Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 41 of 295
Found at i:11737413 original size:40 final size:40
Alignment explanation
Indices: 11737369--11737465 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
11737359 AAATGTTTTT
* *
11737369 GCGGCGTTTTTAAAAAAGCGCCGCTAAAGCTTGATCTATA
1 GCGGCGTTTTTAAAAAAGCGCCGCTAAAGCTCGACCTATA
* * * *
11737409 GCGGCGTTTTTCAAAAAGTGCCGCTAATGGTCGACCTATA
1 GCGGCGTTTTTAAAAAAGCGCCGCTAAAGCTCGACCTATA
* *
11737449 GCAGTGTTTTTAAAAAA
1 GCGGCGTTTTTAAAAAA
11737466 ACTAAAAAGC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (40 bp):
GCGGCGTTTTTAAAAAAGCGCCGCTAAAGCTCGACCTATA
Found at i:11737536 original size:88 final size:88
Alignment explanation
Indices: 11737381--11737553 Score: 231
Period size: 88 Copynumber: 2.0 Consensus size: 88
11737371 GGCGTTTTTA
* * * *
11737381 AAAAAGCGCCGCTAAAGCTTGATCTATAGCGGCGTTTTTCAAAAAGTGCCGCTAATGGTCGACCT
1 AAAAAGCGCCGCTAAAGCTCGATCTATAGCAGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCT
11737446 ATAGCAGTGTTTTTAAAAAAACT
66 ATAGCAGTGTTTTTAAAAAAACT
* * ** *
11737469 AAAAAGCGCCGCTAATGCTCGATTTATAGCATTGTTTTTCAACAAA-CGCCGCTAATGCTCGATC
1 AAAAAGCGCCGCTAAAGCTCGATCTATAGCAGCGTTTTTCAA-AAAGCGCCGCTAATGCTCGACC
* *
11737533 TATAGCATTGTTTTTCAAAAA
65 TATAGCAGTGTTTTTAAAAAA
11737554 GCGCGCTAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
88 70 0.96
89 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (88 bp):
AAAAAGCGCCGCTAAAGCTCGATCTATAGCAGCGTTTTTCAAAAAGCGCCGCTAATGCTCGACCT
ATAGCAGTGTTTTTAAAAAAACT
Found at i:11737586 original size:39 final size:40
Alignment explanation
Indices: 11737469--11737575 Score: 173
Period size: 40 Copynumber: 2.7 Consensus size: 40
11737459 TAAAAAAACT
*
11737469 AAAAAGCGCCGCTAATGCTCGATTTATAGCATTGTTTTTC
1 AAAAAGCGCCGCTAATGCTCGATCTATAGCATTGTTTTTC
11737509 AACAAA-CGCCGCTAATGCTCGATCTATAGCATTGTTTTTC
1 AA-AAAGCGCCGCTAATGCTCGATCTATAGCATTGTTTTTC
*
11737549 AAAAAGCG-CGCTAATGCTCTATCTATA
1 AAAAAGCGCCGCTAATGCTCGATCTATA
11737576 ACGGCGTTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
39 21 0.33
40 39 0.62
41 3 0.05
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (40 bp):
AAAAAGCGCCGCTAATGCTCGATCTATAGCATTGTTTTTC
Found at i:11739089 original size:27 final size:27
Alignment explanation
Indices: 11739036--11739089 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
11739026 GCATGATCCT
* *
11739036 ATATGATTTCATTTTTCAATTTTTCCC
1 ATATGATTACATTTTTCAATTTGTCCC
*
11739063 ATATG-TTACATTTTTTAATTTAGTCCC
1 ATATGATTACATTTTTCAATTT-GTCCC
11739090 TGAACTCGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.24, C:0.17, G:0.06, T:0.54
Consensus pattern (27 bp):
ATATGATTACATTTTTCAATTTGTCCC
Found at i:11746544 original size:28 final size:28
Alignment explanation
Indices: 11746512--11746567 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
11746502 AGGAAAGTGT
11746512 TAGTAAATACCATTTAAGAAAGAGGAAA
1 TAGTAAATACCATTTAAGAAAGAGGAAA
11746540 TAGTAAATACCATTTAAGAAAGAGGAAA
1 TAGTAAATACCATTTAAGAAAGAGGAAA
11746568 AAGAAAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.07, G:0.18, T:0.21
Consensus pattern (28 bp):
TAGTAAATACCATTTAAGAAAGAGGAAA
Found at i:11754852 original size:30 final size:30
Alignment explanation
Indices: 11754816--11754878 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
11754806 ACTTAACAGG
*
11754816 CAAATGT-TTCTAAAATAATAACAAAATTAA
1 CAAATGTCTT-TAAAATAATAAAAAAATTAA
11754846 CAAATGTCTTTAAAATAATAAAAAAATTAA
1 CAAATGTCTTTAAAATAATAAAAAAATTAA
11754876 CAA
1 CAA
11754879 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAAAAAAATTAA
Found at i:11754933 original size:22 final size:22
Alignment explanation
Indices: 11754908--11754950 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11754898 TATCCAAACA
11754908 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
11754930 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
11754951 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:11754954 original size:11 final size:11
Alignment explanation
Indices: 11754915--11754955 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
11754905 ACAATAACAA
11754915 CAAAATAGTAG
1 CAAAATAGTAG
* *
11754926 CAACATAATAG
1 CAAAATAGTAG
*
11754937 TAAAATAGTAG
1 CAAAATAGTAG
11754948 CAAAATAG
1 CAAAATAG
11754956 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:11765104 original size:15 final size:15
Alignment explanation
Indices: 11765086--11765121 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
11765076 GTTTTTGCAT
11765086 CAGCAGCAACAACAG
1 CAGCAGCAACAACAG
*
11765101 CAGCAGCAACAGCAG
1 CAGCAGCAACAACAG
11765116 CAGCAG
1 CAGCAG
11765122 TTGCTCCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.33, G:0.25, T:0.00
Consensus pattern (15 bp):
CAGCAGCAACAACAG
Found at i:11765118 original size:12 final size:12
Alignment explanation
Indices: 11765086--11765120 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
11765076 GTTTTTGCAT
*
11765086 CAGCAGCAACAA
1 CAGCAGCAGCAA
11765098 CAGCAGCAGCAA
1 CAGCAGCAGCAA
11765110 CAGCAGCAGCA
1 CAGCAGCAGCA
11765121 GTTGCTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.43, C:0.34, G:0.23, T:0.00
Consensus pattern (12 bp):
CAGCAGCAGCAA
Found at i:11771921 original size:29 final size:30
Alignment explanation
Indices: 11771868--11771940 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
11771858 TGTTTAAATT
*
11771868 TTTTTAT-TTTTTATATATTTAAAATTTAA
1 TTTTTATATTTTTATATATTCAAAATTTAA
11771897 TTTTTATATTTTTAT-T-TTCAGAAATTTAA
1 TTTTTATATTTTTATATATTCA-AAATTTAA
*
11771926 TTCTTATACTTTTTA
1 TTTTTATA-TTTTTA
11771941 ACATGGCCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 3 0.08
29 23 0.59
30 13 0.33
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (30 bp):
TTTTTATATTTTTATATATTCAAAATTTAA
Found at i:11773210 original size:48 final size:48
Alignment explanation
Indices: 11773158--11773419 Score: 160
Period size: 48 Copynumber: 5.5 Consensus size: 48
11773148 CTTGTTCCAA
* * * *
11773158 ACATGGTCTTACATTGGCTCACATGTTGAGGCCGATGCCATGTCGTAG
1 ACATGGTCTTACACTGGCTCACATATTGAGGCTGATGCCATGTCCTAG
* * * * * * ** * *
11773206 ACATGTTCTTACACTAGTTCTCGTCTCAATGCTGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCACATATTGAGGCTGATGCCATGTCCTAG
* * * * *
11773254 ACATGGTCTTGCACTGGCTCTCACAATGTGGCTGATGCCATGTCCTAG
1 ACATGGTCTTACACTGGCTCACATATTGAGGCTGATGCCATGTCCTAG
* * ** * *
11773302 ACATGGTCTTACATTGGCTCACACA-ACA-TCGTCGATGCCATGTTCC-AA
1 ACATGGTCTTACACTGGCTCACATATTGAGGC-T-GATGCCATG-TCCTAG
* * * * *
11773350 ACATGGTCTT--AC--GCTCTCATATCGTGGCCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCACATATTGAGGCTGATGCCATGTCCTAG
* *
11773394 ACATGGTTTTACACTGGCACACATAT
1 ACATGGTCTTACACTGGCTCACATAT
11773420 CACTCAAATG
Statistics
Matches: 158, Mismatches: 46, Indels: 20
0.71 0.21 0.09
Matches are distributed among these distances:
43 3 0.02
44 26 0.16
46 5 0.03
47 1 0.01
48 120 0.76
49 3 0.02
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (48 bp):
ACATGGTCTTACACTGGCTCACATATTGAGGCTGATGCCATGTCCTAG
Found at i:11773406 original size:92 final size:94
Alignment explanation
Indices: 11773239--11773416 Score: 236
Period size: 92 Copynumber: 1.9 Consensus size: 94
11773229 TCTCAATGCT
* * *
11773239 GATGCCATGTCCCAGACATGGTCTTGCACTGGCTCTCACAATGTGGCTGATGCCATGTCCTAGAC
1 GATGCCATGTCCCAAACATGGTCTT-CAC-GGCTCTCACAATGTGGCCGATGCCATGTCCCAGAC
* *
11773304 ATGGTCTTACATTGGCTCACACAACATCGTC
64 ATGGTCTTACACTGGCACACACAACATCGTC
* *
11773335 GATGCCATGTTCCAAACATGGTCTT-AC-GCTCTCA-TATCGTGGCCGATGCCATGTCCCAGACA
1 GATGCCATGTCCCAAACATGGTCTTCACGGCTCTCACAAT-GTGGCCGATGCCATGTCCCAGACA
*
11773397 TGGTTTTACACTGGCACACA
65 TGGTCTTACACTGGCACACA
11773417 TATCACTCAA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
91 2 0.03
92 46 0.63
94 2 0.03
96 23 0.32
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (94 bp):
GATGCCATGTCCCAAACATGGTCTTCACGGCTCTCACAATGTGGCCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCACACACAACATCGTC
Found at i:11780938 original size:48 final size:48
Alignment explanation
Indices: 11780814--11781134 Score: 225
Period size: 48 Copynumber: 6.7 Consensus size: 48
11780804 GGTGAATTGT
* * * * * ** * *
11780814 CGATGCCGTGTTCCAAACATGGTCTTACAATGGCTCACATATTGAGGA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCCCATATCAATGC
* * ** * *
11780862 CGATGCCATGTCCTATACACAGTTTTACACTAGCTCCCATCTCAATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCCCATATCAATGC
* * * * ** *
11780910 CGATGCCATATCCCATACATGGTCTTACACTGGCTCTCATAAT-GTTTC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCCCAT-ATCAATGC
* * * * *
11780958 TGATGCCATGTCTCAAACATGGTCTTACACTAGCGCACATATCAATGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCCCATATCAATGC
* * * * * * * *
11781006 CGATGCCTTATCCCAGACATGGTCTTACACTGGCTCACACAAC-ATCAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCCCATATCAAT-GC
* * *
11781054 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATC-ATGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCCCATATCAAT-GC
