Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 81 of 170
Found at i:24626844 original size:20 final size:20
Alignment explanation
Indices: 24626781--24626846 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
24626771 CACATACGTG
*
24626781 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * * *
24626801 CCCCTGAATGCACAT-GCGTG
1 CCCCTGTTTGTACTTCG-GTA
24626821 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
24626841 CCCCTG
1 CCCCTG
24626847 AATGCACATA
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.35, G:0.20, T:0.32
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:24626944 original size:20 final size:20
Alignment explanation
Indices: 24626765--24626946 Score: 55
Period size: 20 Copynumber: 9.1 Consensus size: 20
24626755 AATTATAGAA
* *
24626765 TGAATGCACATACGTGCCCC
1 TGAATGCACTTCCGTGCCCC
* * * *
24626785 T-ATTTGTACTTCGGTACCCC
1 TGA-ATGCACTTCCGTGCCCC
* *
24626805 TGAATGCACATGCGTGCCCC
1 TGAATGCACTTCCGTGCCCC
** * * *
24626825 TGTTTGTACTTCGGTACCCC
1 TGAATGCACTTCCGTGCCCC
* ** *
24626845 TGAATGCACATATGTGCCCT
1 TGAATGCACTTCCGTGCCCC
** * * *
24626865 TGTTTGTACTTCAGTACCCC
1 TGAATGCACTTCCGTGCCCC
* *
24626885 T-AACTGCACATACGTGCCCC
1 TGAA-TGCACTTCCGTGCCCC
* * ** *
24626905 T-ATTTGTACTTTGGTACCCC
1 TGA-ATGCACTTCCGTGCCCC
24626925 TGAATGCACTTCCGTGCCCC
1 TGAATGCACTTCCGTGCCCC
24626945 TG
1 TG
24626947 TTTATCTCCA
Statistics
Matches: 104, Mismatches: 53, Indels: 10
0.62 0.32 0.06
Matches are distributed among these distances:
19 1 0.01
20 101 0.97
21 2 0.02
ACGTcount: A:0.18, C:0.32, G:0.19, T:0.31
Consensus pattern (20 bp):
TGAATGCACTTCCGTGCCCC
Found at i:24635319 original size:22 final size:22
Alignment explanation
Indices: 24635291--24635333 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
24635281 CAGTGTTATC
24635291 AGTGGCAGTTTATCTACAAATT
1 AGTGGCAGTTTATCTACAAATT
*
24635313 AGTGGCAGTTTATCTATAAAT
1 AGTGGCAGTTTATCTACAAAT
24635334 CAATGGTGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (22 bp):
AGTGGCAGTTTATCTACAAATT
Found at i:24636034 original size:21 final size:21
Alignment explanation
Indices: 24636010--24636051 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24636000 TGATTTTAAA
24636010 ATTAAATCTATTTATTTCAAC
1 ATTAAATCTATTTATTTCAAC
* * *
24636031 ATTATATTTGTTTATTTCAAC
1 ATTAAATCTATTTATTTCAAC
24636052 TCATGTTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.52
Consensus pattern (21 bp):
ATTAAATCTATTTATTTCAAC
Found at i:24638689 original size:50 final size:50
Alignment explanation
Indices: 24638613--24638845 Score: 231
Period size: 50 Copynumber: 4.7 Consensus size: 50
24638603 AAAGAGGTCC
* * *
24638613 CATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATAAGAAGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCT
* * * *
24638663 AATGTAAGACCATGTCTGTGACATGGCTTTGGCACCGAGATGAGAGGTC-
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCT
* * * *
24638712 CCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCT
1 CAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCT
* * * * * * * *
24638763 CATGTAAGACCATATATGGGATATGGCATTGGCA--GTACA-AAAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAA-GTCT
*
24638812 CATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
24638846 TGTTATTATC
Statistics
Matches: 151, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
48 4 0.03
49 35 0.23
50 110 0.73
51 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCT
Found at i:24638789 original size:100 final size:100
Alignment explanation
Indices: 24638605--24638838 Score: 267
Period size: 100 Copynumber: 2.4 Consensus size: 100
24638595 ATTTGGGTAA
* * * *
24638605 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATAAGAAGTCTAATGTAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATAAGAACTCTAATGTAA
* * * *
24638670 GACCATGTCTGTGACATGGCTTTGGCACCGAGATG
66 GACCATATATGGGACATGGCATTGGCACCGAGATG
* * *
24638705 AGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCTCATGTA
1 AGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATAAGAACTCTAATGTA
* * **
24638769 AGACCATATATGGGATATGGCATTGGCA--GTACAAA
65 AGACCATATATGGGACATGGCATTGGCACCG-AGATG
* **
24638804 AAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
24638839 TTTGGCATGT
Statistics
Matches: 113, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
98 1 0.01
99 33 0.29
100 79 0.70
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (100 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATAAGAACTCTAATGTAA
GACCATATATGGGACATGGCATTGGCACCGAGATG
Found at i:24675105 original size:13 final size:13
Alignment explanation
Indices: 24675084--24675118 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
24675074 TAAATGCTCC
*
24675084 AATTCAGCTGATT
1 AATTAAGCTGATT
24675097 AATTAAGCTGATT
1 AATTAAGCTGATT
*
24675110 ACTTAAGCT
1 AATTAAGCT
24675119 TGAAGAGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (13 bp):
AATTAAGCTGATT
Found at i:24676520 original size:27 final size:27
Alignment explanation
Indices: 24676468--24676558 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 27
24676458 GGCATTACGG
* *
24676468 TCATTTTACCCTA-CAGGGGTAATTCGA
1 TCATTTTA-CCTATCAAGGGTATTTCGA
* *
24676495 TCATTTTACCTATCAAGGATATTTCGG
1 TCATTTTACCTATCAAGGGTATTTCGA
* ** *
24676522 TTATTTTACCTATTGAGGGTATTTCAA
1 TCATTTTACCTATCAAGGGTATTTCGA
*
24676549 TAATTTTACC
1 TCATTTTACC
24676559 CTTTGAGGGT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 4 0.08
27 48 0.92
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (27 bp):
TCATTTTACCTATCAAGGGTATTTCGA
Found at i:24676564 original size:27 final size:27
Alignment explanation
Indices: 24676514--24676684 Score: 182
Period size: 27 Copynumber: 6.3 Consensus size: 27
24676504 CTATCAAGGA
* *
24676514 TATTTCGGTTATTTTA-CCTATTGAGGG
1 TATTTCGATAATTTTACCCT-TTGAGGG
*
24676541 TATTTCAATAATTTTACCCTTTGAGGG
1 TATTTCGATAATTTTACCCTTTGAGGG
* * *
24676568 TATATCGATAATTTTGCCCTTTGAGGT
1 TATTTCGATAATTTTACCCTTTGAGGG
* *
24676595 TATTTCGATAATTTCACCCTTCGAGGG
1 TATTTCGATAATTTTACCCTTTGAGGG
* *
24676622 TATTTTGGTAATTTTACCCTTTGAGGG
1 TATTTCGATAATTTTACCCTTTGAGGG
* * *** *
24676649 TATTTTGGTAATTTTATATTTTAAGGG
1 TATTTCGATAATTTTACCCTTTGAGGG
24676676 TATTTCGAT
1 TATTTCGAT
24676685 CATTCTAATA
Statistics
Matches: 121, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
27 118 0.98
28 3 0.02
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (27 bp):
TATTTCGATAATTTTACCCTTTGAGGG
Found at i:24676569 original size:81 final size:82
Alignment explanation
Indices: 24676484--24676650 Score: 180
Period size: 81 Copynumber: 2.1 Consensus size: 82
24676474 TACCCTACAG
* * * * *
24676484 GGGTAAT-TCGATCATTTT-ACCTATCAAGGATATTTCGGTTATTTTA-CCTATTGAGGGTATTT
1 GGGTAATATCGATAATTTTGACCT-TCAAGGATATTTCGATAATTTCACCCT-TCGAGGGTATTT
24676546 CAATAATTTTACCCTTTGA
64 CAATAATTTTACCCTTTGA
* ** * **
24676565 GGGT-ATATCGATAATTTTGCCCTTTGAGGTTATTTCGATAATTTCACCCTTCGAGGGTATTTTG
1 GGGTAATATCGATAATTTTGACCTTCAAGGATATTTCGATAATTTCACCCTTCGAGGGTATTTCA
*
24676629 GTAATTTTACCCTTTGA
66 ATAATTTTACCCTTTGA
24676646 GGGTA
1 GGGTA
24676651 TTTTGGTAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
80 2 0.03
81 62 0.89
82 6 0.09
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (82 bp):
GGGTAATATCGATAATTTTGACCTTCAAGGATATTTCGATAATTTCACCCTTCGAGGGTATTTCA
ATAATTTTACCCTTTGA
Found at i:24678224 original size:22 final size:22
Alignment explanation
Indices: 24678194--24678246 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
24678184 CCTTTGACCT
24678194 CCTTACCACACCTGTGACGCCA
1 CCTTACCACACCTGTGACGCCA
* *
24678216 CCTTGCCACACCTGTGTCGCCA
1 CCTTACCACACCTGTGACGCCA
*
24678238 CCTTTCCAC
1 CCTTACCAC
24678247 TACACCACAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.17, C:0.47, G:0.13, T:0.23
Consensus pattern (22 bp):
CCTTACCACACCTGTGACGCCA
Found at i:24681468 original size:40 final size:40
Alignment explanation
Indices: 24681412--24681592 Score: 256
Period size: 40 Copynumber: 4.5 Consensus size: 40
24681402 AATTATAGAA
24681412 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
24681452 TGAATGCACATGCGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * * *
24681492 TTAATGCACATATGTGCCCTTGTTTGTACTTCAGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
*
24681532 TAAATGCACATACGTGCCCCTATTTGTACGTT-GGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTAC-TTCGGTACCCC
* *
24681572 TGAATGCACTTCCGTGCCCCT
1 TGAATGCACATACGTGCCCCT
24681593 GTTTATCTCC
Statistics
Matches: 125, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 123 0.98
41 2 0.02
ACGTcount: A:0.19, C:0.31, G:0.18, T:0.31
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:24681491 original size:20 final size:20
Alignment explanation
Indices: 24681428--24681492 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
24681418 CACATACGTG
*
24681428 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * * *
24681448 CCCCTGAATGCACAT-GCGTG
1 CCCCTGTTTGTACTTCG-GTA
24681468 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
24681488 CCCCT
1 CCCCT
24681493 TAATGCACAT
Statistics
Matches: 32, Mismatches: 11, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.35, G:0.18, T:0.32
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:24682333 original size:12 final size:12
Alignment explanation
Indices: 24682313--24682342 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24682303 GTAGTGAGTT
24682313 ACACAGCCTAGC
1 ACACAGCCTAGC
*
24682325 ACACGGCCTAGC
1 ACACAGCCTAGC
24682337 ACACAG
1 ACACAG
24682343 GCATGTGCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.33, C:0.40, G:0.20, T:0.07
Consensus pattern (12 bp):
ACACAGCCTAGC
Found at i:24686907 original size:22 final size:22
Alignment explanation
Indices: 24686877--24686928 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
24686867 CATCAGTGTT
*
24686877 ATCAATGGCAGTTTATCTACAA
1 ATCAGTGGCAGTTTATCTACAA
*
24686899 ATCAGTGGCAGTTTATCTATAA
1 ATCAGTGGCAGTTTATCTACAA
24686921 ATCAGTGG
1 ATCAGTGG
24686929 TGGCATGTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (22 bp):
ATCAGTGGCAGTTTATCTACAA
Found at i:24687623 original size:21 final size:21
Alignment explanation
Indices: 24687599--24687639 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24687589 TGATTTTAAA
*
24687599 ATTAAATCTATTTATTTCAAT
1 ATTAAACCTATTTATTTCAAT
