Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 182 of 235
Found at i:61931451 original size:93 final size:93
Alignment explanation
Indices: 61931338--61931509 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
61931328 CGCCCATAAG
* *
61931338 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
61931403 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
61931431 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
61931496 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
61931510 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:61931506 original size:46 final size:46
Alignment explanation
Indices: 61931331--61931506 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
61931321 TGTAACCCGC
* * *
61931331 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
61931377 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
61931427 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
61931470 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
61931507 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:61942824 original size:28 final size:28
Alignment explanation
Indices: 61942792--61942845 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
61942782 TAAAAACACC
* *
61942792 AAATAAGAAAAATACAATATAAATAAGT
1 AAATAAGAAAAATAAAATAGAAATAAGT
*
61942820 AAATAAGTAAAATAAAATAGAAATAA
1 AAATAAGAAAAATAAAATAGAAATAA
61942846 AAATGTACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (28 bp):
AAATAAGAAAAATAAAATAGAAATAAGT
Found at i:61946536 original size:25 final size:25
Alignment explanation
Indices: 61946489--61946536 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
61946479 TTATAATATG
* * *
61946489 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCGTTATACCCCTAGGTA
*
61946514 AAAATGACCGTTATACCCTTAGG
1 AAAATGACCGTTATACCCCTAGG
61946537 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (25 bp):
AAAATGACCGTTATACCCCTAGGTA
Found at i:61946698 original size:26 final size:24
Alignment explanation
Indices: 61946668--61946738 Score: 97
Period size: 26 Copynumber: 2.9 Consensus size: 24
61946658 GGAGGAAGTG
*
61946668 CAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAC
* *
61946692 CGAAAAAAGGCTTTGCCCCAGTTTAT
1 C--AAAAGGGCTTTGCCCCAGTTTAC
61946718 CAAAAGGGCTTTGCCCCAGTT
1 CAAAAGGGCTTTGCCCCAGTT
61946739 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
24 20 0.49
26 21 0.51
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAC
Found at i:61946727 original size:24 final size:24
Alignment explanation
Indices: 61946668--61946751 Score: 98
Period size: 24 Copynumber: 3.4 Consensus size: 24
61946658 GGAGGAAGTG
* *
61946668 CAAAAGGGCTATGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
61946692 CGAAAAAAGGCTTTGCCCCAGTTTAT
1 C--AAAAGGGCTTTGCCCCAGTTTAT
61946718 CAAAAGGGCTTTGCCCCAG-TTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
61946741 TAAAAGAGGCT
1 CAAAAG-GGCT
61946752 AGGCCTTCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
23 9 0.17
24 22 0.42
26 21 0.40
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:61953642 original size:25 final size:25
Alignment explanation
Indices: 61953614--61953662 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
61953604 TTATAATATG
* *
61953614 AAAAATGACTATTTTGCCCCTAGGT
1 AAAAATGACTATTATACCCCTAGGT
*
61953639 AAAAATGACTGTTATACCCCTAGG
1 AAAAATGACTATTATACCCCTAGG
61953663 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (25 bp):
AAAAATGACTATTATACCCCTAGGT
Found at i:61953855 original size:25 final size:25
Alignment explanation
Indices: 61953795--61953865 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
61953785 GAGAAAGTGC
* *
61953795 AAAAGGGCTATGCCCCAATTTACCGA
1 AAAAGGGCTTTG-CCCAGTTTACCGA
*
61953821 AAAAGGGCTTTGCCCTAGTTTATC-A
1 AAAAGGGCTTTGCCC-AGTTTACCGA
61953846 AAAAGGGCTTTGTCCCAGTT
1 AAAAGGGCTTTG-CCCAGTT
61953866 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
25 20 0.50
26 20 0.50
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCAGTTTACCGA
Found at i:61953872 original size:24 final size:25
Alignment explanation
Indices: 61953795--61953865 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
61953785 GAGAAAGTGC
* * * *
61953795 AAAAGGGCTATGCCCCAATTTACCGA
1 AAAAGGGCTTTGCCCTAGTTTATC-A
61953821 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTATCA
61953846 AAAAGGGCTTTGTCCC-AGTT
1 AAAAGGGCTTTG-CCCTAGTT
61953866 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 17 0.43
26 23 0.57
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTATCA
Found at i:61953878 original size:24 final size:25
Alignment explanation
Indices: 61953821--61953878 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 25
61953811 AATTTACCGA
61953821 AAAAG-GGCTTTGCCCTAGTTTATC
1 AAAAGAGGCTTTGCCCTAGTTTATC
*
61953845 AAAA-AGGGCTTTGTCCC-AG-TTATT
1 AAAAGA-GGCTTTG-CCCTAGTTTATC
61953869 AAAAGAGGCT
1 AAAAGAGGCT
61953879 AGGCCTCCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
24 16 0.55
25 10 0.34
26 3 0.10
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCTAGTTTATC
Found at i:61955579 original size:118 final size:118
Alignment explanation
Indices: 61955371--61955725 Score: 656
Period size: 118 Copynumber: 3.0 Consensus size: 118
61955361 ATTGCCCCAT
* * * *
61955371 AAGGACACCCCTCACCAGTATTCATTGCCAAAATAGGGTTATGGAGTATTACCAAACTTATAACA
1 AAGGACAGCCCTCACCAATATTCATTGCCATAATAGGGTTACGGAGTATTACCAAACTTATAACA
61955436 CAATTAAACATACATTTCTCATATAATTTTCCATTTTCAAATATAAAACATTC
66 CAATTAAACATACATTTCTCATATAATTTTCCATTTTCAAATATAAAACATTC
61955489 AAGGACAGCCCTCACCAATATTCATTGCCATAATAGGGTTACGGAGTATTACCAAACTTATAACA
1 AAGGACAGCCCTCACCAATATTCATTGCCATAATAGGGTTACGGAGTATTACCAAACTTATAACA
61955554 CAATTAAACATACATTTCTCATATAATTTTCCATTTTCAAATATAAAACATTC
66 CAATTAAACATACATTTCTCATATAATTTTCCATTTTCAAATATAAAACATTC
61955607 AAGGACAGCCCTCACCAATATTCATTGCCATAATAGGGTTACGGAGTATTACCAAACTTATAACA
1 AAGGACAGCCCTCACCAATATTCATTGCCATAATAGGGTTACGGAGTATTACCAAACTTATAACA
* *
61955672 CAATTAAACATACATTTCTCATACACTTTTCCATTTTCAAATATAAAACATTC
66 CAATTAAACATACATTTCTCATATAATTTTCCATTTTCAAATATAAAACATTC
61955725 A
1 A
61955726 CATTCATTCA
Statistics
Matches: 231, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 231 1.00
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (118 bp):
AAGGACAGCCCTCACCAATATTCATTGCCATAATAGGGTTACGGAGTATTACCAAACTTATAACA
CAATTAAACATACATTTCTCATATAATTTTCCATTTTCAAATATAAAACATTC
Found at i:61956648 original size:86 final size:86
Alignment explanation
Indices: 61956510--61956785 Score: 351
Period size: 86 Copynumber: 3.2 Consensus size: 86
61956500 GAAAAACGTA
* * *
61956510 GCTATAGAACATGACCTTTAGCAGTGCTTCTCCCACAAACGCCGCTATAGAACAAAACTTTTAGC
1 GCTATAGAACAAGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAGAACAAAACTTTTAGC
*
61956575 GGTGCTTTTCCCACAAACGCC
66 GGCGCTTTTCCCACAAACGCC
* * * * *
61956596 GCTATAGAATAAGACCTTTAGCAGCGTTTTTCCCACAAACGCTGCTATAGAACAAAACCTTTAGT
1 GCTATAGAACAAGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAGAACAAAACTTTTAGC
61956661 GGCG-TCTTTCCCACAAACGCC
66 GGCGCT-TTTCCCACAAACGCC
* ** * **
61956682 GTTATAGAACAAGACCTTTAGTGGCGCTTTT-CCACAAACGCCACTATAGAACATGACTTTTAGC
1 GCTATAGAACAAGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAGAACAAAACTTTTAGC
* *
61956746 GACGC-TCTCCCACAAACGCC
66 GGCGCTTTTCCCACAAACGCC
* *
61956766 GCTAAAGAACATGACCTTTA
1 GCTATAGAACAAGACCTTTA
61956786 AAAAAATATT
Statistics
Matches: 163, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
84 31 0.19
85 31 0.19
86 101 0.62
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (86 bp):
GCTATAGAACAAGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAGAACAAAACTTTTAGC
GGCGCTTTTCCCACAAACGCC
Found at i:61956730 original size:42 final size:42
Alignment explanation
Indices: 61956510--61956785 Score: 318
Period size: 43 Copynumber: 6.5 Consensus size: 42
61956500 GAAAAACGTA
* * *
61956510 GCTATAGAACATGACCTTTAGCAGTGCTTCTCCCACAAACGCC
1 GCTATAGAACAAGACCTTTAGCGGCGCTT-TCCCACAAACGCC
* * *
61956553 GCTATAGAACAAAACTTTTAGCGGTGCTTTTCCCACAAACGCC
1 GCTATAGAACAAGACCTTTAGCGGCGC-TTTCCCACAAACGCC
* * * *
61956596 GCTATAGAATAAGACCTTTAGCAGCGTTTTTCCCACAAACGCT
1 GCTATAGAACAAGACCTTTAGCGGCG-CTTTCCCACAAACGCC
* *
61956639 GCTATAGAACAAAACCTTTAGTGGCGTCTTTCCCACAAACGCC
1 GCTATAGAACAAGACCTTTAGCGGCG-CTTTCCCACAAACGCC
* * *
61956682 GTTATAGAACAAGACCTTTAGTGGCGCTTTTCCACAAACGCC
1 GCTATAGAACAAGACCTTTAGCGGCGCTTTCCCACAAACGCC
* * * * *
61956724 ACTATAGAACATGACTTTTAGCGACGCTCTCCCACAAACGCC
1 GCTATAGAACAAGACCTTTAGCGGCGCTTTCCCACAAACGCC
* *
61956766 GCTAAAGAACATGACCTTTA
1 GCTATAGAACAAGACCTTTA
61956786 AAAAAATATT
Statistics
Matches: 200, Mismatches: 31, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
42 66 0.33
43 132 0.66
44 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (42 bp):
GCTATAGAACAAGACCTTTAGCGGCGCTTTCCCACAAACGCC
Found at i:61960160 original size:255 final size:247
Alignment explanation
Indices: 61959695--61960196 Score: 887
Period size: 255 Copynumber: 2.0 Consensus size: 247
61959685 TAAGATTAAC
* *
61959695 ATGGTAGTATTATAATTGTAGACAATTCGTGCGTGTATATTGTCAGCGAATCGTCATAAAATAGG
1 ATGGTAGTATTATAATTGTAGACAATTCGTGCGTGGATATCGTCAGCGAATCGTCATAAAATAGG
61959760 TGTGTAACTGACACCCTCTCATAGACTAGATCGGCAAAAGCTGAAAAGCCGAAATGCCGAAAAGT
66 TGTGTAACTGACACCCTCTCATAGACTAGATCGGCAAAAGCTGAAAAGCCGAAATGCCGAAAAGT
61959825 TGGTATTTTGGGAATTTGCGAGTGTGCGAATGCTCGTATGATAGTTGGGTTTGTATGTTTGGTAT
131 TGGTATTTTGGGAATTTGCGAGTGTGCGAATGCTCGTATGATAGTTGGGTTTGTATGTTTGGTAT
61959890 TCTGAAGGTAATAAACTACAGTACGTACAATTTCGTGCATTTTGATAATGTG
196 TCTGAAGGTAATAAACTACAGTACGTACAATTTCGTGCATTTTGATAATGTG
* * *
61959942 ATGGTAGTATTATAATTGTAGGCAGTTCGTGCGTGGATCTCGTCAGCGAATCGTCATAAAATAGG
1 ATGGTAGTATTATAATTGTAGACAATTCGTGCGTGGATATCGTCAGCGAATCGTCATAAAATAGG
61960007 TGTGTAACTGACACCCTCTCATAGACTAGATCGGCAAAAGCTGAAAAGCTGAAAAGCCGAAATGC
66 TGTGTAACTGACACCCTCTCATAGACTAGATC-G-----GC--AAAAGCTGAAAAGCCGAAATGC
61960072 CGAAAAGTTGGTATTTTGGGAATTTGCGAGTGTGCGAATGCTCGTATGATAGTTGGGTTTGTATG
123 CGAAAAGTTGGTATTTTGGGAATTTGCGAGTGTGCGAATGCTCGTATGATAGTTGGGTTTGTATG
61960137 TTTGGTATTCTGAAGGTAATAAACTACAGTACGTACAATTTCGTGCATTTTGATAATGTG
188 TTTGGTATTCTGAAGGTAATAAACTACAGTACGTACAATTTCGTGCATTTTGATAATGTG
61960197 GGCTTAATGG
Statistics
Matches: 242, Mismatches: 5, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
247 92 0.38
248 1 0.00
253 2 0.01
255 147 0.61
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (247 bp):
ATGGTAGTATTATAATTGTAGACAATTCGTGCGTGGATATCGTCAGCGAATCGTCATAAAATAGG
TGTGTAACTGACACCCTCTCATAGACTAGATCGGCAAAAGCTGAAAAGCCGAAATGCCGAAAAGT
TGGTATTTTGGGAATTTGCGAGTGTGCGAATGCTCGTATGATAGTTGGGTTTGTATGTTTGGTAT
TCTGAAGGTAATAAACTACAGTACGTACAATTTCGTGCATTTTGATAATGTG
Found at i:61960535 original size:27 final size:27
Alignment explanation
