAAACCAA
**
53933921 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
53933948 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
53933975 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
53934002 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
53934029 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
53934046 GATAAACTAA
Statistics
Matches: 312, Mismatches: 52, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 44 0.14
27 268 0.86
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:53933749 original size:54 final size:54
Alignment explanation
Indices: 53933650--53934052 Score: 524
Period size: 54 Copynumber: 7.5 Consensus size: 54
53933640 TTCTGTAAAT
* * ** *** ***
53933650 CAGGGGTACTTTGGTAATTTTACAAGTCAAGGGTATTTCAATAATTTTACAGGT
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAAC
* * * *
53933704 C-GAGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAAC
1 CAG-GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAAC
* * * *
53933758 TAGGGGTATTTTGATGATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAAC
* * *
53933812 CA-AGGTATTTTGGAAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAAC
* * *
53933865 CAGGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAT
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAAC
*
53933919 C-GGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAAC
* *
53933972 CAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAAC
*
53934026 CAGGGGTATTTTGGTAATTTGATAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
53934053 TAAAGTATTC
Statistics
Matches: 307, Mismatches: 38, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
53 97 0.32
54 209 0.68
55 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAAC
Found at i:53933863 original size:107 final size:107
Alignment explanation
Indices: 53933598--53934045 Score: 554
Period size: 107 Copynumber: 4.2 Consensus size: 107
53933588 CTACCCTACA
* * **** * * ** * *
53933598 AGGGTATTTCGGTAATTTTGTAAATCAAGGGTAAAACGATAATTCTGTAAATCAGGGGTACTTTG
1 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
* * ** * * ** *
53933663 GTAATTTTACAAGTCAAGGGTATTTCAATAATTTTACAGGTCG
66 GTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACA-AACC
* ** * * *
53933706 AGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
* * *
53933771 ATGATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACC
66 GTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACC
* *
53933813 AAGGTATTTTGGAAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
1 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
* * *
53933878 GTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAATC
66 GTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACC
*
53933920 GGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
1 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
53933985 GTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACC
66 GTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACC
53934027 AGGGGTATTTTGGTAATTT
1 A-GGGTATTTTGGTAATTT
53934046 GATAAACTAA
Statistics
Matches: 292, Mismatches: 47, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
107 195 0.67
108 97 0.33
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (107 bp):
AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
GTGATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACC
Found at i:53940388 original size:63 final size:63
Alignment explanation
Indices: 53940316--53940440 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 63
53940306 TCTAAAAGTC
* *
53940316 TATATAATTTAGAGTTATCACCATATTATGAATCTCACAAGCAAGTAGATCCATAAATAGATA
1 TATATAATTTAGAGTTATCACCATATTATGAATCTCACAAGCAAGTAGATCCACAAACAGATA
53940379 TATATAATTTAGAGTTATCACCATATTATGAATCTCACAAGCAAGTAGATCCACAAACAGAT
1 TATATAATTTAGAGTTATCACCATATTATGAATCTCACAAGCAAGTAGATCCACAAACAGAT
53940441 TCAGGATCTA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.30
Consensus pattern (63 bp):
TATATAATTTAGAGTTATCACCATATTATGAATCTCACAAGCAAGTAGATCCACAAACAGATA
Found at i:53945442 original size:27 final size:27
Alignment explanation
Indices: 53945411--53945552 Score: 144
Period size: 27 Copynumber: 5.3 Consensus size: 27
53945401 TTAGTTTACC
*
53945411 AAATTACTGAAATACCCTCAACTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * *
53945438 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTGAAA-TACCCTCAATTTGTA
** * * *
53945465 AAATTACCCAAATATCCTCGATATGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* *
53945492 AAATTA-TAGAAATACCCTCAGTTTGCA
1 AAATTACT-GAAATACCCTCAATTTGTA
*
53945519 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
53945546 AAATTAC
1 AAATTAC
53945553 CCAATTATCG
Statistics
Matches: 92, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
26 3 0.03
27 84 0.91
28 5 0.05
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAATTTGTA
Found at i:53945548 original size:81 final size:81
Alignment explanation
Indices: 53945411--53945561 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
53945401 TTAGTTTACC
*
53945411 AAATTACTGAAATACCCTCAACTTGTAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAA
53945476 ATATCCTCGATATGTA
66 ATATCCTCGATATGTA
** * * * *
53945492 AAATTA-TAGAAATACCCTCAGTTTGCAAAATTACTGAAA-TACCCTCGATTTGTAAAATTACCC
1 AAATTACT-GAAATACCCTCAACTTGCAAAATTAC-CAAAGTACCCCCAATTTATAAAATTACCC
*
53945555 AATTATC
64 AAATATC
53945562 GTTTTACCCT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
80 1 0.02
81 56 0.93
82 3 0.05
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (81 bp):
AAATTACTGAAATACCCTCAACTTGCAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAA
ATATCCTCGATATGTA
Found at i:53945842 original size:27 final size:27
Alignment explanation
Indices: 53945563--53945830 Score: 448
Period size: 27 Copynumber: 9.9 Consensus size: 27
53945553 CCAATTATCG
53945563 TTTTACCCTCGATTTATAGAATTACTA
1 TTTTACCCTCGATTTATAGAATTACTA
* *
53945590 TTTTACCCTTGATTTATAGAATTACCA
1 TTTTACCCTCGATTTATAGAATTACTA
53945617 TTTTACCCTCGATTTATAGAATTACTA
1 TTTTACCCTCGATTTATAGAATTACTA
* **
53945644 TTTTACCCTCGATTTACAGAATTACCG
1 TTTTACCCTCGATTTATAGAATTACTA
53945671 TTTTACCCTCGATTTATAGAATTACTA
1 TTTTACCCTCGATTTATAGAATTACTA
*
53945698 TTTTACCCTCGATTTATAGAATTA-TCG
1 TTTTACCCTCGATTTATAGAATTACT-A
53945725 TTTTACCCTCGATTTATAGAATTACTA
1 TTTTACCCTCGATTTATAGAATTACTA
*
53945752 TTTTACCCTCGATTTACAGAATTACTA
1 TTTTACCCTCGATTTATAGAATTACTA
53945779 TTTTACCCTCGATTTATAGAATTACTA
1 TTTTACCCTCGATTTATAGAATTACTA
*
53945806 TTTTACCCTCGATTTACAGAATTAC
1 TTTTACCCTCGATTTATAGAATTAC
53945831 CGTCTTACCC
Statistics
Matches: 224, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
26 1 0.00
27 222 0.99
28 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (27 bp):
TTTTACCCTCGATTTATAGAATTACTA
Found at i:53945868 original size:54 final size:54
Alignment explanation
Indices: 53945555--53945842 Score: 495
Period size: 54 Copynumber: 5.3 Consensus size: 54
53945545 AAAATTACCC
* * *
53945555 AATTATCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
*
53945609 AATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
*
53945663 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
*
53945717 AATTATCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
**
53945771 AATTACTATTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
*
53945825 AATTACCGTCTTACCCTC
1 AATTACCGTTTTACCCTC
53945843 AATGTAAAAA
Statistics
Matches: 220, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 220 1.00
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.42
Consensus pattern (54 bp):
AATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
Found at i:53945894 original size:54 final size:54
Alignment explanation
Indices: 53945836--53945948 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
53945826 ATTACCGTCT
* ** *
53945836 TACCCTCAATGTAA-AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAAT-CAATAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
* ** *
53945890 TACCCTCGATCAATAAAATTACCAAAATACCATTGGTTTGTAAAATTATCAAAA
1 TACCCTCAATCAATAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
53945944 TACCC
1 TACCC
53945949 CTGCTTTGTG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
53 2 0.04
54 48 0.96
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.28
Consensus pattern (54 bp):
TACCCTCAATCAATAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
Found at i:53945933 original size:27 final size:27
Alignment explanation
Indices: 53945850--53945948 Score: 108
Period size: 27 Copynumber: 3.7 Consensus size: 27
53945840 CTCAATGTAA
** *
53945850 AAAATTACTGAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTAT
* * **
53945877 AAAATTACCAAAATACCCTCGATCAAT
1 AAAATTACCAAAATACCCTTGGTTTAT
* *
53945904 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTAT
*
53945931 AAAATTATCAAAATACCC
1 AAAATTACCAAAATACCC
53945949 CTGCTTTGTG
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTAT
Found at i:53945956 original size:27 final size:27
Alignment explanation
Indices: 53945903--53945975 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
53945893 CCTCGATCAA
* ** *
53945903 TAAAATTACCAAAATACCATTGGTTTG
1 TAAAATTATCAAAATACCCCTGCTTTG
53945930 TAAAATTATCAAAATACCCCTGCTTTG
1 TAAAATTATCAAAATACCCCTGCTTTG
** *
53945957 TGTAATTATCGAAATACCC
1 TAAAATTATCAAAATACCC
53945976 TTGTAGGGTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (27 bp):
TAAAATTATCAAAATACCCCTGCTTTG
Found at i:53945990 original size:27 final size:27
Alignment explanation
Indices: 53945960--53946154 Score: 293
Period size: 27 Copynumber: 7.3 Consensus size: 27
53945950 TGCTTTGTGT
*
53945960 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
53945987 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
53946014 AATAACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
53946041 AATTACCGAAATACCC-TGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
53946067 AATGACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
53946094 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
53946121 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
53946148 AATTACC
1 AATTACC
53946155 ATTTTTCCCC
Statistics
Matches: 151, Mismatches: 16, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
26 25 0.17
27 126 0.83
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:53946082 original size:80 final size:81
Alignment explanation
Indices: 53945960--53946146 Score: 288
Period size: 80 Copynumber: 2.3 Consensus size: 81
53945950 TGCTTTGTGT
* * *
53945960 AATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG-AATAACCGAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATGACCGAAATACCCCTGTAGGGTAGAAAT-ACCAAA
*
53946024 ATACCCTTGTAGGGTAG
65 ATACCCCTGTAGGGTAG
*
53946041 AATTACCGAAATACCC-TGTAGGGTAGAATGACCGAAATACCCTTGTAGGGTAGAAATACCAAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATGACCGAAATACCCCTGTAGGGTAGAAATACCAAAA
53946105 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* *
53946121 AATTACCGAGATACCCTTGTGGGGTA
1 AATTACCGAAATACCCTTGTAGGGTA
53946147 AAATTACCAT
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
80 71 0.73
81 26 0.27
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (81 bp):
AATTACCGAAATACCCTTGTAGGGTAGAATGACCGAAATACCCCTGTAGGGTAGAAATACCAAAA
TACCCCTGTAGGGTAG
Found at i:53946587 original size:6 final size:6
Alignment explanation
Indices: 53946556--53946653 Score: 67
Period size: 6 Copynumber: 15.8 Consensus size: 6
53946546 TTGCATTCAC
* * *
53946556 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
53946604 ATTACCTG ATACTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCT
1 ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCT
53946654 AGTTTTGATA
Statistics
Matches: 71, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
5 6 0.08
6 54 0.76
7 7 0.10
8 4 0.06
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:53946587 original size:25 final size:25
Alignment explanation
Indices: 53946559--53946653 Score: 91
Period size: 25 Copynumber: 3.6 Consensus size: 25
53946549 CATTCACATT