* * *
11781102 CAATGCCATGTCTCAGACATGGTCTTACACTAG
1 CGATGCCATGTCCCAAACATGGTCTTACACTAG
11781135 TACGCATATC
Statistics
Matches: 208, Mismatches: 62, Indels: 6
0.75 0.22 0.02
Matches are distributed among these distances:
47 4 0.02
48 203 0.98
49 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCCCATATCAATGC
Found at i:11780986 original size:96 final size:96
Alignment explanation
Indices: 11780886--11781132 Score: 300
Period size: 96 Copynumber: 2.6 Consensus size: 96
11780876 ATACACAGTT
* * * * *
11780886 TTACACTAGCTCCCATCTCAATGCCGATGCCATATCCCATACATGGTCTTACACTGGCTCTCATA
1 TTACACTAGCTCACATATCAATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACACA
** ** *
11780951 ATGTTTCTGATGCCATG-TCTCAAACATGGTC
66 ACATCACCGATGCCATGTTC-CAAACATGGTC
* * *
11780982 TTACACTAGCGCACATATCAATGTCGATGCCTTATCCCAGACATGGTCTTACACTGGCTCACACA
1 TTACACTAGCTCACATATCAATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACACA
11781047 ACATCACCGATGCCATGTTCCAAACATGGTC
66 ACATCACCGATGCCATGTTCCAAACATGGTC
* * * * *
11781078 TTACACTGGCTCTCATATC-ATGGCCAATGCCATGTCTCAGACATGGTCTTACACT
1 TTACACTAGCTCACATATCAAT-GCCGATGCCATATCCCAGACATGGTCTTACACT
11781133 AGTACGCATA
Statistics
Matches: 128, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
95 2 0.02
96 124 0.97
97 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (96 bp):
TTACACTAGCTCACATATCAATGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCACACA
ACATCACCGATGCCATGTTCCAAACATGGTC
Found at i:11783890 original size:10 final size:10
Alignment explanation
Indices: 11783875--11783904 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
11783865 AATCCCCTGT
11783875 TTATAAATCA
1 TTATAAATCA
11783885 TTATAAATCA
1 TTATAAATCA
11783895 TTATAAATCA
1 TTATAAATCA
11783905 CACAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (10 bp):
TTATAAATCA
Found at i:11784391 original size:48 final size:48
Alignment explanation
Indices: 11784320--11784425 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
11784310 AGATAAATAT
* * *
11784320 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
11784368 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
11784416 ATGTGTATAT
1 ATATGTATAT
11784426 ATTGTGGCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:11786819 original size:104 final size:104
Alignment explanation
Indices: 11786639--11786862 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
11786629 TGTATATAAA
** * *
11786639 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
11786704 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
11786743 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
11786807 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
11786847 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
11786863 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:11786914 original size:71 final size:72
Alignment explanation
Indices: 11786781--11786932 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
11786771 TCATTGGTGG
* *
11786781 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
11786846 GAGGGGT
66 GAGGGGT
***
11786853 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
11786917 GAGGGGT
66 GAGGGGT
11786924 TGCTAAGTG
1 TGCTAAGTG
11786933 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:11794374 original size:104 final size:104
Alignment explanation
Indices: 11794194--11794417 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
11794184 TGTATATAAA
** * *
11794194 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
11794259 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
11794298 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
11794362 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
11794402 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
11794418 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:11794469 original size:71 final size:72
Alignment explanation
Indices: 11794336--11794487 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
11794326 TCATTGGTGG
* *
11794336 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
11794401 GAGGGGT
66 GAGGGGT
***
11794408 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
11794472 GAGGGGT
66 GAGGGGT
11794479 TGCTAAGTG
1 TGCTAAGTG
11794488 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:11796530 original size:23 final size:24
Alignment explanation
Indices: 11796502--11796546 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11796492 AGAAATTATA
*
11796502 AAAATAAAAT-CTCAAATTTAAGC
1 AAAATAAAATGATCAAATTTAAGC
*
11796525 AAAATATAATGATCAAATTTAA
1 AAAATAAAATGATCAAATTTAA
11796547 AATTTAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (24 bp):
AAAATAAAATGATCAAATTTAAGC
Found at i:11800743 original size:22 final size:21
Alignment explanation
Indices: 11800709--11800768 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 21
11800699 TCTTTTCCTT
11800709 TTATATATATTAATTATAAAATA
1 TTATATATATTAA--ATAAAATA
* *
11800732 TTAT-TATTTTAAGTAAAATA
1 TTATATATATTAAATAAAATA
11800752 TTATATAAATATTAAAT
1 TTATAT--ATATTAAAT
11800769 TATTATTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 11 0.37
21 1 0.03
22 7 0.23
23 11 0.37
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TTATATATATTAAATAAAATA
Found at i:11801013 original size:74 final size:74
Alignment explanation
Indices: 11800874--11801013 Score: 163
Period size: 74 Copynumber: 1.9 Consensus size: 74
11800864 ATATTAGAGA
* * * ** * **
11800874 GGCCTACTTATATTTTTAAGAGGACTATAATATATATGCCAAGGGGGAAATTGAAAAAATCTTAA
1 GGCCTACTTATATTTTTAAGAGGACCATAATATATATACAAAGGACGAAATAGAAAAAAAATTAA
11800939 ACCTTAAGG
66 ACCTTAAGG
* * * * *
11800948 GGCCTACTTATATTTTTAGGAGGGCCATAGTATATTTACAAAGGACTAAATAGAAAAAAAATTAA
1 GGCCTACTTATATTTTTAAGAGGACCATAATATATATACAAAGGACGAAATAGAAAAAAAATTAA
11801013 A
66 A
11801014 ATTTGGGGGG
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
74 53 1.00
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.29
Consensus pattern (74 bp):
GGCCTACTTATATTTTTAAGAGGACCATAATATATATACAAAGGACGAAATAGAAAAAAAATTAA
ACCTTAAGG
Found at i:11806318 original size:37 final size:37
Alignment explanation
Indices: 11806268--11806339 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
11806258 TGTTCATTCG
*
11806268 AAGATCGTCTGACAACATCTTACTTCTTATGGTCTCA
1 AAGATCATCTGACAACATCTTACTTCTTATGGTCTCA
11806305 AAGATCATCTGACAACATCTTACTTCTTATGGTCT
1 AAGATCATCTGACAACATCTTACTTCTTATGGTCT
11806340 ATGTTAATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (37 bp):
AAGATCATCTGACAACATCTTACTTCTTATGGTCTCA
Found at i:11807848 original size:33 final size:33
Alignment explanation
Indices: 11807811--11807878 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
11807801 ATGTACTTGC
* *
11807811 TTCATTTCAACAATGTGATGTGCTCTCGTTTGA
1 TTCATTTCAACAATGTGACGTGCTCTAGTTTGA
11807844 TTCATTTCAACAATGTGACGTGCTCTAGTTTGA
1 TTCATTTCAACAATGTGACGTGCTCTAGTTTGA
11807877 TT
1 TT
11807879 TCAAAATTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.43
Consensus pattern (33 bp):
TTCATTTCAACAATGTGACGTGCTCTAGTTTGA
Found at i:11811925 original size:17 final size:17
Alignment explanation
Indices: 11811903--11811936 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11811893 ATCCACTAAT
*
11811903 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
11811920 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
11811937 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:11816553 original size:17 final size:17
Alignment explanation
Indices: 11816531--11816564 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11816521 ATCCACTAAT
*
11816531 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
11816548 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
11816565 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:11817752 original size:3 final size:3
Alignment explanation
Indices: 11817744--11817768 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11817734 ATGAATCTTC
11817744 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
11817769 ATTCATGGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:11823732 original size:21 final size:21
Alignment explanation
Indices: 11823707--11823750 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
11823697 ATTCAACTAA
*
11823707 AAGAATACAACTCCACTGAAC
1 AAGAATACAACTCCAATGAAC
11823728 AAGAATACAACTCCAATGAAC
1 AAGAATACAACTCCAATGAAC
11823749 AA
1 AA
11823751 CTTTATGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.25, G:0.09, T:0.14
Consensus pattern (21 bp):
AAGAATACAACTCCAATGAAC
Found at i:11834851 original size:10 final size:9
Alignment explanation
Indices: 11834834--11834902 Score: 59
Period size: 10 Copynumber: 7.3 Consensus size: 9
11834824 ATGTTTATAG
11834834 TTTTATAAT
1 TTTTATAAT
11834843 TTCTTATAAT
1 TT-TTATAAT
11834853 TTTATATAA-
1 TTT-TATAAT
*
11834862 TTGTATAAT
1 TTTTATAAT
11834871 TGTTTATAAAT
1 T-TTTAT-AAT
* *
11834882 TTATATATT
1 TTTTATAAT
*
11834891 TTTTAAAAT
