Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 54 of 198
Found at i:16261954 original size:261 final size:261
Alignment explanation
Indices: 16261390--16261936 Score: 607
Period size: 261 Copynumber: 2.1 Consensus size: 261
16261380 AAGCTGGTTG
* * * * * * *
16261390 AAGATAGCAGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAATAAAGCCTTGCCTCCA
1 AAGAAAGCAGATCCTACCTCCCTGAGTTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* * * * *
16261455 TCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTACGTTAACAGTGAAGCCGAT
66 TCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTACCTTCCTACGTTAACAGCGAAGCAGAT
* * * * *
16261520 CAAAAACAAAGCCTTGCTTCCATCGGTTGCGGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTC
131 CAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTTAAAGATAGCAGATCTTGCCCTC
* * * ** ** * ** **
16261585 CTGCGTTAACAGCGAAATAGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTTGAGCTGGTT
196 CTGCGTCAACAGCGAAACAGATCAAAAACAAAGCCTTACCTCCATAAGCAGCAGTGGAGCAAGAC
16261650 A
261 A
* * * * * *
16261651 AAGATAGCAGATCTTGCCTTCCTGTGTTAACAACGAAGCAGATCGAAAGCAAAGCCTTGCCTCCA
1 AAGAAAGCAGATCCTACCTCCCTGAGTTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* *
16261716 TCGGTTGCAGTGGAGTTGGTTAAAGATAGCAGATCTTACCTTCCTGCGTTAACAGCGAAGCAGAT
66 TCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTACCTTCCTACGTTAACAGCGAAGCAGAT
*
16261781 CGAAAACAAAGCCTTGCCTCCATCGGTTG-AGTGGAGCTAGTTAAAGATAGCAGATCTTGCCCTC
131 CAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTTAAAGATAGCAGATCTTGCCCTC
* * * * * * *
16261845 CTGCGTCGACAGTGAAGCAGATCAAAGATTAC-AAGTCTTATCTCCCTAAGCAGTAGTGGAG-AA
196 CTGCGTCAACAGCGAAACAGATCAAA-A--ACAAAGCCTTACCTCCATAAGCAGCAGTGGAGCAA
16261908 GACA
258 GACA
* *
16261912 GAAGAAATCA-ATCCTATCTCCCTGA
1 -AAGAAAGCAGATCCTACCTCCCTGA
16261937 AGTTGCAGTG
Statistics
Matches: 240, Mismatches: 42, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
260 52 0.22
261 160 0.67
262 26 0.11
263 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (261 bp):
AAGAAAGCAGATCCTACCTCCCTGAGTTAACAACGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
TCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTACCTTCCTACGTTAACAGCGAAGCAGAT
CAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTTAAAGATAGCAGATCTTGCCCTC
CTGCGTCAACAGCGAAACAGATCAAAAACAAAGCCTTACCTCCATAAGCAGCAGTGGAGCAAGAC
A
Found at i:16261994 original size:43 final size:44
Alignment explanation
Indices: 16261855--16261998 Score: 129
Period size: 44 Copynumber: 3.3 Consensus size: 44
16261845 CTGCGTCGAC
* * *
16261855 AGTGAAGCAGATCA-AAG-ATTACAAGTCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAGAAGAAAT-CAA-TCTTATCTCCCTAAGTAGT
* * * *
16261899 AGTGGAGAAGA-CAGAAGAAATCAATCCTATCTCCCTGAAGTTGC
1 AGTGGAGCAGATCAGAAGAAATCAATCTTATCTCCCT-AAGTAGT
*
16261943 AGTGGAGCAGATTA-AA-ACAAT-AGATCTTATCTCCCTAAGTAGT
1 AGTGGAGCAGATCAGAAGA-AATCA-ATCTTATCTCCCTAAGTAGT
16261986 AGTGGAGCAGATC
1 AGTGGAGCAGATC
16261999 GCATCGGGTC
Statistics
Matches: 81, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
43 32 0.40
44 46 0.57
45 3 0.04
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.24
Consensus pattern (44 bp):
AGTGGAGCAGATCAGAAGAAATCAATCTTATCTCCCTAAGTAGT
Found at i:16263774 original size:104 final size:102
Alignment explanation
Indices: 16263636--16263834 Score: 301
Period size: 104 Copynumber: 1.9 Consensus size: 102
16263626 TACGAAGGGG
*
16263636 GTTGCTAAGTGCTGATTCCCTGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGA
1 GTTGCTAAGTGCTGATTCCCTGACTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTAT-CTT-A
* *
16263701 ATATAT-AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGA
64 A-ATATGAAAGGGGTTGCTAAGTGCTAATTCCCCCAAGGA
* **