*
53946559 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
*
53946584 CTGATTCTGATTTTGATTCTATTACCTGATA
1 CTGATTC------TGATTCTGTTACCTGATA
* * *
53946615 CTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTTACCTGATA
53946640 CTGATTCTGATTCT
1 CTGATTCTGATTCT
53946654 AGTTTTGATA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
25 34 0.59
31 24 0.41
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTGATA
Found at i:53946594 original size:31 final size:31
Alignment explanation
Indices: 53946556--53946626 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
53946546 TTGCATTCAC
*
53946556 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTATTACCTGATACTG
53946587 ATTCTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTTTGATTCTATTACCTGATACTG
53946618 ATTCTGATT
1 ATTCTGATT
53946627 CTGTCACCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.21, C:0.15, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTATTACCTGATACTG
Found at i:53952838 original size:47 final size:47
Alignment explanation
Indices: 53952784--53953232 Score: 754
Period size: 47 Copynumber: 9.5 Consensus size: 47
53952774 TATTTGAATA
*
53952784 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53952831 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53952880 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53952927 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53952974 AATGTGAAAGTGTATAAATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53953021 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
53953068 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
53953115 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
53953162 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
53953209 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
53953233 GAGTCCCGAA
Statistics
Matches: 382, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 336 0.88
49 46 0.12
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:53959447 original size:40 final size:39
Alignment explanation
Indices: 53959410--53959586 Score: 162
Period size: 39 Copynumber: 4.5 Consensus size: 39
53959400 ATATCCGGAC
53959410 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
53959450 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * **
53959490 TAAGTCCCGAA-GCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * * * *
53959529 TATGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACTGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
53959568 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
53959587 AACGAGGAGC
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 65 0.56
40 48 0.41
41 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:53959522 original size:39 final size:39
Alignment explanation
Indices: 53959363--53959584 Score: 180
Period size: 40 Copynumber: 5.6 Consensus size: 39
53959353 TTGAATGCTG
* * * * * * *
53959363 TCCGGGCTAAGTCTCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** *
53959403 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * *
53959442 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
**
53959483 TCCGGGTTAAGTCCCGAA-GCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
53959522 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * * *
53959561 ACTGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
53959585 TGAACGAGGA
Statistics
Matches: 150, Mismatches: 24, Indels: 17
0.79 0.13 0.09
Matches are distributed among these distances:
38 3 0.02
39 65 0.43
40 71 0.47
41 11 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:53966842 original size:80 final size:79
Alignment explanation
Indices: 53966758--53966929 Score: 202
Period size: 79 Copynumber: 2.2 Consensus size: 79
53966748 GGACTAAGAT
*
53966758 CCGAAGGCATTTGTCCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTCCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
53966822 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * ** * * * *
53966838 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTCCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
53966903 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
53966917 CCGAAGGCATTTG
1 CCGAAGGCATTTG
53966930 AACGAGGAGC
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 38 0.49
80 36 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTCCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:53966909 original size:39 final size:39
Alignment explanation
Indices: 53966705--53966927 Score: 198
Period size: 40 Copynumber: 5.6 Consensus size: 39
53966695 TTGAATGCTG
* * * * * *
53966705 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
53966745 TCCGGACTAAGAT-CCGAAGGCATTTGTCCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * *
53966784 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
**
53966825 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
53966865 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
53966904 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
53966928 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
39 39 0.26
40 103 0.68
41 10 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:53966947 original size:79 final size:80
Alignment explanation
Indices: 53966785--53966962 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
53966775 AGATACAAAT
* * * *
53966785 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
53966850 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
53966865 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
53966929 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
53966944 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
53966963 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:53969754 original size:24 final size:24
Alignment explanation
Indices: 53969722--53969818 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
53969712 AAGGTTGTCA
*
53969722 GGAGAAGATTTAGGAACTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
53969746 GGAGAAGATTTAGGGGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
53969770 GGAG-AGAATTTAGGAGTTGATAAA
1 GGAGAAG-ATTTAGGAGCTGATAAG
53969794 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
53969818 G
1 G
53969819 AGCAAGAGTT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
23 2 0.03
24 60 0.94
25 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.37, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:53971295 original size:43 final size:42
Alignment explanation
Indices: 53971230--53971317 Score: 149
Period size: 43 Copynumber: 2.1 Consensus size: 42
53971220 GCTATGCCAT
*
53971230 AATTATCTGATCTGGTGGCTCTGTCACATATATCTGTTCTGGC
1 AATTATCTGATCTGGTGACTCTGTCACAT-TATCTGTTCTGGC
*
53971273 AATTATCTGTTCTGGTGACTCTGTCACATTATCTGTTCTGGC
1 AATTATCTGATCTGGTGACTCTGTCACATTATCTGTTCTGGC
53971315 AAT
1 AAT
53971318 CATGCTGCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
42 16 0.37
43 27 0.63
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.41
Consensus pattern (42 bp):
AATTATCTGATCTGGTGACTCTGTCACATTATCTGTTCTGGC
Found at i:53977605 original size:24 final size:24
Alignment explanation
Indices: 53977572--53977679 Score: 146
Period size: 24 Copynumber: 4.5 Consensus size: 24
53977562 AAGGATGTCA
*
53977572 GGAGAAGATTTAGGAGCTGAAAAG
1 GGAGAGGATTTAGGAGCTGAAAAG
* *
53977596 GGAGAGGATTTAGGGGCTGATAAG
1 GGAGAGGATTTAGGAGCTGAAAAG
* *
53977620 GGAGAGGATTTAGGGGCTGATAAG
1 GGAGAGGATTTAGGAGCTGAAAAG
53977644 GGAGAGGATTTAGGAGCTGATAAA-
1 GGAGAGGATTTAGGAGCTGA-AAAG
*
53977668 GGAGAAGATTTA
1 GGAGAGGATTTA
53977680 AGAGTTGATC
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 75 0.97
25 2 0.03
ACGTcount: A:0.35, C:0.04, G:0.41, T:0.20
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGAAAAG
Found at i:53977645 original size:48 final size:48
Alignment explanation
Indices: 53977571--53977679 Score: 173
Period size: 48 Copynumber: 2.3 Consensus size: 48
53977561 AAAGGATGTC
*
53977571 AGGAGAAGATTTAGGAGCTGAAAAGGGAGAGGATTTAGGGGCTGATAA
1 AGGAGAAGATTTAGGAGCTGAAAAGGGAGAGGATTTAGGAGCTGATAA
* * * *
53977619 GGGAGAGGATTTAGGGGCTGATAAGGGAGAGGATTTAGGAGCTGATAA
1 AGGAGAAGATTTAGGAGCTGAAAAGGGAGAGGATTTAGGAGCTGATAA
53977667 AGGAGAAGATTTA
1 AGGAGAAGATTTA
53977680 AGAGTTGATC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.36, C:0.04, G:0.40, T:0.20
Consensus pattern (48 bp):
AGGAGAAGATTTAGGAGCTGAAAAGGGAGAGGATTTAGGAGCTGATAA
Found at i:53977688 original size:24 final size:24
Alignment explanation
Indices: 53977571--53977700 Score: 145
Period size: 24 Copynumber: 5.4 Consensus size: 24
53977561 AAAGGATGTC
53977571 AGGAGAAGATTTAGGAGCTGA-AA
1 AGGAGAAGATTTAGGAGCTGATAA
* *
53977594 AGGGAGAGGATTTAGGGGCTGATAA
1 A-GGAGAAGATTTAGGAGCTGATAA
* * *
53977619 GGGAGAGGATTTAGGGGCTGATAA
1 AGGAGAAGATTTAGGAGCTGATAA
* *
53977643 GGGAGAGGATTTAGGAGCTGATAA
1 AGGAGAAGATTTAGGAGCTGATAA
* * *
53977667 AGGAGAAGATTTAAGAGTTGATCA
1 AGGAGAAGATTTAGGAGCTGATAA
53977691 AGGAGCAAGA
1 AGGAG-AAGA
53977701 GTTGGTCGGC
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.01
24 88 0.93
25 6 0.06
ACGTcount: A:0.37, C:0.05, G:0.39, T:0.19
Consensus pattern (24 bp):
AGGAGAAGATTTAGGAGCTGATAA
Found at i:53979130 original size:27 final size:27
Alignment explanation
Indices: 53979090--53979173 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
53979080 AGGAAGCGTC
* *
53979090 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGTT
53979117 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
* *
53979144 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
53979170 CTGG
1 CTGG
53979174 CAGCCATGTT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 14 0.26
27 39 0.74
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:53991993 original size:53 final size:52
Alignment explanation
Indices: 53991913--53992019 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 52
53991903 CCTTACCCGT
*
53991913 ATCCAAAGCCAAAATAGGGTACGAGACATTAGTGGACTTATATTTTAATATTC
1 ATCCAAAGCCAAAATAGGGTACGAGACATTACTGGACTTATA-TTTAATATTC
53991966 ATCCAAAGCCAAAATAGGGTACGAGACATTACTGGACTTATATTTAATATTC
1 ATCCAAAGCCAAAATAGGGTACGAGACATTACTGGACTTATATTTAATATTC
53992018 AT
1 AT
53992020 TCACATTCAA
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 12 0.23
53 41 0.77
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (52 bp):
ATCCAAAGCCAAAATAGGGTACGAGACATTACTGGACTTATATTTAATATTC
Found at i:54005305 original size:53 final size:53
Alignment explanation
Indices: 54005186--54005293 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
54005176 CCTTACCCGT
*
54005186 ATCCAAAGCCAAAATAGGGTACGAGACATTAGTGGACTTATATTTTAATATTC
1 ATCCAAAGCCAAAATAGGGTACGAGACATTACTGGACTTATATTTTAATATTC
54005239 ATCCAAAGCCAAAATAGGGTACGAGACATTACTGGACTTATATTTTAATATTC
1 ATCCAAAGCCAAAATAGGGTACGAGACATTACTGGACTTATATTTTAATATTC
54005292 AT
1 AT
54005294 TCACATTCAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (53 bp):
ATCCAAAGCCAAAATAGGGTACGAGACATTACTGGACTTATATTTTAATATTC
Found at i:54018590 original size:53 final size:53
Alignment explanation
Indices: 54018471--54018578 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
54018461 CCTTACCCGT
*
54018471 ATCCAAAGCCAAAATAGGGTACGAGACATTAGTGGACTTATATTTTAATATTC
1 ATCCAAAGCCAAAATAGGGTACGAGACATTACTGGACTTATATTTTAATATTC
54018524 ATCCAAAGCCAAAATAGGGTACGAGACATTACTGGACTTATATTTTAATATTC
1 ATCCAAAGCCAAAATAGGGTACGAGACATTACTGGACTTATATTTTAATATTC
54018577 AT
1 AT
54018579 TCACATTCAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (53 bp):
ATCCAAAGCCAAAATAGGGTACGAGACATTACTGGACTTATATTTTAATATTC
Found at i:54020461 original size:67 final size:64
Alignment explanation
Indices: 54020262--54020519 Score: 204
Period size: 67 Copynumber: 3.9 Consensus size: 64
54020252 ATATAGTTCG
* * * *
54020262 GCTCTCTTGTAC-ACATGGTGAACACTCAGTACCACCCATGTGACCTGGC--CAATTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTACAATATATCTCGT
54020324 A
64 A
* * * * *
54020325 GCTCTCTTGTCTACAGGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTACAA-ATATCCC
