Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 117 of 410
Found at i:35077655 original size:40 final size:40
Alignment explanation
Indices: 35077581--35077799 Score: 284
Period size: 40 Copynumber: 5.5 Consensus size: 40
35077571 AAGTATCTTT
* *
35077581 GGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTC
* **
35077620 GGGTCTTAGCCCGGATATAGTCACTAGCATGAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
35077660 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
*
35077700 GGGA-TTAGCCCGGGTATAG-CAACTACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGCCTTC
* * *
35077742 GAGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
35077782 GGGACTTAGCCCGGATAT
1 GGGACTTAGCCCGGATAT
35077800 CATCCGAATA
Statistics
Matches: 158, Mismatches: 14, Indels: 15
0.84 0.07 0.08
Matches are distributed among these distances:
38 1 0.01
39 25 0.16
40 97 0.61
41 1 0.01
42 17 0.11
43 17 0.11
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (40 bp):
GGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTC
Found at i:35077759 original size:82 final size:79
Alignment explanation
Indices: 35077586--35077799 Score: 272
Period size: 82 Copynumber: 2.7 Consensus size: 79
35077576 TCTTTGGGAT
* *
35077586 TTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCA
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGG-ATTAGCCCGGATATAGTCACTAGCA
** *
35077649 TGAATGCCTTCGGGAC
64 CAAATGCCTTCGAGAC
*
35077665 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGATTAGCCCGGGTATAG-CAACTACTCG
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGATTAGCCCGGATATAGTC-ACTA---G
35077729 CACAAATGCCTTCGAGAC
62 CACAAATGCCTTCGAGAC
* *
35077747 TTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGA-TTAGCCCGGATAT
35077800 CATCCGAATA
Statistics
Matches: 119, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 22 0.18
80 30 0.25
81 1 0.01
82 53 0.45
83 12 0.10
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGATTAGCCCGGATATAGTCACTAGCACA
AATGCCTTCGAGAC
Found at i:35084483 original size:34 final size:34
Alignment explanation
Indices: 35084438--35084534 Score: 124
Period size: 34 Copynumber: 2.9 Consensus size: 34
35084428 TACAATGTTG
* * **
35084438 ATCAGTTTGGGCCTAAGCCCATTTCAGTCGCA-A
1 ATCAGTGTGGGCCTTAGCCCATTTCAGTAACAGA
* *
35084471 TATCAGTGTGGGCCTTAGCCCAATACAGTAACAGA
1 -ATCAGTGTGGGCCTTAGCCCATTTCAGTAACAGA
35084506 ATCAGTGTGGGCCTTAGCCCATTTCAGTA
1 ATCAGTGTGGGCCTTAGCCCATTTCAGTA
35084535 CAGTATTAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
34 53 0.98
35 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.27
Consensus pattern (34 bp):
ATCAGTGTGGGCCTTAGCCCATTTCAGTAACAGA
Found at i:35089434 original size:49 final size:49
Alignment explanation
Indices: 35089379--35089609 Score: 286
Period size: 49 Copynumber: 4.7 Consensus size: 49
35089369 CTGGTACGCA
* * *
35089379 TAGTAGCATGCACTTAGTACTACACTTGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
** *
35089428 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * *
35089478 TAGTAGCC-GCACTTAGTACTACACACGTGATCGAAGTTGT-CGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCG-GTACACG
*
35089528 TAGTAGCCTGCACTTAGTACTACACATGTGAACAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* *
35089577 TAGTAGCTTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
35089610 TCACAATAGA
Statistics
Matches: 153, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
49 93 0.61
50 39 0.25
51 21 0.14
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:35089537 original size:100 final size:100
Alignment explanation
Indices: 35089428--35089607 Score: 299
Period size: 100 Copynumber: 1.8 Consensus size: 100
35089418 CCGGTACACG
*
35089428 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACGTAGTAGC-CGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGAAC-AACCATCCGATACACGTAGTAGCTCGCACTT
35089492 AGTACTACACACGTGATCGAAGTTGTCGAGTACGCA
65 AGTACTACACACGTGATCGAAGTTGTCGAGTACGCA
** * *
35089528 TAGTAGCCTGCACTTAGTACTACACATGTGAACAATTATCCGGTACACGTAGTAGCTTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGAACAACCATCCGATACACGTAGTAGCTCGCACTTA
35089593 GTACTACACACGTGA
66 GTACTACACACGTGA
35089608 CCTCACAATA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
99 20 0.27
100 54 0.73
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGAACAACCATCCGATACACGTAGTAGCTCGCACTTA
GTACTACACACGTGATCGAAGTTGTCGAGTACGCA
Found at i:35097630 original size:49 final size:49
Alignment explanation
Indices: 35097568--35097807 Score: 252
Period size: 49 Copynumber: 4.9 Consensus size: 49
35097558 CAAAGCTATA
*
35097568 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATC
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATC
* * **
35097617 CGGTACGCGTAGTAGCCTACACTTAGTACTACAC-TCGTGACCTAACAATC
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACAT-GTGACC-AATTATC
* * * ** *
35097667 TGATACACGCAGTAGCC-GCACTTAGTACTACACACATGATCGAAGTTAT-
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATC
** *
35097716 TGGGTACGCACAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
1 T-GGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATC
* * * *
35097766 TGGTACACGTAGTAGCCTGTACTGAGTACTACACACGTGACC
1 TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACC
35097808 TCACAATAGA
Statistics
Matches: 154, Mismatches: 29, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
48 1 0.01
49 96 0.62
50 38 0.25
51 19 0.12
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (49 bp):
TGGTACGCGTAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATC
Found at i:35097722 original size:100 final size:98
Alignment explanation
Indices: 35097578--35097807 Score: 266
Period size: 100 Copynumber: 2.3 Consensus size: 98
35097568 TGGTACGCAT
** **
35097578 AGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACGCGTAGTAGCCTACACTTAG
1 AGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCGGTACGCACAGTAGCCTACACTTAG
*
35097643 TACTACAC-TCGTGACCTAACAATCTGATACACGC
66 TACTACACAT-GCGACC-AACAATCTGATACACGC
* ** *
35097677 AGTAGCC-GCACTTAGTACTACACACATGATCGAAGTTATTGGGTACGCACAGTAGCCTGCACTT
1 AGTAGCCTGCACTTAGTACTACACACATGA-CCAA-TTATCCGGTACGCACAGTAGCCTACACTT
** * *
35097741 AGTACTACACATGCGACCAATTATCTGGTACACGT
64 AGTACTACACATGCGACCAACAATCTGATACACGC
* * *
35097776 AGTAGCCTGTACTGAGTACTACACACGTGACC
1 AGTAGCCTGCACTTAGTACTACACACATGACC
35097808 TCACAATAGA
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
98 20 0.18
99 31 0.28
100 58 0.53
101 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (98 bp):
AGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCGGTACGCACAGTAGCCTACACTTAG
TACTACACATGCGACCAACAATCTGATACACGC
Found at i:35106652 original size:27 final size:26
Alignment explanation
Indices: 35106600--35106652 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
35106590 ATATATAATT
*
35106600 ATTATAAAATAATTATTTGTACTTAA
1 ATTATAAAATAATTATTTGTAATTAA
*
35106626 ATTATTAACATAATTAATTT-TAATTAA
1 ATTA-TAAAATAATT-ATTTGTAATTAA
35106653 TTTTATACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.17
27 15 0.65
28 4 0.17
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (26 bp):
ATTATAAAATAATTATTTGTAATTAA
Found at i:35106666 original size:12 final size:10
Alignment explanation
Indices: 35106636--35106677 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
35106626 ATTATTAACA
35106636 TAATTAATTT
1 TAATTAATTT
35106646 TAATTAATTT
1 TAATTAATTT
35106656 TATACTTAATTT
1 TA-A-TTAATTT
*
35106668 TGATT-ATTT
1 TAATTAATTT
35106677 T
1 T
35106678 TGACAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 5 0.17
10 14 0.48
11 2 0.07
12 8 0.28
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (10 bp):
TAATTAATTT
Found at i:35115013 original size:40 final size:40
Alignment explanation
Indices: 35114935--35115079 Score: 197
Period size: 40 Copynumber: 3.6 Consensus size: 40
35114925 TCGAATGATG
*
35114935 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGCTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35114974 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35115014 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
35115055 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35115080 AACGAGTAGC
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
39 19 0.20
40 73 0.78
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35115086 original size:80 final size:79
Alignment explanation
Indices: 35114935--35115102 Score: 191
Period size: 80 Copynumber: 2.1 Consensus size: 79
35114925 TCGAATGATG
* * *
35114935 TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTTGCTAAATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTG
**
35115000 TGCGAGTTA-CTAAA
66 AACGAG-TAGCTAAA
* * *
35115014 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCAT
*
35115077 TTGAACGAGTAGCTATA
63 TTGAACGAGTAGCTAAA
35115094 TCC-GGTTAA
1 TCCGGGTTAA
35115103 ACTCCGAAGG
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
79 29 0.38
80 45 0.59
81 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTG
AACGAGTAGCTAAA
Found at i:35115093 original size:40 final size:40
Alignment explanation
Indices: 35114936--35115098 Score: 129
Period size: 40 Copynumber: 4.1 Consensus size: 40
35114926 CGAATGATGT
** * *
35114936 CCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGTTGCTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTACTATAA
* ** *
35114974 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGCTAAG-TCCCGAAGGCATTTGAACGAGCTACTATAA
* **
35115014 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTACTATAA
* * *