*
24687620 ATTATACCTATTTATTTCAA
1 ATTAAACCTATTTATTTCAA
24687640 CTCATGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTAAACCTATTTATTTCAAT
Found at i:24688088 original size:26 final size:26
Alignment explanation
Indices: 24688048--24688102 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
24688038 CATTTCATCA
*
24688048 TCTCTCATTCATCCATTCTTCTCTATTT
1 TCTCTCATT-ATCCATTCTTC-CAATTT
24688076 TCTCTCATT-TCCATTCTTCCAATTT
1 TCTCTCATTATCCATTCTTCCAATTT
24688101 TC
1 TC
24688103 AAGAGAGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.27
26 10 0.38
28 9 0.35
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.53
Consensus pattern (26 bp):
TCTCTCATTATCCATTCTTCCAATTT
Found at i:24697634 original size:15 final size:15
Alignment explanation
Indices: 24697614--24697643 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
24697604 AATACTTTCA
24697614 TTACTTATTTTCATC
1 TTACTTATTTTCATC
24697629 TTACTTATTTTCATC
1 TTACTTATTTTCATC
24697644 ACATAACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (15 bp):
TTACTTATTTTCATC
Found at i:24697870 original size:43 final size:42
Alignment explanation
Indices: 24697721--24697915 Score: 164
Period size: 42 Copynumber: 4.6 Consensus size: 42
24697711 TAACCATCAC
* *** *
24697721 ACGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTACAATC-AACGAT
* *
24697764 CCCGGTGGAATCAGCACTTAGCAACCACCTTATAATCAACGAT
1 -ACGGTGGAATCAGCACTTAGCAACCACCTTACAATCAACGAT
* *
24697807 ACGG-GGAATCAGCA-TATAGCAAGCC-CTTTAACAATCAAGGAT
1 ACGGTGGAATCAGCACT-TAGCAA-CCACCTT-ACAATCAACGAT
* * * **
24697849 ACGGTGGAATCAGTACTTAGCAACCACATTAGTAATCAATAAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTA-CAATCAACGAT
* *
24697892 TCGG-GGAATCTGCACTTAGCAACC
1 ACGGTGGAATCAGCACTTAGCAACC
24697916 CTTTTTTGAT
Statistics
Matches: 127, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
40 1 0.01
41 19 0.15
42 40 0.31
43 34 0.27
44 33 0.26
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (42 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTACAATCAACGAT
Found at i:24697928 original size:84 final size:84
Alignment explanation
Indices: 24697766--24697919 Score: 222
Period size: 84 Copynumber: 1.8 Consensus size: 84
24697756 CAAAGGATCC
* *
24697766 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAACGATACGGGGAATCAGCATATAGCAAGC
1 CGGTGGAATCAGCACTTAGCAACCACATTATAATCAACAATACGGGGAATCAGCATATAGCAAGC
24697831 CCTTTAACAATCAAGGATA
66 CCTTTAACAATCAAGGATA
* * * *
24697850 CGGTGGAATCAGTACTTAGCAACCACATTAGTAATCAATAATTCGGGGAATCTGCACT-TAGCAA
1 CGGTGGAATCAGCACTTAGCAACCACATTA-TAATCAACAATACGGGGAATCAGCA-TATAGCAA
24697914 -CCCTTT
64 GCCCTTT
24697920 TTTGATCAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
84 34 0.55
85 27 0.44
86 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACATTATAATCAACAATACGGGGAATCAGCATATAGCAAGC
CCTTTAACAATCAAGGATA
Found at i:24699712 original size:40 final size:41
Alignment explanation
Indices: 24699633--24699728 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 41
24699623 TGGCGCTAAC
* * *
24699633 GAAAAACGCCACAAAAGGTCAAGCAGTAGTGGCGTTTATGA
1 GAAAAACGCCACAAAAGGTCAACCAATAGCGGCGTTTATGA
* *
24699674 GAAAAACGCCGCAACAGGT-AACCAATAGCGGCGTTTATGA
1 GAAAAACGCCACAAAAGGTCAACCAATAGCGGCGTTTATGA
*
24699714 GAAAAATGCCACAAA
1 GAAAAACGCCACAAA
24699729 GTATCATTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 30 0.64
41 17 0.36
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.15
Consensus pattern (41 bp):
GAAAAACGCCACAAAAGGTCAACCAATAGCGGCGTTTATGA
Found at i:24708174 original size:50 final size:49
Alignment explanation
Indices: 24708111--24708294 Score: 206
Period size: 50 Copynumber: 3.7 Consensus size: 49
24708101 AAAGAGATCC
* *
24708111 CATGTAAGACCATGTCTGGGACATAGCGTTGGCAGCGAGATAAGAGGTGT
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGT-T
* * *
24708161 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTC
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTT
* * * * **
24708210 CCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAGAACTCT
1 CAT-GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGT-T
* * * *
24708261 CATGTAAGACCATATATGGGATATGGCATTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCA
24708295 GTACAAAAAA
Statistics
Matches: 113, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 2 0.02
50 109 0.96
51 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (49 bp):
CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTT
Found at i:24708287 original size:100 final size:100
Alignment explanation
Indices: 24708114--24708294 Score: 254
Period size: 100 Copynumber: 1.8 Consensus size: 100
24708104 GAGATCCCAT
* * * ** * * *
24708114 GTAAGACCATGTCTGGGACATAGCGTTGGCAGCGAGATAAGAGGTGTCATGTAAGACCATGTCTG
1 GTAAGACCATGTCTGGGACATAGCATGGGCACCGAGATAAGAACTCTCATGTAAGACCATATATG
*
24708179 GGACATGGCGTTGGCACCAAGATGAGAGGTCCCTC
66 GGACATGGCATTGGCACCAAGATGAGAGGTCCCTC
* *
24708214 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAGAACTCTCATGTAAGACCATATATG
1 GTAAGACCATGTCTGGGACATAGCATGGGCACCGAGATAAGAACTCTCATGTAAGACCATATATG
*
24708279 GGATATGGCATTGGCA
66 GGACATGGCATTGGCA
24708295 GTACAAAAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
100 69 1.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (100 bp):
GTAAGACCATGTCTGGGACATAGCATGGGCACCGAGATAAGAACTCTCATGTAAGACCATATATG
GGACATGGCATTGGCACCAAGATGAGAGGTCCCTC
Found at i:24739312 original size:18 final size:20
Alignment explanation
Indices: 24739282--24739320 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
24739272 AAAATTAGTG
24739282 TTTTTAAAGATATT-TTTAT
1 TTTTTAAAGATATTATTTAT
24739301 TTTTTAAA-ATATTATTTAT
1 TTTTTAAAGATATTATTTAT
24739320 T
1 T
24739321 AATTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTTAAAGATATTATTTAT
Found at i:24739331 original size:21 final size:19
Alignment explanation
Indices: 24739282--24739331 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
24739272 AAAATTAGTG
* *
24739282 TTTTTAAAGATATTTTTAT
1 TTTTTAAATATATTTTTAA
24739301 TTTTTAAAATATTATTTATTAA
1 TTTTT-AAATA-TATTT-TTAA
24739323 TTTTTAAAT
1 TTTTTAAAT
24739332 GAAATTAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 5 0.19
20 4 0.15
21 9 0.35
22 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTTAAATATATTTTTAA
Found at i:24748040 original size:19 final size:19
Alignment explanation
Indices: 24748013--24748049 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
24748003 TTATAACTGA
24748013 TCTTAATTAATTAATTTTT
1 TCTTAATTAATTAATTTTT
*
24748032 TCTTCATTAATTAATTTT
1 TCTTAATTAATTAATTTT
24748050 GTAATTAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (19 bp):
TCTTAATTAATTAATTTTT
Found at i:24750127 original size:6 final size:6
Alignment explanation
Indices: 24750118--24750147 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
24750108 ATGCATGTGC
24750118 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
24750148 TGGAGGTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
GTGTAT
Found at i:24758063 original size:40 final size:40
Alignment explanation
Indices: 24757832--24758056 Score: 307
Period size: 40 Copynumber: 5.7 Consensus size: 40
24757822 TTGAATGATG
* * * *
24757832 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
24757872 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
24757912 T-CGGGCTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24757951 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24757991 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
24758032 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24758057 AACGAGTAGC
Statistics
Matches: 171, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
39 39 0.23
40 122 0.71
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24766158 original size:40 final size:40
Alignment explanation
Indices: 24765927--24766151 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
24765917 TTGAATGATG
* * * *
24765927 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
24765966 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
24766006 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24766046 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
24766086 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
24766127 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
24766152 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 19 0.11
40 148 0.88
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:24766158 original size:120 final size:119
Alignment explanation
Indices: 24765927--24766184 Score: 292
Period size: 120 Copynumber: 2.2 Consensus size: 119
24765917 TTGAATGATG
* * *
24765927 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
* **
24765992 TACGAGTTACTAAATCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 TACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAA
* * **
24766046 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
* * * *
24766110 TGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATA
64 TGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAA
* *
24766166 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
24766185 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
119 38 0.32
120 78 0.66
121 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
TACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:24768025 original size:40 final size:40
Alignment explanation
Indices: 24767941--24768066 Score: 110
Period size: 40 Copynumber: 3.1 Consensus size: 40
24767931 ATTACTTACA
* * * * * * *
24767941 GCTTGTCTACATTACGGGCAATTTATATACATTACTGTTA
1 GCTTGTCTACAATACCGGCAGTTTATCTGCATTACTGGTG
* *
24767981 GCTTGTCTACACTACCGGCAGTTTATCTGCATAACTGGTG
1 GCTTGTCTACAATACCGGCAGTTTATCTGCATTACTGGTG
* * * *
24768021 GCTTGAAC-ACAATACTGGCAGCTTGTCTGCATTACTGGTG
1 GCTTG-TCTACAATACCGGCAGTTTATCTGCATTACTGGTG
*
24768061 CCTTGT
1 GCTTGT
24768067 TCACAAATTG
Statistics
Matches: 69, Mismatches: 16, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
40 68 0.99
41 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (40 bp):
GCTTGTCTACAATACCGGCAGTTTATCTGCATTACTGGTG
Found at i:24777810 original size:24 final size:24
Alignment explanation
Indices: 24777778--24777826 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
24777768 ATGTTATGTT