16263740 GTTGCTAAGTGTTTTTTCCCTGACTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAA
1 GTTGCTAAGTGCTGATTCCCTGACTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAA
*
16263805 TGTGAAAGGGGTTGCTAAGTGCTAATTCCC
66 TATGAAAGGGGTTGCTAAGTGCTAATTCCC
16263835 TGAATTACTA
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
101 3 0.03
102 26 0.30
103 3 0.03
104 55 0.63
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (102 bp):
GTTGCTAAGTGCTGATTCCCTGACTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAA
TATGAAAGGGGTTGCTAAGTGCTAATTCCCCCAAGGA
Found at i:16263864 original size:75 final size:74
Alignment explanation
Indices: 16263770--16263936 Score: 264
Period size: 74 Copynumber: 2.2 Consensus size: 74
16263760 TGACTCATTG
16263770 GTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTAATTCCC
1 GTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG-AAGGGGTTGCTAAGTGCTAATTCCC
* *
16263835 TGAATTACTA
65 CGAATCACTA
*
16263845 GTGGTTGCTAAGT-CTTGATCCCACCGTATCTTAAATGTGAAGGGGTTGCTAAGTGCTGATTCCC
1 GTGGTTGCTAAGTGC-TGATCCCACCGTATCTTAAATGTGAAGGGGTTGCTAAGTGCTAATTCCC
*
16263909 CGAATCACTG
65 CGAATCACTA
*
16263919 GTCGTTGCTAAGTGCTGA
1 GTGGTTGCTAAGTGCTGA
16263937 ATCCACCAAT
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
74 47 0.55
75 38 0.45
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.32
Consensus pattern (74 bp):
GTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAGGGGTTGCTAAGTGCTAATTCCCC
GAATCACTA
Found at i:16263943 original size:74 final size:75
Alignment explanation
Indices: 16263735--16263936 Score: 282
Period size: 75 Copynumber: 2.7 Consensus size: 75
16263725 TGATTCCCCC
* * ** * *
16263735 AAGGAGTTGCTAAGTGTTTTTTCCCTGACTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTAATTCCCTGAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
16263800 TTAAATGTGA
66 TTAAATGTGA
* *
16263810 AAGGGGTTGCTAAGTGCTAATTCCCTGAATTACTAGTGGTTGCTAAGT-CTTGATCCCACCGTAT
1 AAGGGGTTGCTAAGTGCTAATTCCCTGAATCACTGGTGGTTGCTAAGTGC-TGATCCCACCGTAT
16263874 CTTAAATGTG-
65 CTTAAATGTGA
* * *
16263884 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTCGTTGCTAAGTGCTGA
1 AAGGGGTTGCTAAGTGCTAATTCCCTGAATCACTGGTGGTTGCTAAGTGCTGA
16263937 ATCCACCAAT
Statistics
Matches: 112, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
74 47 0.42
75 65 0.58
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTAATTCCCTGAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
TTAAATGTGA
Found at i:16270325 original size:74 final size:76
Alignment explanation
Indices: 16270117--16270322 Score: 319
Period size: 75 Copynumber: 2.8 Consensus size: 76
16270107 TGATTCCCCC
* *
16270117 AAGGGGTTGCTAAGTGTTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCT-AATCCCACCGTAT
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCCACCGTAT
16270181 CTTAAATGTGA
66 CTTAAATGTGA
* *
16270192 AAGGGGTTGCTAAGTGTTGATTCCCCGAATTACTAGTGGTTGCTAAGTGCTG-ATCCCACCGTAT
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCCACCGTAT
16270256 CTTAAATGTG-
66 CTTAAATGTGA
* * **
16270266 AAGGGGTTGCCAAGTGCTGATTCCCCGAATCACTGGTCATTGCTAAGTGCTGAATCC
1 AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCC
16270323 ACCAATAACG
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
74 46 0.39
75 73 0.61
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (76 bp):
AAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCCACCGTAT
CTTAAATGTGA
Found at i:16290636 original size:32 final size:32
Alignment explanation
Indices: 16290596--16290782 Score: 232
Period size: 32 Copynumber: 5.8 Consensus size: 32
16290586 ACATAAGTAC
* * *
16290596 AGTAATATGATTGGCACAAAGCCATCAGTAGT
1 AGTAATATGATCGACACAAAGCCATCAGTAAT
* * *
16290628 AATAATATGATCGGCACACAGCCATCAGTAAT
1 AGTAATATGATCGACACAAAGCCATCAGTAAT
* * *
16290660 AGTAGTATGATCGGCACAAAGCCATCAGTAGT