35115055 CCGGGCTATGTCCCGAAGGTATTTGAACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTA-CTATAA
35115095 CCGG
1 CCGG
35115099 TTAAACTCCG
Statistics
Matches: 108, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
39 20 0.19
40 86 0.80
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTACTATAA
Found at i:35117081 original size:46 final size:47
Alignment explanation
Indices: 35116934--35117081 Score: 130
Period size: 46 Copynumber: 3.2 Consensus size: 47
35116924 GTAACCCGCC
35116934 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTA--TACCAT
* * * * * *
35116983 -CTCA-CGAACTCAGATTCAACTCAACGAGTTC-GA-AC-ATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTATAC-CAT
* *
35117026 CCGTAAGTGAACTCGGGCTCAACTCAACGAGTTCGGATGCTAAACCAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTATACCAT
35117074 CCT-AGTGA
1 CCTAAGTGA
35117082 CATGTCACTT
Statistics
Matches: 77, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
41 1 0.01
43 4 0.05
44 2 0.03
45 2 0.03
46 30 0.39
47 27 0.35
48 9 0.12
49 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (47 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTATACCAT
Found at i:35131771 original size:29 final size:29
Alignment explanation
Indices: 35131732--35131806 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
35131722 GGTTGAGAGA
* *
35131732 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
35131761 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
35131790 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
35131807 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:35139678 original size:29 final size:29
Alignment explanation
Indices: 35139639--35139713 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
35139629 GGTTGAGAGA
* *
35139639 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
35139668 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
35139697 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
35139714 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:35141903 original size:16 final size:16
Alignment explanation
Indices: 35141884--35141914 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
35141874 TCCATTATGA
35141884 ACTCGGACCTCTCAAT
1 ACTCGGACCTCTCAAT
35141900 ACTCGGACCTCTCAA
1 ACTCGGACCTCTCAA
35141915 CGAGTTTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.39, G:0.13, T:0.23
Consensus pattern (16 bp):
ACTCGGACCTCTCAAT
Found at i:35143467 original size:32 final size:32
Alignment explanation
Indices: 35143431--35143495 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
35143421 GATAGTAGGA
35143431 TAGTGTAATGAAGTCTCTGATGATCCCCAAAT
1 TAGTGTAATGAAGTCTCTGATGATCCCCAAAT
*
35143463 TAGTGTGATGAAGTCTCTGATGATCCCCAAAT
1 TAGTGTAATGAAGTCTCTGATGATCCCCAAAT
35143495 T
1 T
35143496 CGAGCTAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (32 bp):
TAGTGTAATGAAGTCTCTGATGATCCCCAAAT
Found at i:35154586 original size:35 final size:35
Alignment explanation
Indices: 35154540--35154610 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
35154530 CATCTCCGGA
*
35154540 GCTTGGAAAATATGGAAAGTAATCGTCAAAGATAT
1 GCTTGGAAAATATGGAAAGGAATCGTCAAAGATAT
* * *
35154575 GCTTGGAAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGAAAATATGGAAAGGAATCGTCAAAGATAT
35154610 G
1 G
35154611 TGATCCTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.25
Consensus pattern (35 bp):
GCTTGGAAAATATGGAAAGGAATCGTCAAAGATAT
Found at i:35157377 original size:66 final size:68
Alignment explanation
Indices: 35157301--35157487 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
35157291 TAGTACCACT
*
35157301 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
35157363 CACG
65 CACG
35157367 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
35157432 ATCACG
63 ATCACG
35157438 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
35157488 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:35157412 original size:71 final size:71
Alignment explanation
Indices: 35157324--35157487 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35157314 CGATTTGTCT
35157324 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35157389 CTTTCA
66 CTTTCA
35157395 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35157460 CTTTCA
66 CTTTCA
35157466 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35157488 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35157525 original size:71 final size:70
Alignment explanation
Indices: 35157324--35157521 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
35157314 CGATTTGTCT
* * *
35157324 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
35157389 CTTTCA
65 CTTTCA
* * *
35157395 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
35157460 CTTTCA
65 CTTTCA
* *
35157466 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
35157522 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35160702 original size:35 final size:35
Alignment explanation
Indices: 35160661--35160731 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
35160651 TATCTCCAGA
*
35160661 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
* * *
35160696 GCTTGGCAAATATGGAAGGGGATCTTCACAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
35160731 G
1 G
35160732 TGATCCTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
Found at i:35160946 original size:46 final size:46
Alignment explanation
Indices: 35160880--35160972 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
35160870 AAGGCCTCTC
35160880 CCCCTTATTGTATTCATTCAGTTGTTAATAGAATTTTGAGAGCATT
1 CCCCTTATTGTATTCATTCAGTTGTTAATAGAATTTTGAGAGCATT
35160926 CCCCTTATTGTATTCATTCAGTTGTTAATAGAATTTTGAGAGCATT
1 CCCCTTATTGTATTCATTCAGTTGTTAATAGAATTTTGAGAGCATT
35160972 C
1 C
35160973 ACTCAAACTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (46 bp):
CCCCTTATTGTATTCATTCAGTTGTTAATAGAATTTTGAGAGCATT
Found at i:35163210 original size:40 final size:40
Alignment explanation
Indices: 35163155--35163364 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
35163145 GAACATTGAA
35163155 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
35163195 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
35163235 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
35163275 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
35163314 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
35163355 CTATATCCGG
1 ATATATCCGG
35163365 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:35173289 original size:40 final size:40
Alignment explanation
Indices: 35173196--35173345 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 40
35173186 AAATTGAATG
* * * * *
35173196 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* *
35173235 -TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
* * * *
35173274 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGAT
* *
35173314 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
35173346 AAATCGTGAT
Statistics
Matches: 92, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
38 28 0.30
39 6 0.07
40 56 0.61
41 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGAT
Found at i:35173360 original size:40 final size:39
Alignment explanation
Indices: 35173235--35173377 Score: 151
Period size: 40 Copynumber: 3.6 Consensus size: 39
35173225 TGCTGAAAAT
* * *
35173235 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAG-TA
* * *
35173275 TATCCGGGCCAAGACCCGAAGGCATTCGTGCAAGTTGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAG-TA
* * *
35173315 AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTGA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGT-A
* * *
35173355 TATCCGGGTTAAGTCCCGTAGGC
1 TATCCGGGCTAAGACCCGAAGGC
35173378 CTTGGTGCGG
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 85 0.99
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGTA
Found at i:35181394 original size:40 final size:39
Alignment explanation
Indices: 35181308--35181491 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
35181298 AAATTGAATG
* * * * *
35181308 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
35181348 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
* *
35181388 ATATCCGGGCCAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
35181428 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
35181467 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
35181492 CTTGGTGCGG
Statistics
Matches: 116, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 108 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:35184827 original size:38 final size:38
Alignment explanation
Indices: 35184751--35184832 Score: 94
Period size: 38 Copynumber: 2.2 Consensus size: 38
35184741 CAGAAACAAT
* * *
35184751 GACATGTTTAACATGTATTCAGTTCATCAGTAATAGTA
1 GACATGTTTAACATGTATCCAGTTCAACAGTAACAGTA
* *
35184789 GACATGTTTAACATGTATCC-GATTTAACCGTAACAGTA
1 GACATGTTTAACATGTATCCAG-TTCAACAGTAACAGTA
*
35184827 GGCATG
1 GACATG
35184833 CAATCTGTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (38 bp):
GACATGTTTAACATGTATCCAGTTCAACAGTAACAGTA
Found at i:35185406 original size:21 final size:22
Alignment explanation
Indices: 35185377--35185417 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
35185367 TGATGTAAAA
*
35185377 GAGAGGAAAGAA-AAGAAAAGG
1 GAGAAGAAAGAAGAAGAAAAGG
*
35185398 GAGAAGAAATAAGAAGAAAA
1 GAGAAGAAAGAAGAAGAAAA
35185418 TGGCAAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (22 bp):
GAGAAGAAAGAAGAAGAAAAGG
Found at i:35188186 original size:25 final size:25
Alignment explanation
Indices: 35188169--35188219 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