1 TTTTATAAT
11834900 TTT
1 TTT
11834903 AAATCTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
8 5 0.10
9 17 0.35
10 22 0.46
11 4 0.08
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTATAAT
Found at i:11834860 original size:28 final size:28
Alignment explanation
Indices: 11834829--11834893 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
11834819 CTAGAATGTT
* *
11834829 TATAGTTTTATAATT-TCTTATAATTTTA
1 TATAATTTTATAATTGT-TTATAAATTTA
*
11834857 TATAATTGTATAATTGTTTATAAATTTA
1 TATAATTTTATAATTGTTTATAAATTTA
*
11834885 TATATTTTT
1 TATAATTTT
11834894 TAAAATTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.60
Consensus pattern (28 bp):
TATAATTTTATAATTGTTTATAAATTTA
Found at i:11834895 original size:19 final size:19
Alignment explanation
Indices: 11834852--11834915 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
11834842 TTTCTTATAA
11834852 TTTTATATAATTGTATA-ATT
1 TTTTATA-AATT-TATATATT
*
11834872 GTTTATAAATTTATATATT
1 TTTTATAAATTTATATATT
* *
11834891 TTTTA-AAATTTTAAATCTT
1 TTTTATAAA-TTTATATATT
11834910 TTTTAT
1 TTTTAT
11834916 TTTCAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
18 7 0.19
19 24 0.65
20 6 0.16
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTATAAATTTATATATT
Found at i:11834899 original size:18 final size:17
Alignment explanation
Indices: 11834846--11834901 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
11834836 TTATAATTTC
* *
11834846 TTATAATTTTATATAAT
1 TTATAATTTTTTAAAAT
*
11834863 TGTATAATTGTTTATAAAT
1 T-TATAATTTTTTA-AAAT
11834882 TTATATATTTTTTAAAAT
1 TTATA-ATTTTTTAAAAT
11834900 TT
1 TT
11834902 TAAATCTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
17 1 0.03
18 20 0.62
19 11 0.34
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (17 bp):
TTATAATTTTTTAAAAT
Found at i:11835744 original size:24 final size:24
Alignment explanation
Indices: 11835708--11835761 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
11835698 ATGGCTTTTC
* *
11835708 CTTTTTTTTTTCTCTTTTATATTA
1 CTTTTTTTATTCTCTTTTAAATTA
* *
11835732 GTTTTTTTATTCTTTTTTAAATTA
1 CTTTTTTTATTCTCTTTTAAATTA
11835756 CTTTTT
1 CTTTTT
11835762 GGACATTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (24 bp):
CTTTTTTTATTCTCTTTTAAATTA
Found at i:11841262 original size:46 final size:46
Alignment explanation
Indices: 11841210--11841391 Score: 231
Period size: 46 Copynumber: 4.0 Consensus size: 46
11841200 AGTGTGCTCT
*
11841210 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
11841256 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTATC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
11841302 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
11841348 ATGACA-GAAAATGAGAAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
11841392 TCATGTCAAA
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.01
46 119 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:11842279 original size:26 final size:26
Alignment explanation
Indices: 11842243--11842294 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
11842233 AAGGAAAGAA
11842243 AGAATATTAGAATTCGATGATATGAT
1 AGAATATTAGAATTCGATGATATGAT
*
11842269 AGAATATTAGAATTTGATGATATGAT
1 AGAATATTAGAATTCGATGATATGAT
11842295 TTCCAAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.37
Consensus pattern (26 bp):
AGAATATTAGAATTCGATGATATGAT
Found at i:11843756 original size:36 final size:35
Alignment explanation
Indices: 11843708--11843785 Score: 84
Period size: 36 Copynumber: 2.2 Consensus size: 35
11843698 AAAAACTTTT
* *
11843708 TAAAAATTAAAAATCATTAAAATTGTTAAAAATTA
1 TAAAAATCAAAAATAATTAAAATTGTTAAAAATTA
* * ** *
11843743 TAAAAATACAAAAATAATTATAATTTTTTTAAATTT
1 TAAAAAT-CAAAAATAATTAAAATTGTTAAAAATTA
11843779 TAAAAAT
1 TAAAAAT
11843786 TAATTAAATG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
35 7 0.20
36 28 0.80
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (35 bp):
TAAAAATCAAAAATAATTAAAATTGTTAAAAATTA
Found at i:11849285 original size:221 final size:217
Alignment explanation
Indices: 11848938--11849386 Score: 543
Period size: 221 Copynumber: 2.1 Consensus size: 217
11848928 ATACTCGGCT
* * *
11848938 AAAA-ACAAAAGCTCCAATGGTGAGAAAGGTAAATATAAATGAGAGAAAGATAGAAGGAGAAAGA
1 AAAATACAAAAGCTCCAATGGTGAGAAAAGTAAATATAAATGAGAGAAAGATAGAAGAAGAAACA
* * * *
11849002 AATGATTGTTTTGGTGGTTAATATGAACGGAGAAAGCCATCAACAGTGGAGAGTCTACAACAGCG
66 AATGATTGTTTTGGTGATTAATACGAACAGAGAAAGCCATCAACAGTAGAGAGTCTACAACAGCG
* * * *
11849067 GCGACGATTTTTTTCTGTTTAGTTTATCTTCATCAATTTTTTTT-T-ACTGGTAATGAATCACTT
131 ACGACGATTTTTTACTATTTAATTTATCTTCATC--TTTTTTTTCTAAC-GGTAATGAATCACTT
11849130 CCATTAAAAGAGAAAAAAAATGCATTGA
193 CCATTAAAAGAG--AAAAAATGCATT-A
* *
11849158 AAAATACAAAAGCTCCAATGGTTAGAAAAG-AGAATCTAGAATGAGAGAAAGATAGAAGAAGAAA
1 AAAATACAAAAGCTCCAATGGTGAGAAAAGTA-AATATA-AATGAGAGAAAGATAGAAGAAGAAA
* * * *
11849222 CAAAT-ATTGTTTTGGTGATTAATCCGAACAGAGAATGCCTTTC-ACGGTAGAGAGT-TCACAAC
64 CAAATGATTGTTTTGGTGATTAATACGAACAGAGAAAGCC-ATCAACAGTAGAGAGTCT-ACAAC
* * * *
11849284 AGTGACGATGATTTTTTACTATTTAATTTATCTTCATCTTTTTTTTCTAACGGTTATGAATGACT
127 AGCGACGACGATTTTTTACTATTTAATTTATCTTCATCTTTTTTTTCTAACGGTAATGAATCACT
* *
11849349 TTCATTAGAAGAGAAAAAATGCATTA
192 TCCATTAAAAGAGAAAAAATGCATTA
11849375 AAAATTACAAAA
1 AAAA-TACAAAA
11849387 AAGTAATGAA
Statistics
Matches: 198, Mismatches: 23, Indels: 18
0.83 0.10 0.08
Matches are distributed among these distances:
217 5 0.03
218 19 0.10
219 8 0.04
220 30 0.15
221 106 0.54
222 30 0.15
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (217 bp):
AAAATACAAAAGCTCCAATGGTGAGAAAAGTAAATATAAATGAGAGAAAGATAGAAGAAGAAACA
AATGATTGTTTTGGTGATTAATACGAACAGAGAAAGCCATCAACAGTAGAGAGTCTACAACAGCG
ACGACGATTTTTTACTATTTAATTTATCTTCATCTTTTTTTTCTAACGGTAATGAATCACTTCCA
TTAAAAGAGAAAAAATGCATTA
Found at i:11849849 original size:19 final size:19
Alignment explanation
Indices: 11849821--11849890 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 19
11849811 TACAAATCAA
11849821 TTTT-TTTCTTCTTTGCCC
1 TTTTGTTTCTTCTTTGCCC
11849839 TTTTGTTTCTTC---GCCC
1 TTTTGTTTCTTCTTTGCCC
*
11849855 GATCAATTTTTTTCTTCTTTGCCC
1 --T---TTTGTTTCTTCTTTGCCC
11849879 TTTTGTTTCTTC
1 TTTTGTTTCTTC
11849891 GCCCGATGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 17
0.68 0.03 0.28
Matches are distributed among these distances:
16 4 0.10
18 5 0.12
19 17 0.41
21 10 0.24
22 1 0.02
24 4 0.10
ACGTcount: A:0.04, C:0.26, G:0.09, T:0.61
Consensus pattern (19 bp):
TTTTGTTTCTTCTTTGCCC
Found at i:11849871 original size:40 final size:40
Alignment explanation
Indices: 11849816--11849897 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
11849806 CCAAGTACAA
11849816 ATCAATTTTTTTCTTCTTTGCCCTTTTGTTTCTTCGCCCG
1 ATCAATTTTTTTCTTCTTTGCCCTTTTGTTTCTTCGCCCG
11849856 ATCAATTTTTTTCTTCTTTGCCCTTTTGTTTCTTCGCCCG
1 ATCAATTTTTTTCTTCTTTGCCCTTTTGTTTCTTCGCCCG
11849896 AT
1 AT
11849898 GATGAATGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.09, C:0.27, G:0.10, T:0.55
Consensus pattern (40 bp):
ATCAATTTTTTTCTTCTTTGCCCTTTTGTTTCTTCGCCCG
Found at i:11851160 original size:17 final size:17
Alignment explanation
Indices: 11851138--11851173 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
11851128 ATTGAAGTGA
11851138 TTGTTTTTAATCTAAAT
1 TTGTTTTTAATCTAAAT
11851155 TTGTTTTTAATCTAAAT
1 TTGTTTTTAATCTAAAT
11851172 TT
1 TT
11851174 ACTAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (17 bp):
TTGTTTTTAATCTAAAT
Found at i:11855477 original size:19 final size:19
Alignment explanation
Indices: 11855455--11855494 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11855445 GAAACTAAAG
* *
11855455 AATAAGAATGAAAATTAAT
1 AATAAGAAAGAAAAATAAT
*
11855474 AATAATAAAGAAAAATAAT
1 AATAAGAAAGAAAAATAAT
11855493 AA
1 AA
11855495 AACCACAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (19 bp):
AATAAGAAAGAAAAATAAT
Found at i:11855598 original size:19 final size:19
Alignment explanation
Indices: 11855574--11855622 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
11855564 GGTAAAATCG
*
11855574 ATAAATAATAATAATAATA
1 ATAAATAATAATAAGAATA
11855593 ATAAATGAA-AATAAGAATA
1 ATAAAT-AATAATAAGAATA
* *
11855612 AAAAATGATAA
1 ATAAATAATAA
11855623 AAAATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 22 0.88
20 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.24
Consensus pattern (19 bp):
ATAAATAATAATAAGAATA
Found at i:11865707 original size:27 final size:29
Alignment explanation
Indices: 11865659--11865716 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 29
11865649 CTTCTAGTAA
*
11865659 TTTTTATATATTTTATAATTTTAATGATT
1 TTTTTATATATTTTATAATTTTAATAATT
* *
11865688 TTTTTATAT-TTTTAT-GTTTTTATAATT
1 TTTTTATATATTTTATAATTTTAATAATT
11865715 TT
1 TT
11865717 AAAATGTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 11 0.42
28 6 0.23
29 9 0.35
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (29 bp):
TTTTTATATATTTTATAATTTTAATAATT
Found at i:11865723 original size:19 final size:19
Alignment explanation