24777778 TAAATATTAGGTGTTTATGTTTAG
1 TAAATATTAGGTGTTTATGTTTAG
24777802 TAAATATTAGGTGTTTATGTTTAG
1 TAAATATTAGGTGTTTATGTTTAG
24777826 T
1 T
24777827 TTAATATGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (24 bp):
TAAATATTAGGTGTTTATGTTTAG
Found at i:24783460 original size:22 final size:23
Alignment explanation
Indices: 24783406--24783460 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
24783396 AAATAAAAAA
*
24783406 ATTATTT-TTTAG-TTTTATTTTT
1 ATTATTTCTTT-GCTTTTATCTTT
*
24783428 ATTCTTTCTTTGCTTTTATCTTT
1 ATTATTTCTTTGCTTTTATCTTT
24783451 -TTATTTCTTT
1 ATTATTTCTTT
24783461 TCTGTTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.75
Consensus pattern (23 bp):
ATTATTTCTTTGCTTTTATCTTT
Found at i:24784648 original size:28 final size:28
Alignment explanation
Indices: 24784595--24784649 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
24784585 AGAGAGAAAG
* *
24784595 ATGGGAAAGAGAAGAAGGGAAGAAAAAA
1 ATGGGAAAAAGAAGAAGGGAAAAAAAAA
*
24784623 ATGGGAAAAAG-AGAACGTGAAAAAAAA
1 ATGGGAAAAAGAAGAA-GGGAAAAAAAA
24784650 TGAAAGGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.62, C:0.02, G:0.31, T:0.05
Consensus pattern (28 bp):
ATGGGAAAAAGAAGAAGGGAAAAAAAAA
Found at i:24791120 original size:16 final size:16
Alignment explanation
Indices: 24791099--24791139 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
24791089 ATTTGGTTGA
*
24791099 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
24791115 GAAAATTAATTAATT-
1 GAAAATTAATTAATTG
24791130 -AAAATTAATT
1 GAAAATTAATT
24791140 TGAGATGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.42
16 14 0.58
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:24797479 original size:15 final size:16
Alignment explanation
Indices: 24797445--24797482 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
24797435 CCACATACAT
* *
24797445 ATATATATACTTTACC
1 ATATAAATACTATACC
24797461 ATATAAATACTAT-CC
1 ATATAAATACTATACC
24797476 ATATAAA
1 ATATAAA
24797483 ATTAAACCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (16 bp):
ATATAAATACTATACC
Found at i:24799127 original size:50 final size:50
Alignment explanation
Indices: 24799016--24799213 Score: 198
Period size: 50 Copynumber: 3.8 Consensus size: 50
24799006 ATTTGGATAA
* *
24799016 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
*
24799072 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
24799122 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * ** * * *
24799172 AGAACTCCTATGTAAGATAATATCCGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
24799214 GTACAAGAAA
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 78 0.64
53 3 0.02
55 1 0.01
56 40 0.33
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:24799206 original size:100 final size:104
Alignment explanation
Indices: 24799027--24799213 Score: 229
Period size: 100 Copynumber: 1.8 Consensus size: 104
24799017 GAGATCCCAT
* * ** *
24799027 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCACT--GACTATGAGAACTCCCATGTAAGACAA
* * *
24799092 TGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
64 TATCCGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCC
* *
24799133 GTAAGACCATGTCTGGGACATGGCATGGGCA-C-CT-A-TATGAGAACTCCTATGTAAGATAATA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCACTGACTATGAGAACTCCCATGTAAGACAATA
*
24799194 TCCGGGATATGGCATTGGCA
66 TCCGGGACATGGCATTGGCA
24799214 GTACAAGAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
100 37 0.53
101 1 0.01
104 1 0.01
105 1 0.01
106 30 0.43
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (104 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCATCACTGACTATGAGAACTCCCATGTAAGACAATA
TCCGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCC
Found at i:24816660 original size:40 final size:40
Alignment explanation
Indices: 24816605--24816956 Score: 454
Period size: 40 Copynumber: 8.8 Consensus size: 40
24816595 GAGAATTGAG
* *
24816605 AGTGATATACCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
24816645 AGTGACGTATCCGGACTAAGTTCCGAAGAGAATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
24816685 AGTGATGTATCCGGACTAAGTACCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * *
24816725 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
24816765 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
24816805 AGTGATATATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * *
24816845 AGTGGTGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* ***
24816885 AGTGATATATCCGTG-CTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCG-GACTAAGTTCCGAAGAGCATTCGTGCT
* * * * * * *
24816925 GGTGTTATATCCGGGCTAGGTCCCGATGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
24816957 ATCATGCTGG
Statistics
Matches: 278, Mismatches: 32, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
39 1 0.00
40 276 0.99
41 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:24820970 original size:48 final size:48
Alignment explanation
Indices: 24820892--24821164 Score: 420
Period size: 48 Copynumber: 5.6 Consensus size: 48
24820882 AACCCGTATA
* *
24820892 TATATGTGTGATAAGGCTGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* * * *
24820942 TATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
24820990 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* * * *
24821038 TATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
24821086 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* *
24821134 TATATGTGGTAAAGCTGAATGGCCAATGTGA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGA
24821165 TAAATGTGAG
Statistics
Matches: 203, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
48 194 0.96
49 1 0.00
50 8 0.04
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
Found at i:24821022 original size:96 final size:96
Alignment explanation
Indices: 24820892--24821210 Score: 493
Period size: 96 Copynumber: 3.3 Consensus size: 96
24820882 AACCCGTATA
* *
24820892 TATATGTGTGATAAGGCTGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
24820957 CGAATGGCGAATGTGAAATATGTATGAGATATG
64 CGAATGGCGAATGTGAAATATGTATGAGATATG
24820990 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
24821055 AATGGCGAATGTGAAATATGTATGAGATATG
66 AATGGCGAATGTGAAATATGTATGAGATATG
*
24821086 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
* *
24821151 AATGGCCAATGTGATAA-ATG--TGAG-CATG
66 AATGGCGAATGTGA-AATATGTATGAGATATG
* * *
24821179 CATATATGTGATAAGGCCGAATGGCCAATGTG
1 --TATATGTGGTAAAGCCGAATGGCTAATGTG
24821211 GTGAATATGA
Statistics
Matches: 210, Mismatches: 8, Indels: 9
0.93 0.04 0.04
Matches are distributed among these distances:
93 3 0.01
94 4 0.02
95 27 0.13
96 165 0.79
97 3 0.01
98 8 0.04
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (96 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
AATGGCGAATGTGAAATATGTATGAGATATG
Found at i:24821071 original size:144 final size:146
Alignment explanation
Indices: 24820892--24821210 Score: 432
Period size: 144 Copynumber: 2.2 Consensus size: 146
24820882 AACCCGTATA
* * * * *
24820892 TATATGTGTGATAAGGCTGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
1 TATATGTGTGATAAAGCCGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGC
* *
24820957 CGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
66 CGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCCAATGTGAA
24821022 ATATATGTGTGATATG
131 ATATATGTGTGATATG
*
24821038 TATATGTG-G-TAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGC
1 TATATGTGTGATAAAGCCGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGC
* * * *
24821101 CGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCTGAATGGCCAATGTG--
66 CGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCCAATGTGAA
* * *
24821164 ATAAATGTGAG-CATG
131 ATATATGTGTGATATG
* * * *
24821179 CATATATGTGATAAGGCCGAATGGCCAATGTG
1 TATATGTGTGATAAAGCCGAATGGCGAATGTG
24821211 GTGAATATGA
Statistics
Matches: 152, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
141 9 0.06
142 10 0.07
143 19 0.12
144 105 0.69
145 1 0.01
146 8 0.05
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (146 bp):
TATATGTGTGATAAAGCCGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGC
CGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCCAATGTGAA
ATATATGTGTGATATG
Found at i:24821227 original size:47 final size:47
Alignment explanation
Indices: 24820942--24821250 Score: 156
Period size: 48 Copynumber: 6.5 Consensus size: 47
24820932 GTGTGATATG
* * *
24820942 TATATGTGGTAAAGCCGAATGGCGAATGTGA-AATATGTATGAGATATG--
1 TATATGTGATAAAGCCGAATGGCCAATGTGATAA-A--TATGA-AAATGCA
* * * *
24820990 TATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATATGTGTGATATG--
1 TATATGTGATAAAGCCGAATGGCCAATGTGATAA-ATA--TG-AAAATGCA
* * *
24821038 TATATGTGGTAAAGCCGAATGGCGAATGTGA-AATATGTATGAGATATG--
1 TATATGTGATAAAGCCGAATGGCCAATGTGATAA-A--TATGA-AAATGCA
* * * *
24821086 TATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATATGTGTGATATG--
1 TATATGTGATAAAGCCGAATGGCCAATGTGATAA-ATA--TG-AAAATGCA
* * * **
24821134 TATATGTGGTAAAGCTGAATGGCCAATGTGATAAATGTGAGCATGCA
1 TATATGTGATAAAGCCGAATGGCCAATGTGATAAATATGAAAATGCA
* * *
24821181 TATATGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAAATGCA
1 TATATGTGATAAAGCCGAATGGCCAATGTGATAAATATGAAAATGCA
** * *
24821228 TATATACGGTAAAGCTGAATGGC
1 TATATGTGATAAAGCCGAATGGC
24821251 TAGTGTGAAA
Statistics
Matches: 224, Mismatches: 25, Indels: 25
0.82 0.09 0.09
Matches are distributed among these distances:
45 3 0.01
46 6 0.03
47 57 0.25
48 154 0.69
49 2 0.01
50 2 0.01
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAAGCCGAATGGCCAATGTGATAAATATGAAAATGCA
Found at i:24821282 original size:144 final size:142
Alignment explanation
Indices: 24820898--24821268 Score: 380
Period size: 144 Copynumber: 2.6 Consensus size: 142
24820888 TATATATATG
* * * * **
24820898 TGTGATAAGGCTGAATGGCTAATGTGAAATATATGT-GTGATATGTATATGTGGTAAAGCCGAAT
1 TGTGATAAAGCCGAATGGCCAATGTG-AA-ATATGTAGAGATATGTATATACGGTAAAGCCGAAT
* * * *
24820962 GGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATA
64 GGCTAATGTGAAATATGTAGGAGATATGTATATGTGGTAAAGCCGAATGGCCAATGTG-AATAAA
* *
24821027 TGTGTGATATGTATA
128 TGTGAGACATGTATA
* * **
24821042 TGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGATAAAGCCGAATGGCCAATGTGAAATATGTA-GAGATATGTATATACGGTAAAGCCGAATG
* * *