35188159 ACAAGCATGA
35188169 ACTAATTTTCTAAATACATAGGGAG
1 ACTAATTTTCTAAATACATAGGGAG
*
35188194 ACTAATTTTCTAAATACCTAGGGAG
1 ACTAATTTTCTAAATACATAGGGAG
35188219 A
1 A
35188220 TGAACCCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (25 bp):
ACTAATTTTCTAAATACATAGGGAG
Found at i:35195168 original size:21 final size:21
Alignment explanation
Indices: 35195142--35195186 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
35195132 ATTGCCTAAG
35195142 TGTAAAAAGTAAAATGTGCTA
1 TGTAAAAAGTAAAATGTGCTA
35195163 TGTAAAAAGTAAAATGTGCTA
1 TGTAAAAAGTAAAATGTGCTA
35195184 TGT
1 TGT
35195187 TAATCCCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.31
Consensus pattern (21 bp):
TGTAAAAAGTAAAATGTGCTA
Found at i:35197504 original size:19 final size:19
Alignment explanation
Indices: 35197482--35197518 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35197472 AAACCCAAAA
* *
35197482 CCAAATAGTCCCAAAATAT
1 CCAAACAGTCCAAAAATAT
35197501 CCAAACAGTCCAAAAATA
1 CCAAACAGTCCAAAAATA
35197519 ACAAAACACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.27, G:0.05, T:0.16
Consensus pattern (19 bp):
CCAAACAGTCCAAAAATAT
Found at i:35197525 original size:19 final size:19
Alignment explanation
Indices: 35197488--35197526 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
35197478 AAAACCAAAT
* * *
35197488 AGTCCCAAAATATCCAAAC
1 AGTCCAAAAATAACAAAAC
35197507 AGTCCAAAAATAACAAAAC
1 AGTCCAAAAATAACAAAAC
35197526 A
1 A
35197527 CCATAAGATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.26, G:0.05, T:0.13
Consensus pattern (19 bp):
AGTCCAAAAATAACAAAAC
Found at i:35208402 original size:95 final size:95
Alignment explanation
Indices: 35208239--35208430 Score: 384
Period size: 95 Copynumber: 2.0 Consensus size: 95
35208229 CAGTGAAAAA
35208239 TATTTTTGAAAAGTTTTGTTTAAAAGAGAAGTGTTTAATATTATTTATAAAAAGTGTTTTTGAGA
1 TATTTTTGAAAAGTTTTGTTTAAAAGAGAAGTGTTTAATATTATTTATAAAAAGTGTTTTTGAGA
35208304 AATAAAATGTTTATTTTATATATGATGTTG
66 AATAAAATGTTTATTTTATATATGATGTTG
35208334 TATTTTTGAAAAGTTTTGTTTAAAAGAGAAGTGTTTAATATTATTTATAAAAAGTGTTTTTGAGA
1 TATTTTTGAAAAGTTTTGTTTAAAAGAGAAGTGTTTAATATTATTTATAAAAAGTGTTTTTGAGA
35208399 AATAAAATGTTTATTTTATATATGATGTTG
66 AATAAAATGTTTATTTTATATATGATGTTG
35208429 TA
1 TA
35208431 CTGTAGAAAT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 97 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (95 bp):
TATTTTTGAAAAGTTTTGTTTAAAAGAGAAGTGTTTAATATTATTTATAAAAAGTGTTTTTGAGA
AATAAAATGTTTATTTTATATATGATGTTG
Found at i:35208602 original size:20 final size:21
Alignment explanation
Indices: 35208577--35208623 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
35208567 ATTAATTATT
*
35208577 TATAAAATT-TAATTTGAATA
1 TATAAAATTATAATTTAAATA
*
35208597 TAT-AAATTATATTTTAAATA
1 TATAAAATTATAATTTAAATA
35208617 -ATAAAAT
1 TATAAAAT
35208624 AAAACTTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TATAAAATTATAATTTAAATA
Found at i:35212667 original size:19 final size:21
Alignment explanation
Indices: 35212633--35212672 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
35212623 TTATTATGAC
35212633 AATTCAAATAATAAA-TGGTG
1 AATTCAAATAATAAATTGGTG
*
35212653 AATTCATAT-ATAAATTGGTG
1 AATTCAAATAATAAATTGGTG
35212673 GCGAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (21 bp):
AATTCAAATAATAAATTGGTG
Found at i:35220698 original size:47 final size:47
Alignment explanation
Indices: 35220645--35221409 Score: 1233
Period size: 47 Copynumber: 16.3 Consensus size: 47
35220635 ACAAGATATG
* *
35220645 TATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
35220692 TATATGTGATAAAGCCTAATGGCCAATGTGATGAATGTGAAAGTGAA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
35220739 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
35220786 TATATGTGATAAAGCCTAATGGCCAATATGATGAATGTGAAAGTATA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
35220833 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
35220880 TATATGAGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
35220927 TATATGTGATAAAGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
35220974 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
35221021 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
35221068 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * *
35221115 TATATGAGATAAGACCTAATGTCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
35221162 TATATGTGATAAAGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
35221209 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTTAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
35221256 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * *
35221303 TATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
35221350 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
35221397 TAAATGTGATAAG
1 TATATGTGATAAG
35221410 TCCCGAAGGG
Statistics
Matches: 659, Mismatches: 59, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 659 1.00
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:35224891 original size:42 final size:42
Alignment explanation
Indices: 35224844--35225018 Score: 212
Period size: 42 Copynumber: 4.2 Consensus size: 42
35224834 CTTTCATATA
*
35224844 CAATGAAAAATAAATGGACCTCCACACCCGAGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCCGAGCCTCTAAATG
*
35224886 CAATGAAAAGTAAAT-GATCCTCCAC-CCCTGGGCCTCTAAATG
1 CAATGAAAAGTAAATGGA-CCTCCACACCC-GAGCCTCTAAATG
* * * * * *
35224928 CAACGAAAATTAAATAGACCTCCACACCTGGGCCTTTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCCGAGCCTCTAAATG
* *
35224970 CAATGAAAAGTAAATGGACCTCCACA-CCTAGGCCCCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCCGA-GCCTCTAAATG
35225012 CAATGAA
1 CAATGAA
35225019 TGCTTTCCTT
Statistics
Matches: 114, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
41 6 0.05
42 104 0.91
43 4 0.04
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.19
Consensus pattern (42 bp):
CAATGAAAAGTAAATGGACCTCCACACCCGAGCCTCTAAATG
Found at i:35224948 original size:84 final size:84
Alignment explanation
Indices: 35224848--35225014 Score: 246
Period size: 84 Copynumber: 2.0 Consensus size: 84
35224838 CATATACAAT
* *
35224848 GAAAAATAAATGGACCTCCACACCCGAGCCTCTAAATGCAATGAAAAGTAAAT-GATCCTCCACC
1 GAAAAATAAATAGACCTCCACACCCGAGCCTCTAAATGCAATGAAAAGTAAATGGA-CCTCCACA
* *
35224912 CCTGGGCCTCTAAATGCAAC
65 CCTAGGCCCCTAAATGCAAC
* * * *
35224932 GAAAATTAAATAGACCTCCACACCTGGGCCTTTAAATGCAATGAAAAGTAAATGGACCTCCACAC
1 GAAAAATAAATAGACCTCCACACCCGAGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACAC
35224997 CTAGGCCCCTAAATGCAA
66 CTAGGCCCCTAAATGCAA
35225015 TGAATGCTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
84 72 0.97
85 2 0.03
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.19
Consensus pattern (84 bp):
GAAAAATAAATAGACCTCCACACCCGAGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACAC
CTAGGCCCCTAAATGCAAC
Found at i:35225451 original size:22 final size:22
Alignment explanation
Indices: 35225424--35225471 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
35225414 TCTATCTAAG
*
35225424 TTTTCT-TCTTTTTTTGGTTTCT
1 TTTTCTAT-TTTTTTTAGTTTCT
*
35225446 TTTTCTATTTTTTTTATTTTCT
1 TTTTCTATTTTTTTTAGTTTCT
35225468 TTTT
1 TTTT
35225472 TCTTGATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.04, C:0.10, G:0.04, T:0.81
Consensus pattern (22 bp):
TTTTCTATTTTTTTTAGTTTCT
Found at i:35229664 original size:22 final size:23
Alignment explanation
Indices: 35229636--35229682 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
35229626 TCCAAGGTTC
35229636 AAATTGTGTAGTGAAACAA-AGA
1 AAATTGTGTAGTGAAACAATAGA
*
35229658 AAATTGTGTAGTGAAAGAATAGA
1 AAATTGTGTAGTGAAACAATAGA
35229681 AA
1 AA
35229683 TCAGCACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.23, T:0.23
Consensus pattern (23 bp):
AAATTGTGTAGTGAAACAATAGA
Found at i:35230762 original size:29 final size:29
Alignment explanation
Indices: 35230721--35230842 Score: 135
Period size: 29 Copynumber: 4.2 Consensus size: 29
35230711 GTGAGCATGA
*
35230721 ATAT-AAGGTGATTTAGGCCTAACGGGCC
1 ATATAAAGGTGATTTAGGCCTAATGGGCC
*
35230749 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGATTTAGGCCTAATGGGCC
*
35230778 ATATGAATA-G-GAATTAGGCCTAATGGGCC
1 ATAT-AA-AGGTGATTTAGGCCTAATGGGCC
* * *
35230807 ATATGAATGTGAATTT-GGCCTTATGGGCC
1 ATATAAAGGTG-ATTTAGGCCTAATGGGCC
35230836 ATATAAA
1 ATATAAA
35230843 TGAGATTGGG
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
27 1 0.01
28 6 0.08
29 66 0.82
30 6 0.08
31 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (29 bp):
ATATAAAGGTGATTTAGGCCTAATGGGCC
Found at i:35232888 original size:40 final size:39
Alignment explanation
Indices: 35232840--35233047 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 39
35232830 TCTTCGAAAT
* *
35232840 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAA-TGCCTTCGGGTC
* * *** *
35232879 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
35232919 TTAGCCCAGATATAACAACTAGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
35232959 TTAGCCCGGATATAACAACTAGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
* * *
35232999 TTAGCCCGGATATAATC-ATTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCA-CAATGCCTTCGGGTC
35233039 TTAGCCCGG
1 TTAGCCCGG
35233048 GTATCATTCA
Statistics
Matches: 145, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.02
40 139 0.96
41 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTAGCACAATGCCTTCGGGTC
Found at i:35245923 original size:40 final size:40
Alignment explanation
Indices: 35245849--35245990 Score: 158
Period size: 40 Copynumber: 3.5 Consensus size: 40
35245839 CCGCACCAAG
* * * * * *