1 GCTCTCTTGTCTACATGGTG---TACA-CTAGTACCACCCATGCGACCTAGCTACAATATATCTC
*
54020389 ATA
62 GTA
* *
54020392 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATATATCTTG
1 GCTCTCTTGTCTACATGGTGTACAC-TAGTACCACCCATGCGACCTAGCTACA--ATATATCTCG
54020457 TA
63 TA
* * * ** *
54020459 GCTCTCTTGTAC-ACATGATGTGCACTCAGCACCATACATGTGACCTAGCTAC-ATACTATCT
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTACAATA-TATCT
54020520 GTATCATCCA
Statistics
Matches: 156, Mismatches: 25, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 30 0.19
65 5 0.03
66 22 0.14
67 76 0.49
68 4 0.03
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACTAGTACCACCCATGCGACCTAGCTACAATATATCTCGTA
Found at i:54021213 original size:30 final size:30
Alignment explanation
Indices: 54021179--54021239 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
54021169 TCCTTAACTC
54021179 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
54021209 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
54021239 A
1 A
54021240 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:54023147 original size:44 final size:45
Alignment explanation
Indices: 54023099--54023223 Score: 148
Period size: 45 Copynumber: 2.8 Consensus size: 45
54023089 GAAGGCACTG
* * *
54023099 TCCCAGGCATGGTCTTACACGTAAATCAC-TA-ATC-GATGCCAATA
1 TCCCAGACGTGGTCTTACACG-AAATCACGTATATCTG-TGCCAACA
* *
54023143 TCCCAGACGCGGTCTTACACGAAATCACGTATATCTGTGCCAACG
1 TCCCAGACGTGGTCTTACACGAAATCACGTATATCTGTGCCAACA
*
54023188 TCCCAGACGTGGTCTTACACGAAAATCACATATATC
1 TCCCAGACGTGGTCTTACACG-AAATCACGTATATC
54023224 ACTCTTTGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
43 7 0.10
44 20 0.29
45 29 0.41
46 14 0.20
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (45 bp):
TCCCAGACGTGGTCTTACACGAAATCACGTATATCTGTGCCAACA
Found at i:54023536 original size:38 final size:38
Alignment explanation
Indices: 54023482--54023643 Score: 272
Period size: 38 Copynumber: 4.3 Consensus size: 38
54023472 GATATAACGA
*
54023482 GATTTAACCCGGATATAATACCAGCACGAAGCCTGCGG
1 GATTTAACCCGAATATAATACCAGCACGAAGCCTGCGG
54023520 GATTTAACCCGAATATAATACCAGCACGAAGCCTGCGG
1 GATTTAACCCGAATATAATACCAGCACGAAGCCTGCGG
* * *
54023558 GATTTAACCCGAATATAATACTAGCACGAAGTCTGTGG
1 GATTTAACCCGAATATAATACCAGCACGAAGCCTGCGG
54023596 GATTTAACCC-ATATATAATACCAGCACGAAGCCTGCGG
1 GATTTAACCCGA-ATATAATACCAGCACGAAGCCTGCGG
54023634 GATTTAACCC
1 GATTTAACCC
54023644 AGATACACAT
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
37 1 0.01
38 115 0.99
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (38 bp):
GATTTAACCCGAATATAATACCAGCACGAAGCCTGCGG
Found at i:54029272 original size:48 final size:48
Alignment explanation
Indices: 54029204--54029744 Score: 477
Period size: 48 Copynumber: 10.9 Consensus size: 48
54029194 ATATACACAC
* * * *
54029204 ATCTCCTACATATTTTACACTAGCCATTCGGCTTTACCACGTATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
54029252 ATCTCATACATATTTCACACTAGCCATTCGGTTTTACCACGTATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54029300 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAC
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * ***
54029348 ATCTCATACATATTTCACA-TATCTCATACATATTT--CACAT-TAGCCAT
1 ATCTCATACATATTTCACATTAGC-CATTCGGCTTTACCACATATA--CAT
* * * * * * * * * * * *
54029395 -TCGGCTTTACCACATATACATATCTCATACATATTTC-ACATTAGCCATTCGGCTTTAC-C
1 ATC-TC-ATA-CATAT-TTCACAT-T-A-GC-CA-TTCGGCTTTA-CCA--C--ATATACAT
* * *
54029454 A-CACATACATATCTCACACATATTTCACATTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATAT-T-TC---------ACATTAGCCATTCGGCTTTACCACATATACAT
*
54029512 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
54029560 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACACATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54029608 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
54029656 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
54029704 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
54029745 CACATATATA
Statistics
Matches: 412, Mismatches: 47, Indels: 68
0.78 0.09 0.13
Matches are distributed among these distances:
45 2 0.00
46 7 0.02
47 6 0.01
48 329 0.80
49 4 0.01
50 4 0.01
52 1 0.00
53 1 0.00
54 4 0.01
55 2 0.00
56 5 0.01
57 10 0.02
58 3 0.01
59 13 0.03
60 1 0.00
61 7 0.02
62 7 0.02
63 1 0.00
64 1 0.00
65 1 0.00
66 3 0.01
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:54029373 original size:20 final size:20
Alignment explanation
Indices: 54029348--54029387 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
54029338 ACATATACAC
54029348 ATCTCATACATATTTCACAT
1 ATCTCATACATATTTCACAT
54029368 ATCTCATACATATTTCACAT
1 ATCTCATACATATTTCACAT
54029388 TAGCCATTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (20 bp):
ATCTCATACATATTTCACAT
Found at i:54029405 original size:68 final size:68
Alignment explanation
Indices: 54029296--54029435 Score: 271
Period size: 68 Copynumber: 2.1 Consensus size: 68
54029286 TACCACGTAT
54029296 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATAT
54029361 TTC
66 TTC
*
54029364 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATAT
54029429 TTC
66 TTC
54029432 ACAT
1 ACAT
54029436 TAGCCATTCG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (68 bp):
ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATAT
TTC
Found at i:54029452 original size:116 final size:116
Alignment explanation
Indices: 54029248--54029483 Score: 418
Period size: 116 Copynumber: 2.0 Consensus size: 116
54029238 TACCACGTAT
* *
54029248 ACATATCTCATACATATTTCACACTAGCCATTCGGTTTTACCACGTATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* *
54029313 TTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTC
66 TTCACATTAGCCATTCGGCTTTACCACACATACACATCTCACACATATTTC
*
54029364 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
*
54029429 TTCACATTAGCCATTCGGCTTTACCACACATACATATCTCACACATATTTC
66 TTCACATTAGCCATTCGGCTTTACCACACATACACATCTCACACATATTTC
54029480 ACAT
1 ACAT
54029484 TAGCCATTCG
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 114 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.35
Consensus pattern (116 bp):
ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
TTCACATTAGCCATTCGGCTTTACCACACATACACATCTCACACATATTTC
Found at i:54029481 original size:164 final size:164
Alignment explanation
Indices: 54029199--54029531 Score: 558
Period size: 164 Copynumber: 2.0 Consensus size: 164
54029189 CCACAATATA
* * * *
54029199 CACACATCTCCTACATATTTTACACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATA
1 CACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
* ** *
54029264 TTTCACACTAGCCATTCGGTTTTACCACGTATACATATCTCATACATATTTCACATTAGCCATTC
66 TTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCACACATATTTCACATTAGCCATTC
*
54029329 GGCTTTACCACATATACACATCTCATACATATTT
131 GGCTTTACCACACATACACATCTCATACATATTT
*
54029363 CACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
1 CACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
*
54029428 TTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCACACATATTTCACATTAGCCATTC
66 TTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCACACATATTTCACATTAGCCATTC
*
54029493 GGCTTTACCACACATACATATCTCATACATATTT
131 GGCTTTACCACACATACACATCTCATACATATTT
54029527 CACAT
1 CACAT
54029532 TAGCCATTCG
Statistics
Matches: 157, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
164 157 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (164 bp):
CACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
TTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCACACATATTTCACATTAGCCATTC
GGCTTTACCACACATACACATCTCATACATATTT
Found at i:54029624 original size:144 final size:144
Alignment explanation
Indices: 54029364--54029753 Score: 744
Period size: 144 Copynumber: 2.7 Consensus size: 144
54029354 TACATATTTC
54029364 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* *
54029429 TTCACATTAGCCATTCGGCTTTACCACACATACATATCTCACACATATTTCACATTAGCCATTCG
66 TTCACATTAGCCATTCGGCTTTACCACACACATATATCTCACACATATTTCACATTAGCCATTCG
54029494 GCTTTACCACACAT
131 GCTTTACCACACAT
*
54029508 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
*
54029573 TTCACATTAGCCATTCGGCTTTACCACACACATATATCTCATACATATTTCACATTAGCCATTCG
66 TTCACATTAGCCATTCGGCTTTACCACACACATATATCTCACACATATTTCACATTAGCCATTCG
54029638 GCTTTACCACACAT
131 GCTTTACCACACAT
54029652 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
54029717 TTCACATTAGCCATTCGGCTTTACCACACACATATAT
66 TTCACATTAGCCATTCGGCTTTACCACACACATATAT
54029754 ATTTATCTTG
Statistics
Matches: 241, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 241 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.34
Consensus pattern (144 bp):
ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
TTCACATTAGCCATTCGGCTTTACCACACACATATATCTCACACATATTTCACATTAGCCATTCG
GCTTTACCACACAT
Found at i:54029745 original size:96 final size:96
Alignment explanation
Indices: 54029364--54029746 Score: 721
Period size: 96 Copynumber: 4.0 Consensus size: 96
54029354 TACATATTTC
*
54029364 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCATACATAT
54029429 TTCACATTAGCCATTCGGCTTTACCACACAT
66 TTCACATTAGCCATTCGGCTTTACCACACAT
*
54029460 ACATATCTCACACATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCATACATAT
54029525 TTCACATTAGCCATTCGGCTTTACCACACAT
66 TTCACATTAGCCATTCGGCTTTACCACACAT
* *
54029556 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACACATATATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCATACATAT
54029621 TTCACATTAGCCATTCGGCTTTACCACACAT
66 TTCACATTAGCCATTCGGCTTTACCACACAT
*
54029652 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCATACATAT
54029717 TTCACATTAGCCATTCGGCTTTACCACACA
66 TTCACATTAGCCATTCGGCTTTACCACACA
54029747 CATATATATT
Statistics
Matches: 279, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 279 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.33
Consensus pattern (96 bp):
ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCATACATAT
TTCACATTAGCCATTCGGCTTTACCACACAT
Found at i:54033150 original size:45 final size:45
Alignment explanation
Indices: 54033032--54033174 Score: 166
Period size: 45 Copynumber: 3.2 Consensus size: 45
54033022 GTGTAATCAA
* * *
54033032 ATATCGGTGCC-ACTGTCCCAGACATGGTCTTACACGTAAATCACT
1 ATATCGCTGCCAAC-GTCCCAGACGTGGTCTTACACGAAAATCACT
* ** *
54033077 A-ATCGATGCCAATATCCCAGACGCGGTCTTACACG-AAATCACGT
1 ATATCGCTGCCAACGTCCCAGACGTGGTCTTACACGAAAATCAC-T
*
54033121 ATATCGCTGCCAACGTCCCAAACGTGGTCTTACACGAAAATCACAT
1 ATATCGCTGCCAACGTCCCAGACGTGGTCTTACACGAAAATCAC-T
54033167 ATATCGCT
1 ATATCGCT
54033175 CTTTGATACT
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
43 7 0.08
44 29 0.35
45 31 0.37
46 16 0.19
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (45 bp):
ATATCGCTGCCAACGTCCCAGACGTGGTCTTACACGAAAATCACT
Found at i:54033433 original size:38 final size:37
Alignment explanation
Indices: 54033380--54033562 Score: 271
Period size: 38 Copynumber: 4.9 Consensus size: 37
54033370 TTAAGCTCGA
*
54033380 ATATAATACCAGCACGAAGCCTACGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCC-G
*
54033418 ATGTAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCC-G
* * *
54033456 ATATAATACCAGTACGAAGCGTGCGGGATTTCACCCG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
* *
54033493 ATATAATA-CAGCACGAAGCATG-GAGATTTAACCCG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
54033528 ATATAATACCAGCACGAAGCCTGCGGGATTTAACC
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACC
54033563 TAATACACAT
Statistics
Matches: 131, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
35 19 0.15
36 25 0.19
37 19 0.15
38 68 0.52
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (37 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
Found at i:54033547 original size:72 final size:76
Alignment explanation
Indices: 54033380--54033562 Score: 275
Period size: 72 Copynumber: 2.5 Consensus size: 76
54033370 TTAAGCTCGA
* * * *
54033380 ATATAATACCAGCACGAAGCCTACGGGATTTAACCCGGATGTAATACCAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCATGCGAG
54033445 ATTTAACCCGG
66 ATTTAACCCGG
* * *
