Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 121 of 310
Found at i:38857872 original size:13 final size:13
Alignment explanation
Indices: 38857854--38857899 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
38857844 GAATCAAAAT
38857854 CAGAATCAGGTAA
1 CAGAATCAGGTAA
*
38857867 CAGAATCA--AAA
1 CAGAATCAGGTAA
38857878 TCAGAATCAGGTAA
1 -CAGAATCAGGTAA
38857892 CAGAATCA
1 CAGAATCA
38857900 AAATCAGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 2 0.07
12 8 0.29
13 16 0.57
14 2 0.07
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.15
Consensus pattern (13 bp):
CAGAATCAGGTAA
Found at i:38857873 original size:25 final size:25
Alignment explanation
Indices: 38857842--38857940 Score: 144
Period size: 25 Copynumber: 3.7 Consensus size: 25
38857832 GAACTAGAAT
38857842 CAGAATCAAAATCAGAATCAGGTAA
1 CAGAATCAAAATCAGAATCAGGTAA
38857867 CAGAATCAAAATCAGAATCAGGTAA
1 CAGAATCAAAATCAGAATCAGGTAA
38857892 CAGAATCAAAATCAGAATCAGTATCAGATAA
1 CAGAATCAAAATCAGAATCAG-----G-TAA
38857923 CAGAATCAAAATCAGAAT
1 CAGAATCAAAATCAGAAT
38857941 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
25 46 0.68
30 1 0.01
31 21 0.31
ACGTcount: A:0.53, C:0.16, G:0.14, T:0.17
Consensus pattern (25 bp):
CAGAATCAAAATCAGAATCAGGTAA
Found at i:38857937 original size:31 final size:29
Alignment explanation
Indices: 38857828--38857940 Score: 128
Period size: 31 Copynumber: 3.9 Consensus size: 29
38857818 TAAGAACATT
* *
38857828 ATCAG-AACTAGAATCAGAATCAAAATCAG
1 ATCAGTAAC-AGAATCAAAATCAGAATCAG
38857857 AATCAGGTAACAGAATCAAAATCAGAATCAG
1 -ATCA-GTAACAGAATCAAAATCAGAATCAG
38857888 ----GTAACAGAATCAAAATCAGAATCAG
1 ATCAGTAACAGAATCAAAATCAGAATCAG
38857913 TATCAGATAACAGAATCAAAATCAGAAT
1 -ATCAG-TAACAGAATCAAAATCAGAAT
38857941 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 2, Indels: 15
0.81 0.02 0.17
Matches are distributed among these distances:
25 25 0.34
30 5 0.07
31 40 0.55
32 3 0.04
ACGTcount: A:0.52, C:0.16, G:0.14, T:0.18
Consensus pattern (29 bp):
ATCAGTAACAGAATCAAAATCAGAATCAG
Found at i:38858375 original size:27 final size:27
Alignment explanation
Indices: 38858345--38858780 Score: 438
Period size: 27 Copynumber: 16.2 Consensus size: 27
38858335 GGAAAAATGG
* * * *
38858345 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
38858372 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
38858399 TAATTCTACCCTACAGGGGTATTACGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
38858426 TAATTCTACCCTATAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
38858453 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
38858480 TAATTCTACCTTACAGGGATATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
*
38858507 TAATTCTACCCTACAGGGGTATTT-TA
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
38858533 GTAATTCTACCATATAGGGGTATTTCAA
1 -TAATTCTACCCTACAGGGGTATTTCGA
*
38858561 TAATTCTACCTTACAGGGGTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
38858587 GTAATTTTACCCTACAAGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCGA
*
38858615 TAATTCTACCTTACAGGGGTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
*
38858641 GTAATTCTACTCTACAGGGGTA-TTC-A
1 -TAATTCTACCCTACAGGGGTATTTCGA
* *
38858667 GTAATTCTACCTTACTA-GGGTATTT-TA
1 -TAATTCTACCCTAC-AGGGGTATTTCGA
* * * *
38858694 GTAATTCTACCCTGCAAGGGTATTTTGG
1 -TAATTCTACCCTACAGGGGTATTTCGA
* * *
38858722 TAATTCTACCTTACTGGGGTATTT-TA
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
38858748 GTAATTGTACCTTACAGGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCGA
38858776 TAATT
1 TAATT
38858781 TTATAAATCA
Statistics
Matches: 343, Mismatches: 54, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
26 25 0.07
27 317 0.92
28 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:38858780 original size:54 final size:54
Alignment explanation
Indices: 38858372--38858773 Score: 520
Period size: 54 Copynumber: 7.5 Consensus size: 54
38858362 GGTATCTCGA
* ***
38858372 TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTACGG
1 TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCTTACAGGGGTATTTTAG
* * *
38858426 TAATTCTACCCTATAGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCTTACAGGGGTATTTTAG
* * * *
38858480 TAATTCTACCTTACAGGGATATTTCGATAATTCTACCCTACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCTTACAGGGGTATTTTAG
* * *
38858534 TAATTCTACCATATAGGGGTATTTCAATAATTCTACCTTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCTTACAGGGGTATTTTAG
* * ** *
38858588 TAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCTTACAGGGGTATTTTAG
* *
38858642 TAATTCTACTCTACAGGGGTA-TTCAGTAATTCTACCTTACTA-GGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCTTAC-AGGGGTATTTTAG
* * *** *
38858695 TAATTCTACCCTGCAAGGGTATTTTGGTAATTCTACCTTACTGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCTTACAGGGGTATTTTAG
* *
38858749 TAATTGTACCTTACAGGGGTATTTC
1 TAATTCTACCCTACAGGGGTATTTC
38858774 GGTAATTTTA
Statistics
Matches: 309, Mismatches: 36, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
53 46 0.15
54 263 0.85
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGGTATTTCAATAATTCTACCTTACAGGGGTATTTTAG
Found at i:38858831 original size:27 final size:27
Alignment explanation
Indices: 38858762--38858837 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
38858752 TTGTACCTTA
*
38858762 CAGGGGTATTTCGGTAATTTTATAAAT
1 CAGGGGTATTTCGGTAATTTTATAAAC
* * *
38858789 CAAGGATATTTGGGTAATTTTATAAAC
1 CAGGGGTATTTCGGTAATTTTATAAAC
*
38858816 CGGGGGTACTTT-GGTAATTTTA
1 CAGGGGTA-TTTCGGTAATTTTA
38858838 CAACTGGGTG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 38 0.93
28 3 0.07
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTCGGTAATTTTATAAAC
Found at i:38868791 original size:39 final size:40
Alignment explanation
Indices: 38868696--38868957 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
38868686 TTGAATGATG
*
38868696 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
38868734 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
38868775 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
38868814 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
38868853 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
38868892 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
38868931 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
38868958 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:38881086 original size:29 final size:28
Alignment explanation
Indices: 38881050--38881127 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
38881040 TCATGAGATT
38881050 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
38881080 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
38881107 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
38881128 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:38881345 original size:174 final size:174
Alignment explanation
Indices: 38881080--38881581 Score: 941
Period size: 174 Copynumber: 2.9 Consensus size: 174
38881070 AAATTGTACA
*
38881080 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
*
38881145 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
38881210 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
38881254 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
*
38881319 TGTGCGAGCCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
38881384 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
38881428 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
* *
38881493 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
38881558 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
38881582 ACCTTGAGTT
Statistics
Matches: 320, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 320 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:38889407 original size:29 final size:28
Alignment explanation
Indices: 38889371--38889448 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
38889361 TCATGAGATT
38889371 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
38889401 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
38889428 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
38889449 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:38889666 original size:174 final size:174
Alignment explanation
Indices: 38889401--38889728 Score: 575
Period size: 174 Copynumber: 1.9 Consensus size: 174
38889391 AAATTGTACA
*
38889401 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * **
38889466 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGG
66 TGTACGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
*
38889531 TTTTGGACAGCGGGAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
38889575 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
38889640 TGTACGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTACGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
38889705 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
38889729 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTACGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:38892011 original size:44 final size:39
Alignment explanation
Indices: 38891974--38892056 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
38891964 TAAATGCAAA
* *
38891974 ACACATATTAATGATGTGCAAACTATGACATTGTTAAAG
1 ACACATATTAATAATGTGCAAACTATGACATTATTAAAG
* * *
38892013 ACTCATATTAATAATGTTCAAACTATGACATAATTAAAG
1 ACACATATTAATAATGTGCAAACTATGACATTATTAAAG
38892052 ACACA
1 ACACA
38892057 AGCTAAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (39 bp):
ACACATATTAATAATGTGCAAACTATGACATTATTAAAG
Found at i:38896002 original size:40 final size:41
Alignment explanation
Indices: 38895947--38896287 Score: 511
Period size: 40 Copynumber: 8.5 Consensus size: 41
38895937 TATTCGAATG
38895947 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGACT
* * *
38895987 ATATCCGGGCTAAGTCCCGAAGGCTTTTCTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGACT
*
38896027 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGACT
38896067 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGACT
* * *
38896107 ATATCCGGGCTAAGTCCCGAAGGCTTTTCTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGACT
*
38896147 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGACT
38896187 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGACT
* * *
38896227 ATATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGACT
*
38896267 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
38896288 ATACTTGGGT
Statistics
Matches: 277, Mismatches: 18, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
39 16 0.06
40 255 0.92
41 6 0.02
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGACT
Found at i:38896160 original size:120 final size:120
Alignment explanation
Indices: 38895947--38896287 Score: 596
Period size: 120 Copynumber: 2.9 Consensus size: 120
38895937 TATTCGAATG
38895947 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCT
38896012 TTTCTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
66 TTTCTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
38896067 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCT
38896132 TTTCTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
66 TTTCTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* * *
38896187 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCCAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCT
* * * *
38896252 TTTGTGCGAGTTG-TTATATCC-GGCTAAATCCCGAAG
66 TTTCTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAG
38896288 ATACTTGGGT
Statistics
Matches: 213, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
119 14 0.07
120 197 0.92
121 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (120 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCT
TTTCTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:38900483 original size:82 final size:82
Alignment explanation
Indices: 38900366--38900528 Score: 263
Period size: 82 Copynumber: 2.0 Consensus size: 82
38900356 TGTATTTTGG
* * * **
38900366 TGTTTTATAATAGAATATGAGGTTTTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAAGTG
1 TGTTTTATAATAGAATATGAAGTTTTAAATTATGTTAGACAACTTGTACTACTCGATTTTAAGCA
38900431 AAAACGAGCAAAAGGGA
66 AAAACGAGCAAAAGGGA
*
38900448 TGTTTTATGATAGAATATGAAGTTTTAAATTATGTTAGACAACTTGTACTACTCGATTTTAAGCA
1 TGTTTTATAATAGAATATGAAGTTTTAAATTATGTTAGACAACTTGTACTACTCGATTTTAAGCA
*
38900513 AAAACGAGTAAAAGGG
66 AAAACGAGCAAAAGGG
38900529 CTTAATCGGT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 74 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (82 bp):
TGTTTTATAATAGAATATGAAGTTTTAAATTATGTTAGACAACTTGTACTACTCGATTTTAAGCA
AAAACGAGCAAAAGGGA
Found at i:38901190 original size:46 final size:47
Alignment explanation
Indices: 38901137--38901312 Score: 184
Period size: 46 Copynumber: 3.8 Consensus size: 47
38901127 TGATTGAGCA
*
38901137 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA-TG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTG
* * * * *
38901183 TCTGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT--G
*
38901228 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT-
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTG
* * *
38901276 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38901313 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 26 0.24
48 2 0.02
50 4 0.04
51 4 0.04
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTG
Found at i:38901293 original size:93 final size:93
Alignment explanation
Indices: 38901134--38901305 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
38901124 GGATGATTGA
* * *
38901134 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
*
38901199 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
38901227 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT-CCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TGCCCGAACTCGTTGAG
38901291 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
38901306 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38907284 original size:40 final size:40
Alignment explanation
Indices: 38907229--38907446 Score: 309
Period size: 40 Copynumber: 5.5 Consensus size: 40
38907219 TATTCGAATG
38907229 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
* * *
38907269 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAG-TGAAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CT
38907309 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-GTA-TTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTG-CT
*
38907349 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
* * *
38907389 ATATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
*
38907429 ATATCC-GGCTAAATCCCG
1 ATATCCGGGCTAAGTCCCG
38907447 TAGATGCTTG
Statistics
Matches: 159, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
39 11 0.07
40 144 0.91
41 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
Found at i:38912854 original size:40 final size:40
Alignment explanation
Indices: 38912808--38913060 Score: 445
Period size: 40 Copynumber: 6.3 Consensus size: 40
38912798 AGACTAAGAT
38912808 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
38912848 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
*
38912888 CCGAAGGCATTTGTGCAAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
38912928 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
38912968 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
38913008 CCGAAGGCATTTGTGCAAATTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTC
38913048 CCGAAGGCATTTG
1 CCGAAGGCATTTG
38913061 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
40 204 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:38912968 original size:120 final size:120
Alignment explanation
Indices: 38912756--38913060 Score: 476
Period size: 120 Copynumber: 2.5 Consensus size: 120
38912746 TTGAATGCTG
* * * *
38912756 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCAGACTAAGAT-CCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAA-ATCCGGGCTAAG-TCCCGAAGGCA
38912817 TTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
63 TTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38912875 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
38912940 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
38912995 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAATTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
38913059 TG
65 TG
38913061 AACGAGGAGC
Statistics
Matches: 173, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
119 21 0.12
120 142 0.82
121 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38917597 original size:10 final size:10
Alignment explanation
Indices: 38917582--38917607 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
38917572 TTTTCCATAC
38917582 TCATTCACAG
1 TCATTCACAG
38917592 TCATTCACAG
1 TCATTCACAG
38917602 TCATTC
1 TCATTC
38917608 GACACTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.35
Consensus pattern (10 bp):
TCATTCACAG
Found at i:38920509 original size:28 final size:29
Alignment explanation
Indices: 38920445--38920509 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
38920435 TTTTCATTTA
* *
38920445 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATTGACACT
* *
38920474 TTTCTCAATTTAATCCCT-AATTGACATT
1 TTTCTCAATTTAACCCCTCAATTGACACT
*
38920502 TTTGTCAA
1 TTTCTCAA
38920510 AAATCACTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.29, C:0.25, G:0.03, T:0.43
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATTGACACT
Found at i:38922252 original size:24 final size:24
Alignment explanation
Indices: 38922220--38922280 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
38922210 AGAATCCAAT
* * *
38922220 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
38922244 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
38922268 GCACTATGTGTGC
1 GCACTATGTGTGC
38922281 AAATACGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:38935458 original size:16 final size:17
Alignment explanation
Indices: 38935431--38935464 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
38935421 CTAAATCCCC
38935431 TGAATACCTAAGAAGAA
1 TGAATACCTAAGAAGAA
*
38935448 TGAAT-CCTAAGACGAA
1 TGAATACCTAAGAAGAA
38935464 T
1 T
38935465 CTTGGTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.21
Consensus pattern (17 bp):
TGAATACCTAAGAAGAA
Found at i:38943093 original size:13 final size:13
Alignment explanation
Indices: 38943075--38943099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38943065 ATGTAATCGC
38943075 ACACGAGCGTGTT
1 ACACGAGCGTGTT
38943088 ACACGAGCGTGT
1 ACACGAGCGTGT
38943100 CCTTGCCGAG
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:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (13 bp):
ACACGAGCGTGTT
Found at i:38945144 original size:40 final size:40
Alignment explanation
Indices: 38945074--38945250 Score: 209
Period size: 40 Copynumber: 4.5 Consensus size: 40
38945064 AAGCCAGGTA
* * * * *
38945074 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATG
* * *
38945113 CCTTCGGGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
38945153 CCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
38945193 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATG
38945233 CCTT-GGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
38945251 TTATCATCCG
Statistics
Matches: 122, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 27 0.22
40 95 0.78
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:38953176 original size:40 final size:40
Alignment explanation
Indices: 38953132--38953281 Score: 185
Period size: 40 Copynumber: 3.8 Consensus size: 40
38953122 GGATATAGCT
* * *
38953132 ACTCGCTCGAATGCCTTCGGGACATAGCCCGGATGTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAGTA
* * *
38953172 ACTCGCACAAATGCCTTCGAGACTTAACCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAGTA
* *
38953212 ACTCACACAAATGCCTTCGGGACTTAGCCCGGA-GCTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATG-TAGTA
* * *
38953252 ACTAGCGCAAATGCCTTCAGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
38953282 AGTTATCATC
Statistics
Matches: 94, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
40 94 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAGTA
Found at i:38956704 original size:45 final size:45
Alignment explanation
Indices: 38956640--38956727 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
38956630 AGAAAAACTG
*
38956640 ACTTAGCTTTGGAAAATGCATATCGACTGATTTGGCTTTGAGCTT
1 ACTTAGCTTTGGAAAATGCATATCAACTGATTTGGCTTTGAGCTT
**
38956685 ACTTAGCTTTGGACCATGCATATCAACTGATTTGGCTTTGAGC
1 ACTTAGCTTTGGAAAATGCATATCAACTGATTTGGCTTTGAGC
38956728 CATGATATCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (45 bp):
ACTTAGCTTTGGAAAATGCATATCAACTGATTTGGCTTTGAGCTT
Found at i:38961267 original size:14 final size:14
Alignment explanation
Indices: 38961248--38961277 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
38961238 AAGTTCGTAT
38961248 ATGAGCCTAAAATG
1 ATGAGCCTAAAATG
38961262 ATGAGCCTAAAATG
1 ATGAGCCTAAAATG
38961276 AT
1 AT
38961278 CATAATATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.23
Consensus pattern (14 bp):
ATGAGCCTAAAATG
Found at i:38961907 original size:24 final size:24
Alignment explanation
Indices: 38961880--38961927 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
38961870 GAAATCATTA
38961880 AGGATACCCGGCAATCACAAATAG
1 AGGATACCCGGCAATCACAAATAG
38961904 AGGATACCCGGCAATCACAAATAG
1 AGGATACCCGGCAATCACAAATAG
38961928 CTCATACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.25, G:0.21, T:0.12
Consensus pattern (24 bp):
AGGATACCCGGCAATCACAAATAG
Found at i:38965782 original size:40 final size:40
Alignment explanation
Indices: 38965724--38965900 Score: 241
Period size: 40 Copynumber: 4.5 Consensus size: 40
38965714 CGGATGATAT
* *
38965724 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAC
* *
38965764 CCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAC
* *
38965804 CCGGGCTATGTCCCGAAGGCATTTATGCTAGTGACTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAC
* * *
38965844 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATAC
*
38965884 CC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
38965901 ATACTTGGGT
Statistics
Matches: 121, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 13 0.11
40 106 0.88
41 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAC
Found at i:38965853 original size:80 final size:80
Alignment explanation
Indices: 38965720--38965900 Score: 267
Period size: 80 Copynumber: 2.3 Consensus size: 80
38965710 TATTCGGATG
* * *
38965720 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATACCCAGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCAAGTGACTATACCCAGGCTAAGACCCGAAGGCA
*
38965785 TTTGTGCTAG-TGACT
66 TTTGTGCGAGTTG-CT
* * *
38965800 ATATCCGGGCTATGTCCCGAAGGCATTTATGCTAGTGACTATACCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCAAGTGACTATACCCAGGCTAAGACCCGAAGGCA
38965865 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
*
38965880 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
38965901 ATACTTGGGT
Statistics
Matches: 91, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
79 13 0.14
80 76 0.84
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCAAGTGACTATACCCAGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:38974151 original size:320 final size:319
Alignment explanation
Indices: 38973570--38974208 Score: 1233
Period size: 320 Copynumber: 2.0 Consensus size: 319
38973560 GACATATAAG
* * *