35245849 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
35245889 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * * *
35245929 GCCTTCGGGTCTTGGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
35245969 GCCTTCGGGTCTTAACCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
35245991 GTAATTTTCA
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:35247921 original size:42 final size:42
Alignment explanation
Indices: 35247862--35247979 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 42
35247852 TTAGGGTTAC
* *
35247862 TGAGACTTTATGTAAGACTATATCTTGGATATGACATCAATA
1 TGAGACTTCATGTAAGACCATATCTTGGATATGACATCAATA
* * * * * *
35247904 TGAGACTTCGTGTAAGACCACATATGGGATATTGGCATCGATA
1 TGAGACTTCATGTAAGACCATATCTTGGATA-TGACATCAATA
*
35247947 CGAGA-TTACATGTAAGACCATATCTTGGATATG
1 TGAGACTT-CATGTAAGACCATATCTTGGATATG
35247980 GCATTGGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 29 0.48
43 32 0.52
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.31
Consensus pattern (42 bp):
TGAGACTTCATGTAAGACCATATCTTGGATATGACATCAATA
Found at i:35251114 original size:37 final size:40
Alignment explanation
Indices: 35251050--35251156 Score: 112
Period size: 41 Copynumber: 2.7 Consensus size: 40
35251040 GATAATTTGA
* * * * *
35251050 AGTAATAATTTGACACCCTGTGTCTCATTG-GCTAAACCG
1 AGTAGTAAATTGACACCCAGTGTCTCATCGAACTAAACCG
* * *
35251089 -G-AGTAAATTGACACCCAGTGCCTCATCGAATTAATCCG
1 AGTAGTAAATTGACACCCAGTGTCTCATCGAACTAAACCG
35251127 AAGTAGTAAATTGACACCCAGTGTCTCATC
1 -AGTAGTAAATTGACACCCAGTGTCTCATC
35251157 ACTCAAAGTC
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
37 22 0.40
38 7 0.13
40 1 0.02
41 25 0.45
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (40 bp):
AGTAGTAAATTGACACCCAGTGTCTCATCGAACTAAACCG
Found at i:35254884 original size:32 final size:33
Alignment explanation
Indices: 35254846--35254919 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 33
35254836 CGATGGACCT
* * *
35254846 TTTCTTTTCC-AGTTGTACACTCGAGATATACC
1 TTTCTTTTCCGAGTGGTACACACAAGATATACC
*
35254878 TTTC-TTTCCGAGTGGTACACACAAGGTATACC
1 TTTCTTTTCCGAGTGGTACACACAAGATATACC
35254910 TTTCCTTTTC
1 TTT-CTTTTC
35254920 ATATGATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
31 5 0.14
32 25 0.71
33 1 0.03
34 4 0.11
ACGTcount: A:0.20, C:0.26, G:0.14, T:0.41
Consensus pattern (33 bp):
TTTCTTTTCCGAGTGGTACACACAAGATATACC
Found at i:35254940 original size:33 final size:33
Alignment explanation
Indices: 35254896--35255055 Score: 239
Period size: 33 Copynumber: 4.8 Consensus size: 33
35254886 CGAGTGGTAC
* *
35254896 ACACAAGGTATACCTTTCCTTTTCATATGATAT
1 ACACAAAGTATACCTTTCCTTTTCAAATGATAT
* *
35254929 ACACAAAGTATACCTTTCCTTTTCATATGGTAT
1 ACACAAAGTATACCTTTCCTTTTCAAATGATAT
** *
35254962 ACACAAAGTATACCTAACCTTTTCAAATGTTAT
1 ACACAAAGTATACCTTTCCTTTTCAAATGATAT
*
35254995 ACACAAAGTATACATTTCCTTTTCAAATGATAT
1 ACACAAAGTATACCTTTCCTTTTCAAATGATAT
*
35255028 ACACAAAGTATACCTTTCCTTTCCAAAT
1 ACACAAAGTATACCTTTCCTTTTCAAAT
35255056 TTGAGAGTCG
Statistics
Matches: 115, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 115 1.00
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (33 bp):
ACACAAAGTATACCTTTCCTTTTCAAATGATAT
Found at i:35255096 original size:29 final size:29
Alignment explanation
Indices: 35255064--35255294 Score: 194
Period size: 29 Copynumber: 7.8 Consensus size: 29
35255054 ATTTGAGAGT
35255064 CGAAGCTATCCCTTTTCACATTCAGTAGC
1 CGAAGCTATCCCTTTTCACATTCAGTAGC
35255093 CGAAGCTATCCCTTTTCACATTC-GATAGC
1 CGAAGCTATCCCTTTTCACATTCAG-TAGC
*
35255122 CGAAGCTATCCCTTTTCACATT-TGATAGC
1 CGAAGCTATCCCTTTTCACATTCAG-TAGC
*
35255151 CGAAGCTATCCCTTTTCACACTC-GATAGC
1 CGAAGCTATCCCTTTTCACATTCAG-TAGC
*
35255180 CGAAGCTATCACTATTT-AC-TGATCAAGTA-C
1 CGAAGCTATCCCT-TTTCACAT--TC-AGTAGC
* *
35255210 CTGGAGCTA-CCACTTTTCACTAATCAGGTAGC
1 C-GAAGCTATCC-CTTTTCAC-ATTCA-GTAGC
*
35255242 CGAAGCTA-CTACTTTTCAC-TGATCAGGTAGC
1 CGAAGCTATC-CCTTTTCACAT--TCA-GTAGC
35255273 CGAAGCTA-CCGCTTTTCACATT
1 CGAAGCTATCC-CTTTTCACATT
35255295 GTACACATAA
Statistics
Matches: 172, Mismatches: 10, Indels: 39
0.78 0.05 0.18
Matches are distributed among these distances:
28 1 0.01
29 96 0.56
30 13 0.08
31 58 0.34
32 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (29 bp):
CGAAGCTATCCCTTTTCACATTCAGTAGC
Found at i:35255126 original size:58 final size:58
Alignment explanation
Indices: 35255064--35255189 Score: 218
Period size: 58 Copynumber: 2.2 Consensus size: 58
35255054 ATTTGAGAGT
*
35255064 CGAAGCTATCCCTTTTCACATTCAG-TAGCCGAAGCTATCCCTTTTCACATTCGATAGC
1 CGAAGCTATCCCTTTTCACATT-AGATAGCCGAAGCTATCCCTTTTCACACTCGATAGC
*
35255122 CGAAGCTATCCCTTTTCACATTTGATAGCCGAAGCTATCCCTTTTCACACTCGATAGC
1 CGAAGCTATCCCTTTTCACATTAGATAGCCGAAGCTATCCCTTTTCACACTCGATAGC
35255180 CGAAGCTATC
1 CGAAGCTATC
35255190 ACTATTTACT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
57 1 0.02
58 64 0.98
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (58 bp):
CGAAGCTATCCCTTTTCACATTAGATAGCCGAAGCTATCCCTTTTCACACTCGATAGC
Found at i:35255256 original size:31 final size:31
Alignment explanation
Indices: 35255147--35255291 Score: 122
Period size: 31 Copynumber: 4.7 Consensus size: 31
35255137 TCACATTTGA
* * *
35255147 TAGCCGAAGCTA-TCCCTTTTCAC-ACTC-GA
1 TAGCCGAAGCTACT-ACTTTTCACTAATCAGG
* *
35255176 TAGCCGAAGCTA-TCACTATTT-ACTGATCAAG
1 TAGCCGAAGCTACT-ACT-TTTCACTAATCAGG
* *
35255207 TA-CCTGGAGCTACCACTTTTCACTAATCAGG
1 TAGCC-GAAGCTACTACTTTTCACTAATCAGG
*
35255238 TAGCCGAAGCTACTACTTTTCACTGATCAGG
1 TAGCCGAAGCTACTACTTTTCACTAATCAGG
**
35255269 TAGCCGAAGCTACCGCTTTTCAC
1 TAGCCGAAGCTACTACTTTTCAC
35255292 ATTGTACACA
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
29 18 0.19
30 10 0.11
31 65 0.68
32 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (31 bp):
TAGCCGAAGCTACTACTTTTCACTAATCAGG
Found at i:35257701 original size:42 final size:42
Alignment explanation
Indices: 35257651--35257805 Score: 197
Period size: 42 Copynumber: 3.7 Consensus size: 42
35257641 TGAGATTTAT
35257651 GTGTAAGACCATATCTGAGATATGGCATCGATATGAGACTTC
1 GTGTAAGACCATATCTGAGATATGGCATCGATATGAGACTTC
35257693 GTGTAAGACCATATCT-AGGATATGGCATCGATATGAGACTTC
1 GTGTAAGACCATATCTGA-GATATGGCATCGATATGAGACTTC
* * * * *
35257735 GTGTAATATCATAGCTGGGCTATTGGCATCGATATGAGA-TTAC
1 GTGTAAGACCATATCTGAGATA-TGGCATCGATATGAGACTT-C
* * *
35257778 ATGTAAGACCATATATGGGATATGGCAT
1 GTGTAAGACCATATCTGAGATATGGCAT
35257806 TGGAACGGTA
Statistics
Matches: 98, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.01
42 64 0.65
43 33 0.34
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGAGATATGGCATCGATATGAGACTTC
Found at i:35257824 original size:85 final size:85
Alignment explanation
Indices: 35257642--35257805 Score: 197
Period size: 85 Copynumber: 1.9 Consensus size: 85
35257632 TAGGGTTATT
* * *
35257642 GAGATTTATGTGTAAGACCATATCTGAGATATGGCATCGATATGAGACTTCGTGTAAGACCATAT
1 GAGACTTATGTGTAAGACCATAGCTGAGATATGGCATCGATATGAGACTTCATGTAAGACCATAT
* *
35257707 CTAGGATATGGCATCGATAT
66 ATAGGATATGGCATCGATAC
* * * * *
35257727 GAGACTT-CGTGTAATATCATAGCTGGGCTATTGGCATCGATATGAGA-TTACATGTAAGACCAT
1 GAGACTTATGTGTAAGACCATAGCTGAGATA-TGGCATCGATATGAGACTT-CATGTAAGACCAT
*
35257790 ATATGGGATATGGCAT
64 ATATAGGATATGGCAT
35257806 TGGAACGGTA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 19 0.28
85 48 0.72
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (85 bp):
GAGACTTATGTGTAAGACCATAGCTGAGATATGGCATCGATATGAGACTTCATGTAAGACCATAT
ATAGGATATGGCATCGATAC
Found at i:35259596 original size:40 final size:40
Alignment explanation
Indices: 35259551--35259680 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
35259541 CGGAATATAA
35259551 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
35259591 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
35259631 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
35259671 CCGGATATAA
1 CCGGATATAA
35259681 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:35259695 original size:40 final size:40
Alignment explanation
Indices: 35259567--35259718 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
35259557 ATAACCACGT
* * *
35259567 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
35259607 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
35259647 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
35259687 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
35259719 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:35259701 original size:80 final size:80
Alignment explanation
Indices: 35259567--35259716 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
35259557 ATAACCACGT
*
35259567 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
35259631 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
35259647 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
35259710 CCCGGAT
64 CCCGGAT
35259717 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:35267592 original size:40 final size:39
Alignment explanation
Indices: 35267547--35267676 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
35267537 CGGAATATAA
35267547 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
35267587 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
35267627 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
35267667 CCGGATATAA
1 CCGGATATAA
35267677 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:35267691 original size:40 final size:40
Alignment explanation
Indices: 35267563--35267714 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
35267553 ATAACCATGT
* * *
35267563 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
35267603 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