Indices: 11865669--11865723 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 19
11865659 TTTTTATATA
* *
11865669 TTTTATAATTTTAATGATTT
1 TTTTATAATTTTAA-AATGT
*
11865689 TTTTAT-ATTTT--TATGT
1 TTTTATAATTTTAAAATGT
11865705 TTTTATAATTTTAAAATGT
1 TTTTATAATTTTAAAATGT
11865724 AATTACACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 9 0.31
17 5 0.17
19 9 0.31
20 6 0.21
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTAAAATGT
Found at i:11866532 original size:31 final size:31
Alignment explanation
Indices: 11866497--11866580 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 31
11866487 AAGAGTTCAA
*
11866497 AATTTTAAAAGTATAGGGACTAAAATTGACC
1 AATTTTAAAAGTATAAGGACTAAAATTGACC
* * * *
11866528 AATTTGAAAAGTAAAAGAACTAAAATTGATC
1 AATTTTAAAAGTATAAGGACTAAAATTGACC
*
11866559 AA-ATTAAAA-TATAAGGACTAAA
1 AATTTTAAAAGTATAAGGACTAAA
11866581 TCCATAACTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
29 11 0.25
30 5 0.11
31 28 0.64
ACGTcount: A:0.54, C:0.07, G:0.13, T:0.26
Consensus pattern (31 bp):
AATTTTAAAAGTATAAGGACTAAAATTGACC
Found at i:11869470 original size:24 final size:25
Alignment explanation
Indices: 11869439--11869491 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
11869429 ATTGAGTTTA
*
11869439 CAAA-GAAGGGAA-AAACTGATTTT
1 CAAAGGAAGGAAAGAAACTGATTTT
* *
11869462 CAAAGGAAGGAAAGAAATTTATTTT
1 CAAAGGAAGGAAAGAAACTGATTTT
11869487 CAAAG
1 CAAAG
11869492 AAAGCAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.16
24 7 0.28
25 14 0.56
ACGTcount: A:0.49, C:0.08, G:0.21, T:0.23
Consensus pattern (25 bp):
CAAAGGAAGGAAAGAAACTGATTTT
Found at i:11870765 original size:7 final size:7
Alignment explanation
Indices: 11870753--11870783 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
11870743 TATATTAATA
11870753 ATTTTAT
1 ATTTTAT
11870760 ATTTTAT
1 ATTTTAT
11870767 ATTTTAT
1 ATTTTAT
*
11870774 GTTTTAT
1 ATTTTAT
11870781 ATT
1 ATT
11870784 AAATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (7 bp):
ATTTTAT
Found at i:11874151 original size:27 final size:26
Alignment explanation
Indices: 11874091--11874152 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
11874081 ATAAGACTCC
11874091 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
11874117 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
11874145 ATTTTATT
1 ATTTTATT
11874153 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:11880610 original size:6 final size:5
Alignment explanation
Indices: 11880597--11880649 Score: 52
Period size: 6 Copynumber: 9.6 Consensus size: 5
11880587 TTAATTTTAA
*
11880597 ATTTT ATTTCT ATTATT ATTATT ATTATT ATATTT ATTTT ATTTT ATTAT
1 ATTTT ATTT-T ATT-TT ATT-TT ATT-TT AT-TTT ATTTT ATTTT ATTTT
11880647 ATT
1 ATT
11880650 AATAAAATTC
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
5 19 0.43
6 23 0.52
7 2 0.05
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (5 bp):
ATTTT
Found at i:11880615 original size:3 final size:3
Alignment explanation
Indices: 11880607--11880650 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
11880597 ATTTTATTTC
11880607 TAT TAT TAT TAT TAT TAT TA- TATT TAT T-T TAT T-T TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
11880649 TA
1 TA
11880651 ATAAAATTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
2 8 0.22
3 26 0.72
4 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:11882875 original size:46 final size:46
Alignment explanation
Indices: 11882825--11883000 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
11882815 TGGTTGAGCA
11882825 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11882871 TCCGAACTCGTTGAGTTGAGTCCGAGTT--CGT-GGGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
11882916 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
11882964 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11883001 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 6 0.05
44 2 0.02
45 1 0.01
46 62 0.56
47 28 0.25
48 1 0.01
49 2 0.02
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:11882981 original size:93 final size:93
Alignment explanation
Indices: 11882822--11882993 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
11882812 GGATGGTTGA
* *
11882822 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11882887 TGAGTCCGAGTTCGTGGGATGTAACTAG
66 TGAGTCCGAGTTCGTGGGATGTAACTAG
*
11882915 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
11882980 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
11882994 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGGGATGTAACTAG
Found at i:11886862 original size:27 final size:26
Alignment explanation
Indices: 11886802--11886863 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
11886792 ATAAGACTCC
11886802 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
11886828 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
11886856 ATTTTATT
1 ATTTTATT
11886864 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:11890803 original size:16 final size:16
Alignment explanation
Indices: 11890775--11890807 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11890765 AATAACACAC
11890775 AGTAAGCTTCATAGCTT
1 AGTAAGCTTCATA-CTT
11890792 AGTAAG-TTCATACTT
1 AGTAAGCTTCATACTT
11890807 A
1 A
11890808 AGCAATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 6 0.38
17 6 0.38
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (16 bp):
AGTAAGCTTCATACTT
Found at i:11892304 original size:46 final size:49
Alignment explanation
Indices: 11892238--11892415 Score: 152
Period size: 47 Copynumber: 3.7 Consensus size: 49
11892228 TCACATGTCA
* * * * *
11892238 CACACTGAAGTCATAGCCCAGCCATGGTCTTACACAG-ATCACA-A-AT
1 CACACTGATGCCATATCCCAGACATGGTCTTACACAGAAGCACATATAT
*
11892284 CACACTGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATATAT
1 CACACTGATGCCATATCCCAGACATGGTCTTACACAGAAGCACATATAT
* * * * *
11892333 CAC-C-GATGCCATATCCCAAATAAGGTCTTATACGGAAGCACATAATCAAAT
1 CACACTGATGCCATATCCCAGACATGGTCTTACACAGAAGCACAT-AT---AT
* *
11892384 CCCACTGATGCCATAGCCCA-ACTATGGTCTTA
1 CACACTGATGCCATATCCCAGAC-ATGGTCTTA
11892416 TACGGGAGCC
Statistics
Matches: 108, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
46 32 0.30
47 40 0.37
48 4 0.04
49 5 0.05
51 4 0.04
52 2 0.02
53 21 0.19
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (49 bp):
CACACTGATGCCATATCCCAGACATGGTCTTACACAGAAGCACATATAT
Found at i:11892360 original size:47 final size:48
Alignment explanation
Indices: 11892263--11892380 Score: 154
Period size: 47 Copynumber: 2.5 Consensus size: 48
11892253 GCCCAGCCAT
* * *
11892263 GGTCTTACACAG-ATCACA-AATCACACTGATGCCATATCCCAGATAT
1 GGTCTTACACAGAAGCACATAATCACACTGATGCCATATCCCAAATAA
11892309 GGTCTTACACAGAAGCACATATATCAC-C-GATGCCATATCCCAAATAA
1 GGTCTTACACAGAAGCACATA-ATCACACTGATGCCATATCCCAAATAA
* *
11892356 GGTCTTATACGGAAGCACATAATCA
1 GGTCTTACACAGAAGCACATAATCA
11892381 AATCCCACTG
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
46 16 0.25
47 41 0.64
48 2 0.03
49 5 0.08
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.23
Consensus pattern (48 bp):
GGTCTTACACAGAAGCACATAATCACACTGATGCCATATCCCAAATAA
Found at i:11892417 original size:53 final size:50
Alignment explanation
Indices: 11892279--11892420 Score: 157
Period size: 47 Copynumber: 2.8 Consensus size: 50
11892269 ACACAGATCA
* *
11892279 CAAATCACACTGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATAT
1 CAAATC-CACTGATGCCATATCCCA-ATATGGTCTTATACGGAAGCACATAT
* *
11892331 ---AT-CACCGATGCCATATCCCAAATAAGGTCTTATACGGAAGCACATAAT
1 CAAATCCACTGATGCCATATCCC-AATATGGTCTTATACGGAAGCACAT-AT
*
11892379 CAAATCCCACTGATGCCATAGCCCAACTATGGTCTTATACGG
1 CAAAT-CCACTGATGCCATATCCCAA-TATGGTCTTATACGG
11892421 GAGCCCATCT
Statistics
Matches: 75, Mismatches: 7, Indels: 15
0.77 0.07 0.15
Matches are distributed among these distances:
47 37 0.49
48 3 0.04
49 2 0.03
51 2 0.03
52 2 0.03
53 29 0.39
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (50 bp):
CAAATCCACTGATGCCATATCCCAATATGGTCTTATACGGAAGCACATAT
Found at i:11893912 original size:38 final size:38
Alignment explanation
Indices: 11893870--11893942 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
11893860 TCGATAAGTA
11893870 CCTATACCATGGCCTGTAGCCAAATCAAGGTAACTTAT
1 CCTATACCATGGCCTGTAGCCAAATCAAGGTAACTTAT
11893908 CCTATACCATGGCCTGTAGCCAAATCAAGGTAACT
1 CCTATACCATGGCCTGTAGCCAAATCAAGGTAACT
11893943 CTTCTCAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (38 bp):
CCTATACCATGGCCTGTAGCCAAATCAAGGTAACTTAT
Found at i:11896957 original size:36 final size:36
Alignment explanation
Indices: 11896910--11896981 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
11896900 TCTTTCTGTG
*
11896910 TCATCAAATACTTCAAACTCTTGTGACCTGAATAAA
1 TCATCAAATACTTCAAACTCTTATGACCTGAATAAA
*
11896946 TCATCAAATACTTCAAACTCTTATGATCTGAATAAA
1 TCATCAAATACTTCAAACTCTTATGACCTGAATAAA
11896982 CATGGCATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (36 bp):
TCATCAAATACTTCAAACTCTTATGACCTGAATAAA
Found at i:11902071 original size:28 final size:29