38973570 CATAACAAATAAACAGTGATATAATGATTGTACTTGAATTGTATATTGAGGTGATTAGTTTATAC
1 CATAACAAATAAACAGTGATATAATGATTCTACTCGAATTGTATATTGAGGTGAGTAGTTTATAC
*
38973635 CTATGAGGGTAGCCGAATGTGTATAGAGATCATGTTATAAAGCAAATCAAAATCATGCTCTTTGT
66 CTATGAGGGTAGCCAAATGTGTATAGAGATCATGTTATAAAGCAAATCAAAATCATGCTCTTTGT
38973700 ATGTGGCTATTGAGCCGAAAATGGTAATGGTTGATAAGCGTCTTGTGTTTGAATTCTAGTTATGA
131 ATGTGGCTATTGAGCCGAAAATGGTAATGGTTGATAAGCGTCTTGTGTTTGAATTCTAGTTATGA
38973765 TAATGAAATATGGATGTGTCATGATTTATTGGTATATGTGCTTGATTATTCGGATGATATCCAGG
196 TAATGAAATATGGATGTGTCATGATTTATTGGTATATGTGCTTGATTATTCGGATGATATCCAGG
38973830 TTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
261 TTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
38973889 CATAACAAATAAACAGTGATATAATGATTCTACTCGAATTGTATATTGAGGTGAGTAGTTTATAC
1 CATAACAAATAAACAGTGATATAATGATTCTACTCGAATTGTATATTGAGGTGAGTAGTTTATAC
38973954 CTATGACGGGTAGCCAAATGTGTATAGAGATCATGTTATAAAGCAAATCAAAATCATGCTCTTTG
66 CTATGA-GGGTAGCCAAATGTGTATAGAGATCATGTTATAAAGCAAATCAAAATCATGCTCTTTG
38974019 TATGTGGCTATTGAGCCGAAAATGGTAATGGTTGATAAGCGTCTTGTGTTTGAATTCTAGTTATG
130 TATGTGGCTATTGAGCCGAAAATGGTAATGGTTGATAAGCGTCTTGTGTTTGAATTCTAGTTATG
38974084 ATAATGAAATATGGATGTGTCATGATTTATTGGTATATGTGCTTGATTATTCGGATGATATCCAG
195 ATAATGAAATATGGATGTGTCATGATTTATTGGTATATGTGCTTGATTATTCGGATGATATCCAG
38974149 GTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
260 GTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
38974209 GTGCTAGTGA
Statistics
Matches: 315, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
319 68 0.22
320 247 0.78
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (319 bp):
CATAACAAATAAACAGTGATATAATGATTCTACTCGAATTGTATATTGAGGTGAGTAGTTTATAC
CTATGAGGGTAGCCAAATGTGTATAGAGATCATGTTATAAAGCAAATCAAAATCATGCTCTTTGT
ATGTGGCTATTGAGCCGAAAATGGTAATGGTTGATAAGCGTCTTGTGTTTGAATTCTAGTTATGA
TAATGAAATATGGATGTGTCATGATTTATTGGTATATGTGCTTGATTATTCGGATGATATCCAGG
TTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
Found at i:38974196 original size:40 final size:40
Alignment explanation
Indices: 38974141--38974321 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
38974131 TATTCGGATG
* * * *
38974141 ATATCCAGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
38974181 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
38974221 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
38974261 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
38974301 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
38974322 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.10
40 112 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:38979063 original size:20 final size:19
Alignment explanation
Indices: 38979025--38979089 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
38979015 ATAATGCTAT
38979025 ACAGAGGCAAGTAGTGCAA
1 ACAGAGGCAAGTAGTGCAA
* *
38979044 ACAGAGGCACGATTGTGCAA
1 ACAGAGGCAAG-TAGTGCAA
* *
38979064 TCAGAGG-AACTGGAGTGCAA
1 ACAGAGGCAA--GTAGTGCAA
38979084 ACAGAG
1 ACAGAG
38979090 AAGTGCAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
19 11 0.31
20 24 0.67
21 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.32, T:0.12
Consensus pattern (19 bp):
ACAGAGGCAAGTAGTGCAA
Found at i:38980292 original size:30 final size:30
Alignment explanation
Indices: 38980258--38980318 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
38980248 TTCCCGAGCC
38980258 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
38980288 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
38980318 T
1 T
38980319 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:38981089 original size:68 final size:64
Alignment explanation
Indices: 38980973--38981231 Score: 222
Period size: 68 Copynumber: 3.9 Consensus size: 64
38980963 TGGATGATAC
** * * **
38980973 AGATAGTATGTAGCTAGGTCACATGTATGGTACTGA-GCGCACGTCATGT-GTACAAGAGAGCTA
1 AGATA-TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTA
38981036 CAAG
63 C--G
* *
38981040 ACATTATGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAC
1 AGA-TAT-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTAC
38981105 G
64 G
* * * * * *
38981106 AGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTA
1 AGATATATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTA
38981171 CG
63 CG
* * *
38981173 AGATAAAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
38981232 CGAACTATAT
Statistics
Matches: 158, Mismatches: 25, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 24 0.15
65 3 0.02
66 24 0.15
67 38 0.24
68 48 0.30
69 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:38985903 original size:79 final size:81
Alignment explanation
Indices: 38985767--38985951 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
38985757 TTGAATGATG
*
38985767 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
38985831 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
38985846 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
38985908 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
38985926 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38985952 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:38985965 original size:40 final size:40
Alignment explanation
Indices: 38985768--38985951 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
38985758 TGAATGATGT
* * * *
38985768 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
38985808 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
38985848 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38985886 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38985927 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
38985952 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:38985973 original size:79 final size:79
Alignment explanation
Indices: 38985820--38985974 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
38985810 GGACTAAGAT
* **
38985820 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
38985885 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
38985899 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
38985962 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
38985975 ATTCTGAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.60
80 25 0.37
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:38994039 original size:10 final size:10
Alignment explanation
Indices: 38993989--38994048 Score: 63
Period size: 11 Copynumber: 6.0 Consensus size: 10
38993979 TTATAATTCG
38993989 TAATAATTTT
1 TAATAATTTT
38993999 TAAATAATTTAT
1 T-AATAATTT-T
*
38994011 TAAT--TTAT
1 TAATAATTTT
38994019 TAATAAATTTT
1 TAAT-AATTTT
38994030 T-ATAATTTT
1 TAATAATTTT
38994039 TAATAATTTT
1 TAATAATTTT
38994049 AAATGTCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
8 5 0.12
9 9 0.21
10 11 0.26
11 15 0.36
12 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TAATAATTTT
Found at i:38994046 original size:31 final size:30
Alignment explanation
Indices: 38993989--38994047 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
38993979 TTATAATTCG
*
38993989 TAATAATTTTTAAATAATTTATTAATTTAT
1 TAATAATTTTTAAATAATTTAATAATTTAT
*
38994019 TAATAAATTTTTATAAT-TTTTAATAATTT
1 TAAT-AATTTTTA-AATAATTTAATAATTT
38994048 TAAATGTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.16
31 18 0.72
32 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
TAATAATTTTTAAATAATTTAATAATTTAT
Found at i:38994048 original size:19 final size:19
Alignment explanation
Indices: 38993991--38994048 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 19
38993981 ATAATTCGTA
*
38993991 ATAATTTTTAAATAATTTAT
1 ATAATTTTT-AATAATTTTT
38994011 -TAATTTATTAATAAATTTTT
1 ATAATTT-TTAAT-AATTTTT
38994031 ATAATTTTTAATAATTTT
1 ATAATTTTTAATAATTTT
38994049 AAATGTCTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 15 0.44
20 13 0.38
21 6 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATAATTTTTAATAATTTTT
Found at i:39004079 original size:40 final size:40
Alignment explanation
Indices: 39004009--39004146 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
39003999 AAGCCAAGTA
* * * * *
39004009 CCTTCGGGATTTA-ACCGGATATAG-ATACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAGTA-ACTCGCACAAATG
*
39004048 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
39004088 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
39004128 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
39004147 TTATCATCCA
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
39 12 0.13
40 76 0.85
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:39016997 original size:22 final size:21
Alignment explanation
Indices: 39016956--39016999 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
39016946 GAATGTGCAT
39016956 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
39016978 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
39017000 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:39019020 original size:22 final size:23
Alignment explanation
Indices: 39018995--39019037 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
39018985 AAAGCCGAGG
39018995 AGCTCAGTAT-GGAG-AAAAGAAA
1 AGCTCA-TATGGGAGCAAAAGAAA
*
39019017 AGCTGATATGGGAGCAAAAGA
1 AGCTCATATGGGAGCAAAAGA
39019038 GTTTCGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 3 0.17
22 9 0.50
23 6 0.33
ACGTcount: A:0.47, C:0.09, G:0.30, T:0.14
Consensus pattern (23 bp):
AGCTCATATGGGAGCAAAAGAAA
Found at i:39026128 original size:40 final size:40
Alignment explanation
Indices: 39026083--39026318 Score: 337
Period size: 40 Copynumber: 5.9 Consensus size: 40
39026073 CGAATACACG
* * * * *
39026083 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
39026123 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
39026163 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
39026203 TCACTAGCATGAATGCTCCTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
39026243 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
39026283 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA
39026319 CATCATTCAA
Statistics
Matches: 177, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:39026665 original size:29 final size:29
Alignment explanation
Indices: 39026626--39026704 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
39026616 CTTAATAATC
*
39026626 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
39026656 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
39026685 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
39026705 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:39026750 original size:46 final size:46
Alignment explanation
Indices: 39026692--39026782 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
39026682 TCAAGCCCGC
39026692 ACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACT
1 ACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACT
39026738 ACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCAC
1 ACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCAC
39026783 ACTTAGTGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.29, C:0.35, G:0.13, T:0.23
Consensus pattern (46 bp):
ACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCCCGCACT
Found at i:39028132 original size:47 final size:47
Alignment explanation
Indices: 39028081--39028922 Score: 1576
Period size: 47 Copynumber: 17.9 Consensus size: 47
39028071 ATTTTCGCAN
* * *
39028081 ATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
39028128 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
39028175 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
39028222 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
39028269 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
39028316 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