Indices: 61960499--61960606 Score: 103
Period size: 27 Copynumber: 4.0 Consensus size: 27
61960489 AGCGTCCTGC
*
61960499 TGGCTATGCCACAATTATCTGATCTGG
1 TGGCTCTGCCACAATTATCTGATCTGG
* *
61960526 TGGCTCTGCCACATATT-TCTGTTCTAG
1 TGGCTCTGCCACA-ATTATCTGATCTGG
* * *
61960553 TGGCTCTGCCTCGATTATTTGTATCTGG
1 TGGCTCTGCCACAATTATCTG-ATCTGG
* * *
61960581 TGACTCTGTCAC-ATTATCTGTTCTGG
1 TGGCTCTGCCACAATTATCTGATCTGG
61960607 CAGCCATGCT
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
26 8 0.12
27 41 0.63
28 16 0.25
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.40
Consensus pattern (27 bp):
TGGCTCTGCCACAATTATCTGATCTGG
Found at i:61966883 original size:24 final size:24
Alignment explanation
Indices: 61966851--61966944 Score: 127
Period size: 24 Copynumber: 3.9 Consensus size: 24
61966841 CTGTCAGGAG
61966851 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
61966875 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
61966899 AGGATTTAGGAGCAGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
* *
61966923 -GAAATCTAGGAGTTGATCAAGG
1 AG-GATTTAGGAGTTGAT-AAGG
61966945 AACAAGAGGT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
23 1 0.02
24 57 0.92
25 4 0.06
ACGTcount: A:0.35, C:0.03, G:0.36, T:0.26
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:61968381 original size:27 final size:27
Alignment explanation
Indices: 61968341--61968452 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
61968331 AGGAAGCGTC
*
61968341 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
61968368 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* *
61968395 CTGGTGGCTGTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
61968423 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
61968449 CTGG
1 CTGG
61968453 CAACCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 8 0.11
27 48 0.66
28 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:61968447 original size:54 final size:54
Alignment explanation
Indices: 61968341--61968452 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
61968331 AGGAAGCGTC
* *
61968341 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
61968395 CTGGTGGCTGTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
61968449 CTGG
1 CTGG
61968453 CAACCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:61974759 original size:35 final size:35
Alignment explanation
Indices: 61974719--61974786 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
61974709 TTATGTAATG
*
61974719 ATATTTCATCCTGTGTGCAGGTGGAATTAGAAAAA
1 ATATTTCATCCTGTGTGCAGATGGAATTAGAAAAA
* *
61974754 ATATTTCATCCTTTGTGCAGATGGATTTAGAAA
1 ATATTTCATCCTGTGTGCAGATGGAATTAGAAA
61974787 CACTCTACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (35 bp):
ATATTTCATCCTGTGTGCAGATGGAATTAGAAAAA
Found at i:61985025 original size:27 final size:27
Alignment explanation
Indices: 61984994--61985171 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
61984984 TAAATTGTAG
61984994 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61985021 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61985047 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61985075 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
61985103 AGCACTAAGTGTGCAATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61985130 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61985157 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61985172 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61985108 original size:82 final size:81
Alignment explanation
Indices: 61984995--61985150 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
61984985 AAATTGTAGA
* *
61984995 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAA-ATGAATATG-ATGCACTAAGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGC-AATATGAATACGTA-GCACTAAGT
61985058 GTGCGAATTGACCATGCG
64 GTGCGAATTGACCATGCG
* *
61985076 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCAATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCAATATGAATACGTAGCACTAAGTG
*
61985141 TGCGAGTTGA
65 TGCGAATTGA
61985151 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 17 0.25
82 49 0.73
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCAATATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61985162 original size:82 final size:81
Alignment explanation
Indices: 61984994--61985171 Score: 216
Period size: 82 Copynumber: 2.2 Consensus size: 81
61984984 TAAATTGTAG
* *
61984994 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
*
61985059 TGCGAATTGACCATGC
66 TGCGAATTGACCATAC
* * *
61985075 GGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGC-AATTTGATTACG-TAGCACTAA
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAA-ATGAATACGAT-GCACTAA
* ** *
61985138 GTGTGCGAGTTGATTATAT
63 GTGTGCGAATTGACCATAC
*
61985157 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61985172 GACTCAATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
TGCGAATTGACCATAC
Found at i:61992340 original size:30 final size:30
Alignment explanation
Indices: 61992306--61992366 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
61992296 CATTTAATAC
61992306 AAACTTTGGAAAAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
61992336 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
61992366 A
1 A
61992367 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:62008238 original size:21 final size:22
Alignment explanation
Indices: 62008214--62008265 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
62008204 TCAAATGGAG
* *
62008214 TAAAGAAATCTTGTA-ATGAAA
1 TAAAGAAAACTTGAACATGAAA
*
62008235 TAAAAAAAACTTGAACATGAAA
1 TAAAGAAAACTTGAACATGAAA
62008257 -AAATGAAAA
1 TAAA-GAAAA
62008266 TTATTCTAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (22 bp):
TAAAGAAAACTTGAACATGAAA
Found at i:62009184 original size:36 final size:35
Alignment explanation
Indices: 62009132--62009203 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 35
62009122 TATACTCCTC
*
62009132 ATTCCTGCTATTAATCTCATCAAAATAAGGTTTTA
1 ATTCCTGCTATCAATCTCATCAAAATAAGGTTTTA
62009167 NATTCCTGCTATCAATCTCATCAAAATAAGGTTTTA
1 -ATTCCTGCTATCAATCTCATCAAAATAAGGTTTTA
62009203 A
1 A
62009204 ATGGGTGTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 1 0.03
36 34 0.97
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.38
Consensus pattern (35 bp):
ATTCCTGCTATCAATCTCATCAAAATAAGGTTTTA
Found at i:62015390 original size:9 final size:9
Alignment explanation
Indices: 62015378--62015402 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
62015368 AATTTGGGAC
62015378 TAAATTGAA
1 TAAATTGAA
62015387 TAAATTGAA
1 TAAATTGAA
62015396 TAAATTG
1 TAAATTG
62015403 CAAAACTTGG
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:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (9 bp):
TAAATTGAA
Found at i:62021612 original size:50 final size:50
Alignment explanation
Indices: 62021558--62021940 Score: 319
Period size: 50 Copynumber: 7.6 Consensus size: 50
62021548 CTGGTATGCA
* * * *
62021558 TAGTAGCCTGCACTCAGTACTACACATGTGACCTATCAATCTGGTACATG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
*** * * *
62021608 TAGTAGCCTACAC-TAGTACTACACACGTGGTTTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* * ** * * *
62021657 TAGTAGCCTGCACTTAGTACAACACACGTGATCGAAGTTAA-CGGGTACACA
1 TAGTAGCCTACACTTAGTACTACACACGTGA-CCTA-TCAATCTGGTACACG
* *
62021708 TAGTAGCCTACACTTAGTACTACACATGTGACCTATCAATCTTGTACACG
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* * * * * *
62021758 TAGTATCCTACAATTCA-TACTACACACGTGACTTAACCATCTGATACA-G
1 TAGTAGCCTACACTT-AGTACTACACACGTGACCTATCAATCTGGTACACG
* * * * * *
62021807 ATAGTAGCCTACACTTCGTACTACACACGTGA-TTGAAGTTAA-CGGGTACGCA
1 -TAGTAGCCTACACTTAGTACTACACACGTGACCT--A-TCAATCTGGTACACG
* * * *
62021859 TAGTAGCCTACACTTAGTACTGCACATGCGACCTATCAATCTGGTACACA
1 TAGTAGCCTACACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
* * *
62021909 TAGTAGCCTGCACTTTGTACTACACATGTGAC
1 TAGTAGCCTACACTTAGTACTACACACGTGAC
62021941 TCACAATGAA
Statistics
Matches: 259, Mismatches: 61, Indels: 26
0.75 0.18 0.08
Matches are distributed among these distances:
49 48 0.19
50 138 0.53
51 70 0.27
52 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCTATCAATCTGGTACACG
Found at i:62021845 original size:151 final size:150
Alignment explanation
Indices: 62021556--62021941 Score: 542
Period size: 151 Copynumber: 2.6 Consensus size: 150
62021546 CTCTGGTATG
* * *
62021556 CATAGTAGCCTGCACTCAGTACTACACATGTGACCTATCAATCTGGTACATGTAGTAGCCTAC-A
1 CATAGTAGCCTACACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTACAA
* ** *
62021620 CTAGTACTACACACGTGGTTTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACAACACACG
66 TTA-TACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACAACACACG
62021685 TGATCGAAGTTAACGGGTACA
130 TGATCGAAGTTAACGGGTACA
* *
62021706 CATAGTAGCCTACACTTAGTACTACACATGTGACCTATCAATCTTGTACACGTAGTATCCTACAA
1 CATAGTAGCCTACACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTACAA
* *
62021771 TTCATACTACACACGTGACTTAACCATCTGATACA-GATAGTAGCCTACACTTCGTACTACACAC
66 TT-ATACTACACACGTGACTTAACCATCTGATACACG-TAGTAGCCTACACTTAGTACAACACAC
* *
62021835 GTGATTGAAGTTAACGGGTACG
129 GTGATCGAAGTTAACGGGTACA
* * * *
62021857 CATAGTAGCCTACACTTAGTACTGCACATGCGACCTATCAATCTGGTACACATAGTAGCCTGCAC
1 CATAGTAGCCTACACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTACA-
* * *
62021922 TTTGTACTACACATGTGACT
65 ATTATACTACACACGTGACT
62021942 CACAATGAAT
Statistics
Matches: 210, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
150 59 0.28
151 148 0.70
152 3 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (150 bp):
CATAGTAGCCTACACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTACAA
TTATACTACACACGTGACTTAACCATCTGATACACGTAGTAGCCTACACTTAGTACAACACACGT
GATCGAAGTTAACGGGTACA
Found at i:62021917 original size:101 final size:99
Alignment explanation
Indices: 62021556--62021939 Score: 335
Period size: 101 Copynumber: 3.8 Consensus size: 99
62021546 CTCTGGTATG
* * * **
62021556 CATAGTAGCCTGCACTCAGTACTACACATGTGACCTATCAATCTGGTACATGTAGTAGCCTACAC
1 CATAGTAGCCTACACTTAGTACTACACACGTGACCTATCAATCTGGTACACATAGTAGCCTACAC
* * * *
62021621 -TAGTACTACACACGTGGTTTAACCATCTGATACA
66 TTAGTACTACACACGT-GATTAATCAACTGGTACA
* * * ** * *
62021655 CGTAGTAGCCTGCACTTAGTACAACACACGTGATCGAAGTTAA-CGGGTACACATAGTAGCCTAC
1 CATAGTAGCCTACACTTAGTACTACACACGTGA-CCTA-TCAATCTGGTACACATAGTAGCCTAC
* * *
62021719 ACTTAGTACTACACATGTGACCT-ATCAATCTTGTACA
64 ACTTAGTACTACACACGTGA-TTAATCAA-CTGGTACA
* * * * * * * *
62021756 CGTAGTATCCTACAATTCA-TACTACACACGTGACTTAACCATCTGATACAGATAGTAGCCTACA
1 CATAGTAGCCTACACTT-AGTACTACACACGTGACCTATCAATCTGGTACACATAGTAGCCTACA
* * * *
62021820 CTTCGTACTACACACGTGATTGAAGTTAACGGGTACG