24821107 GCTAATGTGAAATATAT-GTGTGATATGTATATGTGGTAAAGCTGAATGGCCAATGTG-ATAAAT
65 GCTAATGTGAAATATGTAG-GAGATATGTATATGTGGTAAAGCCGAATGGCCAATGTGAATAAAT
24821170 GTGAG-CATGCATATA
129 GTGAGACATG--TATA
* * *
24821185 TGTGATAAGGCCGAATGGCCAATGTGGTGAATATG-A-A-A-ATGCATATATACGGTAAAGCTGA
1 TGTGATAAAGCCGAATGGCCAATGT-G-AAATATGTAGAGATATG--TATATACGGTAAAGCCGA
*
24821246 ATGGCTAGTGTGAAATATGTAGG
62 ATGGCTAATGTGAAATATGTAGG
24821269 CGATGTGCGT
Statistics
Matches: 194, Mismatches: 23, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
140 3 0.02
141 4 0.02
142 50 0.26
143 29 0.15
144 102 0.53
145 6 0.03
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.30
Consensus pattern (142 bp):
TGTGATAAAGCCGAATGGCCAATGTGAAATATGTAGAGATATGTATATACGGTAAAGCCGAATGG
CTAATGTGAAATATGTAGGAGATATGTATATGTGGTAAAGCCGAATGGCCAATGTGAATAAATGT
GAGACATGTATA
Found at i:24821463 original size:37 final size:37
Alignment explanation
Indices: 24821413--24821564 Score: 232
Period size: 37 Copynumber: 4.1 Consensus size: 37
24821403 GGAAATATAT
* *
24821413 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
*
24821450 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
*
24821487 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
* * * *
24821524 TCCGAGTAAGATCCGATAACTTCGTGTGGAGATTACG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
24821561 TCCG
1 TCCG
24821565 AGCTAAAGGT
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
Found at i:24822882 original size:40 final size:40
Alignment explanation
Indices: 24822838--24823096 Score: 412
Period size: 40 Copynumber: 6.5 Consensus size: 40
24822828 GATATACCCA
*
24822838 GACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGTATCCG
1 GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCG
*
24822878 GACTAAGTTTCGAAGAGCATTCGTGCTAGTGATGTATCCG
1 GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCG
24822918 GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG-ATCCG
1 GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCG
* * *
24822957 GGCTAAATCCCGAAGAGCATTCGTGCTAGTGATGTATCCG
1 GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCG
* *
24822997 GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCTG
1 GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCG
*
24823037 GACTAAGTTCCGAAGAGCATTCGTGCTAGTGGTGTATCCG
1 GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCG
* * *
24823077 GGCTAAATCCCGAAGAGCAT
1 GACTAAGTTCCGAAGAGCAT
24823097 CGTAGTGATA
Statistics
Matches: 201, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 36 0.18
40 165 0.82
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCG
Found at i:24823058 original size:119 final size:120
Alignment explanation
Indices: 24822847--24823096 Score: 448
Period size: 119 Copynumber: 2.1 Consensus size: 120
24822837 AGACTAAGTT
* *
24822847 CCGAAGAGCATTCGTGCTAGTGACGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATG
1 CCGAAGAGCATTCGTGCTAGTGACGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
24822912 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG-ATCCGGGCTAAATC
66 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAATC
*
24822966 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
1 CCGAAGAGCATTCGTGCTAGTGACGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
* *
24823031 TATCTGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGGTGTATCCGGGCTAAATC
66 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAATC
24823086 CCGAAGAGCAT
1 CCGAAGAGCAT
24823097 CGTAGTGATA
Statistics
Matches: 125, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
119 100 0.80
120 25 0.20
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
CCGAAGAGCATTCGTGCTAGTGACGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAATC
Found at i:24825305 original size:36 final size:36
Alignment explanation
Indices: 24825257--24825376 Score: 136
Period size: 36 Copynumber: 3.3 Consensus size: 36
24825247 TACTCTCTGT
* * *
24825257 TTTGGTGTGTTTCGGTTGGATTAGCTTTTCGAAGCGA
1 TTTGGTGTGTTTCGGATGGATTAGCTCTTAGAAGC-A
* *
24825294 -TTGGTGTGTTTCGGATGGATTTGCTCTTATAAGCA
1 TTTGGTGTGTTTCGGATGGATTAGCTCTTAGAAGCA
* * *
24825329 TTTGGTGTGTTTTGGATGGACTAGATCTTATG-AGCA
1 TTTGGTGTGTTTCGGATGGATTAGCTCTTA-GAAGCA
24825365 TTTGGTGTGTTT
1 TTTGGTGTGTTT
24825377 TAGTTGGATT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
35 1 0.01
36 70 0.99
ACGTcount: A:0.15, C:0.09, G:0.31, T:0.45
Consensus pattern (36 bp):
TTTGGTGTGTTTCGGATGGATTAGCTCTTAGAAGCA
Found at i:24826340 original size:8 final size:8
Alignment explanation
Indices: 24826316--24826354 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
24826306 GACTTATGAT
24826316 ATGTTTCAA
1 ATGTTT-AA
24826325 AT-TATTAA
1 ATGT-TTAA
24826333 ATGTTTAA
1 ATGTTTAA
24826341 ATGTTTAA
1 ATGTTTAA
24826349 ATGTTT
1 ATGTTT
24826355 TGATTGATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 23 0.82
9 5 0.18
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (8 bp):
ATGTTTAA
Found at i:24831623 original size:19 final size:18
Alignment explanation
Indices: 24831577--24831625 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
24831567 GATGGATTTT
*
24831577 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
24831596 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
24831614 TTGTATTAAAAT
1 TTGTA-TAAAAT
24831626 TTTGAACATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:24831683 original size:20 final size:21
Alignment explanation
Indices: 24831639--24831686 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
24831629 GAACATGTTA
24831639 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
24831661 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
24831681 ATTTTT
1 ATTTTT
24831687 GCCAGATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:24832309 original size:161 final size:161
Alignment explanation
Indices: 24832044--24832368 Score: 605
Period size: 161 Copynumber: 2.0 Consensus size: 161
24832034 CCACAAGATT
24832044 AGATGATGCTTTATGGGCTTACAGAATAGCATACGAGACACCTTTAGGAATGTCACCCTATAGGT
1 AGATGATGCTTTATGGGCTTACAGAATAGCATACGAGACACCTTTAGGAATGTCACCCTATAGGT
24832109 TGGTCTTTGGGAAAGCCTATCATCTAGCTCTGGAGTTAGAGCACAAAGCTTACTAGGCTCTTCAA
66 TGGTCTTTGGGAAAGCCTATCATCTAGCTCTGGAGTTAGAGCACAAAGCTTACTAGGCTCTTCAA
24832174 CGACTCAACCTGGATCTTAAGCTTGCTAGAG
131 CGACTCAACCTGGATCTTAAGCTTGCTAGAG
*
24832205 AGATGATGCTTTATGGGCTTACAGAATAGCATATGAGACACCTTTAGGAATGTCACCCTATAGGT
1 AGATGATGCTTTATGGGCTTACAGAATAGCATACGAGACACCTTTAGGAATGTCACCCTATAGGT
* * *
24832270 TGGTCTTTGGGAAAGCCTGTCATCTAGCTCTGGAGTTAGAGCACAAAGCTTACTGGGCTCTTCGA
66 TGGTCTTTGGGAAAGCCTATCATCTAGCTCTGGAGTTAGAGCACAAAGCTTACTAGGCTCTTCAA
*
24832335 CGACTGAACCTGGATCTTAAGCTTGCTAGAG
131 CGACTCAACCTGGATCTTAAGCTTGCTAGAG
24832366 AGA
1 AGA
24832369 AACGGGTGCT
Statistics
Matches: 159, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
161 159 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (161 bp):
AGATGATGCTTTATGGGCTTACAGAATAGCATACGAGACACCTTTAGGAATGTCACCCTATAGGT
TGGTCTTTGGGAAAGCCTATCATCTAGCTCTGGAGTTAGAGCACAAAGCTTACTAGGCTCTTCAA
CGACTCAACCTGGATCTTAAGCTTGCTAGAG
Found at i:24833131 original size:22 final size:21
Alignment explanation
Indices: 24833106--24833149 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
24833096 TGATAAACTT
24833106 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
24833128 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
24833149 T
1 T
24833150 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:24834134 original size:17 final size:16
Alignment explanation
Indices: 24834113--24834144 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24834103 GTCTAGGGTT
24834113 TTTTTTTTAAACCTAA
1 TTTTTTTTAAACCTAA
24834129 TTTTTTTTAAACCTAA
1 TTTTTTTTAAACCTAA
24834145 AATTATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTTTTTAAACCTAA
Found at i:24835303 original size:14 final size:14
Alignment explanation
Indices: 24835280--24835309 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24835270 CATCCCTCAT
*
24835280 TCACATCTCTTCTC
1 TCACAACTCTTCTC
24835294 TCACAACTCTTCTC
1 TCACAACTCTTCTC
24835308 TC
1 TC
24835310 TTCTCTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:24836809 original size:13 final size:14
Alignment explanation
Indices: 24836788--24836838 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
24836778 TATATATTTT
*
24836788 TTATATTATTAATA
1 TTATATTATAAATA
24836802 TTAT-TTATAAATA
1 TTATATTATAAATA
* **
24836815 TTATAATAATGTATA
1 TTAT-ATTATAAATA
24836830 TTATATTAT
1 TTATATTAT
24836839 TATGATATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 12 0.40
14 8 0.27
15 10 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TTATATTATAAATA
Found at i:24837873 original size:41 final size:41
Alignment explanation
Indices: 24837768--24837910 Score: 135
Period size: 41 Copynumber: 3.5 Consensus size: 41
24837758 TCGGGCTCTG
* * * * ** *
24837768 TGCCTAGCAGGCTTTATGCCAGTGAATTATAGCAGGCTTTA
1 TGCCTAGAAGGCTTCATGCCGGTGTACCATATCAGGCTTTA
*
24837809 TGCCTAGTAGGCTTCATGCCGGTGTACCATATCAGGCTTTA
1 TGCCTAGAAGGCTTCATGCCGGTGTACCATATCAGGCTTTA
* * * * *
24837850 TGCCTAGCAGGCTTCGTGTCGGTGTATCATATCTA-GCTTTG
1 TGCCTAGAAGGCTTCATGCCGGTGTACCATATC-AGGCTTTA
* *
24837891 TGGCTAGAAGGCTTTATGCC
1 TGCCTAGAAGGCTTCATGCC
24837911 ATTGTATTTT
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
41 83 0.99
42 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.33
Consensus pattern (41 bp):
TGCCTAGAAGGCTTCATGCCGGTGTACCATATCAGGCTTTA
Found at i:24850321 original size:106 final size:106
Alignment explanation
Indices: 24850136--24850351 Score: 423
Period size: 106 Copynumber: 2.0 Consensus size: 106
24850126 GAATGATGCT
*
24850136 AAGCCCAGATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTTGAGGTTAGAGATAGGAA
1 AAGCCCAAATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTTGAGGTTAGAGATAGGAA
24850201 GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
66 GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
24850242 AAGCCCAAATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTTGAGGTTAGAGATAGGAA
1 AAGCCCAAATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTTGAGGTTAGAGATAGGAA
24850307 GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
66 GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
24850348 AAGC
1 AAGC
24850352 AGGGAATGAA