1 AGTAATATGATCGACACAAAGCCATCAGTAAT
16290692 AGTAATATGATCGACACACAA-CCATCAGTAAT
1 AGTAATATGATCGACACA-AAGCCATCAGTAAT
* * * *
16290724 GGTAATATGATCAACACACATCCATCAGTAAT
1 AGTAATATGATCGACACAAAGCCATCAGTAAT
*
16290756 GGTAATATGATCGACACAAAGCCATCA
1 AGTAATATGATCGACACAAAGCCATCA
16290783 ATAGCATCGC
Statistics
Matches: 136, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
31 1 0.01
32 133 0.98
33 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (32 bp):
AGTAATATGATCGACACAAAGCCATCAGTAAT
Found at i:16290702 original size:64 final size:64
Alignment explanation
Indices: 16290596--16290782 Score: 257
Period size: 64 Copynumber: 2.9 Consensus size: 64
16290586 ACATAAGTAC
* * *
16290596 AGTAATATGATTGGCACAAAGCCATCAGTAGTAATAATATGATCGGCACACAGCCATCAGTAAT
1 AGTAATATGATCGGCACAAAGCCATCAGTAGTAGTAATATGATCGACACACAGCCATCAGTAAT
* *
16290660 AGTAGTATGATCGGCACAAAGCCATCAGTAGTAGTAATATGATCGACACACAACCATCAGTAAT
1 AGTAATATGATCGGCACAAAGCCATCAGTAGTAGTAATATGATCGACACACAGCCATCAGTAAT
* ** * * * * *
16290724 GGTAATATGATCAACACACATCCATCAGTAATGGTAATATGATCGACACAAAGCCATCA
1 AGTAATATGATCGGCACAAAGCCATCAGTAGTAGTAATATGATCGACACACAGCCATCA
16290783 ATAGCATCGC
Statistics
Matches: 108, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 108 1.00
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (64 bp):
AGTAATATGATCGGCACAAAGCCATCAGTAGTAGTAATATGATCGACACACAGCCATCAGTAAT
Found at i:16290765 original size:96 final size:96
Alignment explanation
Indices: 16290596--16290782 Score: 259
Period size: 96 Copynumber: 1.9 Consensus size: 96
16290586 ACATAAGTAC
* * * **
16290596 AGTAATATGATTGGCACAAAGCCATCAGTAGTAATAATATGATCGGCACACAGCCATCAGTAATA
1 AGTAATATGATCGACACAAAGCCATCAGTAATAATAATATGATCAACACACAGCCATCAGTAATA
* *
16290661 GTAGTATGATCGGCACAAAGCCATCAGTAGT
66 GTAATATGATCGACACAAAGCCATCAGTAGT
** *
16290692 AGTAATATGATCGACACACAA-CCATCAGTAATGGTAATATGATCAACACACATCCATCAGTAAT
1 AGTAATATGATCGACACA-AAGCCATCAGTAATAATAATATGATCAACACACAGCCATCAGTAAT
*
16290756 GGTAATATGATCGACACAAAGCCATCA
65 AGTAATATGATCGACACAAAGCCATCA
16290783 ATAGCATCGC
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
96 77 0.97
97 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (96 bp):
AGTAATATGATCGACACAAAGCCATCAGTAATAATAATATGATCAACACACAGCCATCAGTAATA
GTAATATGATCGACACAAAGCCATCAGTAGT
Found at i:16290817 original size:26 final size:26
Alignment explanation
Indices: 16290788--16290841 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
16290778 CATCAATAGC
*
16290788 ATCGCAGCAAAGCTGCCAGCAACAGT
1 ATCGCAGCAAAGCTGCCAACAACAGT
*
16290814 ATCGCAGCAAAGCTGCCAATAACAGT
1 ATCGCAGCAAAGCTGCCAACAACAGT
16290840 AT
1 AT
16290842 ATGTAGCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.37, C:0.28, G:0.20, T:0.15
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAACAACAGT
Found at i:16291008 original size:24 final size:24
Alignment explanation
Indices: 16290979--16291040 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
16290969 AAATCATAGA
*
16290979 CAAATCAATCATTTACATC-CCGG
1 CAAATCAATCATTTACATCACAGG
* *
16291002 ACGAATCATTCATTTACATCACAGG
1 -CAAATCAATCATTTACATCACAGG
16291027 CAAATCAATCATTT
1 CAAATCAATCATTT
16291041 CACCCCGAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 29 0.91
25 3 0.09
ACGTcount: A:0.37, C:0.26, G:0.08, T:0.29
Consensus pattern (24 bp):
CAAATCAATCATTTACATCACAGG
Found at i:16291111 original size:27 final size:27
Alignment explanation
Indices: 16291059--16291240 Score: 121
Period size: 27 Copynumber: 6.8 Consensus size: 27
16291049 GGGGAAAAAT
* *
16291059 AGTCATTTTACCCTA-CAGAGGAATTAC
1 AGTCATTTTACCCTATC-GGGGCATTAC
16291086 AGTCATTTTACCCTATCGGGGCATTA-
1 AGTCATTTTACCCTATCGGGGCATTAC
* *
16291112 AGGTCATTTTACCCTA-CAAGGGCGTTAC
1 A-GTCATTTTACCCTATC-GGGGCATTAC
* * *
16291140 -GATCATTTAACCATATAGGGGCATTAC