65 CTTAGTACTACACACGTGATT-AA-TCAACTGGTACA
* * * *
62021857 CATAGTAGCCTACACTTAGTACTGCACATGCGACCTATCAATCTGGTACACATAGTAGCCTGCAC
1 CATAGTAGCCTACACTTAGTACTACACACGTGACCTATCAATCTGGTACACATAGTAGCCTACAC
* *
62021922 TTTGTACTACACATGTGA
66 TTAGTACTACACACGTGA
62021940 CTCACAATGA
Statistics
Matches: 224, Mismatches: 50, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
99 31 0.14
100 65 0.29
101 124 0.55
102 4 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (99 bp):
CATAGTAGCCTACACTTAGTACTACACACGTGACCTATCAATCTGGTACACATAGTAGCCTACAC
TTAGTACTACACACGTGATTAATCAACTGGTACA
Found at i:62023393 original size:93 final size:90
Alignment explanation
Indices: 62023227--62023445 Score: 235
Period size: 93 Copynumber: 2.4 Consensus size: 90
62023217 AGGTGATTTG
* * * *
62023227 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGTATCCAGACGAGGGCTAGTGTAAGACA
1 TGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCCAGACGAGAGCCAGTGTAAGACA
* * * *
62023292 TGTTTGGGACATGCTTCAGCC-ATATT
64 TGTCTGGGACACGCATCAGCCAAGATT
* * *
62023318 ATGAGTGCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGA-GATAGCCAGTGTAAG
1 -T--GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATC--CAGACGAGAGCCAGTGTAAG
* *
62023382 ACGTGTCTGGGACACGCATCGGCCAAGATT
61 ACATGTCTGGGACACGCATCAGCCAAGATT
*
62023412 TGTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 TGTGCCAGTGTAAGACATGTCTGGGACATGCATC
62023446 AGCACACATA
Statistics
Matches: 107, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
91 31 0.29
92 10 0.09
93 45 0.42
94 21 0.20
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (90 bp):
TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCCAGACGAGAGCCAGTGTAAGACATG
TCTGGGACACGCATCAGCCAAGATT
Found at i:62023811 original size:21 final size:21
Alignment explanation
Indices: 62023785--62023826 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
62023775 ACTCTATTTT
62023785 CTTTCCCCT-TTCTTTCAGTAC
1 CTTT-CCCTATTCTTTCAGTAC
62023806 CTTTCCCTATTCTTTCAGTAC
1 CTTTCCCTATTCTTTCAGTAC
62023827 TGCCAAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.12, C:0.36, G:0.05, T:0.48
Consensus pattern (21 bp):
CTTTCCCTATTCTTTCAGTAC
Found at i:62052659 original size:45 final size:45
Alignment explanation
Indices: 62052595--62052803 Score: 307
Period size: 45 Copynumber: 4.7 Consensus size: 45
62052585 TATCGTACAG
* *
62052595 TACTATTCGGGCCTTTGAGCCTAGCTGGCTATGATGCCAGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
62052640 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* *
62052685 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* * *
62052730 TACTATTCGGGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* *
62052775 TGA-TA-TCGGG-CTTCGACCCTAGCAGGCTA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTA
62052804 AATGCTGGTG
Statistics
Matches: 152, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
43 17 0.11
44 5 0.03
45 129 0.85
46 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
Found at i:62060469 original size:45 final size:45
Alignment explanation
Indices: 62060405--62060613 Score: 307
Period size: 45 Copynumber: 4.7 Consensus size: 45
62060395 TATCGTACAG
62060405 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* * *
62060450 TACTATTCGGGTCTTTGAGCCTAGCAGGCTATGATGCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* *
62060495 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* *
62060540 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* *
62060585 TGA-TA-TCGGG-CTTCGACCCTAGCAGGCTA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTA
62060614 AATGCCAGTG
Statistics
Matches: 152, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
43 18 0.12
44 5 0.03
45 128 0.84
46 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
Found at i:62061130 original size:16 final size:18
Alignment explanation
Indices: 62061099--62061131 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
62061089 AACTCGTCAC
62061099 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
62061117 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
62061132 ATTTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:62064335 original size:11 final size:11
Alignment explanation
Indices: 62064319--62064345 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
62064309 ATGAAAGAAG
62064319 AATCTTGAATA
1 AATCTTGAATA
62064330 AATCTTGAATA
1 AATCTTGAATA
62064341 AATCT
1 AATCT
62064346 ATTAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.37
Consensus pattern (11 bp):
AATCTTGAATA
Found at i:62065286 original size:10 final size:9
Alignment explanation
Indices: 62065262--62065292 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
62065252 CTAATTTTTT
62065262 ATTTTATAAA
1 ATTTT-TAAA
62065272 ATTTTTAAA
1 ATTTTTAAA
62065281 ATTTTTAAA
1 ATTTTTAAA
62065290 ATT
1 ATT
62065293 AAAAAAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:62065605 original size:100 final size:100
Alignment explanation
Indices: 62065478--62066371 Score: 1745
Period size: 100 Copynumber: 8.9 Consensus size: 100
62065468 AAAAAATTAT
* * *
62065478 CAACTAAATTTTATT-AGAAATTAAAAAATAAACTACCAAAAACTCAAGATAATAATTAAAAATA
1 CAACTAAATATTATTAAAAAATT-AAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATA
62065542 AATAAATTACACAATTAACATAATCTATAATTGACA
65 AATAAATTACACAATTAACATAATCTATAATTGACA
62065578 CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
1 CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
62065643 ATAAATTACACAATTAACATAATCTATAATTGACA
66 ATAAATTACACAATTAACATAATCTATAATTGACA
62065678 CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
1 CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
62065743 ATAAATTACACAATTAACATAATCTATAATTGACA
66 ATAAATTACACAATTAACATAATCTATAATTGACA
62065778 CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
1 CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
62065843 ATAAATTACACAATTAACATAATCTATAATTGACA
66 ATAAATTACACAATTAACATAATCTATAATTGACA
62065878 CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
1 CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
62065943 ATAAATTACACAATTAACATAATCTATAATTGACA
66 ATAAATTACACAATTAACATAATCTATAATTGACA
62065978 CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
1 CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
62066043 ATAAATTACACAATTAACATAATCTATAATTGACA
66 ATAAATTACACAATTAACATAATCTATAATTGACA
62066078 CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
1 CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
62066143 ATAAATTACACAATTAACATAATCTATAATTGACA
66 ATAAATTACACAATTAACATAATCTATAATTGACA
62066178 CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
1 CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
62066243 ATAAATTACACAATTAACATAATCTATAATTGACA
66 ATAAATTACACAATTAACATAATCTATAATTGACA
62066278 CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
1 CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
62066343 ATAAATTACACAATTAACATAATCTATAA
66 ATAAATTACACAATTAACATAATCTATAA
62066372 ATATAAAATT
Statistics
Matches: 790, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
100 784 0.99
101 6 0.01
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.28
Consensus pattern (100 bp):
CAACTAAATATTATTAAAAAATTAAAAATAAATTACCAAAAACTCAAGATAATAATTAAAAATAA
ATAAATTACACAATTAACATAATCTATAATTGACA
Found at i:62069921 original size:6 final size:6
Alignment explanation
Indices: 62069910--62069949 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
62069900 ATAAGTTCAA
*
62069910 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AGAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
62069950 CAAAGTCCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:62070108 original size:19 final size:19
Alignment explanation
Indices: 62070054--62070102 Score: 84
Period size: 17 Copynumber: 2.7 Consensus size: 19
62070044 CATCTTTAAG
62070054 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
62070073 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
62070090 GATATGCAATCTT
1 GATATGCAATCTT
62070103 GAATATATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 17 0.61
19 11 0.39
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:62074601 original size:39 final size:40
Alignment explanation
Indices: 62074484--62074668 Score: 214
Period size: 40 Copynumber: 4.7 Consensus size: 40
62074474 GCTCCTCGTT
62074484 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
62074524 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
62074564 CCAATTCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
62074603 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
62074644 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
62074669 CATCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 81 0.65
41 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:62074653 original size:79 final size:80
Alignment explanation
Indices: 62074484--62074668 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 80
62074474 GCTCCTCGTT
* *
62074484 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
62074549 ATTTAGTAACTCGCAC
65 ATATAGTAACTAGCAC
** * * **
62074565 CAATTCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTT-TGGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
62074628 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
62074644 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
62074669 CATCATTCAA
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
78 3 0.03
79 58 0.67
80 23 0.26
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCAC
Found at i:62082514 original size:39 final size:40
Alignment explanation
Indices: 62082397--62082581 Score: 214
Period size: 40 Copynumber: 4.7 Consensus size: 40
62082387 GCTCCTCGTT
62082397 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
62082437 CAAATGCCTTCGGGACTTAACCCGGATTTAGGAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
62082477 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
62082516 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
62082557 CAAA-GCCTTCGGGATTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
62082582 CATCATTCAA
Statistics
Matches: 125, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 81 0.65
41 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:62082565 original size:79 final size:80
Alignment explanation
Indices: 62082397--62082581 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
62082387 GCTCCTCGTT
* *
62082397 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
62082462 ATTTAGGAACTCGCAC
65 ATATAGGAACTAGCAC
* * **
62082478 CAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
*
62082541 ATAT-GGTCACTTAGCA-
65 ATATAGG-AAC-TAGCAC
*
62082557 CAAAGCCTTCGGGATTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
62082582 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 5 0.06
79 58 0.65
80 23 0.26
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGGAACTAGCAC
Found at i:62089644 original size:46 final size:45
Alignment explanation
Indices: 62089558--62089647 Score: 117
Period size: 46 Copynumber: 2.0 Consensus size: 45
62089548 AAGTTTTTTC
* * * *
62089558 AGCAGGGATCTCCTGACAATGTGCTACATGGTACTATCATTGACA
1 AGCAGGAATCTCCTGACAATATGCTACATGATACCATCATTGACA
* *
62089603 NAGCAGGAATCTCCTGACAATATGCTACCTGATACCGTCATTGAC
1 -AGCAGGAATCTCCTGACAATATGCTACATGATACCATCATTGAC
62089648 CACAAAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (45 bp):
AGCAGGAATCTCCTGACAATATGCTACATGATACCATCATTGACA
Found at i:62091281 original size:44 final size:45
Alignment explanation
Indices: 62091139--62091453 Score: 240
Period size: 44 Copynumber: 7.1 Consensus size: 45
62091129 AAAAGAAACA
*
62091139 AGATTTGGCATCCCTGTGTTTATAGGGAA-ACAGATCGAAGATAGC
1 AGATTTGGCATCTCTGTGTTTATAGGGAACA-AGATCGAAGATAGC
* ** * * * **
62091184 AGATCTAACA-CTCCTGTGCTTACAGTGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATCT-CTGTGTTTATAGGGAA-CAAGATCGAAGATAGC
*
62091229 AGCA--TGGCATCTCTGTGTTTATAGGGAACAAG-TTGAAGATAGC
1 AG-ATTTGGCATCTCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* *
62091272 AGATTTGGCATCCCTGTGTTTATAGGGAAC-AGATTGAAGATAGC
1 AGATTTGGCATCTCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* * * * * * ***
62091316 AGATCTGACAT-TCCTGTGCTTACAGCGAA-ATAGATCAAAGATTTT
1 AGATTTGGCATCT-CTGTGTTTATAGGGAACA-AGATCGAAGATAGC
* *
62091361 A-ATATGGCATCTCTGTGTTTATAGGGAACAAG-TTGAAGATAGC
1 AGATTTGGCATCTCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* * *
62091404 AGATTTGACATCCCTGTGTTTACAGGGAACAA-ATCGAAGACATAGC
1 AGATTTGGCATCTCTGTGTTTATAGGGAACAAGATCGAAG--ATAGC
62091450 AGAT
1 AGAT
62091454 CTGATTTTCG
Statistics
Matches: 208, Mismatches: 44, Indels: 35
0.72 0.15 0.12
Matches are distributed among these distances:
42 1 0.00
43 20 0.10
44 129 0.62
45 48 0.23
46 10 0.05
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (45 bp):
AGATTTGGCATCTCTGTGTTTATAGGGAACAAGATCGAAGATAGC
Found at i:62091377 original size:132 final size:132
Alignment explanation
Indices: 62091139--62091457 Score: 494
Period size: 132 Copynumber: 2.4 Consensus size: 132
62091129 AAAAGAAACA
*
62091139 AGATTTGGCATCCCTGTGTTTATAGGGAAACAGATCGAAGATAGCAGATCTAACACTCCTGTGCT
1 AGATTTGGCATCCCTGTGTTTATAGGG-AACAGATCGAAGATAGCAGATCTGACACTCCTGTGCT
* * * *
62091204 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCTCTGTGTTTATAGGGAACAAGTTGAAGAT
65 TACAGCGAAACAGATCAAAGATTTCAACATGGCATCTCTGTGTTTATAGGGAACAAGTTGAAGAT
62091269 AGC
130 AGC
* *
62091272 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* * *
62091337 ACAGCGAAATAGATCAAAGATTTTAATATGGCATCTCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAACAGATCAAAGATTTCAACATGGCATCTCTGTGTTTATAGGGAACAAGTTGAAGATA
62091402 GC
131 GC
* * *
62091404 AGATTTGACATCCCTGTGTTTACAGGGAACAAATCGAAGACATAGCAGATCTGA
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAG--ATAGCAGATCTGA
62091458 TTTTCGGATG
Statistics
Matches: 170, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
132 130 0.76
133 27 0.16
134 13 0.08
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAACAGATCAAAGATTTCAACATGGCATCTCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:62091610 original size:175 final size:175
Alignment explanation
Indices: 62091418--62091987 Score: 908
Period size: 175 Copynumber: 3.3 Consensus size: 175
62091408 TTGACATCCC
* * *
62091418 TGTGTTTACAGGGAACAAATCGAAGACATAGCAGATCTGATTTTCGGATGTTCTCACACCAAAGC
1 TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGC
*
62091483 AGATCCAAGATAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGTAGGTCTAACC
66 AGATCCAAGATAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACC
* * *
62091548 TTTAGATGTTTATAATGAAGCAGATCTAAGATGATTTGGCATTCT
131 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCT
* *
62091593 TGTGTTTACAAGGAACAAATCGAAGACATAACAGATTTGACTTTCGAATGTTCTCACACCAAAGC
1 TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGC
* * * *
62091658 AGATCCAAGATAACAGATCTGGCATCTCCATTTCAACGAAGAGTAGGTACATAGCAGGTCTAACC
66 AGATCCAAGATAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACC
* *
62091723 TTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGGATTCT
131 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCT
*
62091768 TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTTACACCAAAGC
1 TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGC
* * *
62091833 AAATCCAAGATAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACC
66 AGATCCAAGATAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACC
* *
62091898 TTCAGATGATTT-TACTGAAGCAAATCCAAGATGATTTGGCATCCT
131 TTCAGATG-TTTATACTGAAGCAGATCCAAGATGATTTGGCATTCT
* * *
62091943 TGTGTTCACAAGGAGCAAATCGAAGACATAGCAGATTTGGCTTTC
1 TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTC
62091988 ACGTGTTTAC
Statistics
Matches: 362, Mismatches: 32, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
175 359 0.99
176 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (175 bp):
TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGC
AGATCCAAGATAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACC
TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCT
Found at i:62092263 original size:19 final size:19
Alignment explanation
Indices: 62092239--62092352 Score: 201
Period size: 19 Copynumber: 5.9 Consensus size: 19
62092229 AAGAGGGGCA
62092239 GCAATCTTAGATATGATAT
1 GCAATCTTAGATATGATAT
62092258 GCAATCTTAGATATGATAT
1 GCAATCTTAGATATGATAT
62092277 GCAATCTTAGATATGATAT
1 GCAATCTTAGATATGATAT
62092296 GCAATCTTAGATATGATAT
1 GCAATCTTAGATATGATAT
*
62092315 GCAATCTTAGGTATGATAT
1 GCAATCTTAGATATGATAT
62092334 GCAATCTTGAAGATATGAT
1 GCAATCTT--AGATATGAT
62092353 CTTGTAATCT
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
19 83 0.91
21 8 0.09
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (19 bp):
GCAATCTTAGATATGATAT
Found at i:62093132 original size:13 final size:13
Alignment explanation
Indices: 62093114--62093138 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62093104 ATGCTTCATG
62093114 ATGCATTAATATA
1 ATGCATTAATATA
62093127 ATGCATTAATAT
1 ATGCATTAATAT
62093139 GTCATTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
ATGCATTAATATA
Found at i:62094416 original size:33 final size:33
Alignment explanation
Indices: 62094374--62094436 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
62094364 TCACTATGTG
62094374 TAAAAAACTAAAGTTTCTTTATCCATACTTGTA
1 TAAAAAACTAAAGTTTCTTTATCCATACTTGTA
62094407 TAAAAAACTAAAGTTTCTTTATCCATACTT
1 TAAAAAACTAAAGTTTCTTTATCCATACTT
62094437 TTTTGAGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (33 bp):
TAAAAAACTAAAGTTTCTTTATCCATACTTGTA
Found at i:62097663 original size:46 final size:48
Alignment explanation
Indices: 62097605--62097724 Score: 147
Period size: 48 Copynumber: 2.5 Consensus size: 48
62097595 GACAGGACAG
* *
62097605 GACA-GAATTGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAA-TGAGCCATGTAAGTCCATATCATATATATATGGCATTGGA
* *
62097651 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATCATATATATATGGCATTGGA
* **
62097699 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATGAGCCATGTAAGTCCAT
62097725 GTCGAAGACA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 24 0.38
47 4 0.06
48 35 0.56
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGTCCATATCATATATATATGGCATTGGA
Found at i:62099210 original size:18 final size:18
Alignment explanation
Indices: 62099187--62099221 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62099177 ATCTCATAAA
*
62099187 TTATTTGTTATATTTATG
1 TTATTTATTATATTTATG
*
62099205 TTATTTATTATTTTTAT
1 TTATTTATTATATTTAT
62099222 ATATTCGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (18 bp):
TTATTTATTATATTTATG
Found at i:62102867 original size:2 final size:2
Alignment explanation
Indices: 62102860--62102888 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
62102850 GTTAAAATTA
62102860 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
62102889 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:62110765 original size:44 final size:43
Alignment explanation
Indices: 62110669--62111057 Score: 290
Period size: 44 Copynumber: 8.9 Consensus size: 43
62110659 TCACCGATAG
** * * * *
62110669 CAGATTTGGCGTCTCTGTATTAGATGGGGAGCAGATTGATGATA
1 CAGATTTGGCGTCTCTGTATT-GACAGAGAGCAGATCGAAGAGA
* *
62110713 GCAGATTTGGCGTCTCTGTGTTGACAGAGAGCAGATCAAAGACGA
1 -CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGA-GA
* * * * * * *
62110758 CATATTTGGCATCTCTATATTGGACGGGGAGTAGATCGAAGATA
1 CAGATTTGGCGTCTCTGTATT-GACAGAGAGCAGATCGAAGAGA
* * * * *
62110802 GCAGATCTGACAT-TCGTGTA-T--C-GA-AGCAGATCAAAGATAA
1 -CAGATTTGGCGTCTC-TGTATTGACAGAGAGCAGATCGAAGA-GA
* * * * *
62110842 CAGATTTGGCGTCTTTGTATTGACAGAGGGAAAATCGAAGATA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAGA
* * *
62110885 GCAGATTTGGCGTCTCTGTATTGATAGAGAGCAAATCGAAGATAA
1 -CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGA-GA
* *
62110930 CAGATTTGGCGTCTCTGTATTGACAAAGGGCAGATCGAAG-GTA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAG-A
* ** *
62110973 GCAAATTTGATGTCTCTGTATTGACAGAGAGTAGATCGAAGATGA
1 -CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGA-GA
62111018 CAGATTTGGCGTCTCTGTATTAGAC-GAAGAGCAGATCGAA
1 CAGATTTGGCGTCTCTGTATT-GACAG-AGAGCAGATCGAA
62111058 AATAGCAGAT
Statistics
Matches: 271, Mismatches: 54, Indels: 38
0.75 0.15 0.10
Matches are distributed among these distances:
39 24 0.09
40 4 0.01
41 1 0.00
42 1 0.00
43 4 0.01
44 170 0.63
45 66 0.24
46 1 0.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (43 bp):
CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAGA
Found at i:62110943 original size:88 final size:88
Alignment explanation
Indices: 62110664--62111038 Score: 327
Period size: 88 Copynumber: 4.3 Consensus size: 88
62110654 GTAGATCACC
* * ** * * * * *
62110664 GATAGCAGATTTGGCGTCTCTGTATT-AGATGGGGAGCAGATTGATGATAGCAGATTTGGCGTCT
1 GATAACAGATTTGGCGTCTCTGTATTGACAAAGGGA--AAATCGAAGATAGCAAATTTGACGTCT
* *
62110728 CTGTGTTGACAGAGAGCAGATCAAA
64 CTGTATTGACAGAGAGCAGATCGAA
** * * * * * * * *
62110753 GACGACATATTTGGCATCTCTATATTGGAC--GGGGAGTAGATCGAAGATAGCAGATCTGACAT-
1 GATAACAGATTTGGCGTCTCTGTATT-GACAAAGGGA--AAATCGAAGATAGCAAATTTGACGTC
*
62110815 TCGTGTA-T--C-GA-AGCAGATCAAA
63 TC-TGTATTGACAGAGAGCAGATCGAA
* * * *
62110837 GATAACAGATTTGGCGTCTTTGTATTGACAGAGGGAAAATCGAAGATAGCAGATTTGGCGTCTCT
1 GATAACAGATTTGGCGTCTCTGTATTGACAAAGGGAAAATCGAAGATAGCAAATTTGACGTCTCT
* *
62110902 GTATTGATAGAGAGCAAATCGAA
66 GTATTGACAGAGAGCAGATCGAA
* * * *