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 109 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (106 bp):
AAGCCCAAATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTTGAGGTTAGAGATAGGAA
GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
Found at i:24876822 original size:15 final size:15
Alignment explanation
Indices: 24876802--24876834 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
24876792 GAAAGGATAC
24876802 TTAAAGATACAGTAG
1 TTAAAGATACAGTAG
*
24876817 TTAAAGATATAGTAG
1 TTAAAGATACAGTAG
24876832 TTA
1 TTA
24876835 TAACTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.33
Consensus pattern (15 bp):
TTAAAGATACAGTAG
Found at i:24877850 original size:24 final size:24
Alignment explanation
Indices: 24877802--24877848 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
24877792 ACTGGTCATA
*
24877802 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
24877826 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
24877849 GGGATTTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:24878411 original size:53 final size:54
Alignment explanation
Indices: 24878334--24878455 Score: 169
Period size: 53 Copynumber: 2.3 Consensus size: 54
24878324 ATTGAAATGC
* * *
24878334 CCCCATAGGGTAAAATGATCAAAATA-CCCTCATAAGG-TAAAATGACTGAAATA-
1 CCCCATAGGGTAAAACGATAAAAATACCCCT-AT-AGGATAAAATGACCGAAATAT
24878387 CCCCATAGGGTAAAACGATAAAAATACCCCTATAGGATAAAATGACCGAAATAT
1 CCCCATAGGGTAAAACGATAAAAATACCCCTATAGGATAAAATGACCGAAATAT
*
24878441 CCCCATACGGTAAAA
1 CCCCATAGGGTAAAA
24878456 TGACTGTTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
52 3 0.05
53 41 0.66
54 18 0.29
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.19
Consensus pattern (54 bp):
CCCCATAGGGTAAAACGATAAAAATACCCCTATAGGATAAAATGACCGAAATAT
Found at i:24878459 original size:27 final size:26
Alignment explanation
Indices: 24878334--24878459 Score: 135
Period size: 27 Copynumber: 4.7 Consensus size: 26
24878324 ATTGAAATGC
*
24878334 CCCCATAGGGTAAAATGATCAAAATA
1 CCCCATAGGGTAAAATGACCAAAATA
* **
24878360 CCCTCATAAGGTAAAATGACTGAAATA
1 CCC-CATAGGGTAAAATGACCAAAATA
* **
24878387 CCCCATAGGGTAAAACGATAAAAATA
1 CCCCATAGGGTAAAATGACCAAAATA
* *
24878413 CCCCTATAGGATAAAATGACCGAAATA
1 CCCC-ATAGGGTAAAATGACCAAAATA
*
24878440 TCCCCATACGGTAAAATGAC
1 -CCCCATAGGGTAAAATGAC
24878460 TGTTATACCT
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
26 25 0.31
27 52 0.64
28 4 0.05
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.19
Consensus pattern (26 bp):
CCCCATAGGGTAAAATGACCAAAATA
Found at i:24880196 original size:50 final size:50
Alignment explanation
Indices: 24880129--24880660 Score: 413
Period size: 50 Copynumber: 10.7 Consensus size: 50
24880119 AAGTGATACC
* * * *
24880129 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGCAACCGATCATTT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGCGACCGAGCATTT
* * * *
24880179 CGGTACACGTAGTAGCCTACACATAGTACTACACATGTGACCTAGCAACTT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGCGACCGAGC-ATTT
* * * * *
24880230 C---ACTCGTAGTAGCCAGCACATAGTACTACACACGTGATCGAAGC-TATT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGCGACCG-AGCAT-TT
* * * *
24880278 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACCGATCATTT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGCGACCGAGCATTT
* * * * * *
24880328 TGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCTAGCAACTT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGCGACCGAGC-ATTT
* * *** **
24880379 C---ACTCGTAGTAGCCAGCACATAGTACTACACACATGATTGAAGC-TATT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGCGACCG-AGCAT-TT
* * * *
24880427 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCAACCGATCATTT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGCGACCGAGCATTT
* * * * * * * *
24880477 TGGTACACGTATTATCCTACACATAGTACTACACACGTGACCTAGCAACTT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGCGACCGAGC-ATTT
* * *** **
24880528 C---ACTCGTAGTAGCCAGCACATAGTACTACACACATGATTGAAGC-TATT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGCGACCG-AGCAT-TT
* * *
24880576 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCGATCATTT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGCGACCGAGCATTT
* *
24880626 TGGTACACGTAGTAGCCTACACATAGTACTACACA
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACA
24880661 CGTGACCTAG
Statistics
Matches: 377, Mismatches: 84, Indels: 42
0.75 0.17 0.08
Matches are distributed among these distances:
48 104 0.28
49 9 0.02
50 156 0.41
51 108 0.29
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACATGCGACCGAGCATTT
Found at i:24880368 original size:149 final size:149
Alignment explanation
Indices: 24880136--24880684 Score: 1001
Period size: 149 Copynumber: 3.7 Consensus size: 149
24880126 ACCCGGTTCA
*
24880136 CATAGTAGCCTGCACATAGTACTACACATGCAACCGATCATTTCGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCGATCATTTTGGTACACGTAGTAGCCTACAC
* *
24880201 ATAGTACTACACATGTGACCTAGCAACTTCACTCGTAGTAGCCAGCACATAGTACTACACACGTG
66 ATAGTACTACACACGTGACCTAGCAACTTCACTCGTAGTAGCCAGCACATAGTACTACACACATG
*
24880266 ATCGAAGCTATTCGGTACG
131 ATTGAAGCTATTCGGTACG
**
24880285 CATAGTAGCCTGCACATAGTACTACACATGTGACCGATCATTTTGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCGATCATTTTGGTACACGTAGTAGCCTACAC
24880350 ATAGTACTACACACGTGACCTAGCAACTTCACTCGTAGTAGCCAGCACATAGTACTACACACATG
66 ATAGTACTACACACGTGACCTAGCAACTTCACTCGTAGTAGCCAGCACATAGTACTACACACATG
24880415 ATTGAAGCTATTCGGTACG
131 ATTGAAGCTATTCGGTACG
* *
24880434 CATAGTAGCCTGCACATAGTACTACACATGCAACCGATCATTTTGGTACACGTATTATCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCGATCATTTTGGTACACGTAGTAGCCTACAC
24880499 ATAGTACTACACACGTGACCTAGCAACTTCACTCGTAGTAGCCAGCACATAGTACTACACACATG
66 ATAGTACTACACACGTGACCTAGCAACTTCACTCGTAGTAGCCAGCACATAGTACTACACACATG
24880564 ATTGAAGCTATTCGGTACG
131 ATTGAAGCTATTCGGTACG
*
24880583 CATAGTAGCCTGCACATAGTACTACACATGCGACCGATCATTTTGGTACACGTAGTAGCCTACAC
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCGATCATTTTGGTACACGTAGTAGCCTACAC
24880648 ATAGTACTACACACGTGACCTAG-AACCTTCACTCGTA
66 ATAGTACTACACACGTGACCTAGCAA-CTTCACTCGTA
24880685 TCTCTTTCAT
Statistics
Matches: 386, Mismatches: 13, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
148 2 0.01
149 384 0.99
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (149 bp):
CATAGTAGCCTGCACATAGTACTACACATGCAACCGATCATTTTGGTACACGTAGTAGCCTACAC
ATAGTACTACACACGTGACCTAGCAACTTCACTCGTAGTAGCCAGCACATAGTACTACACACATG
ATTGAAGCTATTCGGTACG
Found at i:24882799 original size:37 final size:37
Alignment explanation
Indices: 24882749--24882827 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
24882739 TTATTACGAA
* ** *
24882749 GTCTTACCCGGACATAATTTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
24882786 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
24882823 GTCTT
1 GTCTT
24882828 TAGAGCTCAG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:24883022 original size:49 final size:49
Alignment explanation
Indices: 24882945--24883102 Score: 284
Period size: 49 Copynumber: 3.2 Consensus size: 49
24882935 GCCCTTCGGG
24882945 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
24882995 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
24883044 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
24883091 ACTTTCACATTC
1 ACTTTCACATTC
24883103 TCAAAGTAAG
Statistics
Matches: 107, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
47 20 0.19
49 83 0.78
50 4 0.04
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
Found at i:24883421 original size:24 final size:23
Alignment explanation
Indices: 24883373--24883430 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
24883363 TAATCAAACA
24883373 TTATTATATATATATCATATCATT
1 TTATTAT-TATATATCATATCATT
*
24883397 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
24883421 TTATT-TTATA
1 TTATTATTATA
24883431 CTTTTCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:24884770 original size:20 final size:19
Alignment explanation
Indices: 24884740--24884781 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
24884730 CATCGAAGAT
* *
24884740 GTGTAACAGAGGTACTGAA
1 GTGTAACAGAGGCACCGAA
24884759 GTGTAGACAGAGGCACCGAA
1 GTGTA-ACAGAGGCACCGAA
24884779 GTG
1 GTG
24884782 CAATCCGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.33, C:0.14, G:0.36, T:0.17
Consensus pattern (19 bp):
GTGTAACAGAGGCACCGAA
Found at i:24887199 original size:69 final size:67
Alignment explanation
Indices: 24887089--24887236 Score: 208
Period size: 69 Copynumber: 2.2 Consensus size: 67
24887079 TTCTCTATAC
* * *
24887089 CTCGTGTGAGCAGCATAGTAGCTTAACATCCTGACCTACATCTCTTGTGAGCAAGCCCACTTCAC
1 CTCGTGTGAGCAGCATAGTAGCTTAACATCCTGACCCACATCTCGTGTAAGCAAGCCCACTTCAC
24887154 AG
66 AG
* * *
24887156 CTCGTGTGAGCAGCATCGTGTAGCTTAACAT-CTCGACCCACATCTCGTGTAAGTAGGCCCACTT
1 CTCGTGTGAGCAGCAT--AGTAGCTTAACATCCT-GACCCACATCTCGTGTAAGCAAGCCCACTT
24887220 CACAG
63 CACAG
24887225 CTCGTGTGAGCA
1 CTCGTGTGAGCA
24887237 TTTTAGATAC
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
67 16 0.22
68 2 0.03
69 54 0.75
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (67 bp):
CTCGTGTGAGCAGCATAGTAGCTTAACATCCTGACCCACATCTCGTGTAAGCAAGCCCACTTCAC
AG
Found at i:24889243 original size:17 final size:17
Alignment explanation
Indices: 24889221--24889260 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
24889211 GAAAAGTTAG
* * *
24889221 GGTTTTAAGTGTTTTTA
1 GGTTTTAAGAGGTTTAA
24889238 GGTTTTAAGAGGTTTAA
1 GGTTTTAAGAGGTTTAA
24889255 GGTTTT
1 GGTTTT
24889261 TGGAGAGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.53
Consensus pattern (17 bp):
GGTTTTAAGAGGTTTAA
Found at i:24891469 original size:17 final size:17
Alignment explanation
Indices: 24891447--24891481 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
24891437 AAGAACTTCT
24891447 TTAGCTCCAACCAATCC
1 TTAGCTCCAACCAATCC
24891464 TTAGCTCCAACCAATCC
1 TTAGCTCCAACCAATCC
24891481 T
1 T
24891482 GACCTTGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.40, G:0.06, T:0.26
Consensus pattern (17 bp):
TTAGCTCCAACCAATCC
Found at i:24904893 original size:25 final size:28
Alignment explanation
Indices: 24904865--24904921 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 28
24904855 TTTTTTTTAG
24904865 TTTTCTTTTT-TCTTCTCA-T-TTTTCT
1 TTTTCTTTTTGTCTTCTCATTCTTTTCT