1 AG-TCATTTTACCCTATCGGGGCATTAC
* *
16291167 AGTCATTTTACCCCTA--GAGGGTATTTC
1 AGTCATTTTA-CCCTATCG-GGGCATTAC
* *
16291194 AGTCATTTTACCCT-TCAGGGGTATTTC
1 AGTCATTTTACCCTATC-GGGGCATTAC
*
16291221 -GATAATTTTACCCT-TCGGGG
1 AG-TCATTTTACCCTATCGGGG
16291241 GTATTTCGAT
Statistics
Matches: 128, Mismatches: 14, Indels: 27
0.76 0.08 0.16
Matches are distributed among these distances:
26 13 0.10
27 108 0.84
28 7 0.05
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
AGTCATTTTACCCTATCGGGGCATTAC
Found at i:16291118 original size:54 final size:54
Alignment explanation
Indices: 16291059--16291207 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 54
16291049 GGGGAAAAAT
*
16291059 AGTCATTTTACCCTACAGAGGAATTACAGTCATTTTACCCTATCGGGGCATTA-
1 AGTCATTTTACCCTACAGAGGAATTACAGTCATTTTACCCTATAGGGGCATTAC
** * *
16291112 AGGTCATTTTACCCTACA-AGGGCGTTAC-GATCATTTAACCATATAGGGGCATTAC
1 A-GTCATTTTACCCTACAGA-GGAATTACAG-TCATTTTACCCTATAGGGGCATTAC
* * *
16291167 AGTCATTTTACCCCTAGAG-GGTATTTCAGTCATTTTACCCT
1 AGTCATTTTA-CCCTACAGAGGAATTACAGTCATTTTACCCT
16291208 TCAGGGGTAT
Statistics
Matches: 78, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
53 3 0.04
54 67 0.86
55 8 0.10
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (54 bp):
AGTCATTTTACCCTACAGAGGAATTACAGTCATTTTACCCTATAGGGGCATTAC
Found at i:16291214 original size:54 final size:55
Alignment explanation
Indices: 16291059--16291302 Score: 148
Period size: 54 Copynumber: 4.5 Consensus size: 55
16291049 GGGGAAAAAT
* * *
16291059 AGTCATTTTA-CCCTACAGAGGAATTACAG-TCATTTTACCCTATCGGGGCATTA-
1 AGTCATTTTACCCCTAGAG-GGTATTTCAGATCATTTTACCCTATCGGGGCATTAC
* ** * * * *
16291112 AGGTCATTTTA-CCCTACAAGGGCGTTAC-GATCATTTAACCATATAGGGGCATTAC
1 A-GTCATTTTACCCCTA-GAGGGTATTTCAGATCATTTTACCCTATCGGGGCATTAC
* *
16291167 AGTCATTTTACCCCTAGAGGGTATTTCAG-TCATTTTACCCT-TCAGGGGTATTTC
1 AGTCATTTTACCCCTAGAGGGTATTTCAGATCATTTTACCCTATC-GGGGCATTAC
* * * * * * * **
16291221 -GATAATTTTACCCTTCGGGGGTATTTC-GATCAGTTTATCCT-TCGAGGGTATTTT
1 AG-TCATTTTACCCCTAGAGGGTATTTCAGATCATTTTACCCTATCG-GGGCATTAC
* * *
16291275 AGTAATTTTACCCTTCGAGGGTATTTCA
1 AGTCATTTTACCCCTAGAGGGTATTTCA
16291303 ATAATATTTC
Statistics
Matches: 156, Mismatches: 23, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
53 6 0.04
54 140 0.90
55 10 0.06
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (55 bp):
AGTCATTTTACCCCTAGAGGGTATTTCAGATCATTTTACCCTATCGGGGCATTAC
Found at i:16291284 original size:81 final size:82
Alignment explanation
Indices: 16291183--16291410 Score: 257
Period size: 81 Copynumber: 2.8 Consensus size: 82
16291173 TTTACCCCTA
*
16291183 GAGGGTATTTCAGTCATTTTACCCTTCAGGGGTATTTCGATAATTTTACCCTTCGGGGGTATTTC
1 GAGGGTATTTCAGTAATTTTACCCTTCAGGGGTATTTCGATAATTTTACCCTTCGGGGGTATTTC
* * * *
16291248 GA-TCAGTTTATCCTTC
66 GAGTAAATATACCCTTC
* * *
16291264 GAGGGTATTTTAGTAATTTTACCCTTC-GAGGGTATTTCAATAATATTT-CCCTTCGAGGGTATT
1 GAGGGTATTTCAGTAATTTTACCCTTCAG-GGGTATTTCGATAAT-TTTACCCTTCGGGGGTATT
*
16291327 T-TAGTAAATATACCCTTC
64 TCGAGTAAATATACCCTTC
* * * * * * * *
16291345 GAGGGTAATTCAATAGTATTACCCTTCAAGGGTATTTCGGTAATTTTATCCTTCAGGGGTATTTC
1 GAGGGTATTTCAGTAATTTTACCCTTCAGGGGTATTTCGATAATTTTACCCTTCGGGGGTATTTC
16291410 G
66 G
16291411 GTCCAGATAT
Statistics
Matches: 120, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
80 5 0.04
81 112 0.93
82 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (82 bp):
GAGGGTATTTCAGTAATTTTACCCTTCAGGGGTATTTCGATAATTTTACCCTTCGGGGGTATTTC
GAGTAAATATACCCTTC
Found at i:16291412 original size:27 final size:27
Alignment explanation
Indices: 16291166--16291409 Score: 228
Period size: 27 Copynumber: 9.0 Consensus size: 27
16291156 AGGGGCATTA
* * *
16291166 CAGTCATTTTACCCCTAGAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
*