54033456 ATATAATACCAGTACGAAGCGTGCGGGATTTCACCC-GATATAATA-CAGCACGAAGCATG-GAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCATGCGAG
54033518 ATTTAACCC-G
66 ATTTAACCCGG
54033528 ATATAATACCAGCACGAAGCCTGCGGGATTTAACC
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACC
54033563 TAATACACAT
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
72 33 0.34
73 11 0.11
74 13 0.13
75 8 0.08
76 32 0.33
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (76 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATACCAGCACGAAGCATGCGAG
ATTTAACCCGG
Found at i:54039160 original size:48 final size:48
Alignment explanation
Indices: 54039092--54039632 Score: 477
Period size: 48 Copynumber: 10.9 Consensus size: 48
54039082 ATATACACAC
* * * *
54039092 ATCTCCTACATATTTTACACTAGCCATTCGGCTTTACCACGTATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
54039140 ATCTCATACATATTTCACACTAGCCATTCGGTTTTACCACGTATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54039188 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAC
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * ***
54039236 ATCTCATACATATTTCACA-TATCTCATACATATTT--CACAT-TAGCCAT
1 ATCTCATACATATTTCACATTAGC-CATTCGGCTTTACCACATATA--CAT
* * * * * * * * * * * *
54039283 -TCGGCTTTACCACATATACATATCTCATACATATTTC-ACATTAGCCATTCGGCTTTAC-C
1 ATC-TC-ATA-CATAT-TTCACAT-T-A-GC-CA-TTCGGCTTTA-CCA--C--ATATACAT
* * *
54039342 A-CACATACATATCTCACACATATTTCACATTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATAT-T-TC---------ACATTAGCCATTCGGCTTTACCACATATACAT
*
54039400 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
54039448 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACACATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
54039496 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
54039544 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
54039592 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
54039633 CACATATATA
Statistics
Matches: 412, Mismatches: 47, Indels: 68
0.78 0.09 0.13
Matches are distributed among these distances:
45 2 0.00
46 7 0.02
47 6 0.01
48 329 0.80
49 4 0.01
50 4 0.01
52 1 0.00
53 1 0.00
54 4 0.01
55 2 0.00
56 5 0.01
57 10 0.02
58 3 0.01
59 13 0.03
60 1 0.00
61 7 0.02
62 7 0.02
63 1 0.00
64 1 0.00
65 1 0.00
66 3 0.01
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:54039261 original size:20 final size:20
Alignment explanation
Indices: 54039236--54039275 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
54039226 ACATATACAC
54039236 ATCTCATACATATTTCACAT
1 ATCTCATACATATTTCACAT
54039256 ATCTCATACATATTTCACAT
1 ATCTCATACATATTTCACAT
54039276 TAGCCATTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (20 bp):
ATCTCATACATATTTCACAT
Found at i:54039293 original size:68 final size:68
Alignment explanation
Indices: 54039184--54039323 Score: 271
Period size: 68 Copynumber: 2.1 Consensus size: 68
54039174 TACCACGTAT
54039184 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATAT
54039249 TTC
66 TTC
*
54039252 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATAT
54039317 TTC
66 TTC
54039320 ACAT
1 ACAT
54039324 TAGCCATTCG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (68 bp):
ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATAT
TTC
Found at i:54039340 original size:116 final size:116
Alignment explanation
Indices: 54039136--54039371 Score: 418
Period size: 116 Copynumber: 2.0 Consensus size: 116
54039126 TACCACGTAT
* *
54039136 ACATATCTCATACATATTTCACACTAGCCATTCGGTTTTACCACGTATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* *
54039201 TTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTC
66 TTCACATTAGCCATTCGGCTTTACCACACATACACATCTCACACATATTTC
*
54039252 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
*
54039317 TTCACATTAGCCATTCGGCTTTACCACACATACATATCTCACACATATTTC
66 TTCACATTAGCCATTCGGCTTTACCACACATACACATCTCACACATATTTC
54039368 ACAT
1 ACAT
54039372 TAGCCATTCG
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 114 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.35
Consensus pattern (116 bp):
ACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
TTCACATTAGCCATTCGGCTTTACCACACATACACATCTCACACATATTTC
Found at i:54039369 original size:164 final size:164
Alignment explanation
Indices: 54039087--54039419 Score: 558
Period size: 164 Copynumber: 2.0 Consensus size: 164
54039077 CCACAATATA
* * * *
54039087 CACACATCTCCTACATATTTTACACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATA
1 CACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
* ** *
54039152 TTTCACACTAGCCATTCGGTTTTACCACGTATACATATCTCATACATATTTCACATTAGCCATTC
66 TTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCACACATATTTCACATTAGCCATTC
*
54039217 GGCTTTACCACATATACACATCTCATACATATTT
131 GGCTTTACCACACATACACATCTCATACATATTT
*
54039251 CACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
1 CACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
*
54039316 TTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCACACATATTTCACATTAGCCATTC
66 TTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCACACATATTTCACATTAGCCATTC
*
54039381 GGCTTTACCACACATACATATCTCATACATATTT
131 GGCTTTACCACACATACACATCTCATACATATTT
54039415 CACAT
1 CACAT
54039420 TAGCCATTCG
Statistics
Matches: 157, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
164 157 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (164 bp):
CACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATA
TTTCACACTAGCCATTCGGCTTTACCACACATACATATCTCACACATATTTCACATTAGCCATTC
GGCTTTACCACACATACACATCTCATACATATTT
Found at i:54039512 original size:144 final size:144
Alignment explanation
Indices: 54039252--54039641 Score: 744
Period size: 144 Copynumber: 2.7 Consensus size: 144
54039242 TACATATTTC
54039252 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* *
54039317 TTCACATTAGCCATTCGGCTTTACCACACATACATATCTCACACATATTTCACATTAGCCATTCG
66 TTCACATTAGCCATTCGGCTTTACCACACACATATATCTCACACATATTTCACATTAGCCATTCG
54039382 GCTTTACCACACAT
131 GCTTTACCACACAT
*
54039396 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
*
54039461 TTCACATTAGCCATTCGGCTTTACCACACACATATATCTCATACATATTTCACATTAGCCATTCG
66 TTCACATTAGCCATTCGGCTTTACCACACACATATATCTCACACATATTTCACATTAGCCATTCG
54039526 GCTTTACCACACAT
131 GCTTTACCACACAT
54039540 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
54039605 TTCACATTAGCCATTCGGCTTTACCACACACATATAT
66 TTCACATTAGCCATTCGGCTTTACCACACACATATAT
54039642 ATTTATCTTG
Statistics
Matches: 241, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 241 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.34
Consensus pattern (144 bp):
ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
TTCACATTAGCCATTCGGCTTTACCACACACATATATCTCACACATATTTCACATTAGCCATTCG
GCTTTACCACACAT
Found at i:54039633 original size:96 final size:96
Alignment explanation
Indices: 54039252--54039634 Score: 721
Period size: 96 Copynumber: 4.0 Consensus size: 96
54039242 TACATATTTC
*
54039252 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCATACATAT
54039317 TTCACATTAGCCATTCGGCTTTACCACACAT
66 TTCACATTAGCCATTCGGCTTTACCACACAT
*
54039348 ACATATCTCACACATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCATACATAT
54039413 TTCACATTAGCCATTCGGCTTTACCACACAT
66 TTCACATTAGCCATTCGGCTTTACCACACAT
* *
54039444 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACACATATATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCATACATAT
54039509 TTCACATTAGCCATTCGGCTTTACCACACAT
66 TTCACATTAGCCATTCGGCTTTACCACACAT
*
54039540 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCATACATAT
54039605 TTCACATTAGCCATTCGGCTTTACCACACA
66 TTCACATTAGCCATTCGGCTTTACCACACA
54039635 CATATATATT
Statistics
Matches: 279, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 279 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.33
Consensus pattern (96 bp):
ACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCTCATACATAT
TTCACATTAGCCATTCGGCTTTACCACACAT
Found at i:54043049 original size:45 final size:45
Alignment explanation
Indices: 54042931--54043073 Score: 166
Period size: 45 Copynumber: 3.2 Consensus size: 45
54042921 GTGTAATCAA
* * *
54042931 ATATCGGTGCC-ACTGTCCCAGACATGGTCTTACACGTAAATCACT
1 ATATCGCTGCCAAC-GTCCCAGACGTGGTCTTACACGAAAATCACT
* ** *
54042976 A-ATCGATGCCAATATCCCAGACGCGGTCTTACACG-AAATCACGT
1 ATATCGCTGCCAACGTCCCAGACGTGGTCTTACACGAAAATCAC-T
*
54043020 ATATCGCTGCCAACGTCCCAAACGTGGTCTTACACGAAAATCACAT
1 ATATCGCTGCCAACGTCCCAGACGTGGTCTTACACGAAAATCAC-T
54043066 ATATCGCT
1 ATATCGCT
54043074 CTTTGATACT
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
43 7 0.08
44 29 0.35
45 31 0.37
46 16 0.19
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (45 bp):
ATATCGCTGCCAACGTCCCAGACGTGGTCTTACACGAAAATCACT
Found at i:54043330 original size:38 final size:38
Alignment explanation
Indices: 54043249--54043468 Score: 314
Period size: 38 Copynumber: 5.7 Consensus size: 38
54043239 GAATCCAGTC
* * * * *
54043249 ACCAGCACAAAACCTGCTGGACTTTAAGCTCGAATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
* *
54043289 ACCAGCACGAAGCCTACGGGATTTAACCCGGATGTAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
54043327 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* * *
54043365 ACCAGTACGAAGCGTGCGGGATTTCACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* *
54043403 ACCAGCACGAAGCATGCGAGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
54043441 ACCAGCACGAAGCCTGCGGGATTTAACC
1 ACCAGCACGAAGCCTGCGGGATTTAACC
54043469 TATATACACA
Statistics
Matches: 162, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
38 140 0.86
39 5 0.03
40 17 0.10
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:54050667 original size:16 final size:16
Alignment explanation
Indices: 54050648--54050679 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
54050638 AATTGTTTTA
54050648 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
54050664 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
54050680 ACTCCATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:54050955 original size:50 final size:50
Alignment explanation
Indices: 54050880--54051221 Score: 382
Period size: 50 Copynumber: 6.8 Consensus size: 50
54050870 CCGAAGCTCC
* * * *
54050880 CTGGTACGCATAGTAGCTTGAACTTAGTACTACACATGTGACCTATTAAT
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAAT
* * *
54050930 CTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAAT
* * * *
54050980 CTGATACACGTAGTAGCCTGCACTTAGTACAACACATGCGACCTATCAAT
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAAT
* * * *
54051030 CTGGTACAC-TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCAT
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAAT
* * ** ** *
54051079 CTGATATATGTAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAAT
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAAT
* * *
54051131 -GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAAT
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAAT
** * * *
54051180 CTGGTACATGTAGTAGCCTTCACTTAGTACTACGCACGTGAC
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGAC
54051222 TCACAACGGA
Statistics
Matches: 240, Mismatches: 48, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
49 44 0.18
50 159 0.66
51 35 0.15
52 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAAT
Found at i:54051081 original size:99 final size:100
Alignment explanation
Indices: 54050890--54051221 Score: 452
Period size: 99 Copynumber: 3.3 Consensus size: 100
54050880 CTGGTACGCA
* *
54050890 TAGTAGCTTGAACTTAGTACTACACATGTGACCTATTAATCTGGTACACATAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATTAATCTGGTACACATAGTAGCCTGCACTT
*
54050955 AGTACTACACACGTGACCTAACCATCTGATACACG
66 AGTACTACACACGTGACCTAACCATCTGATACATG
* * *
54050990 TAGTAGCCTGCACTTAGTACAACACATGCGACCTATCAATCTGGTACAC-TAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATTAATCTGGTACACATAGTAGCCTGCACTT
* *
54051054 AGTACTACACACGTGACTTAACCATCTGATATATG
66 AGTACTACACACGTGACCTAACCATCTGATACATG