* *
24904890 TTTT-TTTTTGTGTTTTCATTCTTTTCT
1 TTTTCTTTTTGTCTTCTCATTCTTTTCT
24904917 TTTTC
1 TTTTC
24904922 CCTCATTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 5 0.19
25 10 0.38
26 1 0.04
27 10 0.38
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.77
Consensus pattern (28 bp):
TTTTCTTTTTGTCTTCTCATTCTTTTCT
Found at i:24907052 original size:17 final size:18
Alignment explanation
Indices: 24907032--24907075 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
24907022 ATGTATATAT
24907032 ATTTTTTTAATTTT-AAA
1 ATTTTTTTAATTTTCAAA
*
24907049 ATTTTCTTT-TTTTTCAAA
1 ATTTT-TTTAATTTTCAAA
24907067 ATTTTTTTA
1 ATTTTTTTA
24907076 CGTACCTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTTTTAATTTTCAAA
Found at i:24909100 original size:42 final size:42
Alignment explanation
Indices: 24909020--24909102 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
24909010 AAATTTGAAA
* * ** *
24909020 AAAAAAGAGTTTTGAAAAGGAGAAGATAATTTTGGGTTGTTC
1 AAAAAAGAATTTTAAAAAGGAGAAGATAAACTTAGGTTGTTC
*
24909062 AAAAAAGAATTTTAAAAAGTAGAAGATAAACTTAGGTTGTT
1 AAAAAAGAATTTTAAAAAGGAGAAGATAAACTTAGGTTGTT
24909103 GGATTTACCC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.30
Consensus pattern (42 bp):
AAAAAAGAATTTTAAAAAGGAGAAGATAAACTTAGGTTGTTC
Found at i:24921438 original size:25 final size:26
Alignment explanation
Indices: 24921393--24921446 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
24921383 TTCCCCTAAA
*
24921393 TTTCAATTTTATTTAACTATTTAAT-T
1 TTTCAATTTTATTGAACTA-TTAATAT
*
24921419 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAACTATTAATAT
24921444 TTT
1 TTT
24921447 ATACTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 14 0.56
26 6 0.24
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTCAATTTTATTGAACTATTAATAT
Found at i:24929495 original size:18 final size:18
Alignment explanation
Indices: 24929459--24929497 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
24929449 GAGAGTAAAC
**
24929459 TCTAATTAGTATTTGGAG
1 TCTAATTAGTATTCAGAG
*
24929477 TCTAATTATTATTCAGAG
1 TCTAATTAGTATTCAGAG
24929495 TCT
1 TCT
24929498 GTGTATGTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.46
Consensus pattern (18 bp):
TCTAATTAGTATTCAGAG
Found at i:24938268 original size:20 final size:20
Alignment explanation
Indices: 24938243--24938289 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
24938233 TTTACCTGAT
24938243 TTTTAACCATAAAAACACCC
1 TTTTAACCATAAAAACACCC
* *
24938263 TTTTAAACATAAAAATACCC
1 TTTTAACCATAAAAACACCC
24938283 TTTTAAC
1 TTTTAAC
24938290 TTAGTCTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (20 bp):
TTTTAACCATAAAAACACCC
Found at i:24947328 original size:12 final size:12
Alignment explanation
Indices: 24947313--24947338 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24947303 CAATCTGTGA
24947313 CTAATTCTGATT
1 CTAATTCTGATT
24947325 CTAATTCTGATT
1 CTAATTCTGATT
24947337 CT
1 CT
24947339 GATTGGAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.50
Consensus pattern (12 bp):
CTAATTCTGATT
Found at i:24947780 original size:30 final size:30
Alignment explanation
Indices: 24947746--24947816 Score: 115
Period size: 30 Copynumber: 2.3 Consensus size: 30
24947736 CAGGACTTAG
*
24947746 TTTAATTTTGGTTGTAACTAGACTTGGACA
1 TTTAATTTTAGTTGTAACTAGACTTGGACA
24947776 TTTAATTTTAGTTGTAACTAGACTTGGACA
1 TTTAATTTTAGTTGTAACTAGACTTGGACA
24947806 TTGTACATTTT
1 TT-TA-ATTTT
24947817 TTATTTTGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
30 31 0.82
31 2 0.05
32 5 0.13
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (30 bp):
TTTAATTTTAGTTGTAACTAGACTTGGACA
Found at i:24966003 original size:19 final size:20
Alignment explanation
Indices: 24965979--24966031 Score: 65
Period size: 18 Copynumber: 2.7 Consensus size: 20
24965969 AAGGAAGACA
*
24965979 AAAAAAGAAATTGAAAAAGA
1 AAAAAAGAAATTGAAAAAGT
24965999 AAAAAAG-AA-TGAAAAAGT
1 AAAAAAGAAATTGAAAAAGT
*
24966017 ACAAAAAGAGATTGA
1 A-AAAAAGAAATTGA
24966032 GAGTGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 8 0.29
21 3 0.11
ACGTcount: A:0.70, C:0.02, G:0.17, T:0.11
Consensus pattern (20 bp):
AAAAAAGAAATTGAAAAAGT
Found at i:24966003 original size:20 final size:21
Alignment explanation
Indices: 24965978--24966031 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 21
24965968 AAAGGAAGAC
24965978 AAAAAAAGAAATTGAAAAAG-
1 AAAAAAAGAAATTGAAAAAGT
24965998 AAAAAAAG-AA-TGAAAAAGT
1 AAAAAAAGAAATTGAAAAAGT
* *
24966017 ACAAAAAGAGATTGA
1 AAAAAAAGAAATTGA
24966032 GAGTGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 8 0.28
19 9 0.31
20 9 0.31
21 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.17, T:0.11
Consensus pattern (21 bp):
AAAAAAAGAAATTGAAAAAGT
Found at i:24971812 original size:39 final size:38
Alignment explanation
Indices: 24971764--24971850 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 38
24971754 TGTAATTGCC
* *
24971764 ATAACTATAATAATGTTTGACCA-AAAAATTACAATTACA
1 ATAATTATAATAATATTTGA--ATAAAAATTACAATTACA
** *
24971803 ATAATTATAATAATATTTGAATGTAAATTATAATTACA
1 ATAATTATAATAATATTTGAATAAAAATTACAATTACA
24971841 ATAATTATAA
1 ATAATTATAA
24971851 CAAAGATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 1 0.02
38 23 0.55
39 18 0.43
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.37
Consensus pattern (38 bp):
ATAATTATAATAATATTTGAATAAAAATTACAATTACA
Found at i:24978044 original size:56 final size:50
Alignment explanation
Indices: 24977948--24978187 Score: 184
Period size: 50 Copynumber: 4.7 Consensus size: 50
24977938 ATTTGTGTAA
*
24977948 AGAGATCCCATGTAAGACCATGTCT-TGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGT-GACATGGCATTGGCA-CC--GAG---ATG
24978004 AGAGGTCCCATGTAAGACCATGTCTGTGACATGG-AGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGTGACATGGCA-TTGGCACCGAGATG
** * * * *
24978054 AGAGGTCCCCCGTAAGACCATGTCTGGGACATAGCA-TGAGCACTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGTGACATGGCATTG-GCACCGAGATG
** * * * * *
24978104 AGAACTCCCATGTAAGACCATATATGGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGTGACATGGCATTGGCACCG-AGATG
* ** * *
24978153 AAACATCCCATGTAAGACCATGCCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGTGACATGGC
24978188 TTTAGCATGT
Statistics
Matches: 155, Mismatches: 23, Indels: 19
0.79 0.12 0.10
Matches are distributed among these distances:
48 1 0.01
49 34 0.22
50 73 0.47
51 3 0.02
53 3 0.02
55 3 0.02
56 37 0.24
57 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGTGACATGGCATTGGCACCGAGATG
Found at i:24985917 original size:27 final size:27
Alignment explanation
Indices: 24985866--24985933 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
24985856 TCTGACCCAT
* *
24985866 AGCTCGTGTAAGTAGGACCAATTTCAA
1 AGCTCGTGTGAGCAGGACCAATTTCAA
* * **
24985893 AGCTCGTGTGAGCAGGCCCATTTTCCT
1 AGCTCGTGTGAGCAGGACCAATTTCAA
*
24985920 AGGTCGTGTGAGCA
1 AGCTCGTGTGAGCA
24985934 TACACTTTTC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (27 bp):
AGCTCGTGTGAGCAGGACCAATTTCAA
Found at i:25009640 original size:27 final size:26
Alignment explanation
Indices: 25009606--25009830 Score: 144
Period size: 27 Copynumber: 8.5 Consensus size: 26
25009596 GGGCAAAATA
25009606 GTCA-TTTACCTTCTAAGGGCATTACG
1 GTCATTTTACC-TCTAAGGGCATTACG
* * * *
25009632 GTTATTTTACC-CTATTGGGGTATTATG
1 GTCATTTTACCTCTA--AGGGCATTACG
* *
25009659 GTCATTTTACC-CTAAGGGGTATTACA
1 GTCATTTTACCTCTAA-GGGCATTACG
25009685 GTCATTTTACC-CTATAGGGGCATTACG
1 GTCATTTTACCTCTA-A-GGGCATTACG
* **
25009712 GTCATTTTACC-CTATAGAGGTATTATA
1 GTCATTTTACCTCTA-AG-GGCATTACG
*
25009739 GTCATTTTACCATAC-AGGGGCATTACG
1 GTCATTTTACC-T-CTAAGGGCATTACG
25009766 GTCATTTTACC-CTACAGGGGCATTACG
1 GTCATTTTACCTCTA-A-GGGCATTACG
*
25009793 G-CCTTTTACC-CTATAGGGGCATTACG
1 GTCATTTTACCTCTA-A-GGGCATTACG
* *
25009819 GTTATTATACCT
1 GTCATTTTACCT
25009831 ATTTTAAGGT
Statistics
Matches: 162, Mismatches: 23, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
24 1 0.01
25 4 0.02
26 50 0.31
27 104 0.64
28 1 0.01
29 1 0.01
30 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTCTAAGGGCATTACG
Found at i:25009712 original size:80 final size:81
Alignment explanation
Indices: 25009605--25009816 Score: 286
Period size: 80 Copynumber: 2.7 Consensus size: 81
25009595 GGGGCAAAAT
* * * * * *
25009605 AGTCA-TTTACCTTCTAAGGGCATTACGGTTATTTTACCCTATTGGGGTATTATGGTCATTTTAC
1 AGTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTATAGGGGTATTATAGTCATTTTAC
* *
25009669 CCTA-AGGGGTATTAC
66 CATACAGGGGCATTAC
*
25009684 AGTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTATAGAGGTATTATAGTCATTTTAC
1 AGTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTATAGGGGTATTATAGTCATTTTAC
25009749 CATACAGGGGCATTAC
66 CATACAGGGGCATTAC
* * * *
25009765 GGTCATTTTACCCTACAGGGGCATTACGG-CCTTTTACCCTATAGGGGCATTA
1 AGTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTATAGGGGTATTA
25009817 CGGTTATTAT
Statistics
Matches: 117, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
79 5 0.04
80 75 0.64
81 37 0.32
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (81 bp):
AGTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTATAGGGGTATTATAGTCATTTTAC
CATACAGGGGCATTAC
Found at i:25009758 original size:54 final size:52
Alignment explanation
Indices: 25009635--25009829 Score: 246
Period size: 53 Copynumber: 3.7 Consensus size: 52
25009625 CATTACGGTT
* * *
25009635 ATTTTACCCTATTGGGGTATTATGGTCATTTTACCCTAAGGGGTATTACAGTC
1 ATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTAAGGGGTATTA-AGTC
*
25009688 ATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTATAGAGGTATTATAGTC
1 ATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTA-AGGGGTATTA-AGTC
* * * * *
25009742 ATTTTACCATACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGGC
1 ATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTA-AGGGGTATTAAGTC
* * *
25009795 CTTTTACCCTATAGGGGCATTACGGTTATTATACC
1 ATTTTACCCTATAGGGGCATTACGGTCATTTTACC
25009830 TATTTTAAGG
Statistics
Matches: 124, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 67 0.54
54 57 0.46
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (52 bp):
ATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTAAGGGGTATTAAGTC
Found at i:25012107 original size:44 final size:44
Alignment explanation
Indices: 25012044--25012131 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