16291193 CAGTCATTTTACCCTTC-AGGGGTATTT
1 CAGTAATTTTACCCTTCGA-GGGTATTT
*
16291220 C-GATAATTTTACCCTTCGGGGGTATTT
1 CAG-TAATTTTACCCTTCGAGGGTATTT
* * *
16291247 C-GATCAGTTTATCCTTCGAGGGTATTT
1 CAG-TAATTTTACCCTTCGAGGGTATTT
*
16291274 TAGTAATTTTACCCTTCGAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
*
16291301 CAATAATATTT-CCCTTCGAGGGTATTT
1 CAGTAAT-TTTACCCTTCGAGGGTATTT
* * * *
16291328 TAGTAAATATACCCTTCGAGGGTAATT
1 CAGTAATTTTACCCTTCGAGGGTATTT
* * * *
16291355 CAATAGTATTACCCTTCAAGGGTATTT
1 CAGTAATTTTACCCTTCGAGGGTATTT
* *
16291382 CGGTAATTTTATCCTTC-AGGGGTATTT
1 CAGTAATTTTACCCTTCGA-GGGTATTT
16291409 C
1 C
16291410 GGTCCAGATA
Statistics
Matches: 178, Mismatches: 32, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
26 5 0.03
27 169 0.95
28 4 0.02
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (27 bp):
CAGTAATTTTACCCTTCGAGGGTATTT
Found at i:16298094 original size:20 final size:20
Alignment explanation
Indices: 16298069--16298126 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
16298059 GTGCAAATAT
16298069 AGAGGCACCAAAGTGCAAAC
1 AGAGGCACCAAAGTGCAAAC
***
16298089 AGAGGCGTTGAAA-TGCAAAC
1 AGAGGC-ACCAAAGTGCAAAC
* *
16298109 AAAGGCACCAAAGCGCAA
1 AGAGGCACCAAAGTGCAA
16298127 TCCCGTACAA
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
19 3 0.11
20 22 0.79
21 3 0.11
ACGTcount: A:0.45, C:0.22, G:0.26, T:0.07
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAC
Found at i:16303060 original size:16 final size:16
Alignment explanation
Indices: 16303041--16303071 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16303031 TTTATTATTA
16303041 TTATCATTTAACTTAT
1 TTATCATTTAACTTAT
*
16303057 TTATCATTTTACTTA
1 TTATCATTTAACTTA
16303072 AATAACATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATCATTTAACTTAT
Found at i:16316147 original size:50 final size:49
Alignment explanation
Indices: 16316025--16316252 Score: 165
Period size: 50 Copynumber: 4.6 Consensus size: 49
16316015 TATGCCAAAA
* ** *
16316025 CCATGTCCCAGACATGGTCTTACATGGGATGTT-TCCTATATTGCCAATT
1 CCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATGGTGCCAATG
* * * *
16316074 TCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATAT-GGTGCCAATG
* * ** * *
16316124 CCATGTCCCAGACATGGTGTTACAGGGGACCTCTCATCTAGGTGACAATG
1 CCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATAT-GGTGCCAATG
* * * * * * *** *
16316174 TCATGTCCCAGACATGGTTTTGCGTGGGACCTT-TCACAACCT-CATTAATG
1 CCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATGGTGC--CAATG
16316224 CCATGTCCCAGACATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
16316253 TCTCATTCTT
Statistics
Matches: 138, Mismatches: 36, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
48 3 0.02
49 32 0.23
50 101 0.73
51 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (49 bp):
CCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATGGTGCCAATG
Found at i:16322241 original size:25 final size:25
Alignment explanation
Indices: 16322183--16322243 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
16322173 TCCTGTACAT
* *
16322183 GTATGCTCACACGAGCTGTGAATCA
1 GTATGCTCTCACGAGCTGTAAATCA
*
16322208 GTATGCTCTCACGAGCTGTAAATCG
1 GTATGCTCTCACGAGCTGTAAATCA
16322233 GTATGCTCTCA
1 GTATGCTCTCA
16322244 TGAACTCTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTAAATCA
Found at i:16324011 original size:44 final size:44
Alignment explanation
Indices: 16323911--16324029 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 44
16323901 AGGTATCAAT
* * *
16323911 CACCGATACAAAGTATCTGCTGTATAAAAATGTCGTAATAGCCAA
1 CACCGATACATAGTATCTGCTGAATATAAATG-CGTAATAGCCAA
* *
16323956 CACCAACACATAGTATCTGCTGAATATAAATG-GTACATAGCCAA
1 CACCGATACATAGTATCTGCTGAATATAAATGCGTA-ATAGCCAA
* * *
16324000 CACCGGTACATAGTACCTACTGAATATAAA
1 CACCGATACATAGTATCTGCTGAATATAAA