62110925 GATAACAGATTTGGCGTCTCTGTATTGACAAAGGGCAGATCGAAGGTAGCAAATTTGATGTCTCT
1 GATAACAGATTTGGCGTCTCTGTATTGACAAAGGGAAAATCGAAGATAGCAAATTTGACGTCTCT
*
62110990 GTATTGACAGAGAGTAGATCGAA
66 GTATTGACAGAGAGCAGATCGAA
*
62111013 GATGACAGATTTGGCGTCTCTGTATT
1 GATAACAGATTTGGCGTCTCTGTATT
62111039 AGACGAAGAG
Statistics
Matches: 235, Mismatches: 40, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
83 28 0.12
84 34 0.14
85 6 0.03
86 1 0.00
87 2 0.01
88 114 0.49
89 49 0.21
91 1 0.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (88 bp):
GATAACAGATTTGGCGTCTCTGTATTGACAAAGGGAAAATCGAAGATAGCAAATTTGACGTCTCT
GTATTGACAGAGAGCAGATCGAA
Found at i:62111085 original size:20 final size:20
Alignment explanation
Indices: 62111060--62111115 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
62111050 AGATCGAAAA
62111060 TAGCAGATCTGACATTCGTG
1 TAGCAGATCTGACATTCGTG
*
62111080 TAGCAGATC-GA-A---G-A
1 TAGCAGATCTGACATTCGTG
62111094 TAGCAGATCTGACATTCGTG
1 TAGCAGATCTGACATTCGTG
62111114 TA
1 TA
62111116 TCGAAGGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
14 9 0.32
15 3 0.11
16 1 0.04
18 1 0.04
19 3 0.11
20 11 0.39
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (20 bp):
TAGCAGATCTGACATTCGTG
Found at i:62111090 original size:34 final size:34
Alignment explanation
Indices: 62111047--62111115 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
62111037 TTAGACGAAG
62111047 AGCAGATCGAAAATAGCAGATCTGACATTCGTGT
1 AGCAGATCGAAAATAGCAGATCTGACATTCGTGT
*
62111081 AGCAGATCGAAGATAGCAGATCTGACATTCGTGT
1 AGCAGATCGAAAATAGCAGATCTGACATTCGTGT
62111115 A
1 A
62111116 TCGAAGGAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (34 bp):
AGCAGATCGAAAATAGCAGATCTGACATTCGTGT
Found at i:62111225 original size:84 final size:84
Alignment explanation
Indices: 62111081--62111330 Score: 383
Period size: 84 Copynumber: 3.0 Consensus size: 84
62111071 ACATTCGTGT
* * *
62111081 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTATCGAAGGAGATCAAAGATGATAGATTCGGC
1 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGC
62111146 GTCTCTGTATTAGACGGAG
66 GTCTCTGTATTAGACGGAG
* * * * *
62111165 AGCAGATCGAAAATAGCAGATTTGACATTCGTGTATCGAAGTAGATAAAAGATGACAGATTTGGT
1 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGC
*
62111230 GTCTCTGTATTAGACAGAG
66 GTCTCTGTATTAGACGGAG
* *
62111249 AGTAGATCGAAGATAGCAGATCTGACATTCGTGTATTGAAGCAGATCAAAGATGACAGATTTGGC
1 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGC
* *
62111314 GTCTTTGTATTAAACGG
66 GTCTCTGTATTAGACGG
62111331 GCAGCGGATC
Statistics
Matches: 148, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 148 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (84 bp):
AGCAGATCGAAGATAGCAGATCTGACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGC
GTCTCTGTATTAGACGGAG
Found at i:62111284 original size:45 final size:44
Alignment explanation
Indices: 62111084--62111285 Score: 117
Period size: 45 Copynumber: 4.8 Consensus size: 44
62111074 TTCGTGTAGC
* *
62111084 AGATCGAAGATAGCAGATCTGACATTCGTGTA-T---CGA-AGG
1 AGATCGAAGATAGCAGATTTGACATTCGTGTATTAGACGAGAGT
* * * * * *
62111123 AGATCAAAGAT-GATAGATTCGGCGTCTC-TGTATTAGACGGAGAGC
1 AGATCGAAGATAG-CAGATTTGACAT-TCGTGTATTAGAC-GAGAGT
*
62111168 AGATCGAAAATAGCAGATTTGACATTCGTGTA-T---CGA-AGT
1 AGATCGAAGATAGCAGATTTGACATTCGTGTATTAGACGAGAGT
** ***
62111207 AGATAAAAGAT-GACAGATTTGGTGTCTC-TGTATTAGACAGAGAGT
1 AGATCGAAGATAG-CAGATTTGACAT-TCGTGTATTAGAC-GAGAGT
*
62111252 AGATCGAAGATAGCAGATCTGACATTCGTGTATT
1 AGATCGAAGATAGCAGATTTGACATTCGTGTATT
62111286 GAAGCAGATC
Statistics
Matches: 117, Mismatches: 26, Indels: 34
0.66 0.15 0.19
Matches are distributed among these distances:
38 2 0.02
39 44 0.38
40 8 0.07
41 1 0.01
43 2 0.02
44 9 0.08
45 49 0.42
46 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (44 bp):
AGATCGAAGATAGCAGATTTGACATTCGTGTATTAGACGAGAGT
Found at i:62111308 original size:39 final size:39
Alignment explanation
Indices: 62111047--62111301 Score: 111
Period size: 39 Copynumber: 6.4 Consensus size: 39
62111037 TTAGACGAAG
62111047 AGCAGATCGAAA-ATAGCAGATCTGACATTCGTG---T--
1 AGCAGATC-AAAGATAGCAGATCTGACATTCGTGTATTGA
* *
62111081 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTATCGA
1 AGCAGATCAAAGATAGCAGATCTGACATTCGTGTATTGA
* * * *
62111120 AGGAGATCAAAGAT-GATAGAT-TCGGCGTCTC-TGTATTAGACGGA
1 AGCAGATCAAAGATAG-CAGATCT-GACAT-TCGTGTATT-----GA
* *
62111164 GAGCAGATCGAAA-ATAGCAGATTTGACATTCGTGTATCGA
1 -AGCAGATC-AAAGATAGCAGATCTGACATTCGTGTATTGA
* * * ***
62111204 AGTAGATAAAAGAT-GACAGATTTGGTGTCTC-TGTATTAGACAGA
1 AGCAGATCAAAGATAG-CAGATCTGACAT-TCGTGTATT-----GA
* *
62111248 GAGTAGATCGAAGATAGCAGATCTGACATTCGTGTATTGA
1 -AGCAGATCAAAGATAGCAGATCTGACATTCGTGTATTGA
62111288 AGCAGATCAAAGAT
1 AGCAGATCAAAGAT
62111302 GACAGATTTG
Statistics
Matches: 164, Mismatches: 27, Indels: 55
0.67 0.11 0.22
Matches are distributed among these distances:
33 2 0.01
34 29 0.18
38 6 0.04
39 58 0.35
40 8 0.05
44 8 0.05
45 47 0.29
46 6 0.04
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (39 bp):
AGCAGATCAAAGATAGCAGATCTGACATTCGTGTATTGA
Found at i:62111394 original size:69 final size:69
Alignment explanation
Indices: 62111263--62111477 Score: 288
Period size: 69 Copynumber: 3.1 Consensus size: 69
62111253 GATCGAAGAT
* * * *
62111263 AGCAGATCTGACATTCGTGTATTGAAGCAGATCAAAGATGACAGATTTGGCGTCT-TTGTATTAA
1 AGCAGATC-AACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTT-TATTAG
62111327 ACGGGC
64 ACGGGC
* * * *
62111333 AGCGGATCAACATTCCTGTATCGAAGCAAATCGAAGATGACAGATTTGGCATCTCTTTATTAGAC
1 AGCAGATCAACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTTTATTAGAC
*
62111398 GGGG
66 GGGC
* * *
62111402 AGCAGATCGACATTCGTGTATCGAAACAGATCAAAGATGACAGATTTGGCATCTCTGTATTAGAC
1 AGCAGATCAACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTTTATTAGAC
*
62111467 GGGG
66 GGGC
62111471 AGCAGAT
1 AGCAGAT
62111478 TGAGAATAGC
Statistics
Matches: 128, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
69 119 0.93
70 9 0.07
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (69 bp):
AGCAGATCAACATTCGTGTATCGAAGCAGATCAAAGATGACAGATTTGGCATCTCTTTATTAGAC
GGGC
Found at i:62112112 original size:20 final size:20
Alignment explanation
Indices: 62112087--62112128 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
62112077 AAAGAAAAAC
62112087 AGCAGAGGCAATACAAATAT
1 AGCAGAGGCAATACAAATAT
62112107 AGCAGAGGCAATACAAATAT
1 AGCAGAGGCAATACAAATAT
62112127 AG
1 AG
62112129 TAAGAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.14
Consensus pattern (20 bp):
AGCAGAGGCAATACAAATAT
Found at i:62113173 original size:29 final size:29
Alignment explanation
Indices: 62113134--62113208 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
62113124 CGCTTTATCA
62113134 TATATATATTATATTATTTT-AATATATAT
1 TATAT-TATTATATTATTTTCAATATATAT
* * *
62113163 TTTATTCATTATATCATTTTCATTATATAT
1 TATATT-ATTATATTATTTTCAATATATAT
62113193 TATATTATTATATTAT
1 TATATTATTATATTAT
62113209 ATTATTATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 1 0.03
29 25 0.64
30 13 0.33
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (29 bp):
TATATTATTATATTATTTTCAATATATAT
Found at i:62118002 original size:47 final size:47
Alignment explanation
Indices: 62117948--62119112 Score: 2186
Period size: 47 Copynumber: 24.7 Consensus size: 47
62117938 TTAGGATTCT
* ** * *
62117948 ATGTGATGGATGTGAACCTGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62117995 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
62118044 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118091 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118138 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118185 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118232 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118279 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118326 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118373 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118420 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118467 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118514 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118561 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118608 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118655 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118702 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118749 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118796 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118843 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118890 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
62118937 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62118984 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
62119031 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
62119078 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
62119113 TCCCGAAGGG
Statistics
Matches: 1099, Mismatches: 17, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
47 1054 0.96
49 45 0.04
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:62119338 original size:37 final size:37
Alignment explanation
Indices: 62119231--62119338 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
62119221 CTGAGCTTTA
*
62119231 AAGACCCGATGACTACGTGTGGAGATTTTGCCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
62119268 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
62119305 AAGACCCGATAACTTCGTGTGGAGATTTCGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCG
62119339 AGCTAAAGGT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:62123398 original size:20 final size:20
Alignment explanation
Indices: 62123373--62123424 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
62123363 GATTTAATCT
* *
62123373 CATTATTGGCAGCTTGTCTG
1 CATTATTGGCAGCTTGCCTA
**
62123393 CATTATTGGTGGCTTGCCTA
1 CATTATTGGCAGCTTGCCTA
*
62123413 CATTAGTGGCAG
1 CATTATTGGCAG
62123425 TTCATCTGTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (20 bp):
CATTATTGGCAGCTTGCCTA
Found at i:62126327 original size:27 final size:28
Alignment explanation
Indices: 62126261--62126355 Score: 99
Period size: 27 Copynumber: 3.5 Consensus size: 28
62126251 TCAGGGTATG
* *
62126261 CCACAAAGGCAATCCATTT-AGAGTTCA
1 CCACAAAGGCTATTCATTTCAGAGTTCA
* *
62126288 CCATAACA-ACTATTC-TTTCAGAGTTCA
1 CCACAA-AGGCTATTCATTTCAGAGTTCA
**
62126315 CCACAAAGGCTA-TCATTTCAGAGTTTG
1 CCACAAAGGCTATTCATTTCAGAGTTCA
62126342 CCACAAAGGCTATT
1 CCACAAAGGCTATT
62126356 AAAATGCCAC
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
26 6 0.11
27 47 0.85
28 2 0.04
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (28 bp):
CCACAAAGGCTATTCATTTCAGAGTTCA
Found at i:62133270 original size:13 final size:13