Alignment explanation
Indices: 11902014--11902071 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
11902004 TATTTCACAC
*
11902014 ATTTAACCCCTCAATTTACAATTTTCTCA
1 ATTTAACCCCTCAATTGACAATTTTCTCA
* * *
11902043 ATTTAATCCCT-AATTGACATTTTTGTCA
1 ATTTAACCCCTCAATTGACAATTTTCTCA
11902071 A
1 A
11902072 AAATCACTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (29 bp):
ATTTAACCCCTCAATTGACAATTTTCTCA
Found at i:11902255 original size:17 final size:17
Alignment explanation
Indices: 11902223--11902255 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11902213 CAAAGCAATG
11902223 ATCACAAAAACATAAAA
1 ATCACAAAAACATAAAA
11902240 ATCATCAAAAAC-TAAA
1 ATCA-CAAAAACATAAA
11902256 CTAAAACGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.67, C:0.18, G:0.00, T:0.15
Consensus pattern (17 bp):
ATCACAAAAACATAAAA
Found at i:11907657 original size:26 final size:26
Alignment explanation
Indices: 11907620--11907703 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
11907610 TGATACAAAT
* *
11907620 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11907646 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11907672 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
11907698 TGATAA
1 TGATAA
11907704 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:11921123 original size:96 final size:94
Alignment explanation
Indices: 11920933--11921242 Score: 250
Period size: 96 Copynumber: 3.3 Consensus size: 94
11920923 TAATGCCAAT
11920933 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGACATGG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTC-TCCATCAAGTCGATGCCATGTCCCAGACATGG
*
11920998 TCTTATACTGACTATCGAAATCGAGGCCGA
65 TCTTATACTAACTATCGAAATCGAGGCCGA
* * * * * *
11921028 CGCCATGTCCCAGACATGGTCATACACTAGCTCTCACAT-ATCTGTGCAGGTGTCATGTCCTAGA
1 -GCCATGTCCCAGACATGGTCTTACACTGGCTCTC-CATCA--AGT-C-GATGCCATGTCCCAGA
**
11921092 CATGGTCTTATACTAAC-A-C-ATCTCGCA-GCCGA
60 CATGGTCTTATACTAACTATCGAAATCG-AGGCCGA
** *
11921124 TACATGTCCCAGACAT-GTCTTACACTGGCTCTCGTC-TCAATGCCGATG-CATGTCCCAGACAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTC--CATCAA-GTCGATGCCATGTCCCAGACAT
* * * * *
11921186 -GTCTTACACTATCATTTC-ATAAT-GTGGTCGA
63 GGTCTTATACTAAC-TATCGA-AATCGAGGCCGA
11921217 TG-CATGTCCCAGACAT-GTCTTACACT
1 -GCCATGTCCCAGACATGGTCTTACACT
11921243 AGCACACACA
Statistics
Matches: 173, Mismatches: 26, Indels: 33
0.75 0.11 0.14
Matches are distributed among these distances:
90 11 0.06
91 13 0.08
92 3 0.02
93 32 0.18
94 18 0.10
95 19 0.11
96 42 0.24
97 4 0.02
98 2 0.01
99 29 0.17
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (94 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCTCCATCAAGTCGATGCCATGTCCCAGACATGGT
CTTATACTAACTATCGAAATCGAGGCCGA
Found at i:11921177 original size:46 final size:47
Alignment explanation
Indices: 11920924--11921195 Score: 182
Period size: 46 Copynumber: 5.8 Consensus size: 47
11920914 CATAGGGTAT
*
11920924 AATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCTC-TC
* * * * **
11920972 AA-GTCGATGCCATGTCCCAGACATGGTCTTATACTGACTATCGAAATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--TCTC
* * * * * *
11921020 GAGGCCGACGCCATGTCCCAGACATGGTCATACACTAGCTCTCACATATC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--C-TCTC
** * * * * * ** * *
11921070 TGTGCAGGTGTCATGTCCTAGACATGGTCTTATACTAACACATCTCGC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCTCTC
*
11921118 -A-GCCGAT-ACATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-TCTC
11921162 AATGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACT
11921196 ATCATTTCAT
Statistics
Matches: 174, Mismatches: 39, Indels: 24
0.73 0.16 0.10
Matches are distributed among these distances:
43 2 0.01
44 14 0.08
45 14 0.08
46 36 0.21
47 33 0.19
48 7 0.04
49 33 0.19
50 33 0.19
51 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTCTC
Found at i:11925659 original size:17 final size:19
Alignment explanation
Indices: 11925628--11925665 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
11925618 CAGCTTGACT
11925628 TTTTAGTTATATATTA-AA
1 TTTTAGTTATATATTATAA
*
11925646 TTTTA-TTATTTATTATAA
1 TTTTAGTTATATATTATAA
11925664 TT
1 TT
11925666 AAATTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTAGTTATATATTATAA
Found at i:11925676 original size:65 final size:65
Alignment explanation
Indices: 11925575--11925711 Score: 247
Period size: 65 Copynumber: 2.1 Consensus size: 65
11925565 ATAAGTAAGG
* * *
11925575 ATTATATTTTATTATTTATTATAATTTAATTTAATTAAATTTACAGCTTGACTTTTTAGTTATAT
1 ATTAAATTTTATTATTTATTATAATTAAATTTAATTAAATTTACAGATTGACTTTTTAGTTATAT
11925640 ATTAAATTTTATTATTTATTATAATTAAATTTAATTAAATTTACAGATTGACTTTTTAGTTATAT
1 ATTAAATTTTATTATTTATTATAATTAAATTTAATTAAATTTACAGATTGACTTTTTAGTTATAT
11925705 ATTAAAT
1 ATTAAAT
11925712 GCGATATTAA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (65 bp):
ATTAAATTTTATTATTTATTATAATTAAATTTAATTAAATTTACAGATTGACTTTTTAGTTATAT
Found at i:11939884 original size:13 final size:13
Alignment explanation
Indices: 11939863--11939901 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
11939853 TGTATAATAC
11939863 GAAATGGTTATAT
1 GAAATGGTTATAT
* *
11939876 GAGATGGTTATAC
1 GAAATGGTTATAT
*
11939889 GAAATTGTTATAT
1 GAAATGGTTATAT
11939902 AAAGTAAATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (13 bp):
GAAATGGTTATAT
Found at i:11946806 original size:31 final size:31
Alignment explanation
Indices: 11946771--11946847 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
11946761 ATTTTAAAAG
11946771 TATACATAAACTTTAGTCTAATATACAATTT
1 TATACATAAACTTTAGTCTAATATACAATTT
*
11946802 TATACATAAACTTTAGTCTAATATGCAATTT
1 TATACATAAACTTTAGTCTAATATACAATTT
* *
11946833 TATGCATGAACTTTA
1 TATACATAAACTTTA
11946848 ATTTTGTGCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (31 bp):
TATACATAAACTTTAGTCTAATATACAATTT
Found at i:11947117 original size:31 final size:29
Alignment explanation
Indices: 11947061--11947127 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
11947051 TAATCAAAAT
*
11947061 TTCATGTGTATAATTACATCAAATTATAG
1 TTCATGTGTATAATTACATCAAATTAAAG
* **
11947090 TTCATGTGTCTAATTGTACATTGAATTAAAG
1 TTCATGTGTATAA-T-TACATCAAATTAAAG
*
11947121 TTTATGT
1 TTCATGT
11947128 ATAATTTTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 12 0.39
30 1 0.03
31 18 0.58
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (29 bp):
TTCATGTGTATAATTACATCAAATTAAAG
Found at i:11947185 original size:20 final size:20
Alignment explanation
Indices: 11947156--11947196 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11947146 CCATAAAAAT
*
11947156 ATTAATACTTTGAAAATTTA
1 ATTAAAACTTTGAAAATTTA
**
11947176 ATTAAAACTTTTTAAATTTA
1 ATTAAAACTTTGAAAATTTA
11947196 A
1 A
11947197 AGACGAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (20 bp):
ATTAAAACTTTGAAAATTTA
Found at i:11948593 original size:20 final size:20
Alignment explanation
Indices: 11948556--11948593 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11948546 GAGAATATGA
*
11948556 GAAGAGAGAAAAATAAATGG
1 GAAGAGAGAAAAAAAAATGG
11948576 GAAGA-AGAAAAAGAAAAT
1 GAAGAGAGAAAAA-AAAAT
11948594 AAAGAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.08
Consensus pattern (20 bp):
GAAGAGAGAAAAAAAAATGG
Found at i:11948731 original size:25 final size:25
Alignment explanation
Indices: 11948703--11948752 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
11948693 AAAAGAAAAT
11948703 AGAAAAT-AAAGAAAAAAAAATTAAA
1 AGAAAATAAAAG-AAAAAAAATTAAA
*
11948728 AGAATATAAAAGAAAAAAAATTAAA
1 AGAAAATAAAAGAAAAAAAATTAAA
11948753 TGGCTCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (25 bp):
AGAAAATAAAAGAAAAAAAATTAAA
Found at i:11951192 original size:12 final size:12
Alignment explanation
Indices: 11951171--11951204 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11951161 TATATATTTT
*
11951171 AAAATTATATAA
1 AAAATAATATAA
11951183 AAAATAATATAA
1 AAAATAATATAA
*
11951195 AAATTAATAT
1 AAAATAATAT
11951205 GGGCGGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:11973268 original size:18 final size:17
Alignment explanation
Indices: 11973241--11973277 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
11973231 CATATTTATG
11973241 AAAAAATAAAATACCAA
1 AAAAAATAAAATACCAA
11973258 AAAATAATAAAATACCAA
1 AAAA-AATAAAATACCAA
11973276 AA
1 AA
11973278 TAGTATCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.76, C:0.11, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAAAATAAAATACCAA
Found at i:11973291 original size:50 final size:50
Alignment explanation
Indices: 11973208--11973316 Score: 175
Period size: 50 Copynumber: 2.2 Consensus size: 50
11973198 AATATATTAT
*
11973208 AAAAA-AATAAAATACCAAAATAGCATATTTATGAAAAAATAAAATACCA
1 AAAAATAATAAAATACCAAAATAGCATATCTATGAAAAAATAAAATACCA
* *
11973257 AAAAATAATAAAATACCAAAATAGTATCTCTATGAAAAAATAAAATACCA
1 AAAAATAATAAAATACCAAAATAGCATATCTATGAAAAAATAAAATACCA
11973307 AAATAATAAT
1 AAA-AATAAT
11973317 TCATTTTAGG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