25012034 GATTCTTGAA
* *
25012044 GCTAACTTTAGTGCAATGGCAATACTCAATAATGAATAAAGTGG
1 GCTAACCTCAGTGCAATGGCAATACTCAATAATGAATAAAGTGG
**
25012088 GCTAACCTCAGTGCAATGGCAATACTCAATAATGTGTAAAGTGG
1 GCTAACCTCAGTGCAATGGCAATACTCAATAATGAATAAAGTGG
25012132 CAATGTGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (44 bp):
GCTAACCTCAGTGCAATGGCAATACTCAATAATGAATAAAGTGG
Found at i:25023435 original size:56 final size:56
Alignment explanation
Indices: 25023349--25023524 Score: 325
Period size: 56 Copynumber: 3.1 Consensus size: 56
25023339 ACAAGGGATG
* *
25023349 ATGGGAAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
25023405 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
*
25023461 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAGGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
25023517 ATGGGCAA
1 ATGGGCAA
25023525 TAAACTAATA
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
56 117 1.00
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:25024742 original size:40 final size:40
Alignment explanation
Indices: 25024652--25024876 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
25024642 TCAAATGATG
* * * *
25024652 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
25024692 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
25024732 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
25024771 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
25024811 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
25024852 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25024877 AATGAGTAGC
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 33 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:25040135 original size:20 final size:19
Alignment explanation
Indices: 25040112--25040154 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
25040102 ACACCCATTC
*
25040112 CATATGCATAACACACAAGT
1 CATAAGCATAACACACAA-T
* *
25040132 CATAAGCATATCATACAAT
1 CATAAGCATAACACACAAT
25040151 CATA
1 CATA
25040155 GCCACAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (19 bp):
CATAAGCATAACACACAAT
Found at i:25041785 original size:20 final size:19
Alignment explanation
Indices: 25041756--25041795 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
25041746 TAAAAGATGA
*
25041756 TATCTTTAATGTATTTTAT
1 TATCTTTAATATATTTTAT
*
25041775 TATCATTTAATATGTTTTAT
1 TATC-TTTAATATATTTTAT
25041795 T
1 T
25041796 TTAATTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TATCTTTAATATATTTTAT
Found at i:25055683 original size:18 final size:20
Alignment explanation
Indices: 25055657--25055693 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
25055647 ACACATCAAA
25055657 TAAACATAT-CCAA-TTCAT
1 TAAACATATACCAACTTCAT
*
25055675 TAAATATATACCAACTTCA
1 TAAACATATACCAACTTCA
25055694 CAGAAATCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 4 0.25
20 4 0.25
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAACATATACCAACTTCAT
Found at i:25058886 original size:28 final size:28
Alignment explanation
Indices: 25058848--25059019 Score: 159
Period size: 28 Copynumber: 6.1 Consensus size: 28
25058838 AATGCAACAT
* *
25058848 TTTAAAAGAGATAGCCACAGAGGCTTCC
1 TTTAACAGAGATAGCCACAAAGGCTTCC
*
25058876 TTTAACAGAGATCA-CCATAAA-GCTTCC
1 TTTAACAGAGAT-AGCCACAAAGGCTTCC
* * *
25058903 TTCAACAGAGATCGCCACAAAGGGTTCC
1 TTTAACAGAGATAGCCACAAAGGCTTCC
* * * *
25058931 TTTTAATAGAAATAGCCACAATGGCTTCAA
1 -TTTAACAGAGATAGCCACAAAGGCTTC-C
* * * *
25058961 TTTATCAAAGAAAGCCACAAAGGCTTCA
1 TTTAACAGAGATAGCCACAAAGGCTTCC
* *
25058989 TTTAAAAGAGATAGTCACAAAGGCTTCC
1 TTTAACAGAGATAGCCACAAAGGCTTCC
25059017 TTT
1 TTT
25059020 TAGCCTTCAA
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
27 23 0.20
28 47 0.42
29 43 0.38
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (28 bp):
TTTAACAGAGATAGCCACAAAGGCTTCC
Found at i:25058909 original size:27 final size:27
Alignment explanation
Indices: 25058870--25058924 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
25058860 AGCCACAGAG
* *
25058870 GCTTCCTTTAACAGAGATCACCATAAA
1 GCTTCCTTCAACAGAGATCACCACAAA
*
25058897 GCTTCCTTCAACAGAGATCGCCACAAA
1 GCTTCCTTCAACAGAGATCACCACAAA
25058924 G
1 G
25058925 GGTTCCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.22
Consensus pattern (27 bp):
GCTTCCTTCAACAGAGATCACCACAAA
Found at i:25058950 original size:29 final size:29
Alignment explanation
Indices: 25058847--25059112 Score: 131
Period size: 28 Copynumber: 9.2 Consensus size: 29
25058837 AAATGCAACA
* * *
25058847 TTTTAAAAGAGATAGCCACAGAGGCTTCC
1 TTTTAATAGAAATAGCCACAAAGGCTTCC
* * *
25058876 -TTTAACAGAGATCA-CCATAAA-GCTTCC
1 TTTTAATAGAAAT-AGCCACAAAGGCTTCC
* * * * *
25058903 -TTCAACAGAGATCGCCACAAAGGGTTCC
1 TTTTAATAGAAATAGCCACAAAGGCTTCC
* *
25058931 TTTTAATAGAAATAGCCACAATGGCTTCAA
1 TTTTAATAGAAATAGCCACAAAGGCTTC-C
25058961 TTTATCAA-AG-AA-AGCCACAAAGGCTT-C
1 TTT-T-AATAGAAATAGCCACAAAGGCTTCC
* * * *
25058988 ATTTAAAAGAGATAGTCACAAAGGCTTCC
1 TTTTAATAGAAATAGCCACAAAGGCTTCC
* ** *
25059017 TTTTAGCCTTCAATACTTGCCACAAAGGCTTTCC
1 TTTTA--ATAGAA-A-TAGCCACAAAGGC-TTCC
* *
25059051 TTTT-ATAG-TATTGCCACAAAGGCATTCC
1 TTTTAATAGAAATAGCCACAAAGGC-TTCC
* *
25059079 TTTTAATAGAGATAGCCAGAAAGGC-TCAC
1 TTTTAATAGAAATAGCCACAAAGGCTTC-C
25059108 TTTTA
1 TTTTA
25059113 TGAAAATTGG
Statistics
Matches: 183, Mismatches: 35, Indels: 38
0.71 0.14 0.15
Matches are distributed among these distances:
25 2 0.01
26 3 0.02
27 26 0.14
28 57 0.31
29 51 0.28
30 17 0.09
31 5 0.03
32 3 0.02
33 11 0.06
34 8 0.04
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (29 bp):
TTTTAATAGAAATAGCCACAAAGGCTTCC
Found at i:25060323 original size:14 final size:15
Alignment explanation
Indices: 25060284--25060325 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25060274 TAACAACATA
*
25060284 ATTATTATTAAATAT
1 ATTATAATTAAATAT
25060299 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
25060313 A-TATAATTTAATA
1 ATTATAATTAAATA
25060326 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:25060442 original size:14 final size:15
Alignment explanation
Indices: 25060393--25060444 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
25060383 ATAAAATATA
25060393 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25060408 TATTAAATATATTAT
1 AATTAAATATATTAT
25060423 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
25060436 AATTTAATA
1 AATTAAATA
25060445 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:25060562 original size:14 final size:15
Alignment explanation
Indices: 25060513--25060564 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
25060503 ATAAAATATA
25060513 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
25060528 TATTAAATATATTAT
1 AATTAAATATATTAT
25060543 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
25060556 AATTTAATA
1 AATTAAATA
25060565 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:25060700 original size:120 final size:120
Alignment explanation
Indices: 25060278--25060689 Score: 747
Period size: 120 Copynumber: 3.4 Consensus size: 120
25060268 GAGGTGTAAC
25060278 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
25060343 TATTCTTATATGAATTT-CTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
25060397 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
25060462 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
25060517 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
25060582 TATTCTTATATGAATTTACTCAATTCATAATATATGATACTATAAAATATAATTT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * *
25060637 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
25060690 TAAAATAATT
Statistics
Matches: 285, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
119 82 0.29
120 201 0.71
121 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:25060759 original size:26 final size:28
Alignment explanation
Indices: 25060730--25060790 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
25060720 TATGAATTTG
*
25060730 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
25060756 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
25060784 TAAAATT
1 TATAATT
25060791 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:25060788 original size:47 final size:46
Alignment explanation
Indices: 25060737--25060880 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
25060727 TTGTATAATT
*
25060737 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATTTATAATTTCA
* ** *
25060784 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATTTATA-ATTTCA
* *
25060828 TAAAATAATTAATATTAAATATAATTTAATAATGATTTATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATTTATAATTTCA
25060875 TAAAAT
1 TAAAAT
25060881 TCTTAATAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 26
0.66 0.10 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 13 0.18
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATTTATAATTTCA
Found at i:25060800 original size:91 final size:90
Alignment explanation
Indices: 25060705--25060912 Score: 317
Period size: 91 Copynumber: 2.3 Consensus size: 90
25060695 TAATTATAAC
* * * *
25060705 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
25060770 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
25060796 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
* *
25060861 GATTTATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
25060887 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
25060913 CTAAAATCAA
Statistics
Matches: 107, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
91 86 0.80
92 21 0.20
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:25060872 original size:44 final size:44
Alignment explanation
Indices: 25060730--25060872 Score: 114
Period size: 44 Copynumber: 3.2 Consensus size: 44
25060720 TATGAATTTG
* * * *
25060730 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATT
* * * **
25060774 TATAATTTCATAA-AATT-CT-TGATAATA-AATTTTCTTATATGAATT
1 TATAATTT-AAAATAATTAATATTA-AATATAA-TTTAATA-ATG-ATT
25060819 TATACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATT
1 TAT--AATTTAAAATAATTAATATTAAATATAATTTAATAATGATT
25060865 TATAATTT
1 TATAATTT
25060873 CATAAAATTC
Statistics
Matches: 75, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
42 4 0.05
43 9 0.12
44 19 0.25
45 8 0.11
46 9 0.12
47 12 0.16
48 10 0.13
49 4 0.05