35267643 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
35267683 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
35267715 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:35267697 original size:80 final size:80
Alignment explanation
Indices: 35267563--35267712 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
35267553 ATAACCATGT
*
35267563 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
35267627 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
35267643 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
35267706 CCCGGAT
64 CCCGGAT
35267713 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:35276374 original size:25 final size:25
Alignment explanation
Indices: 35276341--35276398 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 25
35276331 ATATTTTTGG
*
35276341 TTTATTTTAATT-ATA-TTTAAAATAT
1 TTTAATTTAATTGATACTTT-AAA-AT
*
35276366 TTTAATTT-ATTGATACTTTTAAAT
1 TTTAATTTAATTGATACTTTAAAAT
35276390 TTTAATTTA
1 TTTAATTTA
35276399 TTAACATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 13 0.46
25 12 0.43
26 3 0.11
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTAATTTAATTGATACTTTAAAAT
Found at i:35277154 original size:30 final size:30
Alignment explanation
Indices: 35277120--35277182 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
35277110 ACTTATTTTA
*
35277120 TTGTTCATTTTGTTATTATTTTAAAAGCAT
1 TTGTTAATTTTGTTATTATTTTAAAAGCAT
* * *
35277150 TTGTTAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAAGCAT
35277180 TTG
1 TTG
35277183 CTTGTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAAGCAT
Found at i:35278715 original size:10 final size:10
Alignment explanation
Indices: 35278688--35278756 Score: 95
Period size: 10 Copynumber: 6.9 Consensus size: 10
35278678 TTAAATTTTA
35278688 AAAGATAAAT
1 AAAGATAAAT
35278698 ACAA-ATAAAT
1 A-AAGATAAAT
*
35278708 AAAGATAATT
1 AAAGATAAAT
35278718 AAAGATAAAT
1 AAAGATAAAT
*
35278728 AAAGATAATT
1 AAAGATAAAT
*
35278738 GAAGATAAAT
1 AAAGATAAAT
35278748 AAAGATAAA
1 AAAGATAAA
35278757 AGCCAAAACT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
9 2 0.04
10 47 0.92
11 2 0.04
ACGTcount: A:0.67, C:0.01, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:35279263 original size:22 final size:21
Alignment explanation
Indices: 35279238--35279293 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
35279228 ATTGGATAAA
35279238 TTTTA-AAATATAAATATAAGTT
1 TTTTATAAA-ATAAATATAA-TT
*
35279260 TTTTATTAAATAAATATAATT
1 TTTTATAAAATAAATATAATT
*
35279281 TTATATATAAATA
1 TTTTATA-AAATA
35279294 TGATTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 7 0.24
22 20 0.69
23 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTTATAAAATAAATATAATT
Found at i:35279290 original size:18 final size:18
Alignment explanation
Indices: 35279245--35279311 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
35279235 AAATTTTAAA
35279245 ATATAAATATAAGTTTTTTATT
1 ATATAAATATAA---TTTTA-T
*
35279267 AAATAAATATAATTTTAT
1 ATATAAATATAATTTTAT
*
35279285 ATATAAATATGATTTTAT
1 ATATAAATATAATTTTAT
*
35279303 -TTTAAATAT
1 ATATAAATAT
35279312 GATAATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 8 0.20
18 17 0.41
19 5 0.12
22 11 0.27
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
ATATAAATATAATTTTAT
Found at i:35279310 original size:17 final size:18
Alignment explanation
Indices: 35279269--35279314 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
35279259 TTTTTATTAA
*
35279269 ATAAATATAATTTTATAT
1 ATAAATATGATTTTATAT
35279287 ATAAATATGATTTTAT-T
1 ATAAATATGATTTTATAT
*
35279304 TTAAATATGAT
1 ATAAATATGAT
35279315 AATAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (18 bp):
ATAAATATGATTTTATAT
Found at i:35303962 original size:29 final size:28
Alignment explanation
Indices: 35303896--35303987 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
35303886 TACATACATG
* *
35303896 TATATGGCCCACTAGGCCCAATCTCATT
1 TATATGGCCCATTAGACCCAATCTCATT
* *
35303924 TGTATGGCCCATTCGACCCAAT-TCACGTT
1 TATATGGCCCATTAGACCCAATCTCA--TT
* * *
35303953 TATATGGCCCATCA-AGCCAAATCTCATA
1 TATATGGCCCATTAGA-CCCAATCTCATT
35303981 TATATGG
1 TATATGG
35303988 TGCATCCGGC
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
27 3 0.06
28 27 0.53
29 18 0.35
30 3 0.06
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.29
Consensus pattern (28 bp):
TATATGGCCCATTAGACCCAATCTCATT
Found at i:35304001 original size:57 final size:57
Alignment explanation
Indices: 35303896--35304006 Score: 125
Period size: 57 Copynumber: 1.9 Consensus size: 57
35303886 TACATACATG
* * * * * *
35303896 TATATGGCCCACTAGGCCCAATCTCATTTGTATGGCCCATTCGACCCAATTCACGTT
1 TATATGGCCCACTAAGCCAAATCTCATATATATGGCCCATCCGACCCAAATCACGTT
** *
35303953 TATATGGCCCA-TCAAGCCAAATCTCATATATATGGTGCATCCGGCCCAAATCAC
1 TATATGGCCCACT-AAGCCAAATCTCATATATATGGCCCATCCGACCCAAATCAC
35304007 ATTACATCCA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
56 1 0.02
57 43 0.98
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (57 bp):
TATATGGCCCACTAAGCCAAATCTCATATATATGGCCCATCCGACCCAAATCACGTT
Found at i:35304252 original size:8 final size:8
Alignment explanation
Indices: 35304233--35304271 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
35304223 ACTTTTGACT
35304233 TTTCGGCA
1 TTTCGGCA
* *
35304241 TTTCAGCT
1 TTTCGGCA
35304249 TTTCGGCA
1 TTTCGGCA
35304257 TTTCGGCA
1 TTTCGGCA
35304265 TTTCGGC
1 TTTCGGC
35304272 TTTTGCCGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.10, C:0.26, G:0.23, T:0.41
Consensus pattern (8 bp):
TTTCGGCA
Found at i:35309016 original size:19 final size:20
Alignment explanation
Indices: 35308992--35309029 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
35308982 GGTACCACCA
35308992 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
35309011 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
35309030 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:35309399 original size:46 final size:47
Alignment explanation
Indices: 35309273--35309406 Score: 159
Period size: 47 Copynumber: 2.9 Consensus size: 47
35309263 TCAGACGTTC
35309273 GCATCCATAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT
1 GCATCCAT-AATGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTT
* * * * *
35309323 ACAT-C-TCACGAACTCGGACTCAACTTAACGAGTTCGGA-C-ATTT
1 GCATCCATAATGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT
35309366 GCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 GCATCCATAA-TGAACTCGGACTCAACTCAACGAGTTCGGA
35309407 TGCTCAACCA
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
43 6 0.08
44 2 0.03
45 2 0.03
46 28 0.39
47 29 0.40
48 1 0.01
49 1 0.01
50 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (47 bp):
GCATCCATAATGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT
Found at i:35309425 original size:46 final size:45
Alignment explanation
Indices: 35309284--35309425 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
35309274 CATCCATAAA
35309284 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * * *
35309331 CGAACTCGGACTCAACTTAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
35309377 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
35309423 TGA
1 TGA
35309426 CATGTCACTT
Statistics
Matches: 76, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 32 0.42
47 30 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:35309863 original size:30 final size:30
Alignment explanation
Indices: 35309829--35309889 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
35309819 CATTTAATAC
35309829 AAACTTTAAAAAAATTACACTTTTGCCCCT
1 AAACTTTAAAAAAATTACACTTTTGCCCCT
*** *
35309859 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTAAAAAAATTACACTTTTGCCCCT
35309889 A
1 A
35309890 GGCTCGGGAA
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:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (30 bp):
AAACTTTAAAAAAATTACACTTTTGCCCCT
Found at i:35313406 original size:28 final size:28
Alignment explanation
Indices: 35313332--35313409 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
35313322 CACACATGCA
*
35313332 TATATGGCCCATCCGACCCAATTCACGTT
1 TATATGGCCCATCCGGCCCAATTCAC-TT
* * *
35313361 CATATGACCCATCAGGCCCAATCTCA-TT
1 TATATGGCCCATCCGGCCCAAT-TCACTT
*
35313389 TATATGGCCCAGCCGGCCCAA
1 TATATGGCCCATCCGGCCCAA
35313410 ATCATATTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 19 0.47
29 18 0.45
30 3 0.08
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (28 bp):
TATATGGCCCATCCGGCCCAATTCACTT
Found at i:35313419 original size:28 final size:27
Alignment explanation
Indices: 35313332--35313421 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 27
35313322 CACACATGCA
* *
35313332 TATATGGCCCATCCGACCCAATTCACGTT
1 TATATGGCCCATCCGGCCCAAATCA--TT
* * * *
35313361 CATATGACCCATCAGGCCCAATCTCATT
1 TATATGGCCCATCCGGCCCAA-ATCATT
*
35313389 TATATGGCCCAGCCGGCCCAAATCATAT
1 TATATGGCCCATCCGGCCCAAATCAT-T
35313417 TATAT
1 TATAT
35313422 CCATGCTCAC
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
27 4 0.08
28 25 0.51
29 17 0.35
30 3 0.06
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (27 bp):
TATATGGCCCATCCGGCCCAAATCATT
Found at i:35313657 original size:16 final size:16
Alignment explanation
Indices: 35313633--35313675 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
35313623 GTAGCCAAAC
* *
35313633 TTTCTGCTTTTCAGTA
1 TTTCGGCTTTTCAGCA
**
35313649 TTTCGGCTTTTTGGCA
1 TTTCGGCTTTTCAGCA
35313665 TTTCGGCTTTT
1 TTTCGGCTTTT
35313676 GCCAATGTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.07, C:0.19, G:0.19, T:0.56
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:35324458 original size:53 final size:55