39028363 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
39028410 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
39028457 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
39028504 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
39028551 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
39028598 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
39028645 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
**
39028692 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
*
39028739 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGT
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
39028786 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
* * *
39028833 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATAT
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCAC--GT
*
39028882 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTA
39028923 CTATCATTTC
Statistics
Matches: 780, Mismatches: 13, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
47 739 0.95
49 41 0.05
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
ATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACGT
Found at i:39035028 original size:174 final size:174
Alignment explanation
Indices: 39034728--39035071 Score: 545
Period size: 174 Copynumber: 2.0 Consensus size: 174
39034718 CTCTTGTATG
39034728 TAGCTATTGAGCCCAAAATGATAATGCTTGATAAGTGACTTGTGTTTGAATTCTAGTTATGAAAA
1 TAGCTATTGAGCCCAAAATGATAATGCTTGATAAGTGACTTGTGTTTGAATTCTAGTTATGAAAA
*
39034793 CGAAATATAGATGTGTCATGACTTACTGATATGTGCATGGATATTCAGATGATAACCGGGCTAAG
66 CGAAATATAGATGTGTCATGACTTACTGATATGTGCATGGAGATTCAGATGATAACCGGGCTAAG
* *
39034858 TCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCTCT
131 TCCCGAAGGCATTTGTGCGAGTGACTATA-ACCGGGCTAAGCTCT
39034902 TAGCTATTGAGCCCAAAATGATAATGCTTGATAAGTGACTTGTGTTTGAATTCTAGTTATGAAAA
1 TAGCTATTGAGCCCAAAATGATAATGCTTGATAAGTGACTTGTGTTTGAATTCTAGTTATGAAAA
* * *
39034967 CGAAATATAGATGTGTCATGACTTACTGATATG-GCATTTGTGCGAGTT-A-CT-ATATCCGGGC
66 CGAAATATAGATGTGTCATGACTTACTGATATGTGCA--TG-GAGA-TTCAGATGATAACCGGGC
*
39035028 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAG
127 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATAACCGGGCTAAG
39035072 TCCCAAAGGA
Statistics
Matches: 158, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
173 3 0.02
174 146 0.92
175 4 0.03
176 3 0.02
177 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (174 bp):
TAGCTATTGAGCCCAAAATGATAATGCTTGATAAGTGACTTGTGTTTGAATTCTAGTTATGAAAA
CGAAATATAGATGTGTCATGACTTACTGATATGTGCATGGAGATTCAGATGATAACCGGGCTAAG
TCCCGAAGGCATTTGTGCGAGTGACTATAACCGGGCTAAGCTCT
Found at i:39035054 original size:40 final size:40
Alignment explanation
Indices: 39034999--39035086 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
39034989 TTACTGATAT
* *
39034999 GGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAA
1 GGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAA
39035039 GGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAA
1 GGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAA
*
39035079 GGAATTTG
1 GGCATTTG
39035087 AGCAAGTAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
GGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCAAA
Found at i:39043061 original size:40 final size:40
Alignment explanation
Indices: 39042990--39043142 Score: 220
Period size: 40 Copynumber: 3.9 Consensus size: 40
39042980 TATCTAGCAC
* * *
39042990 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGAT-ACAATTCCAGCACGA
*
39043029 AGCCTACGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
* *
39043069 AGCCTGCGGGTCTTTAAGCCTGGATACGATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
*
39043109 AGCCTGCGGGTCTTTAAGCCCGGATACCATTCCA
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCA
39043143 CATCAAATAA
Statistics
Matches: 103, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
39 15 0.15
40 88 0.85
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGA
Found at i:39043651 original size:39 final size:39
Alignment explanation
Indices: 39043597--39043675 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
39043587 ATATTCGACT
*
39043597 TTCACACATATAGATTATAGTAAGCTTATAAGAAATCAA
1 TTCACACATACAGATTATAGTAAGCTTATAAGAAATCAA
39043636 TTCACACATACAGATTATAGTAAGCTTATAAGAAATCAA
1 TTCACACATACAGATTATAGTAAGCTTATAAGAAATCAA
39043675 T
1 T
39043676 AAGCAATTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (39 bp):
TTCACACATACAGATTATAGTAAGCTTATAAGAAATCAA
Found at i:39045625 original size:86 final size:86
Alignment explanation
Indices: 39045480--39045650 Score: 324
Period size: 86 Copynumber: 2.0 Consensus size: 86
39045470 ATTTCACACA
*
39045480 TGCATTTACACATATTATAAGCATAGATTATAATGGTTAATTATTTTTGTGATTCGGTTTTGTGG
1 TGCATTTACACATATTATAAGCATAGATTACAATGGTTAATTATTTTTGTGATTCGGTTTTGTGG
39045545 TCCCGAAACCACTTTCCGACG
66 TCCCGAAACCACTTTCCGACG
*
39045566 TGCATTTACACATATTATAGGCATAGATTACAATGGTTAATTATTTTTGTGATTCGGTTTTGTGG
1 TGCATTTACACATATTATAAGCATAGATTACAATGGTTAATTATTTTTGTGATTCGGTTTTGTGG
39045631 TCCCGAAACCACTTTCCGAC
66 TCCCGAAACCACTTTCCGAC
39045651 TAGGGTCACA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (86 bp):
TGCATTTACACATATTATAAGCATAGATTACAATGGTTAATTATTTTTGTGATTCGGTTTTGTGG
TCCCGAAACCACTTTCCGACG
Found at i:39046992 original size:26 final size:26
Alignment explanation
Indices: 39046958--39047011 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
39046948 CCCTACAAAA
* *
39046958 TTTTGACAATTTTACTCTTAGTAAAT
1 TTTTAACAATTTTACCCTTAGTAAAT
* *
39046984 TTTTAACAATTTTGCCCTTGGTAAAT
1 TTTTAACAATTTTACCCTTAGTAAAT
39047010 TT
1 TT
39047012 CGAGAACATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.50
Consensus pattern (26 bp):
TTTTAACAATTTTACCCTTAGTAAAT
Found at i:39049416 original size:30 final size:30
Alignment explanation
Indices: 39049380--39049649 Score: 171
Period size: 30 Copynumber: 9.1 Consensus size: 30
39049370 CAACTTATCA
*
39049380 ACGACCATCTAATTATGAAAATGGATGGTG
1 ACGACCATCTAATTATGAAAAGGGATGGTG
* *
39049410 ACGACCAT-TGAATTATGAAAATGGATAGCT-
1 ACGACCATCT-AATTATGAAAAGGGAT-GGTG
* * * * * *
39049440 TCAACTATC-GATTATGAAAAGGGATAGTA
1 ACGACCATCTAATTATGAAAAGGGATGGTG
39049469 ACGACCAT-TGAATTATGAAAAGGGATGGTG
1 ACGACCATCT-AATTATGAAAAGGGATGGTG
* * * *
39049499 ATGACCATCGAATTATGAAAAAGGATAGCT-
1 ACGACCATCTAATTATGAAAAGGGAT-GGTG
* * *
39049529 TC-AGCTATCGAATTATGAAAAGGGATGGTG
1 ACGA-CCATCTAATTATGAAAAGGGATGGTG
* *
39049559 ACGATCAT-TGAATTATGAAAAAGGATGGTG
1 ACGACCATCT-AATTATGAAAAGGGATGGTG
* * ** * *
39049589 ACAACCATCGAATTACAAAAAAGGATAGCT-
1 ACGACCATCTAATTATGAAAAGGGAT-GGTG
* * *
39049619 TCGACTATC-GATTATGAAAAGGGATGGTG
1 ACGACCATCTAATTATGAAAAGGGATGGTG
39049648 AC
1 AC
39049650 AACGATCATG
Statistics
Matches: 182, Mismatches: 43, Indels: 31
0.71 0.17 0.12
Matches are distributed among these distances:
28 3 0.02
29 36 0.20
30 136 0.75
31 7 0.04
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (30 bp):
ACGACCATCTAATTATGAAAAGGGATGGTG
Found at i:39049588 original size:90 final size:89
Alignment explanation
Indices: 39049380--39049649 Score: 391
Period size: 89 Copynumber: 3.0 Consensus size: 89
39049370 CAACTTATCA
* * * *
39049380 ACGACCATCT-AATTATGAAAATGGATGGTGACGACCATTGAATTATGAAAATGGATAGCTTCAA
1 ACGACCAT-TGAATTATGAAAAAGGATGGTGACGACCATCGAATTATGAAAAAGGATAGCTTCAG
* *
39049444 CTATCGATTATGAAAAGGGATAGTA
65 CTATCGATTATGAAAAGGGATGGTG
* *
39049469 ACGACCATTGAATTATGAAAAGGGATGGTGATGACCATCGAATTATGAAAAAGGATAGCTTCAGC
1 ACGACCATTGAATTATGAAAAAGGATGGTGACGACCATCGAATTATGAAAAAGGATAGCTTCAGC
39049534 TATCGAATTATGAAAAGGGATGGTG
66 TATCG-ATTATGAAAAGGGATGGTG
* * **
39049559 ACGATCATTGAATTATGAAAAAGGATGGTGACAACCATCGAATTACAAAAAAGGATAGCTTC-GA
1 ACGACCATTGAATTATGAAAAAGGATGGTGACGACCATCGAATTATGAAAAAGGATAGCTTCAG-
39049623 CTATCGATTATGAAAAGGGATGGTG
65 CTATCGATTATGAAAAGGGATGGTG
39049648 AC
1 AC
39049650 AACGATCATG
Statistics
Matches: 165, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
88 1 0.01
89 85 0.52
90 79 0.48
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (89 bp):
ACGACCATTGAATTATGAAAAAGGATGGTGACGACCATCGAATTATGAAAAAGGATAGCTTCAGC
TATCGATTATGAAAAGGGATGGTG
Found at i:39049599 original size:60 final size:60
Alignment explanation
Indices: 39049380--39049652 Score: 209
Period size: 60 Copynumber: 4.6 Consensus size: 60
39049370 CAACTTATCA
* * * * * * *
39049380 ACGACCATCTAATTATGAAAATGGATGGTGACGACCATTGAATTATGAAAATGGATAGCT-
1 ACGAACATCGAATTATGAAAAAGGATGGTGACAACCATCGAATTATGAAAAGGGAT-GGTG
* * * * * *
39049440 TC-AACTATCG-ATTATGAAAAGGGATAGTAACGACCATTGAATTATGAAAAGGGATGGTG
1 ACGAAC-ATCGAATTATGAAAAAGGATGGTGACAACCATCGAATTATGAAAAGGGATGGTG
* * * * * *
39049499 ATGACCATCGAATTATGAAAAAGGATAGCT-TCAGCTATCGAATTATGAAAAGGGATGGTG
1 ACGAACATCGAATTATGAAAAAGGAT-GGTGACAACCATCGAATTATGAAAAGGGATGGTG
* * ** * *
39049559 ACGATCATTGAATTATGAAAAAGGATGGTGACAACCATCGAATTACAAAAAAGGATAGCT-
1 ACGAACATCGAATTATGAAAAAGGATGGTGACAACCATCGAATTATGAAAAGGGAT-GGTG
* *
39049619 TCG-ACTATCG-ATTATGAAAAGGGATGGTGACAAC
1 ACGAAC-ATCGAATTATGAAAAAGGATGGTGACAAC
39049653 GATCATGATT
Statistics
Matches: 171, Mismatches: 34, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
58 2 0.01
59 73 0.43
60 93 0.54
61 3 0.02
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (60 bp):
ACGAACATCGAATTATGAAAAAGGATGGTGACAACCATCGAATTATGAAAAGGGATGGTG
Found at i:39056139 original size:22 final size:22
Alignment explanation
Indices: 39056111--39056175 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
39056101 GCAAATATGT
* *
39056111 TTGGCACACATCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
39056133 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
39056155 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
39056176 AATAATTGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:39056340 original size:41 final size:41
Alignment explanation
Indices: 39056283--39056391 Score: 164
Period size: 41 Copynumber: 2.7 Consensus size: 41
39056273 CGACACAAAG
* *
39056283 TCGTCAAGCAACCATGCAATCCTTAATCGGTGGATCCACGA
1 TCGTCAAGCAACCATGCGATCCTCAATCGGTGGATCCACGA
* * *
39056324 TCGTCAAGCAACCATGCGATTCTCAATCGGTGGATCTACGG
1 TCGTCAAGCAACCATGCGATCCTCAATCGGTGGATCCACGA
*
39056365 TCATCAAGCAACCATGCGATCCTCAAT
1 TCGTCAAGCAACCATGCGATCCTCAAT
39056392 TTCTTCCTAC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.23
Consensus pattern (41 bp):
TCGTCAAGCAACCATGCGATCCTCAATCGGTGGATCCACGA
Found at i:39056681 original size:27 final size:27
Alignment explanation
Indices: 39056649--39056989 Score: 255
Period size: 27 Copynumber: 12.6 Consensus size: 27
39056639 TTGGTAAATC
*
39056649 TACAAACCAAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
39056676 TGCAAACCAAAGGTATTTCG-TAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
** * *
39056702 TTGAAAGTCAAAGGTATTTCTG-CAATTT
1 TACAAA-TCAAGGGTATTTC-GATAATTT
**
39056730 TGTAAATCAAGGGTATTTCTG-TAATTT
1 TACAAATCAAGGGTATTTC-GATAATTT
* * * *
39056757 TCCAAATTAAGGGTATTTCGGTACCTTT
1 TACAAATCAAGGGTATTTCGATA-ATTT
*
39056785 T-CAAATCGAGGGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* *
39056811 TACAAGTCAAGAGTATTTCGATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
** * *
39056838 TACATGTCGAGGGTATTTCAATAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* *
39056865 TACAAGTTC-AGGGTATTTCGGTAATTT
1 TACAA-ATCAAGGGTATTTCGATAATTT
** *
39056892 TACAGGTCGAGGGTATTTC-AGTAATTT
1 TACAAATCAAGGGTATTTCGA-TAATTT
* * * * *
39056919 CAAAAATCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGATAATTT
* * *
39056946 TACAAA-CTAGGGATATTTTGGTAATTT
1 TACAAATCAAGGG-TATTTCGATAATTT
*
39056973 TACAAACCAAGGGTATT
1 TACAAATCAAGGGTATT
39056990 CAGTAATTTC
Statistics
Matches: 258, Mismatches: 45, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
26 21 0.08
27 216 0.84
28 21 0.08