16324030 CCCTAATGAC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 3 0.05
44 33 0.52
45 27 0.43
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.24
Consensus pattern (44 bp):
CACCGATACATAGTATCTGCTGAATATAAATGCGTAATAGCCAA
Found at i:16329727 original size:60 final size:59
Alignment explanation
Indices: 16329654--16329775 Score: 165
Period size: 60 Copynumber: 2.1 Consensus size: 59
16329644 GTAAAATCAC
* * *
16329654 GATGGTTGTCACCATCCCTTTCCATAGTTCGATAGTTG-AAGCTATCCCTTTTCATATTTT
1 GATGGTCGTCACCATCCCTTTCCATAGTT-GATAGTCGTAA-CCATCCCTTTTCATATTTT
* * *
16329714 GATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATATTTT
1 GATGGTCGTCACCATCCCTTTCCATAGTTGATAGTCGTAACCATCCCTTTTCATATTTT
16329773 GAT
1 GAT
16329776 AGCCGAAGCT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 27 0.49
60 28 0.51
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.41
Consensus pattern (59 bp):
GATGGTCGTCACCATCCCTTTCCATAGTTGATAGTCGTAACCATCCCTTTTCATATTTT
Found at i:16329753 original size:29 final size:29
Alignment explanation
Indices: 16329654--16329768 Score: 133
Period size: 30 Copynumber: 3.9 Consensus size: 29
16329644 GTAAAATCAC
* *
16329654 GATGGTTGTCACCATCCCTTTCCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
* * * * *
16329683 CGATAGTTG-AAGCTATCCCTTTTCATATTTT
1 -GATGGTCGTCA-CCATCCCTTTTCATA-GTT
16329714 GATGGTCGTCACCATCCCTTTTCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
16329743 GATGGTCGTCACCATCCCTTTTCATA
1 GATGGTCGTCACCATCCCTTTTCATA
16329769 TTTTGATAGC
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
29 29 0.40
30 40 0.56
31 3 0.04
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.39
Consensus pattern (29 bp):
GATGGTCGTCACCATCCCTTTTCATAGTT
Found at i:16329820 original size:89 final size:90
Alignment explanation
Indices: 16329653--16329917 Score: 234
Period size: 89 Copynumber: 3.0 Consensus size: 90
16329643 AGTAAAATCA
* * * * * *
16329653 CGATGGTTGTCACCATCCCTTTCCATAGTTCGATAGTTGAAGCTATCCCTTTTCATATTTTGATG
1 CGATGGTCGTCACCATCCCTTTTCATATTTTGATAGTCGAAGCTATCCCTTTTCATAATTTGAT-
** *** **
16329718 GTCGTCA-CCATCCCTTTTCATAGTT
65 AACCAAAGTTATCCCTTTTCATAGTT
*
16329743 -GATGGTCGTCACCATCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCATAATTTGATA
1 CGATGGTCGTCACCATCCCTTTTCATATTTTGATAGTCGAAGCTATCCCTTTTCATAATTTGATA
16329807 ACCAAAGTTATCCCTTTTCATAGTT
66 ACCAAAGTTATCCCTTTTCATAGTT
* * * * * * * *
16329832 CAAAGATCATAACCATCCCTTTT--TATTGTTGATGGTCGTCA-CCATCCCTTTTCATAATTTGA
1 CGATGGTCGTCACCATCCCTTTTCATATT-TTGATAGTCG-AAGCTATCCCTTTTCATAATTTGA
* * **
16329894 CAGCCAAAGTTATCTATTTTCATA
64 TAACCAAAGTTATCCCTTTTCATA
16329918 ATTTGATAAT
Statistics
Matches: 144, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
88 6 0.04
89 120 0.83
90 18 0.12
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (90 bp):
CGATGGTCGTCACCATCCCTTTTCATATTTTGATAGTCGAAGCTATCCCTTTTCATAATTTGATA
ACCAAAGTTATCCCTTTTCATAGTT
Found at i:16329878 original size:119 final size:119
Alignment explanation
Indices: 16329692--16329951 Score: 358
Period size: 119 Copynumber: 2.2 Consensus size: 119
16329682 TCGATAGTTG
* ** * * * *
16329692 AAGCTATCCCTTTTCATATTTTGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCA
1 AAGCTATCCCTTTTCATAGTTCAAAGATCATAACCATCCCTTTTCATAGTTGATGGTCGTCACCA
* * * *
16329757 TCCCTTTTCATATTTTGATAGCCGAAGCTATCCCTTTTCATAATTTGATAACCA
66 TCCCTTTTCATAATTTGACAGCCAAAGCTATCCATTTTCATAATTTGATAACCA
* * *
16329811 AAGTTATCCCTTTTCATAGTTCAAAGATCATAACCATCCCTTTTTATTGTTGATGGTCGTCACCA
1 AAGCTATCCCTTTTCATAGTTCAAAGATCATAACCATCCCTTTTCATAGTTGATGGTCGTCACCA
* * * *
16329876 TCCCTTTTCATAATTTGACAGCCAAAGTTATCTATTTTCATAATTTGATAATCG
66 TCCCTTTTCATAATTTGACAGCCAAAGCTATCCATTTTCATAATTTGATAACCA
16329930 AAGCTATCCCTTTTCATAGTTC
1 AAGCTATCCCTTTTCATAGTTC