Alignment explanation
Indices: 62133252--62133276 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62133242 TAAGAAGAAA
62133252 AGAAAATAAAAAG
1 AGAAAATAAAAAG
62133265 AGAAAATAAAAA
1 AGAAAATAAAAA
62133277 TAGTTAACTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (13 bp):
AGAAAATAAAAAG
Found at i:62134352 original size:13 final size:13
Alignment explanation
Indices: 62134345--62134369 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62134335 TAAGAAGAGA
62134345 AGAAAAGAAAAAG
1 AGAAAAGAAAAAG
62134358 AGAAAAGAAAAA
1 AGAAAAGAAAAA
62134370 TGTCTAATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AGAAAAGAAAAAG
Found at i:62134942 original size:29 final size:30
Alignment explanation
Indices: 62134909--62134982 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 30
62134899 AGAAAAGTGT
62134909 TAAAATACTATAAAA-GCTAAAATCA-AACA
1 TAAAATACTATAAAATG-TAAAATCATAACA
* *
62134938 TAAAAT-CCATAAAATGTAAAATTATAACA
1 TAAAATACTATAAAATGTAAAATCATAACA
62134967 -AAAGATACTATAAAAT
1 TAAA-ATACTATAAAAT
62134983 ACTTGAGAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
28 17 0.45
29 13 0.34
30 8 0.21
ACGTcount: A:0.61, C:0.11, G:0.04, T:0.24
Consensus pattern (30 bp):
TAAAATACTATAAAATGTAAAATCATAACA
Found at i:62138210 original size:43 final size:43
Alignment explanation
Indices: 62138161--62138246 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
62138151 GGGATTTTTC
62138161 CTCGTCTATTAAGGCTTTCTCTTATCATATTTCTATTAATCAG
1 CTCGTCTATTAAGGCTTTCTCTTATCATATTTCTATTAATCAG
*
62138204 CTCGTCTATTAAGGCTTTGTCTTATCATATTTCTATTAATCAG
1 CTCGTCTATTAAGGCTTTCTCTTATCATATTTCTATTAATCAG
62138247 ATACACTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (43 bp):
CTCGTCTATTAAGGCTTTCTCTTATCATATTTCTATTAATCAG
Found at i:62141529 original size:44 final size:44
Alignment explanation
Indices: 62141427--62141591 Score: 145
Period size: 46 Copynumber: 3.6 Consensus size: 44
62141417 GTCGATGCCG
* * * *
62141427 TGTCCCAGACAGGTCTTACACTGACACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTGGCACATCT--CC-TAGCCGACGCA
* *
62141473 TGTCCTAGACATGTCTTACACTAGCACATCTCCTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTGGCACATCTCCTAGCCGACGCA
* * * * *
62141517 TGTCCCAGACATGTCTGATACTGGCTAACATCT-CGAGGCCGATGTA
1 TGTCCCAGACATGTCTTACACTGGC--ACATCTCCTA-GCCGACGCA
*
62141563 TGTCCCAGACATGGTGTTACACTGGCACA
1 TGTCCCAGACAT-GTCTTACACTGGCACA
62141592 CAAATCTCAT
Statistics
Matches: 98, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
43 1 0.01
44 31 0.32
45 5 0.05
46 51 0.52
47 10 0.10
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (44 bp):
TGTCCCAGACATGTCTTACACTGGCACATCTCCTAGCCGACGCA
Found at i:62142554 original size:21 final size:23
Alignment explanation
Indices: 62142511--62142556 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
62142501 ATCAAGGCTC
* *
62142511 CACACGCCCGTGTAGGTATAGAA
1 CACACGCCCGGGTAGCTATAGAA
62142534 CACACGCCCGGGT-GCTA-AGAA
1 CACACGCCCGGGTAGCTATAGAA
62142555 CA
1 CA
62142557 TGCCCGTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 3 0.14
23 12 0.57
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.13
Consensus pattern (23 bp):
CACACGCCCGGGTAGCTATAGAA
Found at i:62161875 original size:25 final size:24
Alignment explanation
Indices: 62161847--62161902 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
62161837 CCTAATAAAA
*
62161847 AATAATAGATAATTATATAATATAT
1 AATAATAGATAATGA-ATAATATAT
* *
62161872 AATAAAAATATAATGAATAATATAT
1 AAT-AATAGATAATGAATAATATAT
62161897 -ATAATA
1 AATAATA
62161903 AAATGTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 3 0.12
24 2 0.08
25 12 0.46
26 9 0.35
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (24 bp):
AATAATAGATAATGAATAATATAT
Found at i:62161876 original size:18 final size:16
Alignment explanation
Indices: 62161847--62161903 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 16
62161837 CCTAATAAAA
62161847 AATAATAGATAATTATAT
1 AATAATA-ATAA-TATAT
*
62161865 AATATATAATAAAAATAT
1 AATA-ATAAT-AATATAT
62161883 AATGAATAAT-ATATAT
1 AAT-AATAATAATATAT
62161899 AATAA
1 AATAA
62161904 AATGTATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 2 0.06
16 8 0.24
18 18 0.53
19 6 0.18
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (16 bp):
AATAATAATAATATAT
Found at i:62161878 original size:32 final size:34
Alignment explanation
Indices: 62161839--62161902 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 34
62161829 AAATTATACC
62161839 TAATAAAAA-ATAAT-AGATAAT-TATATAATATA
1 TAATAAAAATATAATGA-ATAATATATATAATATA
62161871 TAATAAAAATATAATGAATAATATATATAATA
1 TAATAAAAATATAATGAATAATATATATAATA
62161903 AAATGTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 9 0.31
33 10 0.34
34 10 0.34
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (34 bp):
TAATAAAAATATAATGAATAATATATATAATATA
Found at i:62161905 original size:26 final size:24
Alignment explanation
Indices: 62161866--62161953 Score: 99
Period size: 26 Copynumber: 3.5 Consensus size: 24
62161856 TAATTATATA
*
62161866 ATATATAATAAAAATATAATGAATAAT
1 ATATATAAT-AAAATGT-AT-AATAAT
62161893 ATATATAATAAAATGTATAAATCGAA-
1 ATATATAATAAAATGTAT-AAT--AAT
62161919 ATATATAATAAAATGTA-AATAAT
1 ATATATAATAAAATGTATAATAAT
62161942 ATATATAATAAA
1 ATATATAATAAA
62161954 TTTTTTACAT
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.04
23 12 0.21
24 3 0.05
25 5 0.09
26 23 0.41
27 11 0.20
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (24 bp):
ATATATAATAAAATGTATAATAAT
Found at i:62161911 original size:14 final size:13
Alignment explanation
Indices: 62161867--62161953 Score: 53
Period size: 12 Copynumber: 6.8 Consensus size: 13
62161857 AATTATATAA
62161867 TATATAATAAAA-
1 TATATAATAAAAT
62161879 -ATATAATGAATAAT
1 TATATAAT-AA-AAT
62161893 ATATATAATAAAAT
1 -TATATAATAAAAT
*
62161907 GTATA-AATCGAAA-
1 -TATATAAT-AAAAT
62161920 TATATAATAAAA-
1 TATATAATAAAAT
* *
62161932 TGTA-AATAATA-
1 TATATAATAAAAT
62161943 TATATAATAAA
1 TATATAATAAA
62161954 TTTTTTACAT
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
11 16 0.27
12 17 0.28
13 8 0.13
14 10 0.17
15 2 0.03
16 7 0.12
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (13 bp):
TATATAATAAAAT
Found at i:62162037 original size:25 final size:25
Alignment explanation
Indices: 62161983--62162036 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
62161973 ATGTTTATGG
*
62161983 TAAAATAAATAAAATATATAATATT
1 TAAAATAAATAAAATATATAAAATT
*
62162008 TAAAATAAATAAACTATA-AAAATT
1 TAAAATAAATAAAATATATAAAATT
62162032 TAAAA
1 TAAAA
62162037 AGGATTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
TAAAATAAATAAAATATATAAAATT
Found at i:62163716 original size:175 final size:175
Alignment explanation
Indices: 62163515--62163863 Score: 434
Period size: 175 Copynumber: 2.0 Consensus size: 175
62163505 GATGTGCTTT
* ** *
62163515 CTTCGATCTGCTCTCCGTCAATACAGAGACGTTAAA-TCTGCT-TCTTCGATCTGCTCCCCGTCT
1 CTTCGATCTGCTCTCCGACAATACAGAGACGCCAAACCCT-CTATCTTCGATCTGCTCCCCG-CT
* * * * * *
62163578 AATACAGAGACGCCAAATCAGCTATCTTCGATCTGTTCTCTGTCAATACAGAGA-TGCCAGATGT
64 AATACAGAGACACCAAATCAGCTATCTTCGATCTGCTCTCTGACAATACAGAGACT-CAAAATCT
* * * *
62163642 GCTTTCTTTGATCTGCTCTCCGTCAATACAGAGACGCCAAATCTGCTC
128 GCTATCTTCGATCCGCTCTCCGCCAATACAGAGACGCCAAATCTGCTC
* * * * *
62163690 CTTCGATCTGCTCTCTGACAATACAGAGACGCCAAACCCTCTATCTTCGATTTGTTCTCTGCTAA
1 CTTCGATCTGCTCTCCGACAATACAGAGACGCCAAACCCTCTATCTTCGATCTGCTCCCCGCTAA
* *
62163755 TATAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACTCAAAATCTGCT
66 TACAGAGACACCAAATCAGCTATCTTCGATCTGCTCTCTGACAATACAGAGACTCAAAATCTGCT
* * *
62163820 ATCTTCGATCCGCTCTCTGCCAATATAGAGACGCTAAATCTGCT
131 ATCTTCGATCCGCTCTCCGCCAATACAGAGACGCCAAATCTGCT
62163864 ATTGGTAATC
Statistics
Matches: 147, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
175 130 0.88
176 17 0.12
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (175 bp):
CTTCGATCTGCTCTCCGACAATACAGAGACGCCAAACCCTCTATCTTCGATCTGCTCCCCGCTAA
TACAGAGACACCAAATCAGCTATCTTCGATCTGCTCTCTGACAATACAGAGACTCAAAATCTGCT
ATCTTCGATCCGCTCTCCGCCAATACAGAGACGCCAAATCTGCTC
Found at i:62163864 original size:44 final size:44
Alignment explanation
Indices: 62163446--62163865 Score: 434
Period size: 44 Copynumber: 9.6 Consensus size: 44
62163436 CACCCCGCCT
* * * * *
62163446 AATATAGAGACGCCAAATCAGCTATCTTCGATCTACTTTCTATC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * ** * * * *
62163490 AATACAGAAATGTTAGATGTGCTTTCTTCGATCTGCTCTCCGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
** * *
62163534 AATACAGAGACGTTAAATCTGCT-TCTTCGATCTGCTCCCCGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* *
62163577 TAATACAGAGACGCCAAATCAGCTATCTTCGATCTGTTCTCTGTC
1 -AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * * * * *
62163622 AATACAGAGATGCCAGATGTGCTTTCTTTGATCTGCTCTCCGTC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* *
62163666 AATACAGAGACGCCAAATCTGCT-CCTTCGATCTGCTCTCTGAC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * *
62163709 AATACAGAGACGCCAAACCCT-CTATCTTCGATTTGTTCTCTG-C
1 AATACAGAGACGCCAAA-TCTGCTATCTTCGATCTGCTCTCTGTC
* * *
62163752 TAATATAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCTGAC
1 -AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* * * *
62163797 AATACAGAGACTCAAAATCTGCTATCTTCGATCCGCTCTCTGCC
1 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
* *
62163841 AATATAGAGACGCTAAATCTGCTAT
1 AATACAGAGACGCCAAATCTGCTAT
62163866 TGGTAATCTA
Statistics
Matches: 313, Mismatches: 56, Indels: 14
0.82 0.15 0.04
Matches are distributed among these distances:
43 57 0.18
44 238 0.76
45 18 0.06
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (44 bp):
AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTC
Found at i:62164952 original size:32 final size:32
Alignment explanation
Indices: 62164911--62164974 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
62164901 CACCAGAGAA
62164911 AGCCTTCTTCACAACATACGGTCCTTCCCAAT
1 AGCCTTCTTCACAACATACGGTCCTTCCCAAT
62164943 AGCCTTCTTCACAACATACGGTCCTTCCCAAT
1 AGCCTTCTTCACAACATACGGTCCTTCCCAAT
62164975 TCGGCATCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.38, G:0.09, T:0.28
Consensus pattern (32 bp):
AGCCTTCTTCACAACATACGGTCCTTCCCAAT
Found at i:62175757 original size:83 final size:83
Alignment explanation
Indices: 62175665--62175823 Score: 318
Period size: 83 Copynumber: 1.9 Consensus size: 83
62175655 AATAAACAAA
62175665 ATATGAACATATAAATCAAAAATAAAGATAAGAAAACAAATACAATTTAAAAAAAATAGATGAAG
1 ATATGAACATATAAATCAAAAATAAAGATAAGAAAACAAATACAATTTAAAAAAAATAGATGAAG
62175730 TGTTAAAAAATGTCCTTT
66 TGTTAAAAAATGTCCTTT
62175748 ATATGAACATATAAATCAAAAATAAAGATAAGAAAACAAATACAATTTAAAAAAAATAGATGAAG
1 ATATGAACATATAAATCAAAAATAAAGATAAGAAAACAAATACAATTTAAAAAAAATAGATGAAG
62175813 TGTTAAAAAAT