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGATAATTT
Found at i:39059951 original size:22 final size:21
Alignment explanation
Indices: 39059915--39059978 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
39059905 GCAAATACAT
39059915 TTGGCACACAA-CCATAATCAGG
1 TTGGCACA-AAGCCAT-ATCAGG
* * *
39059937 TTGGCATAGAGCCATATGTAGG
1 TTGGCACAAAGCCATAT-CAGG
39059959 TTGGCACAAAGCCATGATCA
1 TTGGCACAAAGCCAT-ATCA
39059979 AAATAATTGG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 28 0.85
23 2 0.06
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (21 bp):
TTGGCACAAAGCCATATCAGG
Found at i:39060183 original size:40 final size:41
Alignment explanation
Indices: 39060121--39060199 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 41
39060111 AAAGCCACCG
* *
39060121 GTGGATCCACGGTCGTCAAGCAACCATGTGATTCTCAATCA
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCA
*
39060162 GTGGATCCAC-GTCGTTAAGCAACCATGCGATCCTCAAT
1 GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
39060200 TTCTTCCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 25 0.71
41 10 0.29
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
GTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATCA
Found at i:39060527 original size:55 final size:54
Alignment explanation
Indices: 39060468--39060597 Score: 145
Period size: 55 Copynumber: 2.4 Consensus size: 54
39060458 ATAAACCAAG
*
39060468 GGTATTTCGATAATTTTGCAAACCAATGGTATTTTTGTAATTTTTAAAAGTCAAA
1 GGTATTTCGATAATTTTGCAAACCAAGGGTATTTTTGTAATTTTTAAAA-TCAAA
** * * * * * *
39060523 GGTATTTCTTTAATCTTGTAAATCAGGGGTATTTTTGTAATTTTTCAAATCAAG
1 GGTATTTCGATAATTTTGCAAACCAAGGGTATTTTTGTAATTTTTAAAATCAAA
* *
39060577 GGTATCTCGGTAATTTT-CAAA
1 GGTATTTCGATAATTTTGCAAA
39060598 ATTGAGGGTA
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
53 3 0.05
54 17 0.28
55 41 0.67
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (54 bp):
GGTATTTCGATAATTTTGCAAACCAAGGGTATTTTTGTAATTTTTAAAATCAAA
Found at i:39060823 original size:27 final size:27
Alignment explanation
Indices: 39060437--39060825 Score: 151
Period size: 27 Copynumber: 14.4 Consensus size: 27
39060427 TTTCACCCTA
* * * *
39060437 CAAGGGTGTTTTGGTAAATCTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
39060464 CAAGGGTATTTCGATAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
39060491 CAATGGTATTTTTGTAATTTTTA-AAAGT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-C
* * * ** *
39060519 CAAAGGTATTTCT-TTAATCTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAC
* * * *
39060546 CAGGGGTATTTTTGTAATTTTTCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
39060573 CAAGGGTATCTCGGTAATTTT-CAAAAT
1 CAAGGGTATTTTGGTAATTTTAC-AAAC
** ** * ***
39060600 TGAGGGTATTTCAGAAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * **
39060627 GGAGGGTATTTTAGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
39060654 CAAGGGTAATTCGATAATTTTACAAGTC
1 CAAGGGTATTTTGGTAATTTTACAA-AC
* * ** ****
39060682 AAATGG-ATTTCAGTAATTTTACTGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
39060708 CGAGGGTATTTCGCTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAC
**
39060734 TTAGGGATATTTTGGTAATTTTACAAAC
1 CAAGGG-TATTTTGGTAATTTTACAAAC
*
39060762 C-AGGGTTGTTTTGGTAATTTTACAAAC
1 CAAGGG-TATTTTGGTAATTTTACAAAC
* *
39060789 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
39060816 CAATGGTATT
1 CAAGGGTATT
39060826 CATTAATTTC
Statistics
Matches: 272, Mismatches: 78, Indels: 24
0.73 0.21 0.06
Matches are distributed among these distances:
26 9 0.03
27 234 0.86
28 28 0.10
29 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:39061310 original size:27 final size:27
Alignment explanation
Indices: 39061280--39061548 Score: 109
Period size: 27 Copynumber: 9.9 Consensus size: 27
39061270 GGTAAATCTA
*
39061280 CAAACCAAGGGTATTTCGATAATTTTG
1 CAAATCAAGGGTATTTCGATAATTTTG
* * *
39061307 CAAACCAATGGTATTTTTG-TAATTTTTG
1 CAAATCAAGGGTA-TTTCGATAA-TTTTG
* * ** *
39061335 -AAAGTTAAAGGTATTTCTTTAATCTTG
1 CAAA-TCAAGGGTATTTCGATAATTTTG
* * * ** *
39061362 TAAATCAGGGGCATTTTTATAATTTTT
1 CAAATCAAGGGTATTTCGATAATTTTG
* *
39061389 CAAATCAAGGGTATCTCGGTAATTTT-
1 CAAATCAAGGGTATTTCGATAATTTTG
* * *
39061415 CAAAATCGAGGGTATTTCGGTAATTTTA
1 C-AAATCAAGGGTATTTCGATAATTTTG
* ** * *
39061443 CAAGTGGAGGGTATTTCAATAATTTTA
1 CAAATCAAGGGTATTTCGATAATTTTG
** * *
39061470 CAGGTCGAGGGTATTTC-AGTAATTTTA
1 CAAATCAAGGGTATTTCGA-TAATTTTG
* * *
39061497 CAAGTTGAA-GGTATTTC-AGTAATTTTA
1 CAA-ATCAAGGGTATTTCGA-TAATTTTG
*** *
39061524 CTGGTCGAGGGTATTTCGATAATTT
1 CAAATCAAGGGTATTTCGATAATTT
39061549 CACAAATTAG
Statistics
Matches: 191, Mismatches: 40, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
26 4 0.02
27 162 0.85
28 25 0.13
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCGATAATTTTG
Found at i:39061439 original size:54 final size:54
Alignment explanation
Indices: 39061381--39061555 Score: 140
Period size: 54 Copynumber: 3.2 Consensus size: 54
39061371 GGCATTTTTA
* ** *
39061381 TAATTTTTCAAATCAAGGGTATCTCGGTAATTTT-CAAAATCGAGGGTATTTCGG
1 TAATTTTACAAATCAAGGGTATCTCAATAATTTTAC-AAATCGAGGGTATTTCAG
* ** * **
39061435 TAATTTTACAAGTGGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACAAATCAAGGGTATCTCAATAATTTTACAAATCGAGGGTATTTCAG
* * * * ***
39061489 TAATTTTACAAGTTGAA-GGTATTTCAGTAATTTTACTGGTCGAGGGTATTTC-G
1 TAATTTTACAA-ATCAAGGGTATCTCAATAATTTTACAAATCGAGGGTATTTCAG
*
39061542 ATAATTTCACAAAT
1 -TAATTTTACAAAT
39061556 TAGGGATATT
Statistics
Matches: 102, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
53 2 0.02
54 96 0.94
55 4 0.04
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (54 bp):
TAATTTTACAAATCAAGGGTATCTCAATAATTTTACAAATCGAGGGTATTTCAG
Found at i:39061481 original size:81 final size:81
Alignment explanation
Indices: 39061396--39061548 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
39061386 TTTCAAATCA
* * * *
39061396 AGGGTATCTCGGTAATTTT-CAAAATCGAGGGTATTTCGGTAATTTTACAAGTGGAGGGTATTTC
1 AGGGTATCTCAGTAATTTTAC-AAATCGAAGGTATTTCAGTAATTTTACAAGTCGAGGGTATTTC
39061460 AATAATTTTACAGGTCG
65 AATAATTTTACAGGTCG
* * * ** *
39061477 AGGGTATTTCAGTAATTTTACAAGTTGAAGGTATTTCAGTAATTTTACTGGTCGAGGGTATTTCG
1 AGGGTATCTCAGTAATTTTACAAATCGAAGGTATTTCAGTAATTTTACAAGTCGAGGGTATTTCA
39061542 ATAATTT
66 ATAATTT
39061549 CACAAATTAG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 60 0.98
82 1 0.02
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.39
Consensus pattern (81 bp):
AGGGTATCTCAGTAATTTTACAAATCGAAGGTATTTCAGTAATTTTACAAGTCGAGGGTATTTCA
ATAATTTTACAGGTCG
Found at i:39061565 original size:27 final size:26
Alignment explanation
Indices: 39061531--39061636 Score: 131
Period size: 27 Copynumber: 4.0 Consensus size: 26
39061521 TTACTGGTCG
* * * *
39061531 AGGGTATTTCGATAATTTCACAAATT
1 AGGGTATTTTGGTAATTTTACAAACT
*
39061557 AGGGATATTTTGGTAATTTTACAAACC
1 AGGG-TATTTTGGTAATTTTACAAACT
*
39061584 AGAGTTATTTTGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAACT
39061611 AGGGGTATTTTGGTAATTTTACAAAC
1 A-GGGTATTTTGGTAATTTTACAAAC
39061637 CAATGGTATT
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.06
27 63 0.91
28 2 0.03
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACT
Found at i:39061566 original size:54 final size:53
Alignment explanation
Indices: 39061420--39061579 Score: 196
Period size: 54 Copynumber: 3.0 Consensus size: 53
39061410 ATTTTCAAAA
* * *
39061420 TCGAGGGTATTTCGGTAATTTTACAAGTGGAGGGTATTTCAATAATTTTACAGG
1 TCGAGGGTATTTCGATAATTTTACAAGT-TAGGGTATTTCAGTAATTTTACAGG
* *
39061474 TCGAGGGTATTTC-AGTAATTTTACAAGTTGAAGGTATTTCAGTAATTTTACTGG
1 TCGAGGGTATTTCGA-TAATTTTACAAGTT-AGGGTATTTCAGTAATTTTACAGG
* * **
39061528 TCGAGGGTATTTCGATAATTTCACAAATTAGGGATATTTTGGTAATTTTACA
1 TCGAGGGTATTTCGATAATTTTACAAGTTAGGG-TATTTCAGTAATTTTACA
39061580 AACCAGAGTT
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
53 3 0.03
54 87 0.96
55 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (53 bp):
TCGAGGGTATTTCGATAATTTTACAAGTTAGGGTATTTCAGTAATTTTACAGG
Found at i:39061566 original size:81 final size:81
Alignment explanation
Indices: 39061380--39061580 Score: 199
Period size: 81 Copynumber: 2.5 Consensus size: 81
39061370 GGGCATTTTT
** * * * * * * *
39061380 ATAATTTTTCAAATCAAGGGTATCTCGGTAATTTT-CAAAATCGAGGGTATTTCGGTAATTTTAC
1 ATAATTTCACAAATCGAGGGTATTTCAGTAATTTTAC-AAGTTGAAGGTATTTCAGTAATTTTAC
*
39061444 AAGTGGAGGGTATTTCA
65 AAGTCGAGGGTATTTCA
* ** *
39061461 ATAATTTTACAGGTCGAGGGTATTTCAGTAATTTTACAAGTTGAAGGTATTTCAGTAATTTTACT
1 ATAATTTCACAAATCGAGGGTATTTCAGTAATTTTACAAGTTGAAGGTATTTCAGTAATTTTACA
* *
39061526 GGTCGAGGGTATTTCG
66 AGTCGAGGGTATTTCA
* **
39061542 ATAATTTCACAAAT-TAGGGATATTTTGGTAATTTTACAA
1 ATAATTTCACAAATCGAGGG-TATTTCAGTAATTTTACAA
39061581 ACCAGAGTTA
Statistics
Matches: 98, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
80 4 0.04
81 93 0.95
82 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (81 bp):
ATAATTTCACAAATCGAGGGTATTTCAGTAATTTTACAAGTTGAAGGTATTTCAGTAATTTTACA
AGTCGAGGGTATTTCA
Found at i:39061593 original size:54 final size:54
Alignment explanation
Indices: 39061535--39061638 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
39061525 TGGTCGAGGG
*
39061535 TATTTCGATAATTTCACAAATTAGGGATATTTTGGTAATTTTACAAACCAGAGT
1 TATTTCGATAATTTCACAAACTAGGGATATTTTGGTAATTTTACAAACCAGAGT
* * * *
39061589 TATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCA
1 TATTTCGATAATTTCACAAACTAGGGATATTTTGGTAATTTTACAAACCA
39061639 ATGGTATTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (54 bp):
TATTTCGATAATTTCACAAACTAGGGATATTTTGGTAATTTTACAAACCAGAGT
Found at i:39061644 original size:27 final size:26
Alignment explanation
Indices: 39061562--39061646 Score: 116
Period size: 27 Copynumber: 3.2 Consensus size: 26
39061552 AAATTAGGGA
*
39061562 TATTTTGGTAATTTTACAAACCAGAGT
1 TATTTTGGTAATTTTACAAACCA-AGG
* *
39061589 TATTTTGGTAATTTTACAAACTAGGGG
1 TATTTTGGTAATTTTACAAACCA-AGG
39061616 TATTTTGGTAATTTTACAAACCAATGG
1 TATTTTGGTAATTTTACAAACCAA-GG
39061643 TATT
1 TATT
39061647 CATTAATTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.42
Consensus pattern (26 bp):
TATTTTGGTAATTTTACAAACCAAGG
Found at i:39064999 original size:40 final size:41
Alignment explanation
Indices: 39064897--39065017 Score: 154
Period size: 40 Copynumber: 3.0 Consensus size: 41
39064887 TAAAAGCCAC
* * *
39064897 CAGTGGATCCACGGTCTTCAAGTAACCATGCGATCCTTAAT
1 CAGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAAT
* * *
39064938 CAGTGGGTCCATGGTCATCAAGCAACCAT-TGATCCTCAAT
1 CAGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAAT
* * *
39064978 CGGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCAA
1 CAGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAA
39065018 ATTCTTCCCC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 34 0.51
41 33 0.49
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (41 bp):
CAGTGGATCCACGGTCATCAAGCAACCATGCGATCCTCAAT
Found at i:39065372 original size:27 final size:27
Alignment explanation
Indices: 39065315--39065574 Score: 134
Period size: 27 Copynumber: 9.6 Consensus size: 27
39065305 CAAACCAATA
* ** * *
39065315 GTATTTCTATAATTTTTGAAAGTCAAAG
1 GTATTTCTGTAATTTTCCAAA-TCGAGG
** *
39065343 GTATTTCTGTAATTTTGTAAATCGGGG
1 GTATTTCTGTAATTTTCCAAATCGAGG
* * **
39065370 GTATTTTTTTAATTTTCCAAATAAAGG
1 GTATTTCTGTAATTTTCCAAATCGAGG
39065397 GTATTTC-GATAATTTTCCAAATCGAGG
1 GTATTTCTG-TAATTTTCCAAATCGAGG
* * * * *
39065424 GTATTTCAGAAATTTTACAAGTTGAGG
1 GTATTTCTGTAATTTTCCAAATCGAGG
* ** **
39065451 ATATTT-TGATAATTTTATAGGTCGAGG
1 GTATTTCTG-TAATTTTCCAAATCGAGG
** * *
39065478 GTATTTCAATAATTTTACAAGTCGAGG
1 GTATTTCTGTAATTTTCCAAATCGAGG
* * * *
39065505 GTATTTCGGTAATTTCCCAAATCAAGA
1 GTATTTCTGTAATTTTCCAAATCGAGG
* * *
39065532 ATATTT-TGGTAATTTTACAAA-CCAGGG
1 GTATTTCT-GTAATTTTCCAAATCGA-GG
39065559 GTATTT-TGGTAATTTT
1 GTATTTCT-GTAATTTT