49 5 0.09
50 44 0.80
51 6 0.11
ACGTcount: A:0.64, C:0.10, G:0.04, T:0.22
Consensus pattern (50 bp):
AAAAATAATAAAATACCAAAATAGCATATCTATGAAAAAATAAAATACCA
Found at i:11974651 original size:33 final size:33
Alignment explanation
Indices: 11974597--11974684 Score: 131
Period size: 33 Copynumber: 2.7 Consensus size: 33
11974587 CATTGGGCCG
* ** *
11974597 TATCGACCGCAGTACAACACTCCTCTAGGCTCA
1 TATCCACCGCAGTACTTCACTCCTCTAGGCCCA
*
11974630 TATCCATCGCAGTACTTCACTCCTCTAGGCCCA
1 TATCCACCGCAGTACTTCACTCCTCTAGGCCCA
11974663 TATCCACCGCAGTACTTCACTC
1 TATCCACCGCAGTACTTCACTC
11974685 TTCCTAGGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.24, C:0.39, G:0.12, T:0.25
Consensus pattern (33 bp):
TATCCACCGCAGTACTTCACTCCTCTAGGCCCA
Found at i:11978108 original size:76 final size:75
Alignment explanation
Indices: 11978014--11978188 Score: 246
Period size: 76 Copynumber: 2.3 Consensus size: 75
11978004 AATATAAATC
* *
11978014 AACAATAATAATACCTAACAATAAT-T-AGGATTTTTTTACTAATAATAATAACCAACAATAATA
1 AACAATAATAATAACTAACAATAATATAAGGA-TTTTTTACTAACAATAATAACCAACAATAAT-
*
11978077 ATAGTTTTTTACT
64 A-AGGTTTTTACT
* **
11978090 AGCAATAATAATAACTAACAATAATAATAAGGATTTTTTACTAACAATAATAATTAACAATAATA
1 AACAATAATAATAACTAACAATAAT-ATAAGGATTTTTTACTAACAATAATAACCAACAATAATA
11978155 AGGTTTTTACT
65 AGGTTTTTACT
11978166 AACAATAATAATAACTAACAATA
1 AACAATAATAATAACTAACAATA
11978189 TTAACTAGCA
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
76 55 0.62
77 1 0.01
78 29 0.33
79 4 0.04
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.34
Consensus pattern (75 bp):
AACAATAATAATAACTAACAATAATATAAGGATTTTTTACTAACAATAATAACCAACAATAATAA
GGTTTTTACT
Found at i:11978110 original size:39 final size:39
Alignment explanation
Indices: 11978014--11978188 Score: 195
Period size: 39 Copynumber: 4.6 Consensus size: 39
11978004 AATATAAATC
* ** *
11978014 AACAATAATAATACCTAACAATAATTAGGATTTTTTTACT
1 AACAATAATAATAACTAACAATAA-TAATAGTTTTTTACT
*
11978054 ---AATAATAATAACCAACAATAATAATAGTTTTTTACT
1 AACAATAATAATAACTAACAATAATAATAGTTTTTTACT
*
11978090 AGCAATAATAATAACTAACAATAATAATAAGGATTTTTTACT
1 AACAATAATAATAACTAACAATAATAAT-A-G-TTTTTTACT
*
11978132 AACAATAATAAT---TAACAATAAT-A-AGGTTTTTACT
1 AACAATAATAATAACTAACAATAATAATAGTTTTTTACT
11978166 AACAATAATAATAACTAACAATA
1 AACAATAATAATAACTAACAATA
11978189 TTAACTAGCA
Statistics
Matches: 118, Mismatches: 8, Indels: 21
0.80 0.05 0.14
Matches are distributed among these distances:
34 20 0.17
35 1 0.01
36 13 0.11
37 27 0.23
38 1 0.01
39 34 0.29
40 1 0.01
41 1 0.01
42 20 0.17
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.34
Consensus pattern (39 bp):
AACAATAATAATAACTAACAATAATAATAGTTTTTTACT
Found at i:11978111 original size:16 final size:16
Alignment explanation
Indices: 11978087--11978119 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11978077 ATAGTTTTTT
*
11978087 ACTAGCAATAATAATA
1 ACTAACAATAATAATA
11978103 ACTAACAATAATAATA
1 ACTAACAATAATAATA
11978119 A
1 A
11978120 GGATTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.12, G:0.03, T:0.24
Consensus pattern (16 bp):
ACTAACAATAATAATA
Found at i:11978114 original size:13 final size:13
Alignment explanation
Indices: 11978096--11978155 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 13
11978086 TACTAGCAAT
11978096 AATAATAACTAAC
1 AATAATAACTAAC
*
11978109 AATAATAA-TAAGG
1 AATAATAACTAA-C
* ** *
11978122 ATTTTTTACTAAC
1 AATAATAACTAAC
*
11978135 AATAATAATTAAC
1 AATAATAACTAAC
11978148 AATAATAA
1 AATAATAA
11978156 GGTTTTTACT
Statistics
Matches: 34, Mismatches: 11, Indels: 4
0.69 0.22 0.08
Matches are distributed among these distances:
12 3 0.09
13 28 0.82
14 3 0.09
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (13 bp):
AATAATAACTAAC
Found at i:11978116 original size:42 final size:40
Alignment explanation
Indices: 11978053--11978188 Score: 149
Period size: 42 Copynumber: 3.4 Consensus size: 40
11978043 ATTTTTTTAC
* *
11978053 TAATAATAATAACCAACAATAATAATAGTTTTTTACTAGCAA
1 TAATAATAATAA-CAATAATAATAA-AGTTTTTTACTAACAA
*
11978095 TAATAATAACTAACAATAATAATAAGGATTTTTTACTAACAA
1 TAATAATAA-TAACAATAATAATAAAG-TTTTTTACTAACAA
*
11978137 TAATAAT--TAAC---AATAAT-AAGGTTTTTACTAACAA
1 TAATAATAATAACAATAATAATAAAGTTTTTTACTAACAA
11978171 TAATAATAACTAACAATA
1 TAATAATAA-TAACAATA
11978189 TTAACTAGCA
Statistics
Matches: 81, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
34 20 0.25
35 2 0.02
36 6 0.07
37 4 0.05
39 4 0.05
40 1 0.01
41 1 0.01
42 40 0.49
43 3 0.04
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (40 bp):
TAATAATAATAACAATAATAATAAAGTTTTTTACTAACAA
Found at i:11978184 original size:16 final size:16
Alignment explanation
Indices: 11978163--11978292 Score: 66
Period size: 16 Copynumber: 7.6 Consensus size: 16
11978153 TAAGGTTTTT
11978163 ACTAACAATAATAATA
1 ACTAACAATAATAATA
*
11978179 ACTAACAATATTAACTA
1 ACTAACAATAATAA-TA
* * *
11978196 GC-AACAAAAAACAATAAA
1 ACTAAC-AATAATAAT--A
* *
11978214 AATCAACAATAATAACA
1 ACT-AACAATAATAATA
* *
11978231 AC-AAAAACAATAATA
1 ACTAACAATAATAATA
* *
11978246 ATTAACAATAATAAGGTTTTT
1 ACTAACAATAATAA-----TA
11978267 ACTAACAATAATAATA
1 ACTAACAATAATAATA
11978283 ACTAACAATA
1 ACTAACAATA
11978293 TTAACTAGCA
Statistics
Matches: 82, Mismatches: 20, Indels: 24
0.65 0.16 0.19
Matches are distributed among these distances:
15 11 0.13
16 37 0.45
17 10 0.12
18 1 0.01
19 6 0.07
20 3 0.04
21 14 0.17
ACGTcount: A:0.61, C:0.14, G:0.02, T:0.23
Consensus pattern (16 bp):
ACTAACAATAATAATA
Found at i:11978236 original size:22 final size:21
Alignment explanation
Indices: 11978197--11978253 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
11978187 TATTAACTAG
*
11978197 CAACAA-AA-AACAATAAAAA
1 CAACAATAATAACAACAAAAA
11978216 TCAACAATAATAACAACAAAAA
1 -CAACAATAATAACAACAAAAA
*
11978238 CAATAATAATTAACAA
1 CAACAATAA-TAACAA
11978254 TAATAAGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 6 0.19
21 10 0.31
22 16 0.50
ACGTcount: A:0.70, C:0.16, G:0.00, T:0.14
Consensus pattern (21 bp):
CAACAATAATAACAACAAAAA
Found at i:11978240 original size:31 final size:32
Alignment explanation
Indices: 11978197--11978349 Score: 112
Period size: 31 Copynumber: 4.5 Consensus size: 32
11978187 TATTAACTAG
11978197 CAACAAAAAACAATAAAAATCAACAATAATAA
1 CAACAAAAAACAATAAAAATCAACAATAATAA
* *
11978229 CAAC-AAAAACAATAATAATTAACAATAATAA
1 CAACAAAAAACAATAAAAATCAACAATAATAA
** * * * * *
11978260 GGTTTTTACTAACAATAATAATAACTAA-CAATATTAACTAG
1 -----CAAC-AA-AA-AACAATAA-AAATCAACAATAA-TAA
11978301 CAACAAAAAACAATAAAAATCAACAATAATAA
1 CAACAAAAAACAATAAAAATCAACAATAATAA
11978333 CAACAAAAACACAATAA
1 CAACAAAAA-ACAATAA
11978350 CAATATAAAA
Statistics
Matches: 92, Mismatches: 16, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
31 25 0.27
32 17 0.18
33 21 0.23
34 2 0.02
35 2 0.02
36 4 0.04
38 1 0.01
39 2 0.02
40 13 0.14
41 5 0.05
ACGTcount: A:0.64, C:0.15, G:0.02, T:0.19
Consensus pattern (32 bp):
CAACAAAAAACAATAAAAATCAACAATAATAA
Found at i:11978256 original size:104 final size:104
Alignment explanation
Indices: 11978132--11978343 Score: 424
Period size: 104 Copynumber: 2.0 Consensus size: 104
11978122 ATTTTTTACT
11978132 AACAATAATAATTAACAATAATAAGGTTTTTACTAACAATAATAATAACTAACAATATTAACTAG
1 AACAATAATAATTAACAATAATAAGGTTTTTACTAACAATAATAATAACTAACAATATTAACTAG
11978197 CAACAAAAAACAATAAAAATCAACAATAATAACAACAAA
66 CAACAAAAAACAATAAAAATCAACAATAATAACAACAAA
11978236 AACAATAATAATTAACAATAATAAGGTTTTTACTAACAATAATAATAACTAACAATATTAACTAG
1 AACAATAATAATTAACAATAATAAGGTTTTTACTAACAATAATAATAACTAACAATATTAACTAG
11978301 CAACAAAAAACAATAAAAATCAACAATAATAACAACAAA
66 CAACAAAAAACAATAAAAATCAACAATAATAACAACAAA
11978340 AACA
1 AACA
11978344 CAATAACAAT
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 108 1.00
ACGTcount: A:0.61, C:0.14, G:0.03, T:0.23
Consensus pattern (104 bp):
AACAATAATAATTAACAATAATAAGGTTTTTACTAACAATAATAATAACTAACAATATTAACTAG
CAACAAAAAACAATAAAAATCAACAATAATAACAACAAA
Found at i:11978499 original size:23 final size:24
Alignment explanation
Indices: 11978473--11978529 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
11978463 GTGCCGCGCC
*
11978473 CTCTCCTTCTCTTTCT-TCTTTTT
1 CTCTTCTTCTCTTTCTATCTTTTT
* *
11978496 CTCTTCTCCT-TTTCTATTTTTTT
1 CTCTTCTTCTCTTTCTATCTTTTT
11978519 CTCTTCTTCTC
1 CTCTTCTTCTC
11978530 CTTACTGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (24 bp):
CTCTTCTTCTCTTTCTATCTTTTT
Found at i:11978506 original size:26 final size:26
Alignment explanation
Indices: 11978474--11978532 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
11978464 TGCCGCGCCC
*
11978474 TCTCCTTCTCT-TTCTTCTTTTTC-TCT
1 TCTCCTTCTCTATT-TT-TTTCTCTTCT
*
11978500 TCTCCTTTTCTATTTTTTTCTCTTCT
1 TCTCCTTCTCTATTTTTTTCTCTTCT
11978526 TCTCCTT
1 TCTCCTT
11978533 ACTGCTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 5 0.17
26 22 0.76
27 2 0.07
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (26 bp):
TCTCCTTCTCTATTTTTTTCTCTTCT
Found at i:11994842 original size:28 final size:30