** * *
54051089 TAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAAT-GGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TTAATCTGGTACACATAGTAGCCTGCAC
* * * * *
54051153 TTAGTACTACACATGCGACCTATCAATCTGGTACATG
64 TTAGTACTACACACGTGACCTAACCATCTGATACATG
* * *
54051190 TAGTAGCCTTCACTTAGTACTACGCACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACATGTGAC
54051222 TCACAACGGA
Statistics
Matches: 204, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
99 76 0.37
100 53 0.26
101 75 0.37
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTATTAATCTGGTACACATAGTAGCCTGCACTT
AGTACTACACACGTGACCTAACCATCTGATACATG
Found at i:54056260 original size:6 final size:6
Alignment explanation
Indices: 54056249--54056423 Score: 130
Period size: 6 Copynumber: 28.8 Consensus size: 6
54056239 AACCAAAATG
* *
54056249 AGAATC AGAATC AGAATC AGTAA-C AAAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
54056297 AGTAA-C AAAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
54056346 AGTAA-C AAAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* *
54056394 AGAATT ACGTGA-C AGAATC AGAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
54056424 GTGAAAGCAA
Statistics
Matches: 133, Mismatches: 20, Indels: 32
0.72 0.11 0.17
Matches are distributed among these distances:
5 11 0.08
6 109 0.82
7 10 0.08
8 3 0.02
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:54056264 original size:30 final size:29
Alignment explanation
Indices: 54056228--54056347 Score: 134
Period size: 30 Copynumber: 4.0 Consensus size: 29
54056218 AAGAAACATT
* *
54056228 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAAAATCAGAATCAGA
*
54056258 ATCAGAATCAGTAACAAAATCAGAATCAGA
1 ATCAGAAT-TGTAACAAAATCAGAATCAGA
54056288 ATCA-ATATTAGTAACAAAATCAGAATCAGA
1 ATCAGA-ATT-GTAACAAAATCAGAATCAGA
* *
54056318 ATCAGAATTAGGTGACAGAATCAGAATCAG
1 ATCAGAATT--GTAACAAAATCAGAATCAG
54056348 TAACAAAATC
Statistics
Matches: 78, Mismatches: 7, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
29 1 0.01
30 56 0.72
31 21 0.27
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (29 bp):
ATCAGAATTGTAACAAAATCAGAATCAGA
Found at i:54056278 original size:24 final size:24
Alignment explanation
Indices: 54056251--54056395 Score: 148
Period size: 24 Copynumber: 5.8 Consensus size: 24
54056241 CCAAAATGAG
54056251 AATCAGAATCAGAATCAGTAACAA
1 AATCAGAATCAGAATCAGTAACAA
54056275 AATCAGAATCAGAATCAATATTAGTAACAA
1 AATCAGAATCAGAATC------AGTAACAA
**
54056305 AATCAGAATCAGAATCAG-AATTA
1 AATCAGAATCAGAATCAGTAACAA
**
54056328 GGTGACAGAATCAGAATCAGTAACAA
1 AAT--CAGAATCAGAATCAGTAACAA
* * *
54056354 AATCAGAATCAGTATTAGTAACAG
1 AATCAGAATCAGAATCAGTAACAA
54056378 AATCAGAATCAGAATCAG
1 AATCAGAATCAGAATCAG
54056396 AATTACGTGA
Statistics
Matches: 99, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
23 4 0.04
24 52 0.53
25 15 0.15
26 4 0.04
30 24 0.24
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.20
Consensus pattern (24 bp):
AATCAGAATCAGAATCAGTAACAA
Found at i:54056382 original size:73 final size:74
Alignment explanation
Indices: 54056254--54056420 Score: 264
Period size: 73 Copynumber: 2.2 Consensus size: 74
54056244 AAATGAGAAT
54056254 CAGAATCAGAATCAGTAACAAAATCAGAATCAGAATCAATATTAGTAACAAAATCAGAATCAGAA
1 CAGAATCAGAATCAGTAACAAAATCAGAATCAG-----ATATTAGTAACAAAATCAGAATCAGAA
*
54056319 TCAGAATTAGGTGA
61 TCAGAATTACGTGA
*
54056333 CAGAATCAGAATCAGTAACAAAATCAGAATCAG-TATTAGTAACAGAATCAGAATCAGAATCAGA
1 CAGAATCAGAATCAGTAACAAAATCAGAATCAGATATTAGTAACAAAATCAGAATCAGAATCAGA
54056397 ATTACGTGA
66 ATTACGTGA
54056406 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
54056421 AATGTGAAAG
Statistics
Matches: 86, Mismatches: 2, Indels: 6
0.91 0.02 0.06
Matches are distributed among these distances:
73 53 0.62
79 33 0.38
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (74 bp):
CAGAATCAGAATCAGTAACAAAATCAGAATCAGATATTAGTAACAAAATCAGAATCAGAATCAGA
ATTACGTGA
Found at i:54056412 original size:31 final size:30
Alignment explanation
Indices: 54056354--54056423 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 30
54056344 TCAGTAACAA
*
54056354 AATCAGAATCAGTATTAGTAACAGAATCAG
1 AATCAGAATCAGAATTAGTAACAGAATCAG
*
54056384 AATCAGAATCAGAATTACGTGACAGAATCAG
1 AATCAGAATCAGAATTA-GTAACAGAATCAG
54056415 AATCAGAAT
1 AATCAGAAT
54056424 GTGAAAGCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
30 16 0.43
31 21 0.57
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.21
Consensus pattern (30 bp):
AATCAGAATCAGAATTAGTAACAGAATCAG
Found at i:54056421 original size:79 final size:76
Alignment explanation
Indices: 54056248--54056423 Score: 232
Period size: 79 Copynumber: 2.2 Consensus size: 76
54056238 GAACCAAAAT
54056248 GAGAATCAGAATCAGAATCAGTAACAAAATCAGAATCAGAATCAATATTAGTAACAAAATCAGAA
1 GAGAATCAGAATCAGAATCAGTAACAAAATCAGAATCAG-----ATATTAGTAACAAAATCAGAA
54056313 TCAGAATCAGAATTAG
61 TCAGAATCAGAATTAG
* *
54056329 GTG-A-CAGAATCAGAATCAGTAACAAAATCAGAATCAG-TATTAGTAACAGAATCAGAATCAGA
1 GAGAATCAGAATCAGAATCAGTAACAAAATCAGAATCAGATATTAGTAACAAAATCAGAATCAGA
54056391 ATCAGAATTACG
66 ATCAGAATTA-G
54056403 TGACAGAATCAGAATCAGAAT
1 -G--AGAATCAGAATCAGAAT
54056424 GTGAAAGCAA
Statistics
Matches: 86, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
73 34 0.40
74 1 0.01
75 1 0.01
77 1 0.01
78 1 0.01
79 45 0.52
80 1 0.01
81 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.20
Consensus pattern (76 bp):
GAGAATCAGAATCAGAATCAGTAACAAAATCAGAATCAGATATTAGTAACAAAATCAGAATCAGA
ATCAGAATTAG
Found at i:54056780 original size:22 final size:22
Alignment explanation
Indices: 54056748--54056805 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
54056738 TAAATACGTT
*
54056748 TGGCACGAAGCCATAGTCAAGA
1 TGGCACAAAGCCATAGTCAAGA
* * * *
54056770 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATAGTCAAGA
54056792 TGGCACAAAGCCAT
1 TGGCACAAAGCCAT
54056806 TAATAACGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCAAGA
Found at i:54056972 original size:27 final size:26
Alignment explanation
Indices: 54056896--54056975 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
54056886 ATCGGTCAAA
* * *
54056896 AGATATTGTGACAGAGTCACCAAATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
54056923 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
54056949 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAC
54056976 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.15
27 41 0.85
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Found at i:54057205 original size:27 final size:27
Alignment explanation
Indices: 54057175--54057369 Score: 205
Period size: 27 Copynumber: 7.2 Consensus size: 27
54057165 GGGCAAAATG
* * *
54057175 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
54057202 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
54057229 GTATTTCTACCCTACAAGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
* **
54057255 GATAATTCTACCCTACAGGGGTATTTTG
1 G-TAATTCTACCCTACAAGGGTATTTCA
* *
54057283 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
54057310 GTAATTCTACCCTATAGGGGTATTTC-
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
54057336 GAAAATTCTACCCTATAGGGGTATTTCA
1 G-TAATTCTACCCTACAAGGGTATTTCA
*
54057364 ATAATT
1 GTAATT
54057370 TCAAAATACA
Statistics
Matches: 144, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
26 2 0.01
27 141 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:54057369 original size:81 final size:81
Alignment explanation
Indices: 54057177--54057369 Score: 242
Period size: 81 Copynumber: 2.4 Consensus size: 81
54057167 GCAAAATGGT
* * * * * * *
54057177 AATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
1 AATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
*
54057242 ACAAGGGTATTTCGAT
66 ACAAGGGTATTTCGAA
** * *
54057258 AATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCT
1 AATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
* *
54057323 ATAGGGGTATTTCGAA
66 ACAAGGGTATTTCGAA
* *
54057339 AATTCTACCCTATAGGGGTATTTCAATAATT
1 AATTCTACCCTACAGGGGTATTTCAGTAATT
54057370 TCAAAATACA
Statistics
Matches: 94, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 94 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (81 bp):
AATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
ACAAGGGTATTTCGAA
Found at i:54057403 original size:27 final size:27
Alignment explanation
Indices: 54057379--54057700 Score: 314
Period size: 27 Copynumber: 11.9 Consensus size: 27
54057369 TTCAAAATAC
*
54057379 AGGGTAATACGATAATTCTATAAATCG
1 AGGGTAAAACGATAATTCTATAAATCG
* * *
54057406 AGGGTAAAACGATAATTTTGTAAATTG
1 AGGGTAAAACGATAATTCTATAAATCG
* * *
54057433 AGGGTAAATC-AGTAATTCTGTAAATCA
1 AGGGTAAAACGA-TAATTCTATAAATCG
* *
54057460 AGGGTAAAACGGTAATTCTACAAATCG
1 AGGGTAAAACGATAATTCTATAAATCG
54057487 AGGGTAAAACGATAATTCTATAAATCG
1 AGGGTAAAACGATAATTCTATAAATCG
* *
54057514 AGGGTAAAA-TAGTAATTCTGTAAA-CTG
1 AGGGTAAAACGA-TAATTCTATAAATC-G
** *
54057541 AGGGTAAAACGGCAATTCTGTAAATCG
1 AGGGTAAAACGATAATTCTATAAATCG
* *
54057568 AGGGTAAAA-TAGTAATTCTGTAAA-CTG
1 AGGGTAAAACGA-TAATTCTATAAATC-G
* * *
54057595 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTAAAACGATAATTCTATAAATCG
* * *
54057622 ATGGTAAAACGGTAATTCTGTAAA-CTG
1 AGGGTAAAACGATAATTCTATAAATC-G
* *
54057649 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGATAATTCTATAAATCG
* *
54057676 AGGGTAAAACGGTAATTCTGTAAAT
1 AGGGTAAAACGATAATTCTATAAAT
54057701 TGGGAGTACT
Statistics
Matches: 255, Mismatches: 28, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
26 5 0.02
27 247 0.97
28 3 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
AGGGTAAAACGATAATTCTATAAATCG
Found at i:54057479 original size:81 final size:81
Alignment explanation
Indices: 54057379--54057700 Score: 420
Period size: 81 Copynumber: 4.0 Consensus size: 81
54057369 TTCAAAATAC
* * * *
54057379 AGGGTAATACGATAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATTGAGGGT-AAATC
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAT-
*
54057443 AGTAATTCTGTAAATCA
65 AGTAATTCTGTAAATCG
* *
54057460 AGGGTAAAACGGTAATTCTACAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATA
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATA
54057525 GTAATTCTGTAAA-CTG
66 GTAATTCTGTAAATC-G
* * *
54057541 AGGGTAAAACGGCAATTCTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGA-TAATTCTGTAAATC-GAGGGTAAAA
*
54057604 TGGTAATTCTGTAAATCG
64 TAGTAATTCTGTAAATCG
* * * *
54057622 ATGGTAAAACGGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
1 AGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAAT
*
54057686 GGTAATTCTGTAAAT
65 AGTAATTCTGTAAAT
54057701 TGGGAGTACT
Statistics
Matches: 215, Mismatches: 18, Indels: 16
0.86 0.07 0.06
Matches are distributed among these distances:
80 4 0.02
81 205 0.95
82 6 0.03
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (81 bp):
AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATA
GTAATTCTGTAAATCG
Found at i:54057719 original size:54 final size:54
Alignment explanation
Indices: 54057379--54057699 Score: 446
Period size: 54 Copynumber: 5.9 Consensus size: 54
54057369 TTCAAAATAC
* * * * * *
54057379 AGGGTAATACGATAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTG
* * * **
54057433 AGGGTAAATCAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTACAAA-TCG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACT-G
* * **
54057487 AGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTG
* **
54057541 AGGGTAAAACGGCAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTG
* *
54057595 AGGGTAAAATGGTAATTCTGTAAATCGATGGTAAAACGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTG
54057649 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAA
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAA
54057700 TTGGGAGTAC
Statistics
Matches: 236, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
53 1 0.00
54 234 0.99
55 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAACTG
Found at i:54059729 original size:6 final size:6
Alignment explanation
Indices: 54059718--54059807 Score: 62
Period size: 6 Copynumber: 14.8 Consensus size: 6
54059708 AACCAAAATG
* *