39065575 ATAAACCAAG
Statistics
Matches: 180, Mismatches: 46, Indels: 13
0.75 0.19 0.05
Matches are distributed among these distances:
26 3 0.02
27 158 0.88
28 19 0.11
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (27 bp):
GTATTTCTGTAATTTTCCAAATCGAGG
Found at i:39065536 original size:81 final size:81
Alignment explanation
Indices: 39065394--39065548 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 81
39065384 TTCCAAATAA
* * * * ** *
39065394 AGGGTATTTCGATAATTTTCCAAATCGAGGGTATTTCAGAAATTTTACAAGTTGAGGATATTTTG
1 AGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCAGAAATTTCACAAATCAAGAATATTTTG
39065459 ATAATTTTATAGGTCG
66 ATAATTTTATAGGTCG
* * * *
39065475 AGGGTATTTCAATAATTTTACAAGTCGAGGGTATTTCGGTAATTTCCCAAATCAAGAATATTTTG
1 AGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCAGAAATTTCACAAATCAAGAATATTTTG
*
39065540 GTAATTTTA
66 ATAATTTTA
39065549 CAAACCAGGG
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (81 bp):
AGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCAGAAATTTCACAAATCAAGAATATTTTG
ATAATTTTATAGGTCG
Found at i:39065537 original size:54 final size:54
Alignment explanation
Indices: 39065315--39065527 Score: 171
Period size: 54 Copynumber: 3.9 Consensus size: 54
39065305 CAAACCAATA
* * * ** *
39065315 GTATTTCTATAATTTTTGA-AAGTCAAAGGTATTTCTG-TAATTTTGTAAATCGGGG
1 GTATTTCAATAA-TTTT-ACAAGTCGAGGGTATTTC-GATAATTTTCCAAATCGAGG
*** * * **
39065370 GTATTTTTTTAATTTTCCAAATAAAGGGTATTTCGATAATTTTCCAAATCGAGG
1 GTATTTCAATAATTTTACAAGTCGAGGGTATTTCGATAATTTTCCAAATCGAGG
* * * ** **
39065424 GTATTTCAGA-AATTTTACAAGTTGAGGATATTTTGATAATTTTATAGGTCGAGG
1 GTATTTCA-ATAATTTTACAAGTCGAGGGTATTTCGATAATTTTCCAAATCGAGG
* *
39065478 GTATTTCAATAATTTTACAAGTCGAGGGTATTTCGGTAATTTCCCAAATC
1 GTATTTCAATAATTTTACAAGTCGAGGGTATTTCGATAATTTTCCAAATC
39065528 AAGAATATTT
Statistics
Matches: 123, Mismatches: 31, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
53 2 0.02
54 111 0.90
55 10 0.08
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (54 bp):
GTATTTCAATAATTTTACAAGTCGAGGGTATTTCGATAATTTTCCAAATCGAGG
Found at i:39065561 original size:81 final size:81
Alignment explanation
Indices: 39065394--39065601 Score: 186
Period size: 81 Copynumber: 2.6 Consensus size: 81
39065384 TTCCAAATAA
* * * * ** *
39065394 AGGGTATTTCGATAATTTTCCAAATCGAGGGTATTTCAGAAATTTTACAAGTTGAGGATATTTTG
1 AGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCAGAAATTTCACAAATCAAGAATATTTTG
* ***
39065459 ATAATTTTATAGGTCG
66 ATAATTTTACAAACCG
* * * *
39065475 AGGGTATTTCAATAATTTTACAAGTCGAGGGTATTTCGGTAATTTCCCAAATCAAGAATATTTTG
1 AGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCAGAAATTTCACAAATCAAGAATATTTTG
*
39065540 GTAATTTTACAAACC-
66 ATAATTTTACAAACCG
*** * * * *
39065555 AGGGGTATTTTGGTAATTTTATAAACCAAGGGTA-TTCAGTAATTTCA
1 A-GGGTATTTCAATAATTTTACAAATCGAGGGTATTTCAGAAATTTCA
39065602 ATAAATCTAT
Statistics
Matches: 101, Mismatches: 25, Indels: 3
0.78 0.19 0.02
Matches are distributed among these distances:
80 12 0.12
81 89 0.88
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (81 bp):
AGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCAGAAATTTCACAAATCAAGAATATTTTG
ATAATTTTACAAACCG
Found at i:39065575 original size:27 final size:27
Alignment explanation
Indices: 39065230--39065590 Score: 125
Period size: 27 Copynumber: 13.3 Consensus size: 27
39065220 TTTACCTATT
* * * *
39065230 AAGGGTATTTTAGTCATTTCACACTA-C
1 AAGGGTATTTTGGTAATTTTACA-AACC
* * *
39065257 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
* * *
39065284 AAGGCTATTTTAGAAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
** * ** *
39065311 AATAGTATTTCT-ATAATTTTTGAAAGTC
1 AAGGGTATTT-TGGTAATTTTACAAA-CC
* ** *
39065339 AAAGGTATTTCT-GTAATTTTGTAAATC
1 AAGGGTATTT-TGGTAATTTTACAAACC
** ** * **
39065366 GGGGGTATTTTTTTAATTTTCCAAATA
1 AAGGGTATTTTGGTAATTTTACAAACC
* * * *
39065393 AAGGGTATTTCGATAATTTTCCAAATC
1 AAGGGTATTTTGGTAATTTTACAAACC
* ** * ***
39065420 GAGGGTATTTCAGAAATTTTACAAGTT
1 AAGGGTATTTTGGTAATTTTACAAACC
* * * * ***
39065447 GAGGATATTTTGATAATTTTATAGGTC
1 AAGGGTATTTTGGTAATTTTACAAACC
* *** **
39065474 GAGGGTATTTCAATAATTTTACAAGTC
1 AAGGGTATTTTGGTAATTTTACAAACC
* * ** *
39065501 GAGGGTATTTCGGTAATTTCCCAAATC
1 AAGGGTATTTTGGTAATTTTACAAACC
**
39065528 AAGAATATTTTGGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
* *
39065555 AGGGGTATTTTGGTAATTTTATAAACC
1 AAGGGTATTTTGGTAATTTTACAAACC
39065582 AAGGGTATT
1 AAGGGTATT
39065591 CAGTAATTTC
Statistics
Matches: 254, Mismatches: 76, Indels: 8
0.75 0.22 0.02
Matches are distributed among these distances:
26 2 0.01
27 230 0.91
28 22 0.09
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACC
Found at i:39065696 original size:27 final size:26
Alignment explanation
Indices: 39065620--39065699 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
39065610 ATAAACCAAG
* *
39065620 GGTATTTCAATAATTCTACCATACAGG
1 GGTATTTCAGTAATTCTACC-TACAGC
*
39065647 GGCATTTCAGTAATTCTACCCTACAGC
1 GGTATTTCAGTAATTCTA-CCTACAGC
*
39065674 GGTATTTCAGTAATACTAGCCTACAG
1 GGTATTTCAGTAATTCTA-CCTACAG
39065700 ATATGAGATT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 44 0.96
28 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (26 bp):
GGTATTTCAGTAATTCTACCTACAGC
Found at i:39069223 original size:27 final size:28
Alignment explanation
Indices: 39069171--39069513 Score: 201
Period size: 27 Copynumber: 12.7 Consensus size: 28
39069161 TTTCATCTTA
* * * * *
39069171 CAAGGGTGTTTTGGTAAATCTACAAACT
1 CAAGGGTATTTCGGTAATTTTACAAAGT
* *
39069199 C-AGGGTATTTCGGTAATTTTGCAAA-C
1 CAAGGGTATTTCGGTAATTTTACAAAGT
** * * **
39069225 CAATAGCATTTCTGTAATTTTTGAAAGT
1 CAAGGGTATTTCGGTAATTTTACAAAGT
* *** **
39069253 CAAAGGTATTTATATAATTTTGTAAA-T
1 CAAGGGTATTTCGGTAATTTTACAAAGT
* * *
39069280 CAAGGGTGTTTCTGTAATTTTCCAAA-T
1 CAAGGGTATTTCGGTAATTTTACAAAGT
*
39069307 CAAGGGTATTTCAGTAATTTTACAAA-T
1 CAAGGGTATTTCGGTAATTTTACAAAGT
* * * *
39069334 CGAGTGTTTTTCGATAATTTTAC-AAGT
1 CAAGGGTATTTCGGTAATTTTACAAAGT
* * * *
39069361 CGAGGGTATTTCAGTAATTTT--TAGGT
1 CAAGGGTATTTCGGTAATTTTACAAAGT
** *
39069387 CAAGGGTATTTTAGTAATTTTAC-AGGT
1 CAAGGGTATTTCGGTAATTTTACAAAGT
* *
39069414 CAAGGGTATTTCGGTAATTTTA-TAGGT
1 CAAGGGTATTTCGGTAATTTTACAAAGT
*
39069441 CAAGGGTATTTTGGTAATTTTACAAA--
1 CAAGGGTATTTCGGTAATTTTACAAAGT
* * * *
39069467 CCAGGGATATTTTGGCAATTTTACAAA-C
1 CAAGGG-TATTTCGGTAATTTTACAAAGT
*
39069495 CAAGGGTA-TTCAGTAATTT
1 CAAGGGTATTTCGGTAATTT
39069514 CAGTAAATCT
Statistics
Matches: 253, Mismatches: 52, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
26 38 0.15
27 189 0.75
28 26 0.10
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (28 bp):
CAAGGGTATTTCGGTAATTTTACAAAGT
Found at i:39069407 original size:80 final size:80
Alignment explanation
Indices: 39069232--39069461 Score: 208
Period size: 80 Copynumber: 2.9 Consensus size: 80
39069222 AACCAATAGC
* ** * ** ** * * *
39069232 ATTTCTGTAATTTTTGAAAGTCAAAGGTATTTATATAATTTTGTAAATCAAGGGTGTTTCTGTAA
1 ATTTCAGTAATTTTACAAA-TCAAGGGTATTTCGATAATTTTACAAGTCAAGGGTATTTCAGTAA
* **
39069297 TTTTCCAAATCAAGGGT
65 TTTT-TAGGTCAAGGGT
* * * *
39069314 ATTTCAGTAATTTTACAAATCGAGTGTTTTTCGATAATTTTACAAGTCGAGGGTATTTCAGTAAT
1 ATTTCAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAGTCAAGGGTATTTCAGTAAT
39069379 TTTTAGGTCAAGGGT
66 TTTTAGGTCAAGGGT
* ** * * * **
39069394 ATTTTAGTAATTTTACAGGTCAAGGGTATTTCGGTAATTTTATAGGTCAAGGGTATTTTGGTAAT
1 ATTTCAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAGTCAAGGGTATTTCAGTAAT
39069459 TTT
66 TTT
39069462 ACAAACCAGG
Statistics
Matches: 118, Mismatches: 30, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
80 65 0.55
81 37 0.31
82 16 0.14
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (80 bp):
ATTTCAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAGTCAAGGGTATTTCAGTAAT
TTTTAGGTCAAGGGT
Found at i:39069487 original size:107 final size:107
Alignment explanation
Indices: 39069279--39069488 Score: 228
Period size: 107 Copynumber: 2.0 Consensus size: 107
39069269 ATTTTGTAAA
* * * *
39069279 TCAAGGGTGTTTCTGTAATTTTCCAAATCAAGGGTATTTCAGTAATTTTACAAATCGAGTGTTTT
1 TCAAGGGTATTTCTGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCAAGGGTTTT
* * *
39069344 TCGATAATTTTACAAGTCGAGGGTATTTCAGTAATTTTTAGG
66 TCGATAATTTTACAAGACCAGGGTATTTCAGCAATTTTTAGG
** * * **
39069386 TCAAGGGTATTT-TAGTAATTTTACAGGTCAAGGGTATTTCGGTAATTTTATAGGTCAAGGGTAT
1 TCAAGGGTATTTCT-GTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCAAGGGT-T
* **
39069450 TTT-GGTAATTTTACAA-ACCAGGGATATTTTGGCAATTTT
64 TTTCGATAATTTTACAAGACCAGGG-TATTTCAGCAATTTT
39069489 ACAAACCAAG
Statistics
Matches: 84, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
106 6 0.07
107 74 0.88
108 4 0.05
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (107 bp):
TCAAGGGTATTTCTGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCAAGGGTTTT
TCGATAATTTTACAAGACCAGGGTATTTCAGCAATTTTTAGG
Found at i:39069621 original size:27 final size:27
Alignment explanation
Indices: 39069537--39069627 Score: 92
Period size: 27 Copynumber: 3.4 Consensus size: 27
39069527 AACCAAGGGT
* *
39069537 ATTTTAGTAATTCTACCCTACAGGAGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* * * *
39069564 ATTTCAATAATTCAATCCTACAAGGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* * *
39069591 ATTTCAGTAATTCTGCCCTATAGGGGT
1 ATTTCAGTAATTCTACCCTACAGGGGC
*
39069618 ATTTTAGTAA
1 ATTTCAGTAA
39069628 AACTAGCCTA
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGGGC
Found at i:39069721 original size:17 final size:18
Alignment explanation
Indices: 39069699--39069733 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39069689 ATCTATTCAC
*
39069699 TTAGGCC-CATGGGCCAT
1 TTAGGCCACATGGCCCAT
39069716 TTAGGCCACATGGCCCAT
1 TTAGGCCACATGGCCCAT
39069734 CCCGACCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.20, C:0.31, G:0.26, T:0.23
Consensus pattern (18 bp):
TTAGGCCACATGGCCCAT
Found at i:39073469 original size:24 final size:24
Alignment explanation
Indices: 39073420--39073506 Score: 122
Period size: 24 Copynumber: 3.6 Consensus size: 24
39073410 ATTCAAATCA
* * *
39073420 GCACACATAGTGCTA-ATCAACTCC
1 GCACACATAGTGCCATA-CTACACC
39073444 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
*
39073468 GCACACATAGTGCCATACTACACA
1 GCACACATAGTGCCATACTACACC
39073492 GCACACATAGTGCCA
1 GCACACATAGTGCCA
39073507 ATGTACACTT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
24 57 0.98
25 1 0.02
ACGTcount: A:0.34, C:0.34, G:0.14, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:39075769 original size:39 final size:39
Alignment explanation
Indices: 39075715--39075792 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
39075705 AAAATCATCG
*
39075715 AAATAAGTTTTGAATTTCTTGGAACACATAAACGACTTC
1 AAATAAGTTTTGAATTTCTTGGAACACACAAACGACTTC
39075754 AAATAAGTTTTGAATTTCTTGGAACACACAAACGACTTC
1 AAATAAGTTTTGAATTTCTTGGAACACACAAACGACTTC
39075793 TGAACCTCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (39 bp):
AAATAAGTTTTGAATTTCTTGGAACACACAAACGACTTC
Found at i:39080704 original size:24 final size:24
Alignment explanation
Indices: 39080677--39080723 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
39080667 ATATGTTGAC
39080677 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
39080701 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
39080724 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:39080757 original size:24 final size:24
Alignment explanation
Indices: 39080687--39080749 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
39080677 ATTCAAATCA
* * * *
39080687 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
39080711 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
39080735 GCACACATAGTGCCA
1 GCACACATAGTGCCA
39080750 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:39084072 original size:26 final size:27