66 TGTTAAAAAAT
62175824 AAAATATTTA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.60, C:0.06, G:0.09, T:0.24
Consensus pattern (83 bp):
ATATGAACATATAAATCAAAAATAAAGATAAGAAAACAAATACAATTTAAAAAAAATAGATGAAG
TGTTAAAAAATGTCCTTT
Found at i:62176072 original size:18 final size:16
Alignment explanation
Indices: 62176043--62176166 Score: 60
Period size: 15 Copynumber: 7.4 Consensus size: 16
62176033 CCTAATAAAA
62176043 AATAATAGATAATTATAT
1 AATAATA-ATAA-TATAT
*
62176061 AATATATAATAAAAATAT
1 AATA-ATAAT-AATATAT
62176079 AATGAATAAT-ATATAT
1 AAT-AATAATAATATAT
* *
62176095 AATAA-AATGTATAAAT
1 AATAATAAT-AATATAT
* *
62176111 CGAAATATATAATAAAATGT
1 ---AATA-ATAATAATATAT
62176131 -A-AATAATATATATAT
1 AATAATAATA-ATATAT
*
62176146 AAAAATAAT-ATATAT
1 AATAATAATAATATAT
62176161 AATAAT
1 AATAAT
62176167 TTTTTTACAT
Statistics
Matches: 83, Mismatches: 10, Indels: 29
0.68 0.08 0.24
Matches are distributed among these distances:
14 9 0.11
15 18 0.22
16 15 0.18
17 6 0.07
18 18 0.22
19 10 0.12
20 4 0.05
21 3 0.04
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (16 bp):
AATAATAATAATATAT
Found at i:62176074 original size:32 final size:34
Alignment explanation
Indices: 62176035--62176098 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 34
62176025 AAATTATACC
62176035 TAATAAAAA-ATAAT-AGATAAT-TATATAATATA
1 TAATAAAAATATAATGA-ATAATATATATAATATA
62176067 TAATAAAAATATAATGAATAATATATATAATA
1 TAATAAAAATATAATGAATAATATATATAATA
62176099 AAATGTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 9 0.31
33 10 0.34
34 10 0.34
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (34 bp):
TAATAAAAATATAATGAATAATATATATAATATA
Found at i:62176103 original size:21 final size:21
Alignment explanation
Indices: 62176074--62176165 Score: 75
Period size: 26 Copynumber: 4.2 Consensus size: 21
62176064 ATATAATAAA
*
62176074 AATATAATGAATAATATATAT
1 AATAAAATGAATAATATATAT
*
62176095 AATAAAATGTATAAATCGAAATATAT
1 AATAAAATGAAT-AAT----ATATAT
62176121 AATAAAATGTAAATAATATATAT
1 AATAAAATG--AATAATATATAT
62176144 -AT-AAA--AATAATATATAT
1 AATAAAATGAATAATATATAT
62176161 AATAA
1 AATAA
62176166 TTTTTTTACA
Statistics
Matches: 59, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
17 12 0.20
18 2 0.03
19 1 0.02
21 13 0.22
22 5 0.08
23 6 0.10
26 15 0.25
27 3 0.05
28 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (21 bp):
AATAAAATGAATAATATATAT
Found at i:62176107 original size:14 final size:13
Alignment explanation
Indices: 62176063--62176165 Score: 56
Period size: 14 Copynumber: 7.8 Consensus size: 13
62176053 AATTATATAA
62176063 TATATAATAAAA-
1 TATATAATAAAAT
62176075 -ATATAATGAATAAT
1 TATATAAT-AA-AAT
62176089 ATATATAATAAAAT
1 -TATATAATAAAAT
*
62176103 GTATA-AATCGAAA-
1 -TATATAAT-AAAAT
62176116 TATATAATAAAA-
1 TATATAATAAAAT
* *
62176128 TGTA-AATAATAT
1 TATATAATAAAAT
*
62176140 ATATATAAAAATAAT
1 -TATATAATAA-AAT
62176155 ATATATAATAA
1 -TATATAATAA
62176166 TTTTTTTACA
Statistics
Matches: 71, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
11 13 0.18
12 12 0.17
13 11 0.15
14 14 0.20
15 14 0.20
16 7 0.10
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (13 bp):
TATATAATAAAAT
Found at i:62176290 original size:25 final size:24
Alignment explanation
Indices: 62176262--62176315 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
62176252 ATGTTTATGG
62176262 TAAAATAAATAAAATA-AATAATATT
1 TAAAATAAATAAAATATAA-AA-ATT
*
62176287 TAAAATAAATAAACTATAAAAATT
1 TAAAATAAATAAAATATAAAAATT
62176311 TAAAA
1 TAAAA
62176316 AGGATTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.30
25 17 0.63
26 2 0.07
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
TAAAATAAATAAAATATAAAAATT
Found at i:62176306 original size:16 final size:16
Alignment explanation
Indices: 62176265--62176307 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
62176255 TTTATGGTAA
*
62176265 AATAAATAAAATAAAT
1 AATATATAAAATAAAT
*
62176281 AATATTTAAAATAAAT
1 AATATATAAAATAAAT
62176297 AA-ACTATAAAA
1 AATA-TATAAAA
62176308 ATTTAAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (16 bp):
AATATATAAAATAAAT
Found at i:62178539 original size:7 final size:7
Alignment explanation
Indices: 62178527--62178551 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
62178517 AAACCCATGC
62178527 TTGAATT
1 TTGAATT
62178534 TTGAATT
1 TTGAATT
62178541 TTGAATT
1 TTGAATT
62178548 TTGA
1 TTGA
62178552 TGAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
TTGAATT
Found at i:62185258 original size:14 final size:14
Alignment explanation
Indices: 62185239--62185273 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
62185229 AATCTTTAAT
62185239 CATATTCAACATGA
1 CATATTCAACATGA
62185253 CATATTCAACATGA
1 CATATTCAACATGA
62185267 CATATTC
1 CATATTC
62185274 GTTTCATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.40, C:0.23, G:0.06, T:0.31
Consensus pattern (14 bp):
CATATTCAACATGA
Found at i:62185439 original size:223 final size:223
Alignment explanation
Indices: 62185051--62185469 Score: 811
Period size: 223 Copynumber: 1.9 Consensus size: 223
62185041 CACGTGATCA
*
62185051 GTTTCATTACCACATCGAATCATAATCCCAATTAACAGTTTAATATGACTATGTCAAAAGATGCA
1 GTTTCATTACCACATCGAATCATAATCCCAATTAACAGTTTAATATGACTATGTCAAAAGACGCA
62185116 TTCAACCCACAACATAGCTTCCTACATCATCAACTAATATGTATATCACATTTCATAAATCTTTG
66 TTCAACCCACAACATAGCTTCCTACATCATCAACTAATATGTATATCACATTTCATAAATCTTTG
62185181 TCTATCTCAACTTCAATCAACATGACATATTCATATATATGTGCGTATAATCTTTAATCATATTC
131 TCTATCTCAACTTCAATCAACATGACATATTCATATATATGTGCGTATAATCTTTAATCATATTC
62185246 AACATGACATATTCAACATGACATATTC
196 AACATGACATATTCAACATGACATATTC
62185274 GTTTCATTACCACATCGAATCATAATCCCAATTAACAGTTTAATATGACTATGTCAAAAGACGCA
1 GTTTCATTACCACATCGAATCATAATCCCAATTAACAGTTTAATATGACTATGTCAAAAGACGCA
*
62185339 TTCAACCCACAACATAGCTTCCTGCATCATCAACTAATATGTATATCACATTTCATAAATCTTTG
66 TTCAACCCACAACATAGCTTCCTACATCATCAACTAATATGTATATCACATTTCATAAATCTTTG
*
62185404 TCTATCTCAACTTCAATCAACATGACATATTCATATATATGTGTGTATAATCTTTAATCATATTC
131 TCTATCTCAACTTCAATCAACATGACATATTCATATATATGTGCGTATAATCTTTAATCATATTC
62185469 A
196 A
62185470 CATATAATAC
Statistics
Matches: 193, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
223 193 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (223 bp):
GTTTCATTACCACATCGAATCATAATCCCAATTAACAGTTTAATATGACTATGTCAAAAGACGCA
TTCAACCCACAACATAGCTTCCTACATCATCAACTAATATGTATATCACATTTCATAAATCTTTG
TCTATCTCAACTTCAATCAACATGACATATTCATATATATGTGCGTATAATCTTTAATCATATTC
AACATGACATATTCAACATGACATATTC
Found at i:62185642 original size:19 final size:19
Alignment explanation
Indices: 62185615--62185653 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
62185605 CAATTAAGAA
62185615 ACTGACACAC-ATAGTGCAT
1 ACTGACACACGA-AGTGCAT
*
62185634 ACTGGCACACGAAGTGCAT
1 ACTGACACACGAAGTGCAT
62185653 A
1 A
62185654 AACCTGTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.18
Consensus pattern (19 bp):
ACTGACACACGAAGTGCAT
Found at i:62190546 original size:32 final size:32
Alignment explanation
Indices: 62190474--62190539 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 32
62190464 TAAACAATTT
*
62190474 AAATAATATTATTTTATACTAATTTAATGAAATAA
1 AAAT-ATATTATTTAATAC-AATTTAA-GAAATAA
62190509 AAATATATTATTTAATA-AATTTAA-AAATAA
1 AAATATATTATTTAATACAATTTAAGAAATAA
62190539 A
1 A
62190540 CAAATATGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 7 0.23
32 7 0.23
34 12 0.40
35 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (32 bp):
AAATATATTATTTAATACAATTTAAGAAATAA
Found at i:62192526 original size:21 final size:21
Alignment explanation
Indices: 62192500--62192544 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
62192490 AAACACATAG
62192500 ATTCCATTTTTCATGTTAAAA
1 ATTCCATTTTTCATGTTAAAA
62192521 ATTCCATTTTTCATGTTAAAA
1 ATTCCATTTTTCATGTTAAAA
62192542 ATT
1 ATT
62192545 GGCTAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.49
Consensus pattern (21 bp):
ATTCCATTTTTCATGTTAAAA
Found at i:62201780 original size:14 final size:13
Alignment explanation
Indices: 62201760--62201796 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
62201750 AATACTTGAT
62201760 TTGTTCTTAATTA
1 TTGTTCTTAATTA
62201773 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
62201787 TTGTT-TTAAT
1 TTGTTCTTAAT
62201797 ATTCCAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:62207930 original size:29 final size:29
Alignment explanation
Indices: 62207867--62207934 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
62207857 TAATCAACCG
62207867 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
62207896 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
62207925 CGCACACTTA
1 CGCACACTTA
62207935 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:62208046 original size:174 final size:174
Alignment explanation
Indices: 62207756--62208083 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
62207746 AACTCAAGGT
* *
62207756 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
62207821 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
62207886 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
62207930 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
62207995 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
62208060 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
62208084 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:62208075 original size:29 final size:30
Alignment explanation
Indices: 62208036--62208114 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
62208026 CTTAATAATC
62208036 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
62208066 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
62208095 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
62208115 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:62222186 original size:4 final size:4
Alignment explanation
Indices: 62222162--62222229 Score: 52
Period size: 4 Copynumber: 16.8 Consensus size: 4
62222152 TATTTTTCCT
* *
62222162 TTTA CTTA TTT- TTTA -TTA TTTA TTTAA TTTAA TTTAA TTTA TATTC
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTT-A TTT-A TTTA T-TTA
*
62222208 TTTA TTTA TTTC TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTT
62222230 TATTAGTACT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
3 9 0.17
4 27 0.51
5 17 0.32
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:62223830 original size:11 final size:11
Alignment explanation
Indices: 62223814--62223852 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
62223804 GTCCATCTCA
62223814 TTTATTTTGTT
1 TTTATTTTGTT
62223825 TTTATTTTGATT
1 TTTATTTTG-TT
* *
62223837 TTGATTTTGAT
1 TTTATTTTGTT
62223848 TTTAT
1 TTTAT
62223853 CTTTCTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.74
Consensus pattern (11 bp):