54059718 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGTAA-C AGAATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AG-AATC AGAATC
* * *
54059767 A-AATC AGAATG AGAATT ACGTGAT- AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
54059808 GTGAATGCAG
Statistics
Matches: 67, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
5 10 0.15
6 48 0.72
7 6 0.09
8 3 0.04
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:54059747 original size:19 final size:18
Alignment explanation
Indices: 54059723--54059773 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
54059713 AAATGAGAAT
* *
54059723 CAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCA-GTAA
54059742 CAGAATCAGAATCAGTAA
1 CAGAATCAGAATCAGTAA
54059760 CAGAATCA-AATCAG
1 CAGAATCAGAATCAG
54059774 AATGAGAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.20
18 11 0.37
19 13 0.43
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.18
Consensus pattern (18 bp):
CAGAATCAGAATCAGTAA
Found at i:54059750 original size:25 final size:24
Alignment explanation
Indices: 54059718--54059807 Score: 87
Period size: 25 Copynumber: 3.7 Consensus size: 24
54059708 AACCAAAATG
54059718 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATTA-GTGAC
* *
54059743 AGAATCAGAATCAGTAA-CAG-AATC
1 AGAATCAGAATCAG-AATTAGTGA-C
* *
54059767 A-AATCAGAATGAGAATTACGTGAT
1 AGAATCAGAATCAGAATTA-GTGAC
54059791 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
54059808 GTGAATGCAG
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
22 2 0.04
23 13 0.25
24 5 0.10
25 30 0.58
26 2 0.04
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (24 bp):
AGAATCAGAATCAGAATTAGTGAC
Found at i:54059988 original size:27 final size:27
Alignment explanation
Indices: 54059924--54059997 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
54059914 AGCATGGCTG
* * *
54059924 CCAG-AACAGATATCGTGACAGAGTCA
1 CCAGAAACAGATATTGTGGCAGAGCCA
54059950 CCAGAAACAGATATTGTGGCAGAGCCA
1 CCAGAAACAGATATTGTGGCAGAGCCA
** *
54059977 CCAGAATTAGATAATGTGGCA
1 CCAGAAACAGATATTGTGGCA
54059998 AACCCACCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 4 0.10
27 37 0.90
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAAACAGATATTGTGGCAGAGCCA
Found at i:54060004 original size:27 final size:27
Alignment explanation
Indices: 54059948--54060005 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
54059938 GTGACAGAGT
* * *
54059948 CACCAGAAACAGATATTGTGGCAGAGC
1 CACCAGAAACAGATAATGTGGCAAACC
**
54059975 CACCAGAATTAGATAATGTGGCAAACC
1 CACCAGAAACAGATAATGTGGCAAACC
54060002 CACC
1 CACC
54060006 TAACAGAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGAAACAGATAATGTGGCAAACC
Found at i:54060195 original size:22 final size:22
Alignment explanation
Indices: 54060163--54060220 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
54060153 TAAATACGTT
*
54060163 TGGCACGAAGCCATAGTCAAGA
1 TGGCACAAAGCCATAGTCAAGA
* * * *
54060185 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATAGTCAAGA
54060207 TGGCACAAAGCCAT
1 TGGCACAAAGCCAT
54060221 TAATAACGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCAAGA
Found at i:54060353 original size:27 final size:27
Alignment explanation
Indices: 54060323--54060386 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
54060313 ATATTGTGAT
* *
54060323 AGAGTCACCAAATACATATATTT-TGGC
1 AGAGCCACCAAA-ACAGATATTTGTGGC
*
54060350 AGAGCCACCAGAACAGATATTTGTGGC
1 AGAGCCACCAAAACAGATATTTGTGGC
*
54060377 ATAGCCACCA
1 AGAGCCACCA
54060387 GAACGCTTCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 9 0.28
27 23 0.72
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (27 bp):
AGAGCCACCAAAACAGATATTTGTGGC
Found at i:54060387 original size:27 final size:26
Alignment explanation
Indices: 54060340--54060390 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
54060330 CCAAATACAT
54060340 ATATTTTGGCAGAGCCACCAGAACAG
1 ATATTTTGGCAGAGCCACCAGAACAG
*
54060366 ATATTTGTGGCATAGCCACCAGAAC
1 ATATTT-TGGCAGAGCCACCAGAAC
54060391 GCTTCCTCCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (26 bp):
ATATTTTGGCAGAGCCACCAGAACAG
Found at i:54060619 original size:27 final size:27
Alignment explanation
Indices: 54060589--54060811 Score: 257
Period size: 27 Copynumber: 8.3 Consensus size: 27
54060579 GGGGCAAAAT
* * *
54060589 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
54060616 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
54060643 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
54060670 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
54060697 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
54060724 AGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
54060751 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
54060778 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
54060805 AGTAATT
1 GGTAATT
54060812 TCACAATCAA
Statistics
Matches: 173, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 173 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:54060733 original size:81 final size:81
Alignment explanation
Indices: 54060591--54060811 Score: 298
Period size: 81 Copynumber: 2.7 Consensus size: 81
54060581 GGCAAAATGG
* * * * * *
54060591 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
*
54060656 TACAAGGGTATTTCGA
66 TACAAGGGTATTTCAA
* * * * *
54060672 TAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTATCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
*
54060737 TATAAGGGTATTTCAA
66 TACAAGGGTATTTCAA
* * *
54060753 TAATTCTACCCTATAGGGGTATTTCAGAAATTCTACCCTACAGGGGTATTTCAGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATT
54060812 TCACAATCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 120 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCC
TACAAGGGTATTTCAA
Found at i:54060846 original size:27 final size:27
Alignment explanation
Indices: 54060816--54061171 Score: 407
Period size: 27 Copynumber: 13.2 Consensus size: 27
54060806 GTAATTTCAC
* *
54060816 AATCAAGGGTAAAACGGGAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
54060843 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
54060870 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * * **
54060897 AATCAAGGGCAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
54060924 AATCGAGGGTAGAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
54060951 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
54060978 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* ** *
54061005 AATCGAGGGGAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
54061032 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
54061059 AATCGAGGCTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
54061086 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
54061113 AA-CTGAGGGTAAAACAGTAATGCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
54061140 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
54061167 AATCG
1 AATCG
54061172 GGAGTACTTT
Statistics
Matches: 276, Mismatches: 43, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
26 7 0.03
27 261 0.95
28 8 0.03
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:54060927 original size:81 final size:81
Alignment explanation
Indices: 54060816--54061171 Score: 459
Period size: 81 Copynumber: 4.4 Consensus size: 81
54060806 GTAATTTCAC
* * *
54060816 AATCAAGGGTAAAACGGGAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGT-
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAACTGAGGGTA
*
54060880 AAACTAGTAATTCTGTA
66 AAAC-AGTAATTCTATA
* * * ** *
54060897 AATCAAGGGCAAAACGGTAATTTTACAAATCGAGGGTAGAACGATAATTCTGTAAA-TCGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAACT-GAGGGT
*
54060961 AAAACAGTAATTCTGTA
65 AAAACAGTAATTCTATA
* * *
54060978 AA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGGAAAA-TAGTAATTCTATAAACTGAGGG
1 AATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAACTGAGGG
*
54061041 TAAAACGGTAATTCTATA
64 TAAAACAGTAATTCTATA
* * * *
54061059 AATCGAGGCTAAAATGGTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTGTAAACTGAGGGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAACTGAGGGTA
*
54061124 AAACAGTAATGCTATA
66 AAACAGTAATTCTATA
*
54061140 AATCGAGGGTAAAACGGTAATTCTATAAATCG
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCG
54061172 GGAGTACTTT
Statistics
Matches: 237, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
80 3 0.01
81 228 0.96
82 6 0.03
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAACTGAGGGTA
AAACAGTAATTCTATA
Found at i:54072071 original size:40 final size:39
Alignment explanation
Indices: 54071987--54072167 Score: 192
Period size: 39 Copynumber: 4.6 Consensus size: 39
54071977 TTGAATGATG
* * * *
54071987 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
54072027 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
54072067 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
54072106 TCCGGGTTAAGTCCCGAAGGCA-TTGTG-GAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
54072145 -CCGGGCTATGTCCGAAGGC-TTTG
1 TCCGGGCTAAGTCCGAAGGCATTTG
54072168 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
37 11 0.09
38 18 0.15
39 42 0.35
40 42 0.35
41 8 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54072123 original size:79 final size:77
Alignment explanation
Indices: 54071987--54072167 Score: 197
Period size: 79 Copynumber: 2.3 Consensus size: 77
54071977 TTGAATGATG
*
54071987 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAG-CCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCA-TT
54072052 GTGCGAGATACTA-A
64 GTG-GAGATACTATA
* * * **
54072066 TTCCGGGCTAAGCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
54072129 TGTGGAGTTACTATA
63 TGTGGAGATACTATA
* * *
54072144 ACCGGGCTATGTCCGAAGGCTTTG
1 TCCGGGCTAAGCCCGAAGGCTTTG
54072168 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
76 4 0.05
77 25 0.28
78 7 0.08
79 34 0.39
80 18 0.20
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (77 bp):
TCCGGGCTAAGCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTGT
GGAGATACTATA
Found at i:54085143 original size:46 final size:46
Alignment explanation
Indices: 54085045--54085168 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 46
54085035 GTAAGGTGTT
*
54085045 GATGCCATGTCCCAAACATGGTCTTACACTAACTATCATCTCGTAGCA
1 GATG-CATGTCCCAAACAT-GTCTTACACTAGCTATCATCTCGTAGCA
* * * *
54085093 GATGCATGTCCCAGACATGTCTTACACTAGCT-TGCGTCTTG-AGGCC
1 GATGCATGTCCCAAACATGTCTTACACTAGCTAT-CATCTCGTA-GCA
*
54085139 GATGCATGTCCCAAACGTGTCTTACACTAG
1 GATGCATGTCCCAAACATGTCTTACACTAG
54085169 TCAACAATAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
45 2 0.03
46 48 0.72
47 13 0.19
48 4 0.06
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAAACATGTCTTACACTAGCTATCATCTCGTAGCA
Found at i:54089946 original size:69 final size:68
Alignment explanation
Indices: 54089851--54090066 Score: 247
Period size: 69 Copynumber: 3.1 Consensus size: 68
54089841 CTGATGAATA
* *
54089851 GTAAGCTTTATTGAGCTGAAATAGTAAGCTTTATTAAGCTGAACAGTAAGCTCATACGAGCTGAA
1 GTAAGCTCTAATGAGCTGAAATAGTAAGCTTTATTAAGCTGAACAGTAAGCTCATACGAGCTGAA
54089916 ATG
66 ATG
* *
54089919 GTAGGCTCTAATGAGCTGATAATAGTAAGC-TT-TTACGAGCTGAACAGTAAGCTCATATGAGCT
1 GTAAGCTCTAATGAGCTGA-AATAGTAAGCTTTATTA--AGCTGAACAGTAAGCTCATACGAGCT
*
54089982 GAAACG
63 GAAATG
* * * * * * * *
54089988 GTAAGCTCTAATTAGCTGAAACATTAAGCTTCAATGAGCTGAAATAGTAAGCTCTTACGAGCTGA
1 GTAAGCTCTAATGAGCTGAAATAGTAAGCTTTATTAAGCTG-AACAGTAAGCTCATACGAGCTGA
54090053 TATATG
65 -A-ATG
54090059 GTAAGCTC
1 GTAAGCTC
54090067 ATACGAGCTG
Statistics
Matches: 124, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
67 3 0.02
68 31 0.25
69 78 0.63
70 2 0.02
71 10 0.08
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.28
Consensus pattern (68 bp):
GTAAGCTCTAATGAGCTGAAATAGTAAGCTTTATTAAGCTGAACAGTAAGCTCATACGAGCTGAA
ATG
Found at i:54089960 original size:92 final size:93
Alignment explanation
Indices: 54089841--54090052 Score: 222
Period size: 92 Copynumber: 2.3 Consensus size: 93
54089831 TCCTCCTGAA
* * *
54089841 CTGATGAATAGTAAGC-TTTATTGAGCTGAAATAGTAAGCT-TTATTAAGCTG-AACAGTAAGCT