Alignment explanation
Indices: 39084018--39084072 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
39084008 ATTCAACACC
* * *
39084018 TAGGGGTATTTTGGTCATTTTTTCCCT
1 TAGGGGCATTTCGGTCAATTTTTCCCT
*
39084045 TAGGGGCATTTCGGT-AATTTTTCTCT
1 TAGGGGCATTTCGGTCAATTTTTCCCT
39084071 TA
1 TA
39084073 TTACGGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.49
Consensus pattern (27 bp):
TAGGGGCATTTCGGTCAATTTTTCCCT
Found at i:39084423 original size:30 final size:28
Alignment explanation
Indices: 39084330--39084427 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 28
39084320 TACATACATG
*
39084330 CATATGGCCCACTAGGTCCAA-TCTTATT
1 CATATGGCCCACTAGGCCCAATTC-TATT
* *
39084358 CAAATGGCCCATCTA-GCCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAATTC-TATT
* *
39084387 CTTATGGCCCCACCAGGCCCAATTCTCATT
1 CATATGG-CCCACTAGGCCCAATTCT-ATT
39084417 CATATGGCCCA
1 CATATGGCCCA
39084428 ATAGCCTCAA
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
28 14 0.25
29 21 0.38
30 21 0.38
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (28 bp):
CATATGGCCCACTAGGCCCAATTCTATT
Found at i:39084443 original size:59 final size:57
Alignment explanation
Indices: 39084332--39084445 Score: 131
Period size: 59 Copynumber: 2.0 Consensus size: 57
39084322 CATACATGCA
* * * * **
39084332 TATGGCCCACTAGGTCCAATCTTATTCAAATGGCCCATCTAGCCCAGTTCATATTCT
1 TATGGCCCACCAGGCCCAATCTCATTCAAATGGCCCATATAGCCCAAATCATATTCT
*
39084389 TATGGCCCCACCAGGCCCAATTCTCATTCATATGGCCCA-ATAGCCTCAAATCATATT
1 TATGG-CCCACCAGGCCCAA-TCTCATTCAAATGGCCCATATAGCC-CAAATCATATT
39084446 ATATTCATAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
57 5 0.11
58 17 0.36
59 25 0.53
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (57 bp):
TATGGCCCACCAGGCCCAATCTCATTCAAATGGCCCATATAGCCCAAATCATATTCT
Found at i:39086416 original size:50 final size:50
Alignment explanation
Indices: 39086336--39086573 Score: 259
Period size: 50 Copynumber: 4.7 Consensus size: 50
39086326 ACTGAAGCTC
* * *
39086336 TCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
* * *
39086386 TCTGGTACACGTAGTAGCCTGCA-TTCAGTACTACACATGTGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTT-AGTACTACACATGCGACCTATCAA
* * **
39086436 TTTGATACACGTAGTAGCCTGCACTTAGTACTACCCACATGATCGAAGT-T-AA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTA--CACATG--CGACCTATCAA
* *** *
39086488 -CGGGTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
*
39086537 TCTGGTACACGTAGTATCCTGCACTTAGTACTACACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
39086574 CATGACCTAA
Statistics
Matches: 153, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
47 4 0.03
49 10 0.07
50 100 0.65
51 28 0.18
52 7 0.05
53 1 0.01
54 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
Found at i:39086521 original size:101 final size:101
Alignment explanation
Indices: 39086397--39086578 Score: 276
Period size: 101 Copynumber: 1.8 Consensus size: 101
39086387 CTGGTACACG
* * * * *
39086397 TAGTAGCCTGCATTCAGTACTACACATGTGACTTATCCATTTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCATTCAGTACTACACATGCGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
*
39086462 AGTACTACCCACATGATCGAAGTTAACGGGTACGTA
66 AGTACTACACACATGATCGAAGTTAACGGGTACGTA
* *
39086498 TAGTAGCCTGCACTT-AGTACTACACATGCGACCTAACAATCTGGTACACGTAGTATCCTGCACT
1 TAGTAGCCTGCA-TTCAGTACTACACATGCGACCTAACAATCTGATACACGTAGTAGCCTGCACT
39086562 TAGTACTACACACATGA
65 TAGTACTACACACATGA
39086579 CCTAAAACTG
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 70 0.97
102 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCATTCAGTACTACACATGCGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACATGATCGAAGTTAACGGGTACGTA
Found at i:39086581 original size:50 final size:50
Alignment explanation
Indices: 39086336--39086629 Score: 254
Period size: 50 Copynumber: 5.8 Consensus size: 50
39086326 ACTGAAGCTC
* * * * *
39086336 TCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * *
39086386 TCTGGTACACGTAGTAGCCTGCA-TTCAGTACTACACATGTGACTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTT-AGTACTACACATGTGACCTAACAA
* * * ** * * *
39086436 TTTGATACACGTAGTAGCCTGCACTTAGTACTACCCACATGATCGAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA--CAA
* *** *
39086488 -CGGGTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* **
39086537 TCTGGTACACGTAGTATCCTGCACTTAGTACTACACACATGACCTAA-AA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * *
39086586 -CTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 TCTG--GT--ACACGTAGTAGCCTGCACTTAGTACTACACATGTG
39086630 TTCTCACAAT
Statistics
Matches: 191, Mismatches: 44, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
48 3 0.02
49 6 0.03
50 115 0.60
51 36 0.19
52 31 0.16
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
Found at i:39086626 original size:151 final size:150
Alignment explanation
Indices: 39086339--39086627 Score: 395
Period size: 151 Copynumber: 1.9 Consensus size: 150
39086329 GAAGCTCTCT
* *
39086339 GGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
** * ** * * *
39086404 CTGCATTCAGTACTACACATGTGACTTATCCATTTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTGCATTCAGTACTACACACATGACTAAAACATTTGAAACACATAGTAGCCTGCACATAGTACTA
39086469 CCCACATGATCGAAGTTAACG
131 -CCACATGATCGAAGTTAACG
* *
39086490 GGTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTATC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
*
39086555 CTGCACTT-AGTACTACACACATGACCTAAAAC-TGTCTTAAACACATAGTAGCCTGCACATAGT
66 CTGCA-TTCAGTACTACACACATGA-CTAAAACAT-T-TGAAACACATAGTAGCCTGCACATAGT
39086618 ACTA-CACATG
127 ACTACCACATG
39086628 TGTTCTCACA
Statistics
Matches: 121, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
151 87 0.72
152 7 0.06
153 27 0.22
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (150 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
CTGCATTCAGTACTACACACATGACTAAAACATTTGAAACACATAGTAGCCTGCACATAGTACTA
CCACATGATCGAAGTTAACG
Found at i:39088666 original size:25 final size:25
Alignment explanation
Indices: 39088595--39088647 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
39088585 TGAATCAATA
39088595 AACTCATGAGTAAAATATCAAACAT
1 AACTCATGAGTAAAATATCAAACAT
39088620 AACTCATGAGTAAAATATCAAACAT
1 AACTCATGAGTAAAATATCAAACAT
39088645 AAC
1 AAC
39088648 CATACTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.53, C:0.17, G:0.08, T:0.23
Consensus pattern (25 bp):
AACTCATGAGTAAAATATCAAACAT
Found at i:39088683 original size:15 final size:16
Alignment explanation
Indices: 39088663--39088692 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
39088653 TTATATATAT
39088663 CAAAACCA-AATCAAC
1 CAAAACCATAATCAAC
39088678 CAAAACCATAATCAA
1 CAAAACCATAATCAA
39088693 ATATAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.30, G:0.00, T:0.10
Consensus pattern (16 bp):
CAAAACCATAATCAAC
Found at i:39090083 original size:43 final size:42
Alignment explanation
Indices: 39089912--39090089 Score: 155
Period size: 43 Copynumber: 4.2 Consensus size: 42
39089902 TAACGCATAT
* * *
39089912 CATA-CAATGCCAACGTCCCATACGTGGTCTTACATGTAATCA
1 CATATCAATGCCAACGTCCCAGACGTGGTCTTACACG-AAACA
* * ** * *
39089954 CATGTCGATGCCATTGTCCCAGACAG-GGTCTTACATGAATCA
1 CATATCAATGCCAACGTCCCAGAC-GTGGTCTTACACGAAACA
* * * * *
39089996 CA-ATTACGATGCCGATGTCCAAGACGTGGTCTTACTCGAAAACA
1 CATA-T-CAATGCCAACGTCCCAGACGTGGTCTTACACG-AAACA
39090040 CATATCAATGCCAACGTCCCAGACGTGGTCTTACACGAGAACA
1 CATATCAATGCCAACGTCCCAGACGTGGTCTTACACGA-AACA
39090083 CATATCA
1 CATATCA
39090090 GAAATCCTAT
Statistics
Matches: 111, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
42 13 0.12
43 89 0.80
44 8 0.07
45 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (42 bp):
CATATCAATGCCAACGTCCCAGACGTGGTCTTACACGAAACA
Found at i:39091469 original size:27 final size:27
Alignment explanation
Indices: 39091439--39091532 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 27
39091429 AATCTCATAT
*
39091439 CTGTAGGCTAGCATTACTGAAATACCC
1 CTGTAGGCTAGAATTACTGAAATACCC
39091466 CTGTAGGGC-AGAATTACTGAAATACCC
1 CTGTA-GGCTAGAATTACTGAAATACCC
* *
39091493 TTGTAGTG-TAGAATTACTGAAATGCCC
1 CTGTAG-GCTAGAATTACTGAAATACCC
* *
39091520 CTATAGGGTAGAA
1 CTGTAGGCTAGAA
39091533 CTACAAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
26 2 0.03
27 53 0.91
28 3 0.05
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (27 bp):
CTGTAGGCTAGAATTACTGAAATACCC
Found at i:39091568 original size:27 final size:26
Alignment explanation
Indices: 39091538--39091754 Score: 195
Period size: 27 Copynumber: 8.0 Consensus size: 26
39091528 TAGAACTACA
* * *
39091538 AAAATACCATTGGTTTACAAATTTACC
1 AAAATACC-CTGGTTTATAAAATTACC
39091565 AAAATATCCCTGGTTTATAAAATTACC
1 AAAATA-CCCTGGTTTATAAAATTACC
* *
39091592 AAAATACTCTTGGTTTGTAAAATTACC
1 AAAATAC-CCTGGTTTATAAAATTACC
* *
39091619 AAAATACCCCTGATTTATGAAATTACC
1 AAAATA-CCCTGGTTTATAAAATTACC
*
39091646 AAAATACCCTCGACTTGTA-AAAATTACC
1 AAAATACCCT-G-GTT-TATAAAATTACC
* *
39091674 AAAATACCCCTGATTTATGAAATTACC
1 AAAATA-CCCTGGTTTATAAAATTACC
*
39091701 AAAATACCCTCGACTTGTA-AAAATTACC
1 AAAATACCCT-G-GTT-TATAAAATTACC
* *
39091729 AAAATACCCCTGATTTATAGAATTAC
1 AAAATA-CCCTGGTTTATAAAATTAC
39091755 TGTTTTACCC
Statistics
Matches: 160, Mismatches: 17, Indels: 26
0.79 0.08 0.13
Matches are distributed among these distances:
26 13 0.08
27 98 0.61
28 37 0.23
29 12 0.08
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (26 bp):
AAAATACCCTGGTTTATAAAATTACC
Found at i:39091768 original size:55 final size:55
Alignment explanation
Indices: 39091560--39091754 Score: 304
Period size: 55 Copynumber: 3.6 Consensus size: 55
39091550 GTTTACAAAT
* * * * * **
39091560 TTACCAAAATATCCCTGGTTTATAAAATTACCAAAATACTCTTGGTTTGT-AAAA
1 TTACCAAAATACCCCTGATTTATGAAATTACCAAAATACCCTCGACTTGTAAAAA
39091614 TTACCAAAATACCCCTGATTTATGAAATTACCAAAATACCCTCGACTTGTAAAAA
1 TTACCAAAATACCCCTGATTTATGAAATTACCAAAATACCCTCGACTTGTAAAAA
39091669 TTACCAAAATACCCCTGATTTATGAAATTACCAAAATACCCTCGACTTGTAAAAA
1 TTACCAAAATACCCCTGATTTATGAAATTACCAAAATACCCTCGACTTGTAAAAA
39091724 TTACCAAAATACCCCTGATTTAT-AGAATTAC
1 TTACCAAAATACCCCTGATTTATGA-AATTAC
39091755 TGTTTTACCC
Statistics
Matches: 132, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
54 44 0.33
55 88 0.67
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (55 bp):
TTACCAAAATACCCCTGATTTATGAAATTACCAAAATACCCTCGACTTGTAAAAA
Found at i:39091838 original size:27 final size:27
Alignment explanation
Indices: 39091783--39091855 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
39091773 CAAAATTATT
* * *
39091783 GAAATACCCTTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAACTACC
* *
39091810 GAAATACCCCTGTAGGGTAGGACTCCC
1 GAAATACCCCTGTAGGGTAGAACTACC
**
39091837 GATTTACCCCTAG-AGGGTA
1 GAAATACCCCT-GTAGGGTA
39091856 AAATGACTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAACTACC
Found at i:39097292 original size:27 final size:27
Alignment explanation
Indices: 39097250--39097356 Score: 133
Period size: 27 Copynumber: 4.0 Consensus size: 27
39097240 AATCTCATAT
* * *
39097250 CTGTAGGCTAGCATTACTGAAATACGC
1 CTGTAGGGTAGAATTACTGAAATACCC
* *
39097277 CTGTTGGGTAGAATTATTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
39097304 CTGTAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* **
39097331 CTATAGGGTAGAATTACCAAAATACC
1 CTGTAGGGTAGAATTACTGAAATACC
39097357 ATTGGTTTAC
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:39097411 original size:27 final size:27
Alignment explanation
Indices: 39097342--39097435 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 27
39097332 TATAGGGTAG
** * **
39097342 AATTACCAAAATACCATTGGTTTACAA
1 AATTACCAAAATACCCCTAGTTTGTAA
39097369 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
39097396 AATTACCAAAATA-CCCTTGATTTGTGA