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (44 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATT
Found at i:25060887 original size:47 final size:47
Alignment explanation
Indices: 25060755--25060893 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
25060745 TTATTATTAC
* * *
25060755 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATTTATAATTTCATAAAATTCTTAATAATAA
* * ** *
25060802 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATTTATA-ATTTCATAAAATTCTTAATAATAA
25060846 ATATAATTTAATAATGATTTATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATTTATAATTTCATAAAATTCTTAATAATAA
25060893 A
1 A
25060894 ATGTTCTTAT
Statistics
Matches: 70, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 14 0.20
47 23 0.33
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (47 bp):
ATATAATTTAATAATGATTTATAATTTCATAAAATTCTTAATAATAA
Found at i:25062333 original size:11 final size:11
Alignment explanation
Indices: 25062319--25062345 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25062309 AAAAATCAAT
25062319 ACAAAACTTTC
1 ACAAAACTTTC
25062330 ACAAAACTTTC
1 ACAAAACTTTC
25062341 ACAAA
1 ACAAA
25062346 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (11 bp):
ACAAAACTTTC
Found at i:25076136 original size:124 final size:123
Alignment explanation
Indices: 25075896--25076129 Score: 405
Period size: 124 Copynumber: 1.9 Consensus size: 123
25075886 CCGTGTACCG
*
25075896 GGCCTGTGAAAAATATTAAGCATTCTTTTTTTGATTTTAATGATGCAGGGGAACACGGCCAGATC
1 GGCCTGTGAAAAATATTAAGCATTCTTTTTTGGATTTTAATGATGCAGGGGAACACGGCCAGATC
*
25075961 ACACGCCTATGTGCTAGGTCGTGTGTCACACACGGCTGACACACAAGCCCGTATGTCA
66 ACACGCCTATGTGCTAGGTCATGTGTCACACACGGCTGACACACAAGCCCGTATGTCA
* * *
25076019 GGCCTGTGAAAAATATTAGGTATTCTTTTTTGGATTTTAATGATGCAGGGGACACACGGCTAGAT
1 GGCCTGTGAAAAATATTAAGCATTCTTTTTTGGATTTTAATGATGCAGGGGA-ACACGGCCAGAT
*
25076084 CACACGCCTATGTGCTAGGTCATGTGTCACACACGGCTGAGACACA
65 CACACGCCTATGTGCTAGGTCATGTGTCACACACGGCTGACACACA
25076130 CACCCGTTTC
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
123 49 0.47
124 55 0.53
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (123 bp):
GGCCTGTGAAAAATATTAAGCATTCTTTTTTGGATTTTAATGATGCAGGGGAACACGGCCAGATC
ACACGCCTATGTGCTAGGTCATGTGTCACACACGGCTGACACACAAGCCCGTATGTCA
Found at i:25077335 original size:24 final size:24
Alignment explanation
Indices: 25077308--25077372 Score: 58
Period size: 25 Copynumber: 2.7 Consensus size: 24
25077298 GATGCTCCGA
*
25077308 AGAGCTATTAATGGGAAGCTCGTG
1 AGAGCTATTAATGGGAAGCTCATG
* * * * *
25077332 AGAGCCAAATATTCGGATGCTCATG
1 AGAG-CTATTAATGGGAAGCTCATG
*
25077357 AGAGCTATTAACGGGA
1 AGAGCTATTAATGGGA
25077373 CACTCTTTCG
Statistics
Matches: 29, Mismatches: 11, Indels: 2
0.69 0.26 0.05
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.23
Consensus pattern (24 bp):
AGAGCTATTAATGGGAAGCTCATG
Found at i:25083053 original size:21 final size:19
Alignment explanation
Indices: 25083019--25083074 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 19
25083009 GCTAAATATT
**
25083019 ATAAAAATAATATATTGATTA
1 ATAAAAATGTTATATT-A-TA
25083040 ATAAAAATGTTATAATTATA
1 ATAAAAATGTTAT-ATTATA
*
25083060 A-AAATATGTTATATT
1 ATAAAAATGTTATATT
25083075 TTTTTATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 3 0.10
21 12 0.39
22 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
ATAAAAATGTTATATTATA
Found at i:25087773 original size:22 final size:22
Alignment explanation
Indices: 25087748--25087793 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
25087738 ATGGAAATGT
25087748 ATATGTTATGTGCAAATATGAC
1 ATATGTTATGTGCAAATATGAC
*
25087770 ATATGTTATGTGGAAATATGAC
1 ATATGTTATGTGCAAATATGAC
25087792 AT
1 AT
25087794 GTAAAACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (22 bp):
ATATGTTATGTGCAAATATGAC
Found at i:25099314 original size:18 final size:19
Alignment explanation
Indices: 25099268--25099314 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
25099258 TATTCTAATT
* **
25099268 TTAATCATTTAAAAAATTTG
1 TTAA-CATTAAAAAAATTAA
25099288 TTAACATTAAAAAAATTAA
1 TTAACATTAAAAAAATTAA
25099307 TTAA-ATTA
1 TTAACATTA
25099315 TTCACTCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.17
19 16 0.67
20 4 0.17
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (19 bp):
TTAACATTAAAAAAATTAA
Found at i:25102195 original size:2 final size:2
Alignment explanation
Indices: 25102183--25102212 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
25102173 TTCACTATAA
25102183 TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
25102213 TTAACTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:25113521 original size:38 final size:38
Alignment explanation
Indices: 25113457--25113645 Score: 234
Period size: 38 Copynumber: 5.0 Consensus size: 38
25113447 TTATTATATG
* * *
25113457 GGCAATAAGCCTACTAGGCACTAAGCCTGAATAACATC
1 GGCACTAAGCCTACTAGACACAAAGCCTGAATAACATC
* *
25113495 GACACTAAGCCTACTAGACACAAAGCCTGAATAACACC
1 GGCACTAAGCCTACTAGACACAAAGCCTGAATAACATC
* * * *
25113533 GGCACTAATCCTACTAGAAACAAAGCCTGAATAGCAGC
1 GGCACTAAGCCTACTAGACACAAAGCCTGAATAACATC
* * *
25113571 GGCACTAAGCCTGCTAGAGACAAAGCCTGAATAACATA
1 GGCACTAAGCCTACTAGACACAAAGCCTGAATAACATC
* * * *
25113609 GGCATTAAGCCTGCTAGGCACAAAGCCTTAATAACAT
1 GGCACTAAGCCTACTAGACACAAAGCCTGAATAACAT
25113646 TCTGATTCAA
Statistics
Matches: 131, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 131 1.00
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.17
Consensus pattern (38 bp):
GGCACTAAGCCTACTAGACACAAAGCCTGAATAACATC
Found at i:25126612 original size:9 final size:9
Alignment explanation
Indices: 25126585--25126621 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
25126575 TGAGTTTTCG
25126585 AATTCGAAT
1 AATTCGAAT
* *
25126594 AAATCTAAT
1 AATTCGAAT
25126603 AATTCGAAT
1 AATTCGAAT
25126612 AATTCGAAT
1 AATTCGAAT
25126621 A
1 A
25126622 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:25127028 original size:19 final size:21
Alignment explanation
Indices: 25127001--25127040 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
25126991 TTATTCCTCA
*
25127001 AAACTTTTTA-TTTTCCCCCT
1 AAACTTTTTACTTTTCACCCT
25127021 AAAC-TTTTACTTTTCACCCT
1 AAACTTTTTACTTTTCACCCT
25127041 TTACTCTCAA
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:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (21 bp):
AAACTTTTTACTTTTCACCCT
Found at i:25131231 original size:29 final size:28
Alignment explanation
Indices: 25131199--25131402 Score: 185
Period size: 29 Copynumber: 7.0 Consensus size: 28
25131189 CTTTTGACTT
* * **
25131199 TCAACTATGGAAAGAGATGGTGACGACCA
1 TCAA-TATGAAAAGGGATGGTTTCGACCA
* * * **
25131228 TCAAATACGAAAAGGGATAGTTTTGAGTA
1 TC-AATATGAAAAGGGATGGTTTCGACCA
**
25131257 TCAACTATGAAAAGGGATGGTCACGACCA
1 TCAA-TATGAAAAGGGATGGTTTCGACCA
*
25131286 TCAACTATGAAAAGCGATGGTTTCGACCA
1 TCAA-TATGAAAAGGGATGGTTTCGACCA
* *
25131315 TCGATATGAAAAGGGATGGTTTCGACCCT
1 TCAATATGAAAAGGGATGGTTTCGA-CCA
* *
25131344 TGAATATGAAAAGGGATGGTGAT-GACCA
1 TCAATATGAAAAGGGATGGT-TTCGACCA
25131372 TCGAATATGGAAAAGGGATGGTTTCGACCA
1 TC-AATAT-GAAAAGGGATGGTTTCGACCA
25131402 T
1 T
25131403 TGATTAAAGA
Statistics
Matches: 140, Mismatches: 28, Indels: 13
0.77 0.15 0.07
Matches are distributed among these distances:
28 25 0.18
29 93 0.66
30 22 0.16
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (28 bp):
TCAATATGAAAAGGGATGGTTTCGACCA
Found at i:25131252 original size:58 final size:58
Alignment explanation
Indices: 25131178--25131334 Score: 181
Period size: 58 Copynumber: 2.7 Consensus size: 58
25131168 ATCGATTAAA
* * * *
25131178 GAAAAGGGATACTTTTGACTTTCAACTATGGAAAGAGATGGTGACGACCATCAAATAC
1 GAAAAGGGATAGTTTTGACTATCAACTATGAAAAGAGATGGTCACGACCATCAAATAC
* * * *
25131236 GAAAAGGGATAGTTTTGAGTATCAACTATGAAAAGGGATGGTCACGACCATCAACTAT
1 GAAAAGGGATAGTTTTGACTATCAACTATGAAAAGAGATGGTCACGACCATCAAATAC
* * * * * *
25131294 GAAAAGCGATGGTTTCGACCATCGA-TATGAAAAGGGATGGT
1 GAAAAGGGATAGTTTTGACTATCAACTATGAAAAGAGATGGT
25131335 TTCGACCCTT
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
57 16 0.19
58 69 0.81
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (58 bp):
GAAAAGGGATAGTTTTGACTATCAACTATGAAAAGAGATGGTCACGACCATCAAATAC
Found at i:25131341 original size:57 final size:57
Alignment explanation
Indices: 25131262--25131402 Score: 178
Period size: 57 Copynumber: 2.4 Consensus size: 57
25131252 GAGTATCAAC
** *
25131262 TATGAAAAGGGATGGTCACGACCATCAACTATGAAAAGCGATGGT-TTCGACCATCG-A
1 TATGAAAAGGGATGGTTTCGACCATCAA-TATGAAAAGCGATGGTGAT-GACCATCGAA
* * *
25131319 TATGAAAAGGGATGGTTTCGACCCTTGAATATGAAAAGGGATGGTGATGACCATCGAA
1 TATGAAAAGGGATGGTTTCGA-CCATCAATATGAAAAGCGATGGTGATGACCATCGAA
25131377 TATGGAAAAGGGATGGTTTCGACCAT
1 TAT-GAAAAGGGATGGTTTCGACCAT
25131403 TGATTAAAGA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
57 42 0.58
58 13 0.18
59 18 0.25
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (57 bp):
TATGAAAAGGGATGGTTTCGACCATCAATATGAAAAGCGATGGTGATGACCATCGAA
Found at i:25131433 original size:30 final size:30
Alignment explanation
Indices: 25131294--25131434 Score: 139
Period size: 30 Copynumber: 4.8 Consensus size: 30
25131284 CATCAACTAT
* * *
25131294 GAAAAGCGATGGTTTCGACCATCG-AT-AT
1 GAAAAGGGATGGTTTCGACCATTGAATAAA
* *
25131322 GAAAAGGGATGGTTTCGACCCTTGAAT-AT
1 GAAAAGGGATGGTTTCGACCATTGAATAAA
* * **
25131351 GAAAAGGGATGGTGAT-GACCATCGAATATG
1 GAAAAGGGATGGT-TTCGACCATTGAATAAA
*
25131381 GAAAAGGGATGGTTTCGACCATTGATTAAA
1 GAAAAGGGATGGTTTCGACCATTGAATAAA
25131411 GAAAAGGGATGGTTAT-GACCATTG
1 GAAAAGGGATGGTT-TCGACCATTG
25131435 TTTGACAAGC
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
28 21 0.22
29 27 0.28
30 46 0.48
31 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (30 bp):
GAAAAGGGATGGTTTCGACCATTGAATAAA
Found at i:25135062 original size:29 final size:28
Alignment explanation
Indices: 25135030--25135106 Score: 127
Period size: 29 Copynumber: 2.6 Consensus size: 28
25135020 TATCGATTAG
25135030 GAAAACGGATGGTGACGACCATCAATAAT
1 GAAAA-GGATGGTGACGACCATCAATAAT
25135059 GAAAATGGATGGTGACGACCATCAATAAT
1 GAAAA-GGATGGTGACGACCATCAATAAT
25135088 GAAAAGGTATGGTGACGAC
1 GAAAAGG-ATGGTGACGAC
25135107 TATCGAAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 2 0.04
29 44 0.96
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.18
Consensus pattern (28 bp):
GAAAAGGATGGTGACGACCATCAATAAT
Done.