TTTATTTTGTT
Found at i:62223832 original size:6 final size:6
Alignment explanation
Indices: 62223817--62223850 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
62223807 CATCTCATTT
*
62223817 ATTTTG -TTTTT ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
62223851 ATCTTTCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.74
Consensus pattern (6 bp):
ATTTTG
Found at i:62227639 original size:55 final size:55
Alignment explanation
Indices: 62227588--62227691 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
62227578 CTTTGCCTTA
*
62227588 TAGAAA-CTTATCAA-TTCCAAGTC-TTGACATGGTCTTACACGATATCCTTGCCT
1 TAGAAACCTTACCAATTTCCAAG-CATTGACATGGTCTTACACGATATCCTTGCCT
* * * *
62227641 TAGAAACCTTACCAATTTCCATGCATTGGCATGGTCTTACATGGTATCCTT
1 TAGAAACCTTACCAATTTCCAAGCATTGACATGGTCTTACACGATATCCTT
62227692 AAACCCTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
53 6 0.14
54 8 0.19
55 29 0.67
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (55 bp):
TAGAAACCTTACCAATTTCCAAGCATTGACATGGTCTTACACGATATCCTTGCCT
Found at i:62231422 original size:28 final size:28
Alignment explanation
Indices: 62231388--62231617 Score: 273
Period size: 28 Copynumber: 8.2 Consensus size: 28
62231378 CGCAAGAAGT
*
62231388 AAGAGTCTGCATGGACTACCTTTCAAGC
1 AAGAGTCTGCATGGACTATCTTTCAAGC
* *
62231416 AAGAGTCCGCATAGG-CTATCTTTCAAGT
1 AAGAGTCTGCAT-GGACTATCTTTCAAGC
* * *
62231444 AAGATTCTGCATGGACTACCTTTCAAGA
1 AAGAGTCTGCATGGACTATCTTTCAAGC
* * *
62231472 AAGAGACCGCATGAACTATCTTTCAAGC
1 AAGAGTCTGCATGGACTATCTTTCAAGC
* *
62231500 AAGAGTCTGCATGGACTATCCTTCAAGT
1 AAGAGTCTGCATGGACTATCTTTCAAGC
*
62231528 AAGAGTCTGCATAGACTATCTTTCAAGC
1 AAGAGTCTGCATGGACTATCTTTCAAGC
* * *
62231556 AATAGTCTACATGGACTATCTTTCAAGT
1 AAGAGTCTGCATGGACTATCTTTCAAGC
* * * *
62231584 ATGATTCTGCATGGAGTATCTTTCAAAC
1 AAGAGTCTGCATGGACTATCTTTCAAGC
62231612 AAGAGT
1 AAGAGT
62231618 TCACAAAGGC
Statistics
Matches: 166, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
27 2 0.01
28 162 0.98
29 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (28 bp):
AAGAGTCTGCATGGACTATCTTTCAAGC
Found at i:62233528 original size:16 final size:16
Alignment explanation
Indices: 62233486--62233529 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
62233476 AATAAACATT
62233486 ATAAATTAA-TTT-AA
1 ATAAATTAATTTTCAA
*
62233500 ATAAATTACTTTTCAA
1 ATAAATTAATTTTCAA
*
62233516 ATAAAATAATTTTC
1 ATAAATTAATTTTC
62233530 TCAACCTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 8 0.32
15 3 0.12
16 14 0.56
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
ATAAATTAATTTTCAA
Found at i:62236067 original size:40 final size:40
Alignment explanation
Indices: 62235990--62236067 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
62235980 ATTTTTATTC
*
62235990 GTATAAACTGTAATTCATTCATATAACTAGTAGTTTATCT
1 GTATAAACTGTAATTCATTCATATAACTAGTAATTTATCT
* *
62236030 GTAT-AACTAGTAATTCATTCGTAATAAC-ATTAATTTAT
1 GTATAAACT-GTAATTCATTCAT-ATAACTAGTAATTTAT
62236068 ATATATCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 4 0.12
40 24 0.73
41 5 0.15
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (40 bp):
GTATAAACTGTAATTCATTCATATAACTAGTAATTTATCT
Found at i:62236337 original size:23 final size:23
Alignment explanation
Indices: 62236309--62236443 Score: 75
Period size: 23 Copynumber: 5.7 Consensus size: 23
62236299 TAATAAATAG
*
62236309 TAAGCTCTATTGAGCTGAAACGA
1 TAAGCTCTATCGAGCTGAAACGA
*
62236332 TAAGCTCTATCGAGCT-AAA-TA
1 TAAGCTCTATCGAGCTGAAACGA
* *
62236353 GTAAGCTC-ATACGACCTGAATCGA
1 -TAAGCTCTAT-CGAGCTGAAACGA
* * *
62236377 TAAGTTCCAAT-GAGCTGAAAACAA
1 TAAGCT-CTATCGAGCTG-AAACGA
*
62236401 TAAGCTCT-TACGAGCCGATATATCGA
1 TAAGCTCTAT-CGAGCTGA-A-A-CGA
62236427 TAAGCTC-ATACGAGCTG
1 TAAGCTCTAT-CGAGCTG
62236444 TGTGAGTCTG
Statistics
Matches: 85, Mismatches: 14, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
21 3 0.04
22 16 0.19
23 29 0.34
24 17 0.20
25 3 0.04
26 17 0.20
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (23 bp):
TAAGCTCTATCGAGCTGAAACGA
Found at i:62236360 original size:22 final size:22
Alignment explanation
Indices: 62236302--62236360 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
62236292 CCTGAGCTAA
*
62236302 TAAATAGTAAGCTCTATTGAGC
1 TAAATAGTAAGCTCTATCGAGC
*
62236324 TGAAA-CGATAAGCTCTATCGAGC
1 T-AAATAG-TAAGCTCTATCGAGC
62236347 TAAATAGTAAGCTC
1 TAAATAGTAAGCTC
62236361 ATACGACCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (22 bp):
TAAATAGTAAGCTCTATCGAGC
Found at i:62239311 original size:9 final size:9
Alignment explanation
Indices: 62239297--62239326 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
62239287 ACTAAAATAT
62239297 TAATTAAAC
1 TAATTAAAC
*
62239306 TAATTAAAT
1 TAATTAAAC
62239315 TAATTAAAC
1 TAATTAAAC
62239324 TAA
1 TAA
62239327 AACAACATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAC
Found at i:62243873 original size:21 final size:21
Alignment explanation
Indices: 62243826--62243882 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
62243816 GTGTACCCTT
* * *
62243826 TCCACACGGGTGTGTGGGGCT
1 TCCACACGGGCGTGTGAGGCC
*
62243847 TTCACACGGGCGTGTGAGGCC
1 TCCACACGGGCGTGTGAGGCC
*
62243868 TCCACATGGGCGTGT
1 TCCACACGGGCGTGT
62243883 AAACCCCCAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.12, C:0.26, G:0.39, T:0.23
Consensus pattern (21 bp):
TCCACACGGGCGTGTGAGGCC
Found at i:62249391 original size:66 final size:66
Alignment explanation
Indices: 62249304--62249455 Score: 205
Period size: 66 Copynumber: 2.3 Consensus size: 66
62249294 AGCTCAAGTG
* * ** *
62249304 CCAAATTATCTTAAAGTGTATATATGTGTAATGTGATGCATGCCTGTAGGAGTATGTGGTTGCTA
1 CCAAATTATCTTAAAATGTATATATGTGTAATGTGATGCACGCCTAAAGGAGTATGTGCTTGCTA
62249369 T
66 T
* * *
62249370 CCATATTATCTTAAAATGTATATATGTGTAATGTGATGTACGCCTAAATGAGTATGTGCTTGCTA
1 CCAAATTATCTTAAAATGTATATATGTGTAATGTGATGCACGCCTAAAGGAGTATGTGCTTGCTA
62249435 T
66 T
* *
62249436 GCAAATTATCGTTTAAATGT
1 CCAAATTATC-TTAAAATGT
62249456 GATCTTGTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
66 66 0.89
67 8 0.11
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (66 bp):
CCAAATTATCTTAAAATGTATATATGTGTAATGTGATGCACGCCTAAAGGAGTATGTGCTTGCTA
T
Found at i:62253793 original size:22 final size:24
Alignment explanation
Indices: 62253743--62253793 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
62253733 GAAAAAAAAC
*
62253743 TATAAAAAAAGTAACAATAAAATG
1 TATAAAAAAAGTAACAATAAAATA
* *
62253767 CATAATAAAA-TAA-AATAAAATA
1 TATAAAAAAAGTAACAATAAAATA
62253789 TATAA
1 TATAA
62253794 GCTTGAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 12 0.52
23 3 0.13
24 8 0.35
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (24 bp):
TATAAAAAAAGTAACAATAAAATA
Found at i:62258661 original size:29 final size:28
Alignment explanation
Indices: 62258608--62258664 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
62258598 CTTTAGAAAA
*
62258608 AGGTACACAGCCATGTGCTAGGCCATGT
1 AGGTACACAGCCATGTGCCAGGCCATGT
*
62258636 AGGTCACACAGTCATGTGACCA-GCCATGT
1 AGGT-ACACAGCCATGTG-CCAGGCCATGT
62258665 GAATCCACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.16
29 19 0.76
30 2 0.08
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (28 bp):
AGGTACACAGCCATGTGCCAGGCCATGT
Found at i:62261601 original size:66 final size:66
Alignment explanation
Indices: 62261525--62261659 Score: 252
Period size: 66 Copynumber: 2.0 Consensus size: 66
62261515 GGATTAGGAG
* *
62261525 TATAAAATTCACAATTAACATCAAATAATCACCCAAAAATGCTTTATGAATGAGGTTAAAACATG
1 TATAAAATTCACAATTAACATCAAATAATCACCCAAAAACGCTTTATGAAAGAGGTTAAAACATG
62261590 T
66 T
62261591 TATAAAATTCACAATTAACATCAAATAATCACCCAAAAACGCTTTATGAAAGAGGTTAAAACATG
1 TATAAAATTCACAATTAACATCAAATAATCACCCAAAAACGCTTTATGAAAGAGGTTAAAACATG
62261656 T
66 T
62261657 TAT
1 TAT
62261660 TTTTAGCACT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (66 bp):
TATAAAATTCACAATTAACATCAAATAATCACCCAAAAACGCTTTATGAAAGAGGTTAAAACATG
T
Found at i:62270406 original size:25 final size:25
Alignment explanation
Indices: 62270372--62270425 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
62270362 AAGAAGCTAT
62270372 TTGGTTACAAGGTATGGCTAAAACC
1 TTGGTTACAAGGTATGGCTAAAACC
* *
62270397 TTGGTTACAAGGTATGGTTAAAACT
1 TTGGTTACAAGGTATGGCTAAAACC
62270422 TTGG
1 TTGG
62270426 GATTGGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (25 bp):
TTGGTTACAAGGTATGGCTAAAACC
Found at i:62272871 original size:22 final size:21
Alignment explanation
Indices: 62272846--62272902 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
62272836 TTTTTTTTAA
62272846 TTTAGTACTTGTTTTTAATTGT
1 TTTAGTACTTGTTTTTAATT-T
* **
62272868 TTTAGTAGTTAAATTTTAATTT
1 TTTAGTACTT-GTTTTTAATTT
62272890 TTT-GTACTTGTTT
1 TTTAGTACTTGTTT
62272903 GTGTGCGAGC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
20 2 0.07
21 5 0.18
22 13 0.46
23 8 0.29
ACGTcount: A:0.21, C:0.04, G:0.12, T:0.63
Consensus pattern (21 bp):
TTTAGTACTTGTTTTTAATTT
Found at i:62273130 original size:16 final size:16
Alignment explanation
Indices: 62273105--62273142 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
62273095 ACATATATGT
*
62273105 TTGTTTGAATGATAAA
1 TTGTTAGAATGATAAA
*
62273121 TTGTTAGAATGTTAAA
1 TTGTTAGAATGATAAA
62273137 TT-TTAG
1 TTGTTAG
62273143 TTAATTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (16 bp):
TTGTTAGAATGATAAA
Found at i:62274178 original size:17 final size:16
Alignment explanation
Indices: 62274135--62274179 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 16
62274125 TATAATAAAT
62274135 ATTATTAACTTCAGTTA
1 ATTATTAA-TTCAGTTA
62274152 ATTGATTAATTCAGTTA
1 ATT-ATTAATTCAGTTA
62274169 ATTATCTAATT
1 ATTAT-TAATT
62274180 TGAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 2 0.08
17 19 0.73
18 5 0.19
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (16 bp):
ATTATTAATTCAGTTA
Found at i:62275192 original size:18 final size:18
Alignment explanation
Indices: 62275158--62275193 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
62275148 GAGCGCCTAA
*
62275158 CACGCAAACTCATAGTGT
1 CACGCAAACTCAAAGTGT
*
62275176 CACGCAAACTTAAAGTGT
1 CACGCAAACTCAAAGTGT
62275194 GAACCGTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (18 bp):
CACGCAAACTCAAAGTGT
Found at i:62280702 original size:28 final size:28
Alignment explanation
Indices: 62280662--62280749 Score: 167
Period size: 28 Copynumber: 3.1 Consensus size: 28
62280652 AGGGTAATCC
62280662 CATTACAAAGTCCATGGTAATTCTTTCT
1 CATTACAAAGTCCATGGTAATTCTTTCT
*
62280690 CATTACAAAGTCCATGGTAATTCTTTCC
1 CATTACAAAGTCCATGGTAATTCTTTCT
62280718 CATTACAAAGTCCATGGTAATTCTTTCT
1 CATTACAAAGTCCATGGTAATTCTTTCT
62280746 CATT
1 CATT
62280750 TCTATTTTGG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (28 bp):
CATTACAAAGTCCATGGTAATTCTTTCT
Done.