1 AATTACCAAAATACCCCTAG-TTTGTAA
*
39097423 AATTACCGAAATA
1 AATTACCAAAATA
39097436 ACCTCAACTG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.09
27 53 0.91
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:39097518 original size:27 final size:27
Alignment explanation
Indices: 39097342--39097519 Score: 99
Period size: 27 Copynumber: 6.6 Consensus size: 27
39097332 TATAGGGTAG
* * * *
39097342 AATTACCAAAATACCATTGGTTTACAA
1 AATTATCAAAATACCCTCGATTTACAA
* * **
39097369 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTATCAAAATACCCTCGA-TTTACAA
* * ***
39097396 AATTACCAAAATACCCTTGATTTGTGA
1 AATTATCAAAATACCCTCGATTTACAA
* * * * *
39097423 AATTACCGAAATAACCTCAACTGTA-AA
1 AATTATCAAAATACCCTCGA-TTTACAA
* * *
39097450 AATTACCAAAGTACCCTCGATTTACAG
1 AATTATCAAAATACCCTCGATTTACAA
***
39097477 AATTATCATTTTACCCTCGATTTACAA
1 AATTATCAAAATACCCTCGATTTACAA
*
39097504 AATTATTAAAATACCC
1 AATTATCAAAATACCC
39097520 CTGTAGGGTA
Statistics
Matches: 116, Mismatches: 31, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
26 3 0.03
27 110 0.95
28 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTATCAAAATACCCTCGATTTACAA
Found at i:39097534 original size:27 final size:27
Alignment explanation
Indices: 39097504--39097557 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
39097494 CGATTTACAA
*
39097504 AATTATTAAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
39097531 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCCTGTAGGGTAG
39097558 GACTACCGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
AATTACTAAAATACCCCTGTAGGGTAG
Found at i:39097572 original size:27 final size:27
Alignment explanation
Indices: 39097511--39097583 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
39097501 CAAAATTATT
* *
39097511 AAAATACCCCTGTAGGGTAGAATTACT
1 AAAATACCCCTGTAGGGTAGAACTACC
*
39097538 AAAATACCCCTGTAGGGTAGGACTACC
1 AAAATACCCCTGTAGGGTAGAACTACC
* ** *
39097565 GATTTACCCCTGAAGGGTA
1 AAAATACCCCTGTAGGGTA
39097584 AAATGACTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (27 bp):
AAAATACCCCTGTAGGGTAGAACTACC
Found at i:39100540 original size:43 final size:44
Alignment explanation
Indices: 39100393--39100549 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 44
39100383 TGTGTTATTG
* * * * *
39100393 TGTAAGACCACGTTTGGGA-TGTTGGCATCGAT-TTGTAATTTACG
1 TGTAAAACCACGTCTGGGACAGTTGGCATCGATATT-TGA-TTACA
* * * * *
39100437 TGTAAGACCATGTCTGGGACA-TTAGCATCG-TATATGATTTCA
1 TGTAAAACCACGTCTGGGACAGTTGGCATCGATATTTGATTACA
*
39100479 TGTAAAACC-CTATCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAAACCAC-GTCTGGGACAGTTGGCATCGATATTTGATTACA
*
39100522 TGTAAAACCACGTGTGGGAC-GTTGGCAT
1 TGTAAAACCACGTCTGGGACAGTTGGCAT
39100550 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
42 28 0.31
43 35 0.39
44 27 0.30
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (44 bp):
TGTAAAACCACGTCTGGGACAGTTGGCATCGATATTTGATTACA
Found at i:39105604 original size:40 final size:40
Alignment explanation
Indices: 39105514--39105604 Score: 51
Period size: 40 Copynumber: 2.3 Consensus size: 40
39105504 TCGAATGATG
* * * * *
39105514 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*** * *
39105554 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39105594 TCCGGGCTAAG
1 TCCGGGTTAAG
39105605 CCGACTAAGA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
40 31 0.79
41 8 0.21
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39105631 original size:49 final size:49
Alignment explanation
Indices: 39105559--39105655 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
39105549 CCATATCCGA
39105559 ACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCG
1 ACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCG
*
39105608 ACTAAGATCTGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCC
1 ACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCC
39105656 CGAAGGTATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.24
Consensus pattern (49 bp):
ACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCG
Found at i:39106121 original size:40 final size:40
Alignment explanation
Indices: 39105618--39106107 Score: 894
Period size: 40 Copynumber: 12.3 Consensus size: 40
39105608 ACTAAGATCT
* * *
39105618 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
* *
39105657 GAAGGTATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
39105697 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
39105737 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
39105777 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
39105817 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
39105857 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
39105897 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
39105937 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
39105977 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
39106017 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
* *
39106057 GAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCC
1 GAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCC
39106097 GAAGGCATTTG
1 GAAGGCATTTG
39106108 AACGAGTAGC
Statistics
Matches: 440, Mismatches: 9, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
39 31 0.07
40 407 0.93
41 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCC
Found at i:39113409 original size:40 final size:41
Alignment explanation
Indices: 39113211--39113395 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 41
39113201 TCGAATGATG
* * *
39113211 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
** * *
39113251 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
39113291 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
39113330 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
39113371 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39113396 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:39113417 original size:79 final size:79
Alignment explanation
Indices: 39113264--39113430 Score: 196
Period size: 79 Copynumber: 2.1 Consensus size: 79
39113254 GAACTAAGAT
* **
39113264 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
39113329 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
39113343 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* * *
39113406 TATAT-CTGGTTAAATT
63 TAAATCCGGGTTAAATC
39113422 CCGAAGGCA
1 CCGAAGGCA
39113431 CGTGATTTGG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 51 0.68
80 22 0.29
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:39117396 original size:86 final size:85
Alignment explanation
Indices: 39117251--39117679 Score: 469
Period size: 86 Copynumber: 5.1 Consensus size: 85
39117241 TATTTAAAAA
* *** *** * * *
39117251 AATTAAAATTGAATAAAATATGTTTCAAAATTTATTCCCGTCATTTAACAAATTTTATTCCATTC
1 AATTAAAATTGAATAAAATTTGTTTCGGGATTTATTCCTACCGTTCAACAGATTTTATTCCATT-
*
39117316 TTTATTTTGTTTCCAAACGAG
65 TTTATTTTGTTTCCAAACAAG
* * *
39117337 AATTAAAATTGAATAAAATTTGTTTCGAGATTTATTCCTACCATTCAATAGATTTTATTCCATTT
1 AATTAAAATTGAATAAAATTTGTTTCGGGATTTATTCCTACCGTTCAACAGATTTTATTCCA-TT
* *
39117402 TTTATTTTGTCTCCAAACGAG
65 TTTATTTTGTTTCCAAACAAG
* * *
39117423 ATTTAAAATTGAATAAAATTTGTTTAGGGATTTATTACCT-CCGTTCAACATATTTTATTCCATT
1 AATTAAAATTGAATAAAATTTGTTTCGGGATTTATT-CCTACCGTTCAACAGATTTTATTCCATT
*
39117487 TTGATTTTGTTTCCAAACAAG
65 TTTATTTTGTTTCCAAACAAG
* * *
39117508 AATTAAAATTGAAT--AATTCTGTTTCGGGATTTATTCCCACCGTTCAATAGATTTTATTCAATT
1 AATTAAAATTGAATAAAATT-TGTTTCGGGATTTATTCCTACCGTTCAACAGATTTTATTCCATT
*
39117571 TTTATTTTGTTTCCAAATAAG
65 TTTATTTTGTTTCCAAACAAG
* * * *
39117592 AATT--AATTGAAT--AATTCTATTTCGGGATTTATTCCTGCCGTGT-AACAGATTTTATTCGAG
1 AATTAAAATTGAATAAAATT-TGTTTCGGGATTTATTCCTACCGT-TCAACAGATTTTATTCCAT
* *
39117652 TTTGATTTAGTTTCCAAACAAG
64 TTTTATTTTGTTTCCAAACAAG
*
39117674 ATTTAA
1 AATTAA
39117680 TTAAATCGTT
Statistics
Matches: 299, Mismatches: 37, Indels: 16
0.85 0.11 0.05
Matches are distributed among these distances:
82 70 0.23
83 7 0.02
84 59 0.20
85 33 0.11
86 125 0.42
87 5 0.02
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.44
Consensus pattern (85 bp):
AATTAAAATTGAATAAAATTTGTTTCGGGATTTATTCCTACCGTTCAACAGATTTTATTCCATTT
TTATTTTGTTTCCAAACAAG
Found at i:39117684 original size:170 final size:168
Alignment explanation
Indices: 39117297--39117679 Score: 472
Period size: 166 Copynumber: 2.3 Consensus size: 168
39117287 CCCGTCATTT
* * * * *
39117297 AACAAATTTTATTCCATTCTTTATTTTGTTTCCAAACGAGAATTAAAATTGAATAAAATTTGTTT
1 AACAGATTTTATTCCAGT-TTGATTTAGTTTCCAAACAAGAATTAAAATTGAAT-AAATTTGTTT
* * * *
39117362 CGAGATTTATTCCTACCATTCAATAGATTTTATTCCATTTTTTATTTTGTCTCCAAACGAGATTT
64 CGAGATTTATTCCCACCATTCAATAGATTTTATTCCAATTTTTATTTTGTCTCCAAACAAGAATT
*
39117427 AAAATTGAATAAAATTTGTTTAGGGATTTATTACCTCCGTTC
129 -AAATTGAAT-AAATTTATTTAGGGATTTATTACCTCCGTTC
* * *
39117469 AACATATTTTATTCCATTTTGATTTTGTTTCCAAACAAGAATTAAAATTGAAT-AATTCTGTTTC
1 AACAGATTTTATTCCAGTTTGATTTAGTTTCCAAACAAGAATTAAAATTGAATAAATT-TGTTTC
* * * *
39117533 GGGATTTATTCCCACCGTTCAATAGATTTTATT-CAATTTTTATTTTGTTTCCAAATAAGAATT-
65 GAGATTTATTCCCACCATTCAATAGATTTTATTCCAATTTTTATTTTGTCTCCAAACAAGAATTA
*
39117596 AATTGAAT-AATTCTATTTCGGGATTTATT-CCTGCCGTGT-
130 AATTGAATAAATT-TATTTAGGGATTTATTACCT-CCGT-TC
* *
39117635 AACAGATTTTATTCGAGTTTGATTTAGTTTCCAAACAAGATTTAA
1 AACAGATTTTATTCCAGTTTGATTTAGTTTCCAAACAAGAATTAA
39117680 TTAAATCGTT
Statistics
Matches: 189, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
165 7 0.04
166 58 0.31
167 9 0.05
169 29 0.15
170 36 0.19
171 33 0.17
172 17 0.09
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (168 bp):
AACAGATTTTATTCCAGTTTGATTTAGTTTCCAAACAAGAATTAAAATTGAATAAATTTGTTTCG
AGATTTATTCCCACCATTCAATAGATTTTATTCCAATTTTTATTTTGTCTCCAAACAAGAATTAA
ATTGAATAAATTTATTTAGGGATTTATTACCTCCGTTC
Found at i:39121401 original size:27 final size:27
Alignment explanation
Indices: 39121363--39121442 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
39121353 AGTGGATAAG
* * **
39121363 TTGTAGAATTACTAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGAC
39121390 TTGTAAAATTACCAAAATA-CCCTCGAC
1 TTGTAAAATTACCAAAATACCCCT-GAC
*
39121417 TTGTAAAATTACCAAAGTACCCCTGA
1 TTGTAAAATTACCAAAATACCCCTGA
39121443 TTTAAAGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 4 0.09
27 38 0.83
28 4 0.09
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGAC
Found at i:39121453 original size:27 final size:25
Alignment explanation
Indices: 39121369--39121457 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 25
39121359 TAAGTTGTAG
* *
39121369 AATTACTAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCT-GATT-TAA
39121396 AATTACCAAAATA-CCCTCGACTTGTAA
1 AATTACCAAAATACCCCT-GA-TT-TAA
*
39121423 AATTACCAAAGTACCCCTGATTTAAA
1 AATTACCAAAATACCCCTGATTT-AA
39121449 GAATTACCA
1 -AATTACCA
39121458 TTTTACCCTC
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
25 1 0.02
26 9 0.17
27 40 0.74
28 4 0.07
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.28
Consensus pattern (25 bp):
AATTACCAAAATACCCCTGATTTAA
Found at i:39121465 original size:54 final size:53
Alignment explanation
Indices: 39121363--39121494 Score: 124
Period size: 54 Copynumber: 2.5 Consensus size: 53
39121353 AGTGGATAAG
* * * *
39121363 TTGTAGAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCGA
1 TTGTAAAATTACCAAAATACCCCTGATTTGAAAAATTACCAAAATACCCTCGA
* ***
39121416 CTTGTAAAATTACCAAAGTACCCCTGATTT-AAAGAATTACCATTTTACCCTCGA
1 -TTGTAAAATTACCAAAATACCCCTGATTTGAAA-AATTACCAAAATACCCTCGA
* * *
39121470 TT-TAAAAAATATCAAAATATCCCTG
1 TTGT-AAAATTACCAAAATACCCCTG
39121495 TAGGGTAGGA
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
52 1 0.02
53 21 0.33
54 42 0.66
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (53 bp):
TTGTAAAATTACCAAAATACCCCTGATTTGAAAAATTACCAAAATACCCTCGA
Done.