Alignment explanation
Indices: 11994788--11994847 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
11994778 TTATATGATT
11994788 TAATTGATATATATATATATATGGATTGCA
1 TAATTGATATATATATATATATGGATTGCA
* * *
11994818 TAATTGCTATGTATA-AT-TATTGATTGCA
1 TAATTGATATATATATATATATGGATTGCA
11994846 TA
1 TA
11994848 TCCGACGACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 2 0.07
30 13 0.48
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (30 bp):
TAATTGATATATATATATATATGGATTGCA
Found at i:11994991 original size:25 final size:25
Alignment explanation
Indices: 11994925--11995031 Score: 76
Period size: 25 Copynumber: 4.4 Consensus size: 25
11994915 TTTATTAAGG
* *
11994925 TTACTGAT-TTCAGCTCTTATGAGC
1 TTACCGATATTCAGCTCGTATGAGC
**
11994949 TTACCGATACACAGCTCGTATGAGC
1 TTACCGATATTCAGCTCGTATGAGC
* * * * *
11994974 TTACCGCTATTCAACTCGAAAGAGT
1 TTACCGATATTCAGCTCGTATGAGC
* * *
11994999 TTATCG-T-TTATAGCTCGTATGAGT
1 TTACCGATATT-CAGCTCGTATGAGC
11995023 TTACCGATA
1 TTACCGATA
11995032 CGGATTACAG
Statistics
Matches: 62, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
23 2 0.03
24 23 0.37
25 37 0.60
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (25 bp):
TTACCGATATTCAGCTCGTATGAGC
Found at i:11995194 original size:26 final size:26
Alignment explanation
Indices: 11995147--11995198 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
11995137 CACAGGTATT
*
11995147 TACATGAGATATATAAAAATGATTTG
1 TACATGAGATATAGAAAAATGATTTG
* * *
11995173 TACATGATATATAGATATATGATTTG
1 TACATGAGATATAGAAAAATGATTTG
11995199 GGAAATTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38
Consensus pattern (26 bp):
TACATGAGATATAGAAAAATGATTTG
Found at i:11999885 original size:17 final size:17
Alignment explanation
Indices: 11999863--11999895 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11999853 CAATCTTAAA
11999863 TGTTAT-TAAAACAAATT
1 TGTTATATAAAA-AAATT
11999880 TGTTATATAAAAAAAT
1 TGTTATATAAAAAAAT
11999896 CACTAGCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (17 bp):
TGTTATATAAAAAAATT
Found at i:12000460 original size:30 final size:30
Alignment explanation
Indices: 12000426--12000487 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
12000416 ACTTATTTTC
12000426 TTGTT-AATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAAATTTT-TTATTATTTTAAAGGCAT
*
12000456 TTGTTAAATTTTTTATTATTTTAGAGGCAT
1 TTGTTAAATTTTTTATTATTTTAAAGGCAT
12000486 TT
1 TT
12000488 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (30 bp):
TTGTTAAATTTTTTATTATTTTAAAGGCAT
Found at i:12000607 original size:18 final size:18
Alignment explanation
Indices: 12000572--12000611 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
12000562 AAAATATTTA
*
12000572 TTTTGATGTTTTTAATAT
1 TTTTGATGTTTATAATAT
12000590 TTTTGATGTATTATATATAT
1 TTTTGATGT-TTATA-ATAT
12000610 TT
1 TT
12000612 AAAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTTGATGTTTATAATAT
Found at i:12008463 original size:24 final size:24
Alignment explanation
Indices: 12008381--12008470 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 24
12008371 AAGAAATTTC
* **
12008381 AGCACTATGTGTGCGAGGTTATGC
1 AGCACTATGTGTGCGAGATTATAT
* * * * * *
12008405 GGTACTATGTGTGCAAAAACTACAT
1 AGCACTATGTGTGC-GAGATTATAT
*
12008430 GGCACTATGTGTGCGAGATTATAT
1 AGCACTATGTGTGCGAGATTATAT
12008454 AGCACTATGTGTGCGAG
1 AGCACTATGTGTGCGAG
12008471 GAAACACGAC
Statistics
Matches: 50, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
24 34 0.68
25 16 0.32
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTATAT
Found at i:12012140 original size:5 final size:5
Alignment explanation
Indices: 12012130--12012159 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
12012120 ATATATTTGA
12012130 AATTT AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT
12012160 TTATATAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:12016432 original size:23 final size:23
Alignment explanation
Indices: 12016402--12016447 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
12016392 AACAACTATG
12016402 AATTGGCATAAAGATTTGATTTT
1 AATTGGCATAAAGATTTGATTTT
*
12016425 AATTGGCATAAGGATTTGATTTT
1 AATTGGCATAAAGATTTGATTTT
12016448 TAACATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.43
Consensus pattern (23 bp):
AATTGGCATAAAGATTTGATTTT
Found at i:12017694 original size:22 final size:21
Alignment explanation
Indices: 12017643--12017694 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
12017633 CATGGGGTTC
*
12017643 GATAATATTTGATTTTAACTTT
1 GATAA-ATTTGATTTTAAATTT
* *
12017665 -CTACATTTGATATTTAAATTT
1 GATAAATTTGAT-TTTAAATTT
12017686 GATAAATTT
1 GATAAATTT
12017695 TTTGAATTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
20 7 0.30
21 10 0.43
22 6 0.26
ACGTcount: A:0.35, C:0.06, G:0.08, T:0.52
Consensus pattern (21 bp):
GATAAATTTGATTTTAAATTT
Found at i:12022343 original size:14 final size:15
Alignment explanation
Indices: 12022324--12022352 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12022314 TTGAATCAAA
12022324 ATTTTTA-GATTTTT
1 ATTTTTATGATTTTT
12022338 ATTTTTATGATTTTT
1 ATTTTTATGATTTTT
12022353 CAATAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (15 bp):
ATTTTTATGATTTTT
Found at i:12032549 original size:21 final size:21
Alignment explanation
Indices: 12032525--12032564 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12032515 GAAAGTGAAT
* *
12032525 AATAATATATTAAATATAATA
1 AATAAAATAGTAAATATAATA
12032546 AATAAAATAGTAAATATAA
1 AATAAAATAGTAAATATAA
12032565 CAATGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (21 bp):
AATAAAATAGTAAATATAATA
Found at i:12032648 original size:3 final size:3
Alignment explanation
Indices: 12032640--12032740 Score: 66
Period size: 3 Copynumber: 33.3 Consensus size: 3
12032630 AATATTTGTA
* * *
12032640 AAT AAT AAT AGT AA- ATAT AAT AAT AAT AAC AAT AAT ATT AAGT -AT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
* * * *
12032685 AGT -AT AAT ATAT ACAT AAC AAA AAT AAT AAT AAAT AAC AAT AAT -AT
1 AAT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
12032731 AAT AAT AAT A
1 AAT AAT AAT A
12032741 TGGCAAAATT
Statistics
Matches: 76, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
2 5 0.07
3 60 0.79
4 11 0.14
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12032734 original size:21 final size:20
Alignment explanation
Indices: 12032687--12032738 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 20
12032677 TTAAGTATAG
*
12032687 TATAATATATACATAACAAAA
1 TATAATA-ATAAATAACAAAA
12032708 -ATAATAATAAATAACAATAA
1 TATAATAATAAATAACAA-AA
12032728 TATAATAATAA
1 TATAATAATAA
12032739 TATGGCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 10 0.36
20 8 0.29
21 10 0.36
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (20 bp):
TATAATAATAAATAACAAAA
Found at i:12035324 original size:46 final size:46
Alignment explanation
Indices: 12035272--12035366 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
12035262 TAAACAAGAG
*
12035272 CATGTTATAATACATTCACAGCCATATTCTAATAAAGTCACAATAA
1 CATGTTATAATACATTCACAGCCATATTCTAACAAAGTCACAATAA
* *
12035318 CATGTTATAATACATTCATAGCCATATTCTGACAAAGTCACAATAA
1 CATGTTATAATACATTCACAGCCATATTCTAACAAAGTCACAATAA
12035364 CAT
1 CAT
12035367 ATTCACTCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (46 bp):
CATGTTATAATACATTCACAGCCATATTCTAACAAAGTCACAATAA
Found at i:12038811 original size:15 final size:15
Alignment explanation
Indices: 12038791--12038820 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12038781 AAACCAAAAT
*
12038791 AATATTAATGGTCCA
1 AATATTAAGGGTCCA
12038806 AATATTAAGGGTCCA
1 AATATTAAGGGTCCA
12038821 TTTACAACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (15 bp):
AATATTAAGGGTCCA
Found at i:12043606 original size:24 final size:22
Alignment explanation
Indices: 12043579--12043622 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
12043569 TTATTCTTAT
*
12043579 TTATTTATTTATATGATTAAAAGA
1 TTATTTAATTATA--ATTAAAAGA
12043603 TTATTTAATTATAATTAAAA
1 TTATTTAATTATAATTAAAA
12043623 AAGTAATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
24 12 0.63
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (22 bp):
TTATTTAATTATAATTAAAAGA
Found at i:12048527 original size:22 final size:23
Alignment explanation
Indices: 12048486--12048528 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
12048476 TTACTTTCCT
*
12048486 TCTAAACTTTTATTTCTTCAAGC
1 TCTAAACTTTTATTTATTCAAGC
*
12048509 TCTAAA-TTTTTTTTATTCAA
1 TCTAAACTTTTATTTATTCAA
12048529 TTCAATCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.28, C:0.16, G:0.02, T:0.53
Consensus pattern (23 bp):
TCTAAACTTTTATTTATTCAAGC
Found at i:12053269 original size:14 final size:14
Alignment explanation
Indices: 12053250--12053276 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12053240 ATTTTTTTAT
12053250 TTTTTATTTCTTTC
1 TTTTTATTTCTTTC
12053264 TTTTTATTTCTTT
1 TTTTTATTTCTTT
12053277 TCATGTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTATTTCTTTC
Found at i:12055404 original size:13 final size:12
Alignment explanation
Indices: 12055353--12055404 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
12055343 GATAAATAAA
12055353 ATAAAAATATAT
1 ATAAAAATATAT
*
12055365 ATAATAAA-ATGT
1 ATAA-AAATATAT
*
12055377 ATAAATATAATAT
1 ATAAAAAT-ATAT
12055390 ATAAAAATATCAT
1 ATAAAAATAT-AT
12055403 AT
1 AT
12055405 GGAGTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
11 2 0.06
12 13 0.41
13 17 0.53
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (12 bp):
ATAAAAATATAT
Found at i:12055415 original size:17 final size:17
Alignment explanation
Indices: 12055393--12055432 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
12055383 ATAATATATA
* *
12055393 AAAATATCATATGGAGT
1 AAAATATAATATGGAAT
*
12055410 AAAATATAATATGTAAT
1 AAAATATAATATGGAAT
12055427 AAAATA
1 AAAATA
12055433 ATATGAAAAC
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:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (17 bp):
AAAATATAATATGGAAT
Found at i:12055435 original size:15 final size:16
Alignment explanation
Indices: 12055368--12055437 Score: 65
Period size: 15 Copynumber: 4.5 Consensus size: 16
12055358 AATATATATA
*
12055368 ATAAAATGT-ATAAAT
1 ATAATATGTAATAAAT
*
12055383 ATAATATATAA-AAAT
1 ATAATATGTAATAAAT
* * *
12055398 ATCATATGGAGTAAAAT
1 ATAATATGTAAT-AAAT
12055415 ATAATATGTAATAAA-
1 ATAATATGTAATAAAT
12055430 ATAATATG
1 ATAATATG
12055438 AAAACAAATA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
15 26 0.60
16 4 0.09
17 13 0.30
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.33
Consensus pattern (16 bp):
ATAATATGTAATAAAT
Found at i:12055446 original size:15 final size:15
Alignment explanation
Indices: 12055367--12055456 Score: 56
Period size: 15 Copynumber: 5.9 Consensus size: 15
12055357 AAATATATAT
* *
12055367 AATAAAATGTATAAA
1 AATAATATGTAAAAA
* *
12055382 TATAATATATAAAAA
1 AATAATATGTAAAAA
* * *
12055397 TATCATATGGAGTAAAA
1 AATAATATGTA--AAAA
* *
12055414 TATAATATGTAATAA
1 AATAATATGTAAAAA
12055429 AATAATATG-AAAACA
1 AATAATATGTAAAA-A
*
12055444 AATAATATATAAA
1 AATAATATGTAAA
12055457 TATAGTGAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
14 3 0.05
15 39 0.67
16 3 0.05
17 13 0.22
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (15 bp):
AATAATATGTAAAAA
Found at i:12057674 original size:60 final size:60
Alignment explanation
Indices: 12057600--12057721 Score: 163
Period size: 60 Copynumber: 2.0 Consensus size: 60
12057590 TCATACGATA
* ** * *
12057600 TGGGTTCGGCTATATGATAATTTGAACCTACATCGTACGATCTCATAGAATTATGCAATG
1 TGGGTTCGCCTATATGATAATGCGAACCTACATCATACGATCTCATAGAATTATACAATG
** * *
12057660 TGGGTTCGCCTATATGATGGTGCGAACTTACATCATACGGTCTCATAGAATTATACAATG
1 TGGGTTCGCCTATATGATAATGCGAACCTACATCATACGATCTCATAGAATTATACAATG
12057720 TG
1 TG
12057722 AGTTTCCTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (60 bp):
TGGGTTCGCCTATATGATAATGCGAACCTACATCATACGATCTCATAGAATTATACAATG
Found at i:12057762 original size:59 final size:60
Alignment explanation
Indices: 12057623--12057768 Score: 161
Period size: 60 Copynumber: 2.5 Consensus size: 60
12057613 ATGATAATTT
* * * * *
12057623 GAACCTACATCGTAC-GATCTCATAGAATTATGCAATGTGGGTTCGCCTATATGATGGTGC
1 GAACCTACATCATACAG-TCTCATAGAATTATACAATGTGAGTTCGCCTATATAACGGTGC
* * *
12057683 GAACTTACATCATACGGTCTCATAGAATTATACAATGTGAGTT-TCCTATATAACGGTGC
1 GAACCTACATCATACAGTCTCATAGAATTATACAATGTGAGTTCGCCTATATAACGGTGC
* ** *
12057742 GAACCTATATTGTGCAGTCTCATAGAA
1 GAACCTACATCATACAGTCTCATAGAA
12057769 GGGTAAGCGA
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
59 34 0.47
60 37 0.51
61 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (60 bp):
GAACCTACATCATACAGTCTCATAGAATTATACAATGTGAGTTCGCCTATATAACGGTGC
Found at i:12063101 original size:10 final size:9
Alignment explanation
Indices: 12063082--12063133 Score: 56
Period size: 10 Copynumber: 5.8 Consensus size: 9
12063072 TTTTCTCATG
12063082 AAAATGATTA
1 AAAAT-ATTA
12063092 AAAATAATTA
1 AAAAT-ATTA
12063102 AAAATA-TA
1 AAAATATTA
12063110 AAAATTATT-
1 AAAA-TATTA
12063119 -AAATATTA
1 AAAATATTA
12063127 AAAATAT
1 AAAATAT
12063134 ATATTAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
7 4 0.11
8 9 0.24
9 9 0.24
10 15 0.41
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAATATTA
Found at i:12063113 original size:18 final size:17
Alignment explanation
Indices: 12063088--12063132 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
12063078 CATGAAAATG
12063088 ATTAAAAATAATTAAAA
1 ATTAAAAATAATTAAAA
* *
12063105 ATATAAAAATTATTAAAT
1 AT-TAAAAATAATTAAAA
12063123 ATTAAAAATA
1 ATTAAAAATA
12063133 TATATTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATTAAAAATAATTAAAA
Found at i:12063168 original size:9 final size:9
Alignment explanation
Indices: 12063090--12063294 Score: 57
Period size: 9 Copynumber: 22.0 Consensus size: 9
12063080 TGAAAATGAT
*
12063090 TAAAAATAA
1 TAAAAATTA
12063099 TTAAAAA-TA
1 -TAAAAATTA
12063108 TAAAAATTA
1 TAAAAATTA
*
12063117 TTAAATATTA
1 -TAAAAATTA
12063127 -AAAATATATA
1 TAAAA-AT-TA
*
12063137 TTAAAATTGA
1 TAAAAATT-A
* *
12063147 TGTAAATTTA
1 T-AAAAATTA
12063157 TAAAAATTA
1 TAAAAATTA
*
12063166 TAAAAA-AA
1 TAAAAATTA
* *
12063174 TAATAA-CA
1 TAAAAATTA
*
12063182 TAAATATTA
1 TAAAAATTA
*
12063191 TAGAAATCTA
1 TAAAAAT-TA
* *
12063201 -ATAAATTG
1 TAAAAATTA
12063209 TAATAAATTA
1 TAA-AAATTA
****
12063219 TATTTTTTA
1 TAAAAATTA
12063228 T-AAAATTAA
1 TAAAAATT-A
12063237 TAAACATATT-
1 TAAA-A-ATTA
*
12063247 TAAAATTTTA
1 TAAAA-ATTA
*
12063257 TAAAACTTA
1 TAAAAATTA
12063266 TAAAAA-TA
1 TAAAAATTA
12063274 GTAAAATATTA
1 -TAAAA-ATTA
12063285 TAAAATATTA
1 TAAAA-ATTA
12063295 AAAGTGATAT
Statistics
Matches: 146, Mismatches: 30, Indels: 38
0.68 0.14 0.18
Matches are distributed among these distances:
8 25 0.17
9 53 0.36
10 53 0.36
11 12 0.08
12 3 0.02
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (9 bp):
TAAAAATTA
Found at i:12063174 original size:31 final size:29
Alignment explanation
Indices: 12063109--12063174 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
12063099 TTAAAAATAT
*
12063109 AAAAATTATTAAATATTAAAAATATATAT
1 AAAAATTATTAAATATTAAAAATATATAA
* *
12063138 TAAAATTGATGTAAATTTATAAAAAT-TATAA
1 AAAAATT-AT-TAAATAT-TAAAAATATATAA
12063169 AAAAAT
1 AAAAAT
12063175 AATAACATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
29 6 0.20
30 2 0.07
31 15 0.50
32 7 0.23
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAAATTATTAAATATTAAAAATATATAA
Found at i:12063256 original size:29 final size:27
Alignment explanation
Indices: 12063223--12063290 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 27
12063213 AAATTATATT
* *
12063223 TTTTATAAAATTAATAAACATATTTAAAA
1 TTTTATAAAATT-ATAAAAATA-GTAAAA
12063252 TTTTATAAAACTTATAAAAATAGTAAAA
1 TTTTATAAAA-TTATAAAAATAGTAAAA
*
12063280 TATTATAAAAT
1 TTTTATAAAAT
12063291 ATTAAAAGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 1 0.03
28 14 0.40
29 18 0.51
30 2 0.06
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (27 bp):
TTTTATAAAATTATAAAAATAGTAAAA
Found at i:12063884 original size:9 final size:9
Alignment explanation
Indices: 12063866--12064256 Score: 112
Period size: 9 Copynumber: 41.6 Consensus size: 9
12063856 TAAATGATTT
12063866 TTTTTAATAA
1 TTTTT-ATAA
12063876 TTTTTATAA
1 TTTTTATAA
12063885 TTTATTAT-A
1 TTT-TTATAA
*
12063894 TTATTCATAA
1 TT-TTTATAA
12063904 GTTTTTATACAAA
1 -TTTTTAT---AA
*
12063917 TTTTAAATATAT
1 TTTT---TATAA
*
12063929 TTTTTATTA
1 TTTTTATAA
* *
12063938 GTTTTATATT
1 TTTTTATA-A
*
12063948 TTTTTAGAA
1 TTTTTATAA
*
12063957 TTTTTATAT
1 TTTTTATAA
*
12063966 TTTTTATGA
1 TTTTTATAA
* *
12063975 TATTTATTAG
1 TTTTTA-TAA
*
12063985 TTTTTATGAT
1 TTTTTAT-AA
12063995 TTTTTATAA
1 TTTTTATAA
*
12064004 -TTTTAAAA
1 TTTTTATAA
* *
12064012 GTTTATGTCAA
1 -TTTTTAT-AA
12064023 -TTTTACT--
1 TTTTTA-TAA
*
12064030 TTTTTTTAA
1 TTTTTATAA
*
12064039 TATTTATAA
1 TTTTTATAA
*
12064048 TTTTT-TACG
1 TTTTTATA-A
12064057 TTTTTAT-A
1 TTTTTATAA
*
12064065 GTTTTA-AA
1 TTTTTATAA
*
12064073 TTTTTTTATGA
1 --TTTTTATAA
*
12064084 TTTATTACAA
1 TTT-TTATAA
12064094 TTTTTATACA
1 TTTTTATA-A
12064104 TTTTTATATAAA
1 -TTTT-TAT-AA
* *
12064116 ATTTTAAATA
1 TTTTTATA-A
*
12064126 TTTTTAT-T
1 TTTTTATAA
12064134 TATTTTATAA
1 T-TTTTATAA
12064144 TTTATTATAACA
1 TTT-TTAT-A-A
12064156 TTTTTATATA
1 TTTTTATA-A
12064166 TTTTT-TAA
1 TTTTTATAA
12064174 TTTTTATAA
1 TTTTTATAA
*
12064183 GTTTATATAA
1 -TTTTTATAA
*
12064193 -ATTT-TAA
1 TTTTTATAA
12064200 TATTTT-TAA
1 T-TTTTATAA
*
12064209 TCTTTAATAA
1 T-TTTTATAA
12064219 --TTTATAA
1 TTTTTATAA
*
12064226 TTTATAT-A
1 TTTTTATAA
* *
12064234 TTTTTCTGA
1 TTTTTATAA
12064243 TTTTTATAA
1 TTTTTATAA
12064252 TTTTT
1 TTTTT
12064257 TTCTTTTTTT
Statistics
Matches: 278, Mismatches: 58, Indels: 91
0.65 0.14 0.21
Matches are distributed among these distances:
7 10 0.04
8 34 0.12
9 110 0.40
10 84 0.30
11 17 0.06
12 17 0.06
13 3 0.01
15 3 0.01
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Done.