1 CTGAT-AATAGTAAGCTTTTA-CGAGCTGAAACAGTAAGCTCATA-TAAGCTGAAACAGTAAGCT
** *
54089903 C-ATACGAGCTGAAATGGTAGGC-TCTAATGAG
63 CTA-ACGAGCTGAAACAGTAAGCTTC-AATGAG
* *
54089934 CTGATAATAGTAAGCTTTTACGAGCTG-AACAGTAAGCTCATATGAGCTGAAACGGTAAGCTCTA
1 CTGATAATAGTAAGCTTTTACGAGCTGAAACAGTAAGCTCATATAAGCTGAAACAGTAAGCTCTA
** *
54089998 ATTAGCTGAAACATTAAGCTTCAATGAG
66 ACGAGCTGAAACAGTAAGCTTCAATGAG
*
54090026 CTGA-AATAGTAAGCTCTTACGAGCTGA
1 CTGATAATAGTAAGCTTTTACGAGCTGA
54090053 TATATGGTAA
Statistics
Matches: 101, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
91 37 0.37
92 52 0.51
93 12 0.12
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (93 bp):
CTGATAATAGTAAGCTTTTACGAGCTGAAACAGTAAGCTCATATAAGCTGAAACAGTAAGCTCTA
ACGAGCTGAAACAGTAAGCTTCAATGAG
Found at i:54090049 original size:23 final size:23
Alignment explanation
Indices: 54089847--54090076 Score: 173
Period size: 23 Copynumber: 10.0 Consensus size: 23
54089837 TGAACTGATG
54089847 AATAGTAAGCT-TTATTGAGCTGA
1 AATAGTAAGCTCTTA-TGAGCTGA
*
54089870 AATAGTAAGCT-TTATTAAGCTG-
1 AATAGTAAGCTCTTA-TGAGCTGA
* * *
54089892 AACAGTAAGCTCATACGAGCTGA
1 AATAGTAAGCTCTTATGAGCTGA
* * *
54089915 AATGGTAGGCTCTAATGAGCTGA
1 AATAGTAAGCTCTTATGAGCTGA
* *
54089938 TAATAGTAAGCTTTTACGAGCTG-
1 -AATAGTAAGCTCTTATGAGCTGA
* *
54089961 AACAGTAAGCTCATATGAGCTGA
1 AATAGTAAGCTCTTATGAGCTGA
** * *
54089984 AACGGTAAGCTCTAATTAGCTGA
1 AATAGTAAGCTCTTATGAGCTGA
* * *
54090007 AACATTAAGCT-TCAATGAGCTGA
1 AATAGTAAGCTCT-TATGAGCTGA
*
54090030 AATAGTAAGCTCTTACGAGCTGA
1 AATAGTAAGCTCTTATGAGCTGA
* * *
54090053 TATATGGTAAGCTCATACGAGCTG
1 -A-ATAGTAAGCTCTTATGAGCTG
54090077 TGGTGAGTCC
Statistics
Matches: 166, Mismatches: 33, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
22 34 0.20
23 94 0.57
24 19 0.11
25 19 0.11
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (23 bp):
AATAGTAAGCTCTTATGAGCTGA
Found at i:54090376 original size:20 final size:20
Alignment explanation
Indices: 54090348--54090389 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
54090338 CATTTCTCTT
* *
54090348 TTTATTCATGTAAACAGTAA
1 TTTAATCATATAAACAGTAA
*
54090368 TTTAATCATATAATCAGTAA
1 TTTAATCATATAAACAGTAA
54090388 TT
1 TT
54090390 CAAATTTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (20 bp):
TTTAATCATATAAACAGTAA
Found at i:54095105 original size:31 final size:31
Alignment explanation
Indices: 54095070--54095132 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
54095060 TCATCTTTGA
*
54095070 TTCAAAATATCACATAATTCAACATCCTCAC
1 TTCAAAATATCACAGAATTCAACATCCTCAC
54095101 TTCAAAATATCACAGAATTCAACATCCTCAC
1 TTCAAAATATCACAGAATTCAACATCCTCAC
54095132 T
1 T
54095133 AACTCTCCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.41, C:0.29, G:0.02, T:0.29
Consensus pattern (31 bp):
TTCAAAATATCACAGAATTCAACATCCTCAC
Found at i:54101513 original size:27 final size:27
Alignment explanation
Indices: 54101457--54101749 Score: 340
Period size: 27 Copynumber: 10.9 Consensus size: 27
54101447 GGGCAAAATG
* * * * *
54101457 GTAATTTTACCCCACA-AGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
54101483 GTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
54101510 GTAATTCTACCTTACATGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
** * *
54101537 GTAATTCTACCCTGTAGGAGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
54101564 GTAATTCTACCCTACTGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
54101591 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
54101618 GTAATTCTATCCTACAGGGGTATTGC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
54101644 GATAATTCTACCTTCCAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
** *
54101672 GTAATTCTACTTTACAGGGGTATTCCA
1 GTAATTCTACCCTACAGGGGTATTTCA
54101699 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
54101725 GATAATTCTACCCTACAGGGGTATT
1 G-TAATTCTACCCTACAGGGGTATT
54101750 CCGATAATTT
Statistics
Matches: 227, Mismatches: 36, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.07
27 211 0.93
28 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:54101594 original size:81 final size:81
Alignment explanation
Indices: 54101457--54101749 Score: 381
Period size: 81 Copynumber: 3.6 Consensus size: 81
54101447 GGGCAAAATG
* * * * * * *
54101457 GTAATTTTACCCCACA-AGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
* *
54101521 TTACATGGGTATTTCG
66 TTACAGGGGTATTTCA
** * * *
54101537 GTAATTCTACCCTGTAGGAGTATTTCGGTAATTCTACCCTACTGGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
*
54101602 CTACAGGGGTATTTCA
66 TTACAGGGGTATTTCA
* * * * * *
54101618 GTAATTCTATCCTACAGGGGTATTGCGATAATTCTACCTTCCAGGGGTATTTCGGTAATTCTACT
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
*
54101683 TTACAGGGGTATTCCA
66 TTACAGGGGTATTTCA
54101699 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATT
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATT
54101750 CCGATAATTT
Statistics
Matches: 182, Mismatches: 30, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
80 12 0.07
81 170 0.93
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
TTACAGGGGTATTTCA
Found at i:54101754 original size:27 final size:27
Alignment explanation
Indices: 54101474--54101785 Score: 319
Period size: 27 Copynumber: 11.6 Consensus size: 27
54101464 TACCCCACAA
* * *
54101474 GGTATCTCGGTAATTCCACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* * *
54101501 GGTATTT-TAGTAATTCTACCTTACATG
1 GGTATTTCGA-TAATTCTACCCTACAGG
* **
54101528 GGTATTTCGGTAATTCTACCCTGTAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* * *
54101555 AGTATTTCGGTAATTCTACCCTACTGG
1 GGTATTTCGATAATTCTACCCTACAGG
54101582 GGTATTTC-AGTAATTCTACCCTACAGG
1 GGTATTTCGA-TAATTCTACCCTACAGG
*
54101609 GGTATTTC-AGTAATTCTATCCTACAGG
1 GGTATTTCGA-TAATTCTACCCTACAGG
* * *
54101636 GGTATTGCGATAATTCTACCTTCCAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* **
54101663 GGTATTTCGGTAATTCTACTTTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
54101690 GGTA-TTCCAGTAATTCTACCCTACAGG
1 GGTATTTCGA-TAATTCTACCCTACAGG
54101717 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* * **
54101744 GGTATTCCGATAATTTTA-CAAACTAGG
1 GGTATTTCGATAATTCTACCCTAC-AGG
*
54101771 GGTATTTTGATAATT
1 GGTATTTCGATAATT
54101786 TTACAAACCA
Statistics
Matches: 239, Mismatches: 39, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
26 6 0.03
27 228 0.95
28 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTATTTCGATAATTCTACCCTACAGG
Found at i:54101806 original size:27 final size:27
Alignment explanation
Indices: 54101713--54101804 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
54101703 TTCTACCCTA
* **
54101713 CAGGGGTATTTCGATAATTCTACCCTA-
1 CAGGGGTATTTCGATAATTTTA-CAAAC
*
54101740 CAGGGGTATTCCGATAATTTTACAAAC
1 CAGGGGTATTTCGATAATTTTACAAAC
* *
54101767 TAGGGGTATTTTGATAATTTTACAAAC
1 CAGGGGTATTTCGATAATTTTACAAAC
54101794 CAGGGGTATTT
1 CAGGGGTATTT
54101805 TGGTGATTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.04
27 54 0.96
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (27 bp):
CAGGGGTATTTCGATAATTTTACAAAC
Found at i:54103778 original size:6 final size:6
Alignment explanation
Indices: 54103760--54103873 Score: 65
Period size: 6 Copynumber: 18.3 Consensus size: 6
54103750 AAGAAACATT
* * *
54103760 ATCAGA A-CTAGA ATCAGA ATCAAA ATCAGA ATTA-A GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
54103809 ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA ATCAGT ATCAGGTA A-CAGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
54103859 ATCAAAA ATCAGA AT
1 ATC-AGA ATCAGA AT
54103874 GTGAATGCAA
Statistics
Matches: 82, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
5 8 0.10
6 57 0.70
7 12 0.15
8 5 0.06
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:54103837 original size:31 final size:32
Alignment explanation
Indices: 54103802--54103873 Score: 128
Period size: 31 Copynumber: 2.3 Consensus size: 32
54103792 TAAGTGACAG
*
54103802 AATCAGAATCAGTATCAGGTAATAGAATC-AA
1 AATCAGAATCAGTATCAGGTAACAGAATCAAA
54103833 AATCAGAATCAGTATCAGGTAACAGAATCAAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAAA
54103865 AATCAGAAT
1 AATCAGAAT
54103874 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 28 0.72
32 11 0.28
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.21
Consensus pattern (32 bp):
AATCAGAATCAGTATCAGGTAACAGAATCAAA
Found at i:54103844 original size:25 final size:25
Alignment explanation
Indices: 54103774--54103844 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
54103764 GAACTAGAAT
* * *
54103774 CAGAATCAAAATCAGAATTAAGTGA
1 CAGAATCAAAATCAGAATCAGGTAA
* *
54103799 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGGTAA
*
54103824 TAGAATCAAAATCAGAATCAG
1 CAGAATCAAAATCAGAATCAG
54103845 TATCAGGTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (25 bp):
CAGAATCAAAATCAGAATCAGGTAA
Found at i:54103861 original size:25 final size:25
Alignment explanation
Indices: 54103774--54103862 Score: 70
Period size: 25 Copynumber: 3.3 Consensus size: 25
54103764 GAACTAGAAT
* * * * *
54103774 CAGAATCAAAATCAGAATTAAGTGA
1 CAGAATCAGAATCAGTATCAGGTAA
54103799 CAGAATCAGAATCAGTATCAGGTAATAGAA
1 CAGAATCAGAATCAGTATCAGG---T--AA
*
54103829 TCAAAATCAGAATCAGTATCAGGTAA
1 -CAGAATCAGAATCAGTATCAGGTAA
54103855 CAGAATCA
1 CAGAATCA
54103863 AAAATCAGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
25 25 0.49
26 2 0.04
28 2 0.04
30 1 0.02
31 21 0.41
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGTATCAGGTAA
Found at i:54104053 original size:27 final size:26
Alignment explanation
Indices: 54104010--54104111 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
54104000 GCTCAATTAT
** *
54104010 CAGATATTGTGATAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
54104037 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
54104063 CAGATGTTTGTGGCATAGCCACCAGAAA
1 CAGAT-ATTGTGGCAGAGCCACCAG-AA
* *
54104091 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
54104112 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 6 0.09
27 52 0.80
28 7 0.11
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:54104298 original size:22 final size:22
Alignment explanation
Indices: 54104270--54104334 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
54104260 GCAAATACGT
*
54104270 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
54104292 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
54104314 TTGACACAAACCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
54104335 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:54104818 original size:27 final size:27
Alignment explanation
Indices: 54104788--54104944 Score: 196
Period size: 27 Copynumber: 5.9 Consensus size: 27
54104778 AGGTATCTCG
*
54104788 GTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
* *
54104815 GTAATTCTACTCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTTA
* *
54104842 GAAATTCTACCTTACAGGGGTA-TTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
54104868 GGTAATTCTACCCTACAGGGGTA-TTTA
1 -GTAATTCTACCCTACAGGGGTATTTTA
** *
54104895 GTAATTCTACTGTACA-GGGT-TTTTCG
1 GTAATTCTACCCTACAGGGGTATTTT-A
54104921 GTAATTCTACCCTACAGGGGTATT
1 GTAATTCTACCCTACAGGGGTATT
54104945 GCGATAATTC
Statistics
Matches: 111, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.06
26 31 0.28
27 71 0.64
28 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTTA
Found at i:54104952 original size:27 final size:27
Alignment explanation
Indices: 54104763--54104959 Score: 190
Period size: 27 Copynumber: 7.4 Consensus size: 27
54104753 GGCAAAATGG
* * *
54104763 TAATTCTATCCC-ACA-AGGTATCTCGG
1 TAATTCTA-CCCTACAGGGGTATTTCGA
* *
54104789 TAATTCCACCCTACAGGGGTATTT-TA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
54104815 GTAATTCTACTCTACAGGGGTATTTCAGA
1 -TAATTCTACCCTACAGGGGTATTTC-GA
* * *
54104844 -AATTCTACCTTACAGGGGTATTTAGG
1 TAATTCTACCCTACAGGGGTATTTCGA
*
54104870 TAATTCTACCCTACAGGGGTATTTAG-
1 TAATTCTACCCTACAGGGGTATTTCGA
** * *
54104896 TAATTCTACTGTACA-GGGTTTTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
*
54104922 TAATTCTACCCTACAGGGGTATTGCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