Alignment explanation
Indices: 35324390--35324517 Score: 163
Period size: 53 Copynumber: 2.4 Consensus size: 55
35324380 CATACCATTC
* * *
35324390 CCATGTCTTGACATGGTCTTACGTGGTATCC-TTGCCTTGT-G-AACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCACCAATG
* * * *
35324443 CCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCACCAATG
35324498 CCATGTCTTGACATGGTCTT
1 CCATGTCTTGACATGGTCTT
35324518 TGTAACACCC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.03
53 31 0.49
54 1 0.02
55 29 0.46
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (55 bp):
CCATGTCTTGACATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCACCAATG
Found at i:35325908 original size:71 final size:71
Alignment explanation
Indices: 35325820--35325983 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
35325810 CGATTTGTCT
35325820 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATATAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATATAT
35325885 CTTTCA
66 CTTTCA
*
35325891 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATATAT
35325956 CTTTCA
66 CTTTCA
35325962 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35325984 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATATAT
CTTTCA
Found at i:35326021 original size:71 final size:70
Alignment explanation
Indices: 35325820--35326017 Score: 267
Period size: 71 Copynumber: 2.8 Consensus size: 70
35325810 CGATTTGTCT
* * *
35325820 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATATAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATATAT
35325885 CTTTCA
65 CTTTCA
* * * *
35325891 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATATAT
35325956 CTTTCA
65 CTTTCA
* *
35325962 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
35326018 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 95 0.79
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATATATC
TTTCA
Found at i:35327674 original size:26 final size:26
Alignment explanation
Indices: 35327616--35327722 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
35327606 TGGTACAAAT
35327616 TGATAATGGGTTAGGTAAAT-TTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
35327641 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
35327667 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
35327693 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
35327719 TGAT
1 TGAT
35327723 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 19 0.26
26 55 0.74
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:35327676 original size:51 final size:52
Alignment explanation
Indices: 35327616--35327722 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
35327606 TGGTACAAAT
35327616 TGATAATGGGTTAGGTAAAT-TTCCATGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTTCA
* *
35327667 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTTCA
35327719 TGAT
1 TGAT
35327723 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 20 0.38
52 33 0.62
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTTCA
Found at i:35333413 original size:26 final size:26
Alignment explanation
Indices: 35333384--35333490 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
35333374 TGGTACAAAT
35333384 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
35333410 TGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
35333435 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
35333461 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
35333487 TGAT
1 TGAT
35333491 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:35333444 original size:51 final size:52
Alignment explanation
Indices: 35333384--35333490 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
35333374 TGGTACAAAT
35333384 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
35333435 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
35333487 TGAT
1 TGAT
35333491 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 47 0.89
52 6 0.11
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:35336337 original size:45 final size:45
Alignment explanation
Indices: 35336272--35336357 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
35336262 CCTTAATCAA
*
35336272 TACCGATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCT
1 TACCAATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCT
* *
35336317 TACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
1 TACCAATGCCATGTCTTGACATGGTCTTACACGGGATCCTT
35336358 AACCGTCAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.34
Consensus pattern (45 bp):
TACCAATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCT
Found at i:35336411 original size:44 final size:44
Alignment explanation
Indices: 35336360--35336446 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
35336350 GTATCCTTAA
* *
35336360 CCGTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTT
** *
35336404 CCGTCAATTTTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
35336447 GAGATATCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTT
Found at i:35337017 original size:30 final size:30
Alignment explanation
Indices: 35336983--35337043 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
35336973 TCCCTAACTC
35336983 AAACTTTGGCA-AAGTTACAATTTTGCCCCT
1 AAACTTTGGCAGAA-TTACAATTTTGCCCCT
* *
35337013 AAACTTTTGCAGAATTACGATTTTGCCCCT
1 AAACTTTGGCAGAATTACAATTTTGCCCCT
35337043 A
1 A
35337044 GGCTCAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (30 bp):
AAACTTTGGCAGAATTACAATTTTGCCCCT
Found at i:35339678 original size:17 final size:17
Alignment explanation
Indices: 35339653--35339685 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35339643 GTAAGGTATA
35339653 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
35339670 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
35339686 AAATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:35339804 original size:24 final size:23
Alignment explanation
Indices: 35339788--35339857 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
35339778 ATACATAATT
35339788 TATAA-AAAATAAAAATAATATA
1 TATAATAAAATAAAAATAATATA
* * *
35339810 TATAATAAAATATAATTTATA-A
1 TATAATAAAATAAAAATAATATA
*
35339832 GTAAAATATATAATAAAAATAATATA
1 -TATAATA-A-AATAAAAATAATATA
35339858 CATTATTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
22 6 0.17
23 18 0.50
24 1 0.03
25 10 0.28
26 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (23 bp):
TATAATAAAATAAAAATAATATA
Found at i:35339836 original size:18 final size:19
Alignment explanation
Indices: 35339795--35339841 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
35339785 ATTTATAAAA
35339795 AATAAAA-ATAATATATAT
1 AATAAAATATAATATATAT
35339813 AATAAAATATAAT-T-TAT
1 AATAAAATATAATATATAT
35339830 AAGTAAAATATA
1 AA-TAAAATATA
35339842 TAATAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.19
18 17 0.63
19 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AATAAAATATAATATATAT
Found at i:35339845 original size:39 final size:38
Alignment explanation
Indices: 35339771--35339855 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 38
35339761 ACAATTAATG
* *
35339771 AATAATAATACATAATTTATAAAAAATAAAAATAATATA
1 AATAATAAAACATAATTTATAAAAAAT-AAAATAATAAA
* * *
35339810 TATAATAAAATATAATTTATAAGTAAAAT-ATATAATAAA
1 AATAATAAAACATAATTTATAA--AAAATAAAATAATAAA
35339849 AATAATA
1 AATAATA
35339856 TACATTATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
39 33 0.87
41 5 0.13
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (38 bp):
AATAATAAAACATAATTTATAAAAAATAAAATAATAAA
Found at i:35341734 original size:45 final size:44
Alignment explanation
Indices: 35341682--35341808 Score: 130
Period size: 44 Copynumber: 2.9 Consensus size: 44
35341672 ATCTGCTATG
* ** * *
35341682 TCTTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATATGTTA
1 TCTTCGATCTACTCTCCGAC-AATACAGAAATGCCAAATATGCTA
* * *
35341727 TCTTCGATCTGCTCTCTGACAATACAGAAATGCCAAATTTGCTA
1 TCTTCGATCTACTCTCCGACAATACAGAAATGCCAAATATGCTA
* * *
35341771 TCTTCGATCTGA-TCTCTGACAATACAGAGATACCAAAT
1 TCTTCGATCT-ACTCTCCGACAATACAGAAATGCCAAAT
35341809 CATCTTAGAT
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
44 53 0.76
45 17 0.24
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (44 bp):
TCTTCGATCTACTCTCCGACAATACAGAAATGCCAAATATGCTA
Found at i:35341774 original size:44 final size:44
Alignment explanation
Indices: 35341712--35341808 Score: 149
Period size: 44 Copynumber: 2.2 Consensus size: 44
35341702 GAATATGGAG
* *
35341712 ATGCCAAATATGTTATCTTCGATCTGCTCTCTGACAATACAGAA
1 ATGCCAAATATGCTATCTTCGATCTGATCTCTGACAATACAGAA
* *
35341756 ATGCCAAATTTGCTATCTTCGATCTGATCTCTGACAATACAGAG
1 ATGCCAAATATGCTATCTTCGATCTGATCTCTGACAATACAGAA
*
35341800 ATACCAAAT
1 ATGCCAAAT
35341809 CATCTTAGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (44 bp):
ATGCCAAATATGCTATCTTCGATCTGATCTCTGACAATACAGAA
Found at i:35341977 original size:265 final size:267
Alignment explanation
Indices: 35341507--35342077 Score: 762
Period size: 265 Copynumber: 2.2 Consensus size: 267
35341497 GCCATGTTGA
* * * *
35341507 TATCTTCGATATGCTCTCTGATAATACAGAGACGCC-AA--ATCTTGGATCTTCTTCAACGTAAA
1 TATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTTCTTCAACGTAAA
* * * *
35341569 CGCGTGAAAGCCTAATCAGCTATATCTTCAATCTGCTCCTTGTAAACGCAAGGATGCCAAATCAT
66 CACGTGAAAGCCAAATCAGCTATATCTTCAATCTACTCCTTATAAACGCAAGGATGCCAAATCAT
35341634 CTTGGATCTACTTCGATGTGAAAACATCCAAAGGTTAGATCTGCTATGTCTTCGATCTACTCTCC
131 CTTGGATCTACTTCGATGTGAAAACATCCAAAGGTTAGATCTGCTATGTCTTCGATCTACTCTCC
* * * * *
35341699 GTCGAATATGGAGATGCCAAATATGTTATCTTCGATCTGC-TC-TCTGACAATA-CAGAAATGCC