54104949 TAATTCTACCC
1 TAATTCTACCC
54104960 CACACGCTCT
Statistics
Matches: 141, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
25 11 0.08
26 37 0.26
27 92 0.65
29 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:54107418 original size:49 final size:49
Alignment explanation
Indices: 54107353--54107585 Score: 254
Period size: 49 Copynumber: 4.7 Consensus size: 49
54107343 AAGGCTATCT
* *
54107353 GGTACGCATAGTAGCCTGCACTTAGTACTACACTTGCGACCAATTATTC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC
* ** **
54107402 GGTACACATAGTAGCCTACACTTAGTACTACACATGTTACCTAACCATCTC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTAT-TC
* * * * * * *
54107453 -ATACACGTGGTAGCCTACACTTAGTACTACACACGTGATCAAAGTTA-TC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATTC
*
54107502 GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC
1 -GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC
* *
54107552 AGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 GGTACACATAGTAGCCTGCACTTAGTACTACACA
54107586 CGTGACCTCA
Statistics
Matches: 151, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
49 72 0.48
50 44 0.29
51 35 0.23
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTC
Found at i:54107536 original size:101 final size:98
Alignment explanation
Indices: 54107361--54107591 Score: 295
Period size: 100 Copynumber: 2.3 Consensus size: 98
54107351 CTGGTACGCA
** * *
54107361 TAGTAGCCTGCACTTAGTACTACACTTGCGACCAATTATTCGGTACACATAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATTCGGTACACATAGTAGCCTACACTTA
**
54107426 GTACTACACATGTTACCTAACCATCTCA-TACACG
66 GTACTACACATGCGACC-AACCAT-TCAGTACACG
* * * *
54107460 TGGTAGCCTACACTTAGTACTACACACGTGATCAAAGTTA-TCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATTC-GGTACACATAGTAGCCTACAC
**
54107524 TTAGTACTACACATGCGACCAATTATTCAGTACACG
63 TTAGTACTACACATGCGACCAACCATTCAGTACACG
54107560 TAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
54107592 CTCACAATAG
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
99 30 0.26
100 44 0.39
101 40 0.35
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATTCGGTACACATAGTAGCCTACACTTA
GTACTACACATGCGACCAACCATTCAGTACACG
Found at i:54109351 original size:282 final size:282
Alignment explanation
Indices: 54108841--54109410 Score: 1113
Period size: 282 Copynumber: 2.0 Consensus size: 282
54108831 TGCATGTGTA
*
54108841 ATTGAAGTATGAATGTTTAGCAAGATGGTTAAACTAGTTAATTTATCGATTTAGCTCAAGAAGCT
1 ATTGAGGTATGAATGTTTAGCAAGATGGTTAAACTAGTTAATTTATCGATTTAGCTCAAGAAGCT
54108906 AAAGGTGGAGAGGCAAGCAAGGGCAAACAAAAGATCATCGAGTAACCGAGTTGGAACCATCTTAC
66 AAAGGTGGAGAGGCAAGCAAGGGCAAACAAAAGATCATCGAGTAACCGAGTTGGAACCATCTTAC
54108971 CCAACACAAGGTAAGTCATTAAGCATATAGTTTGTATTAATTTAAATGGTCATAACGTCTATGTA
131 CCAACACAAGGTAAGTCATTAAGCATATAGTTTGTATTAATTTAAATGGTCATAACGTCTATGTA
54109036 ATGATGCTGAATGGAATGATAAATATATATATACATGTATGTATGTGGTGATGAAAGTGTTGAAT
196 ATGATGCTGAATGGAATGATAAATATATATATACATGTATGTATGTGGTGATGAAAGTGTTGAAT
54109101 GAGAAGAAAAGAGGTGAGATGT
261 GAGAAGAAAAGAGGTGAGATGT
54109123 ATTGAGGTATGAATGTTTAGCAAGATGGTTAAACTAGTTAATTTATCGATTTAGCTCAAGAAGCT
1 ATTGAGGTATGAATGTTTAGCAAGATGGTTAAACTAGTTAATTTATCGATTTAGCTCAAGAAGCT
* *
54109188 AAAGGTGGAGAGGCAAGCAAGGGCAAAGAAAAGATCATCGAGTAACCGAGTTGGAACCGTCTTAC
66 AAAGGTGGAGAGGCAAGCAAGGGCAAACAAAAGATCATCGAGTAACCGAGTTGGAACCATCTTAC
54109253 CCAACACAAGGTAAGTCATTAAGCATATAGTTTGTATTAATTTAAATGGTCATAACGTCTATGTA
131 CCAACACAAGGTAAGTCATTAAGCATATAGTTTGTATTAATTTAAATGGTCATAACGTCTATGTA
54109318 ATGATGCTGAATGGAATGATAAATATATATATACATGTATGTATGTGGTGATGAAAGTGTTGAAT
196 ATGATGCTGAATGGAATGATAAATATATATATACATGTATGTATGTGGTGATGAAAGTGTTGAAT
54109383 GAGAAGAAAAGAGGTGAGATGT
261 GAGAAGAAAAGAGGTGAGATGT
54109405 ATTGAG
1 ATTGAG
54109411 TTGTTGATCT
Statistics
Matches: 285, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
282 285 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (282 bp):
ATTGAGGTATGAATGTTTAGCAAGATGGTTAAACTAGTTAATTTATCGATTTAGCTCAAGAAGCT
AAAGGTGGAGAGGCAAGCAAGGGCAAACAAAAGATCATCGAGTAACCGAGTTGGAACCATCTTAC
CCAACACAAGGTAAGTCATTAAGCATATAGTTTGTATTAATTTAAATGGTCATAACGTCTATGTA
ATGATGCTGAATGGAATGATAAATATATATATACATGTATGTATGTGGTGATGAAAGTGTTGAAT
GAGAAGAAAAGAGGTGAGATGT
Found at i:54109549 original size:27 final size:28
Alignment explanation
Indices: 54109468--54109562 Score: 129
Period size: 27 Copynumber: 3.4 Consensus size: 28
54109458 GAGATTGGCG
* * * *
54109468 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
54109497 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
54109525 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
54109552 CTGAGTGTGCG
1 CTAAGTGTGCG
54109563 GACTTAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.39
28 22 0.36
29 15 0.25
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:54109576 original size:29 final size:27
Alignment explanation
Indices: 54109493--54109576 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
54109483 TAAATTGTAC
* *
54109493 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
54109521 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
54109548 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
54109577 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:54119351 original size:27 final size:27
Alignment explanation
Indices: 54119321--54119405 Score: 68
Period size: 28 Copynumber: 3.1 Consensus size: 27
54119311 AGAAATGACA
54119321 ATTTACCATTCTAGTCCATAACCTTGT
1 ATTTACCATTCTAGTCCATAACCTTGT
* * * **
54119348 ATTTTCCCGATT-TAAGCCCA-AATC-TCA
1 A-TTTACC-ATTCT-AGTCCATAACCTTGT
*
54119375 ATGTACCATTCTAGTCCATAACCTTGT
1 ATTTACCATTCTAGTCCATAACCTTGT
54119402 ATTT
1 ATTT
54119406 TCCCGATTTA
Statistics
Matches: 40, Mismatches: 12, Indels: 12
0.62 0.19 0.19
Matches are distributed among these distances:
25 8 0.20
26 8 0.20
27 7 0.17
28 9 0.22
29 8 0.20
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (27 bp):
ATTTACCATTCTAGTCCATAACCTTGT
Found at i:54119406 original size:54 final size:54
Alignment explanation
Indices: 54119319--54119430 Score: 215
Period size: 54 Copynumber: 2.1 Consensus size: 54
54119309 CCAGAAATGA
*
54119319 CAATTTACCATTCTAGTCCATAACCTTGTATTTTCCCGATTTAAGCCCAAATCT
1 CAATGTACCATTCTAGTCCATAACCTTGTATTTTCCCGATTTAAGCCCAAATCT
54119373 CAATGTACCATTCTAGTCCATAACCTTGTATTTTCCCGATTTAAGCCCAAATCT
1 CAATGTACCATTCTAGTCCATAACCTTGTATTTTCCCGATTTAAGCCCAAATCT
54119427 CAAT
1 CAAT
54119431 TTCCTTGATC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.36
Consensus pattern (54 bp):
CAATGTACCATTCTAGTCCATAACCTTGTATTTTCCCGATTTAAGCCCAAATCT
Found at i:54126435 original size:40 final size:40
Alignment explanation
Indices: 54126376--54126568 Score: 296
Period size: 40 Copynumber: 4.8 Consensus size: 40
54126366 GAACATTGGA
*
54126376 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* *
54126416 ACATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* *
54126456 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
*
54126496 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTC
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* * * *
54126536 ATATGTCCGGGTTAAGACCCGAAGGCAAATATG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATG
54126569 TTTGCGGCTG
Statistics
Matches: 139, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
Found at i:54128013 original size:49 final size:49
Alignment explanation
Indices: 54127933--54128177 Score: 238
Period size: 49 Copynumber: 4.9 Consensus size: 49
54127923 GGGTGTTACA
* * *
54127933 TATCTGGTACGCATAGTATCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * * * *
54127982 TGTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * * * *
54128032 CATTTGATACACGTAGTAGCCTGCACTTAGTACTATACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * *
54128083 TATCGGGTACGCATAGCAGCCTGCGCTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
54128132 TATCTGGTACACATAGTAGCCTACACTAAGTACTGCACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
54128178 TCACAATAGA
Statistics
Matches: 154, Mismatches: 39, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
49 76 0.49
50 44 0.29
51 34 0.22
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:54131568 original size:40 final size:40
Alignment explanation
Indices: 54131513--54131730 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
54131503 CAGATGATAA
* *
54131513 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
54131553 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
54131593 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
54131633 CCGGGCTAGGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54131673 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
54131713 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54131731 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 17 0.10
40 148 0.89
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54139824 original size:40 final size:40
Alignment explanation
Indices: 54139765--54139942 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
54139755 CAGATGATAA
* *
54139765 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
54139805 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
54139845 CCAGGCTAGGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54139885 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
54139925 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54139943 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
39 17 0.14
40 106 0.85
41 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54150304 original size:8 final size:9
Alignment explanation
Indices: 54150280--54150304 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
54150270 TTAGGGATTA
54150280 TATAAAAAT
1 TATAAAAAT
54150289 TATAAAAAT
1 TATAAAAAT
54150298 TATAAAA
1 TATAAAA
54150305 GCACAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TATAAAAAT
Found at i:54150861 original size:10 final size:10
Alignment explanation
Indices: 54150799--54150903 Score: 62
Period size: 10 Copynumber: 10.9 Consensus size: 10
54150789 TTATTATTTA
54150799 ATTTTGATAAT
1 ATTTT-ATAAT
*
54150810 ATTTATTTAAT
1 ATTT-TATAAT
*
54150821 ATTTT-CAA-
1 ATTTTATAAT
*
54150829 ATTTTATAAC
1 ATTTTATAAT
*
54150839 ATATTAGTAAT
1 ATTTTA-TAAT
54150850 ATTTTATAAT
1 ATTTTATAAT
* *
54150860 ATTTAATAGT
1 ATTTTATAAT
54150870 -TTTTAT-A-
1 ATTTTATAAT
54150877 ATTTTA-AA-
1 ATTTTATAAT
*
54150885 ATTTTATGAT
1 ATTTTATAAT
*
54150895 ATTTAATAA
1 ATTTTATAA
54150904 CTTTTTATTG
Statistics
Matches: 73, Mismatches: 13, Indels: 17
0.71 0.13 0.17
Matches are distributed among these distances:
8 17 0.23
9 10 0.14
10 25 0.34
11 20 0.27
12 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (10 bp):
ATTTTATAAT
Found at i:54150873 original size:19 final size:18
Alignment explanation
Indices: 54150846--54150908 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
54150836 AACATATTAG
54150846 TAAT-ATTTTATAATATT
1 TAATAATTTTATAATATT
*
54150863 TAATAGTTTTTATAAT-TT
1 TAATA-ATTTTATAATATT
*
54150881 TAA-AATTTTATGATATT
1 TAATAATTTTATAATATT
54150898 TAATAACTTTT
1 TAATAA-TTTT
54150909 TATTGTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 8 0.21
17 10 0.26
18 7 0.18
19 13 0.34
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (18 bp):
TAATAATTTTATAATATT
Found at i:54158363 original size:43 final size:43
Alignment explanation
Indices: 54158281--54158418 Score: 127
Period size: 43 Copynumber: 3.2 Consensus size: 43
54158271 TGAGATATTG
* * * * *** *
54158281 TGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACG
1 TGTAAGACCATGTCTAGGACAGAGGCATCGATACTGATTTACA
* * **
54158324 TATAAGACCATGTCTGGGACATCGGCATC-ATATCTGATTT-CA
1 TGTAAGACCATGTCTAGGACAGAGGCATCGATA-CTGATTTACA
* *
54158366 TGTAAGACCCTGTCTAGGACAGAGGCATCGATACTGAATTACA
1 TGTAAGACCATGTCTAGGACAGAGGCATCGATACTGATTTACA
54158409 TGTAAGACCA
1 TGTAAGACCA
54158419 CGTCCGAGAC
Statistics
Matches: 76, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
42 33 0.43
43 43 0.57
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACAGAGGCATCGATACTGATTTACA
Done.