196 GTCGAATATGGAGATGCCAAATATATTATCTTAGATCTGCTTCATCTGAAAACATCAG-AAGGCC
*
35341761 AAATTTGC
260 AAATCTGC
* * *
35341769 TATCTTCGATCTGATCTCTGACAATACAGAGATACCAAATCATCTTAGAT-TTGCTTCAGCGTAA
1 TATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTT-CTTCAACGTAA
* * * * *
35341833 ACATGTGAAAGCCAAATCTGCTATGTCTTCGATCTACTCCTTATAAACGCAAGGATGTCAAATCA
65 ACACGTGAAAGCCAAATCAGCTATATCTTCAATCTACTCCTTATAAACGCAAGGATGCCAAATCA
* *
35341898 TCTTGGATCTACTTCGATGT-AGAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCT
130 TCTTGGATCTACTTCGATGTGA-AAACATCCAAAGGTTAGATCTGCTATGTCTTCGATCTACTCT
* * * * * *
35341962 CCGTCGGATATGGAGATGCCAAATCTATTATCTTATATCTTCTTCGATGTGAAAACATCTGAAGG
194 CCGTCGAATATGGAGATGCCAAATATATTATCTTAGATCTGCTTC-ATCTGAAAACATCAGAAGG
* *
35342027 TCAGATCTGC
258 CCAAATCTGC
35342037 TATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATC
1 TATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATC
35342078 TGCTATCTTC
Statistics
Matches: 266, Mismatches: 34, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
262 31 0.12
263 2 0.01
264 3 0.01
265 170 0.64
266 2 0.01
268 56 0.21
269 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (267 bp):
TATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCTTCTTCAACGTAAA
CACGTGAAAGCCAAATCAGCTATATCTTCAATCTACTCCTTATAAACGCAAGGATGCCAAATCAT
CTTGGATCTACTTCGATGTGAAAACATCCAAAGGTTAGATCTGCTATGTCTTCGATCTACTCTCC
GTCGAATATGGAGATGCCAAATATATTATCTTAGATCTGCTTCATCTGAAAACATCAGAAGGCCA
AATCTGC
Found at i:35342081 original size:44 final size:44
Alignment explanation
Indices: 35342031--35342121 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
35342021 TGAAGGTCAG
* *
35342031 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
1 ATCTGCTATCTTCAATCTGCTCTCTAACAATACAGAGATGCCAA
*
35342075 ATCTGCTATCTTCAATTTGCTCTCTAACAATACAGAGATGCCAA
1 ATCTGCTATCTTCAATCTGCTCTCTAACAATACAGAGATGCCAA
35342119 ATC
1 ATC
35342122 ATCTTCGGTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCAATCTGCTCTCTAACAATACAGAGATGCCAA
Found at i:35342299 original size:312 final size:312
Alignment explanation
Indices: 35341725--35342468 Score: 1155
Period size: 312 Copynumber: 2.4 Consensus size: 312
35341715 CCAAATATGT
* * * *
35341725 TATCTTCGATCTGCTCTCTGACAATACAGAAATGCCAAATTTGCTATCTTCGATCTGATCTCTGA
1 TATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCAATCTGCTCTCTGA
* * * * *
35341790 CAATACAGAGATACCAAATCATCTTAGATTTGCTTCAGCGTAAACATGTGAAAGCCAAATCTGCT
66 CAATACAGAGATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACACGTGAAAGCCAAATCTACT
* *
35341855 ATGTCTTCGATCTACTCCTTATAAACGCAAGGATGTCAAATCATCTTGGATCTACTTCGATGTAG
131 ATGTCTTCGATCTACTCCTTATAAACGCAAGGATGCCAAATCATCTTGGATCTACATCGATGTAG
* * * *
35341920 AAACATCCGAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGGATATGGAGATGCCAAA
196 AAACATCCGAAGGTTAGATCTGCTATGTCTCCGATCTGATCTCCGTCGAATATGGAGAAGCCAAA
* * *
35341985 TCTATTATCTTATATCTTCTTCGATGTGAAAACATCTGAAGGTCAGATCTGC
261 TCTATTATCTTAGATCTGCTTCGATGTGAAAACATCCGAAGGTCAGATCTGC
* *
35342037 TATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCAATTTGCTCTCTAA
1 TATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCAATCTGCTCTCTGA
* *
35342102 CAATACAGAGATGCCAAATCATCTTCGGTCTGCTTTAGCGTAAACACGTGAAAGCCAAATCTACT
66 CAATACAGAGATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACACGTGAAAGCCAAATCTACT
* *
35342167 ATGTCTTCGATCTGCTCCTTATAAACGTAAGGATGCCAAATCATCTTGGATCTACATCGATGTAG
131 ATGTCTTCGATCTACTCCTTATAAACGCAAGGATGCCAAATCATCTTGGATCTACATCGATGTAG
* * *
35342232 AAACATCTGAAGGTTAGATCTGCTATGTCTCCGATCTGATCTCTGTCGAATATGGAGAAGTCAAA
196 AAACATCCGAAGGTTAGATCTGCTATGTCTCCGATCTGATCTCCGTCGAATATGGAGAAGCCAAA
* * *
35342297 TCTGTTATCTTGGATCTGCTTCGATGTGAAAACATCCGAATGTCAGATCTGC
261 TCTATTATCTTAGATCTGCTTCGATGTGAAAACATCCGAAGGTCAGATCTGC
** * * *
35342349 TATCTTTTATTTGCTCTCTAACAATACAGAGATGCCAAATCTGCTATATTCAATCTGCTCTCTGA
1 TATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCAATCTGCTCTCTGA
* *
35342414 CAATACAGAGATGCCAAATAATCTTAGATCTGCTTTAGCGTAAACACATGAAAGC
66 CAATACAGAGATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACACGTGAAAGC
35342469 TAAGTCTGCT
Statistics
Matches: 391, Mismatches: 41, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
312 391 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (312 bp):
TATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCAATCTGCTCTCTGA
CAATACAGAGATGCCAAATCATCTTAGATCTGCTTTAGCGTAAACACGTGAAAGCCAAATCTACT
ATGTCTTCGATCTACTCCTTATAAACGCAAGGATGCCAAATCATCTTGGATCTACATCGATGTAG
AAACATCCGAAGGTTAGATCTGCTATGTCTCCGATCTGATCTCCGTCGAATATGGAGAAGCCAAA
TCTATTATCTTAGATCTGCTTCGATGTGAAAACATCCGAAGGTCAGATCTGC
Found at i:35353997 original size:37 final size:37
Alignment explanation
Indices: 35353944--35354065 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
35353934 TATAAAAGAA
*
35353944 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
35353981 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
35354018 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
35354055 GTCTCACCCGG
1 GTCTTACCCGG
35354066 AACATATTCC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:35354222 original size:49 final size:49
Alignment explanation
Indices: 35354167--35354283 Score: 216
Period size: 49 Copynumber: 2.4 Consensus size: 49
35354157 TTTTGCATTA
35354167 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
35354216 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
35354265 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
35354284 CATATATGTA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 66 1.00
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:35358609 original size:17 final size:17
Alignment explanation
Indices: 35358584--35358616 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35358574 GTAAGGTATA
35358584 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
35358601 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
35358617 AAATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:35358735 original size:24 final size:23
Alignment explanation
Indices: 35358719--35358788 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
35358709 ATACATAATT
35358719 TATAA-AAAATAAAAATAATATA
1 TATAATAAAATAAAAATAATATA
* * *
35358741 TATAATAAAATATAATTTATA-A
1 TATAATAAAATAAAAATAATATA
*
35358763 GTAAAATATATAATAAAAATAATATA
1 -TATAATA-A-AATAAAAATAATATA
35358789 CATTATTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
22 6 0.17
23 18 0.50
24 1 0.03
25 10 0.28
26 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (23 bp):
TATAATAAAATAAAAATAATATA
Found at i:35358767 original size:18 final size:19
Alignment explanation
Indices: 35358726--35358772 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
35358716 ATTTATAAAA
35358726 AATAAAA-ATAATATATAT
1 AATAAAATATAATATATAT
35358744 AATAAAATATAAT-T-TAT
1 AATAAAATATAATATATAT
35358761 AAGTAAAATATA
1 AA-TAAAATATA
35358773 TAATAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.19
18 17 0.63
19 5 0.19
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AATAAAATATAATATATAT
Found at i:35358776 original size:39 final size:38
Alignment explanation
Indices: 35358702--35358786 Score: 91
Period size: 39 Copynumber: 2.2 Consensus size: 38
35358692 ACAATTAATG
* *
35358702 AATAATAATACATAATTTATAAAAAATAAAAATAATATA
1 AATAATAAAACATAATTTATAAAAAAT-AAAATAATAAA
* * *
35358741 TATAATAAAATATAATTTATAAGTAAAAT-ATATAATAAA
1 AATAATAAAACATAATTTATAA--AAAATAAAATAATAAA
35358780 AATAATA
1 AATAATA
35358787 TACATTATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
39 33 0.87
41 5 0.13
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (38 bp):
AATAATAAAACATAATTTATAAAAAATAAAATAATAAA
Found at i:35374973 original size:51 final size:51
Alignment explanation
Indices: 35374918--35375017 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
35374908 CTACCACATA
**
35374918 ACATGTAA-CACATCCATAATGAACTTTGACCTCTCAACGAGCTCGGATGTT
1 ACATG-AATCACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGTT
* * * *
35374969 ACATGAATCGCATCCATTATGAGCTCGGACCTCTCAATGAGCTCGGATG
1 ACATGAATCACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG
35375018 CTCGCATCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.05
51 40 0.95
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGTT
Found at i:35388212 original size:39 final size:39
Alignment explanation
Indices: 35388158--35388319 Score: 261
Period size: 39 Copynumber: 4.2 Consensus size: 39
35388148 TGTGTATGAA
*
35388158 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
35388197 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
35388236 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
35388275 TGTGCGAGTTGTGATATCCGGGTTAAGTCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
35388314 TGTGCG
1 TGTGCG
35388320 GGTTACCATA
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 113 1.00
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:35388335 original size:39 final size:39
Alignment explanation
Indices: 35388158--35388350 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
35388148 TGTGTATGAA
* *
35388158 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
35388197 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
35388236 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
35388275 TGTGCGAGTTGTGATATCCGGGTTAAGTCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* ** * *
35388314 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
35388351 GTTTGAACGA
Statistics
Matches: 135, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 127 0.94
40 8 0.06
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:35390050 original size:40 final size:40
Alignment explanation
Indices: 35390005--35390171 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
35389995 CGGAATATAA
35390005 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
35390045 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
35390085 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
35390125 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
35390164 CCGGATAT
1 CCGGATAT
35390172 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:35390155 original size:80 final size:79
Alignment explanation
Indices: 35390005--35390171 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
35389995 CGGAATATAA
* *
35390005 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
35390070 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
35390085 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
35390147 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
35390164 CCGGATAT
1 CCGGATAT
35390172 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:35391019 original size:17 final size:19
Alignment explanation
Indices: 35390996--35391041 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
35390986 AAGAAGCATG
35390996 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
35391014 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
35391032 AATCATGCTC
1 AATCATGCTC
35391042 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:35398053 original size:40 final size:40
Alignment explanation
Indices: 35398008--35398174 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
35397998 CGGAATATAA
35398008 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
35398048 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
35398088 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
35398128 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
35398167 CCGGATAT
1 CCGGATAT
35398175 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:35398158 original size:80 final size:79
Alignment explanation
Indices: 35398008--35398174 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
35397998 CGGAATATAA
* *
35398008 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
35398073 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
35398088 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
35398150 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
35398167 CCGGATAT
1 CCGGATAT
35398175 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:35399022 original size:17 final size:19
Alignment explanation
Indices: 35398999--35399044 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
35398989 AAGAAGCATG
35398999 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
35399017 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
35399035 AATCATGCTC
1 AATCATGCTC
35399045 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:35401009 original size:40 final size:38
Alignment explanation
Indices: 35400960--35401066 Score: 119
Period size: 39 Copynumber: 2.7 Consensus size: 38
35400950 ATCACGATTT
*
35400960 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
35401000 GCACGAATGCCTTC-GGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
35401039 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
35401067 TTATAATTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
37 1 0.02
38 4 0.07
39 29 0.49
40 25 0.42
ACGTcount: A:0.21, C:0.30, G:0.25, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:35401050 original size:39 final size:39
Alignment explanation
Indices: 35400960--35401109 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
35400950 ATCACGATTT
*
35400960 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
35401000 GCACGAATGCCTTC-GGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * * ** *
35401039 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
35401079 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
35401110 TCATTCAATT
Statistics
Matches: 89, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
37 1 0.01
38 4 0.04
39 29 0.33
40 54 0.61
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:35410175 original size:40 final size:40
Alignment explanation
Indices: 35410116--35410323 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
35410106 CAATTGAATG
* * * *
35410116 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
35410156 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
35410196 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
35410236 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
35410276 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
35410316 ATATCCGG
1 ATATCCGG
35410324 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:35410254 original size:80 final size:80
Alignment explanation
Indices: 35410118--35410323 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
35410108 ATTGAATGAT
* * ** * * *
35410118 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
35410182 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
35410198 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
35410263 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
35410278 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
35410324 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:35413604 original size:40 final size:39
Alignment explanation
Indices: 35413454--35413606 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
35413444 GAATGTTCGA
*
35413454 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
35413493 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
35413532 ATGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
35413571 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
35413607 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:35413622 original size:40 final size:39
Alignment explanation
Indices: 35413455--35413637 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
35413445 AATGTTCGAG
* *
35413455 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
35413494 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
35413533 TGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
35413572 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
35413612 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
35413638 GTTTGAACGA
Statistics
Matches: 129, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.68
40 41 0.32
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:35418899 original size:49 final size:48
Alignment explanation
Indices: 35418754--35419019 Score: 394
Period size: 49 Copynumber: 5.5 Consensus size: 48
35418744 TACATATATG
* * *
35418754 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCA-TATG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATTATA
35418801 TGTGATAAGGCCGT-ATGGCCAATGTGATGAATGTGAAAGTGTA-TATA
1 TGTGATAAGGCC-TAATGGCCAATGTGATGAATGTGAAAGTGTATTATA
*
35418848 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTAT-TATA
* *
35418897 TGTAATAAGGCCTAATGGCCAATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTAT-TATA
* *
35418946 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTAT-TATA
*
35418995 TGTGATAAGGCCTAATGGCTAATGT
1 TGTGATAAGGCCTAATGGCCAATGT
35419020 AAAATATATG
Statistics
Matches: 203, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 83 0.41
49 119 0.59
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (48 bp):
TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATTATA
Found at i:35419164 original size:37 final size:37
Alignment explanation
Indices: 35419114--35419198 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
35419104 GGAAAATGTT
*
35419114 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
35419151 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
35419188 CCGGGTAAGAC
1 CCGGGTAAGAC
35419199 TTCGTAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:35420722 original size:20 final size:22
Alignment explanation
Indices: 35420692--35420732 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
35420682 CCTGCATCTA
35420692 AAAATAA-TTTTGAAATTTTGC
1 AAAATAATTTTTGAAATTTTGC
*
35420713 AAAA-AATTTTTGAATTTTTG
1 AAAATAATTTTTGAAATTTTG
35420733 ATTTAGTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.46
Consensus pattern (22 bp):
AAAATAATTTTTGAAATTTTGC
Found at i:35430960 original size:40 final size:40
Alignment explanation
Indices: 35430758--35430965 Score: 233
Period size: 40 Copynumber: 5.2 Consensus size: 40
35430748 TGAATGATAC
* * *
35430758 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
35430798 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
35430838 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TCATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* ** *
35430878 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGAT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * *
35430918 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
35430958 CC-GGCTAA
1 CCGGGCTAA
35430966 ATTCCGAAGA
Statistics
Matches: 145, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.04
40 137 0.94
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:35437927 original size:27 final size:28
Alignment explanation
Indices: 35437871--35437940 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
35437861 AAATTTGTAC
35437871 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
35437899 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
35437926 AGCACGAAGTGTGCG
1 AGCACTAAGTGTGCG
35437941 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Done.