16329952 GATAATCCTC
Statistics
Matches: 122, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
119 122 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (119 bp):
AAGCTATCCCTTTTCATAGTTCAAAGATCATAACCATCCCTTTTCATAGTTGATGGTCGTCACCA
TCCCTTTTCATAATTTGACAGCCAAAGCTATCCATTTTCATAATTTGATAACCA
Found at i:16329958 original size:30 final size:30
Alignment explanation
Indices: 16329667--16329955 Score: 160
Period size: 30 Copynumber: 9.7 Consensus size: 30
16329657 GGTTGTCACC
* * *
16329667 ATCCCTTTCCATAGTTCGATAGTTGAAGCT
1 ATCCCTTTTCATAGTTTGATAGTCGAAGCT
* * * *
16329697 ATCCCTTTTCATATTTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAGTTTGATAGTCG-AAGCT
* * *
16329727 ATCCCTTTTCATAG-TTGATGGTCGTCA-CC
1 ATCCCTTTTCATAGTTTGATAGTCG-AAGCT
* *
16329756 ATCCCTTTTCATATTTTGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTTGATAGTCGAAGCT
* ** * *
16329786 ATCCCTTTTCATAATTTGATAACCAAAGTT
1 ATCCCTTTTCATAGTTTGATAGTCGAAGCT
* * * *
16329816 ATCCCTTTTCATAG-TTCAAAGATC-ATAACC
1 ATCCCTTTTCATAGTTTGATAG-TCGA-AGCT
* * * * *
16329846 ATCCCTTTTTATTG-TTGATGGTCGTCA-CC
1 ATCCCTTTTCATAGTTTGATAGTCG-AAGCT
* * * * *
16329875 ATCCCTTTTCATAATTTGACAGCCAAAGTT
1 ATCCCTTTTCATAGTTTGATAGTCGAAGCT
** * *
16329905 ATCTATTTTCATAATTTGATAATCGAAGCT
1 ATCCCTTTTCATAGTTTGATAGTCGAAGCT
*
16329935 ATCCCTTTTCATAGTTCGATA
1 ATCCCTTTTCATAGTTTGATA
16329956 ATCCTCGATA
Statistics
Matches: 198, Mismatches: 52, Indels: 18
0.74 0.19 0.07
Matches are distributed among these distances:
29 50 0.25
30 147 0.74
31 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTTGATAGTCGAAGCT
Found at i:16340509 original size:61 final size:61
Alignment explanation
Indices: 16340409--16340530 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
16340399 CATTTTTTTT
*
16340409 CTAATTGACATGGGTTTAATAGATGATTAGAAGGGTTCAAGAACTCAAATTAAGGCTAGAA
1 CTAAATGACATGGGTTTAATAGATGATTAGAAGGGTTCAAGAACTCAAATTAAGGCTAGAA
16340470 CTAAATGACATGGGTTTAATAGATGATTAGAAGGGTTCAAGAACTCAAATTAAGGCTAGAA
1 CTAAATGACATGGGTTTAATAGATGATTAGAAGGGTTCAAGAACTCAAATTAAGGCTAGAA
16340531 TTAATTGGTC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (61 bp):
CTAAATGACATGGGTTTAATAGATGATTAGAAGGGTTCAAGAACTCAAATTAAGGCTAGAA
Found at i:16344841 original size:41 final size:41
Alignment explanation
Indices: 16344783--16344932 Score: 203
Period size: 41 Copynumber: 3.6 Consensus size: 41
16344773 CTTAATTTAA
* * * *
16344783 CAGATTCACCGACACTTAGCCTACTAGGCTCATAGCCTGATT
1 CAGA-TCACCGACACTTAGCCTGCTAGGTTTATAACCTGATT
*
16344825 CAGATCACCGACACTTAGCCTCCTAGGTTTATAACCTGATT
1 CAGATCACCGACACTTAGCCTGCTAGGTTTATAACCTGATT
*
16344866 CAGATCACTCGA-ACTTAGTCTGCTAGGTTTATAACCTGATT
1 CAGATCAC-CGACACTTAGCCTGCTAGGTTTATAACCTGATT
* *
16344907 CAGATCATCGGCACTTAGCCTGCTAG
1 CAGATCACCGACACTTAGCCTGCTAG
16344933 ACGTATAGTC
Statistics
Matches: 97, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
40 2 0.02
41 88 0.91
42 7 0.07
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (41 bp):
CAGATCACCGACACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:16347710 original size:50 final size:50
Alignment explanation
Indices: 16347603--16347842 Score: 266
Period size: 50 Copynumber: 4.7 Consensus size: 50
16347593 GGGAATGCAA
* * **
16347603 TCCCATGTAAGACCATATCTGGAACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATT-G-A-CACCGAG---ATGAGAGG
16347659 TCCCATGTAAGACCATGTCTGGGACATGGCATTGACACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGACACCGAGATGAGAGG
* * *
16347709 TCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGACACCGAGATGAGAGG
* * * * **
16347759 TCTCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TC-CCATGTAAGACCATGTCTGGGACATGGCATTGACACCGAGATGAGAGG
* * *
16347809 TCCCATGTAAGACCATATATGGGATATGGCATTG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTG
16347843 GCAGTACAGA
Statistics
Matches: 163, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
49 2 0.01
50 122 0.75
51 1 0.01
53 5 0.03
54 1 0.01
55 1 0.01
56 31 0.19
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGACACCGAGATGAGAGG
Found at i:16347785 original size:100 final size:103
Alignment explanation
Indices: 16347603--16347845 Score: 305
Period size: 100 Copynumber: 2.4 Consensus size: 103
16347593 GGGAATGCAA
* * *
16347603 TCCCATGTAAGACCATATCTGGAACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTA
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCA-CGAG--TATGAGAGGTCCCACGTA
* **
16347668 AGACCATGTCTGGGACATGGCATTGACACCGAGATGAGAGG
63 AGACCATGTCTGGGACATGGCATGGACACCGAGATGAGAAC
* * *
16347709 TCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-CGAG-ATGAGAGGTCTCC-CGTAAG
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCACGAGTATGAGAGGTC-CCACGTAAG
* *
16347770 ACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
65 ACCATGTCTGGGACATGGCATGGACACCGAGATGAGAAC
* *
16347809 TCCCATGTAAGACCATATATGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATATCTGGGACATGGCATTGGCA
16347846 GTACAGAAAA
Statistics
Matches: 120, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
100 81 0.68
101 2 0.02
103 3 0.03
105 1 0.01
106 33 0.28
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (103 bp):
TCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCACGAGTATGAGAGGTCCCACGTAAGA
CCATGTCTGGGACATGGCATGGACACCGAGATGAGAAC
Found at i:16348110 original size:12 final size:12
Alignment explanation
Indices: 16348093--16348131 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
16348083 ATGAGTTATT
16348093 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
16348105 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
16348117 TAAGTGAGTAAG
1 TAAGTAAGCAAG
16348129 TAA
1 TAA
16348132 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:16352750 original size:22 final size:21
Alignment explanation
Indices: 16352725--16352768 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
16352715 AAAAAAAAAC
16352725 AAAACAAAACAAAAAAAGGGAG
1 AAAACAAAA-AAAAAAAGGGAG
* * *
16352747 AAAAGAAGAAAAAAAATGGAG
1 AAAACAAAAAAAAAAAGGGAG
16352768 A
1 A
16352769 GGCCAAGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.73, C:0.05, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAACAAAAAAAAAAAGGGAG
Found at i:16352917 original size:42 final size:42
Alignment explanation
Indices: 16352834--16352917 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
16352824 AAACCCGAAA
*
16352834 AGAGCAGCTCAAATATTGATCAGAATGGGGCATGAGGTGATC
1 AGAGCAGCTCAAATATTGATCAGAATGGGGCATGAGATGATC
* * *
16352876 AGAGCAGTTCAAATTTTGATCAGATTGGGGCAT-ATGATGATC
1 AGAGCAGCTCAAATATTGATCAGAATGGGGCATGA-GATGATC
16352918 TTGCTATACT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 1 0.03
42 36 0.97
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (42 bp):
AGAGCAGCTCAAATATTGATCAGAATGGGGCATGAGATGATC
Found at i:16354148 original size:88 final size:88
Alignment explanation
Indices: 16353988--16354297 Score: 442
Period size: 88 Copynumber: 3.5 Consensus size: 88
16353978 CAGTGAAGAG
* * * * * *
16353988 AGCAGATCTTGCCCTCCTGCACTGACAGCGAAGTAGATCGAACACACCAGCTTTGCCTCTCTAGG
1 AGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGG
* *
16354053 TTGCAGCGGAGCAGGTTAAAAAT
66 TTGCAGCGGAGCAAGCTAAAAAT
* **
16354076 AGCAGATCTTGCCTTCCTGCACCT-ACAGTGAAAAAGATCGAAGACACCAGCCTTGCCTCCCTGG
1 AGCAGATCTTGCCTTCCTGCA-CTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGG
*
16354140 GTTACAGCGGAGCAAGCTAAAAAT
65 GTTGCAGCGGAGCAAGCTAAAAAT
* * * *
16354164 AGCAGCTCTTGCCTTCTTGCACTGACAGCGAAGCAGATCAAAGACATCAGCCTTGCCTCCCTGGG
1 AGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGG
*
16354229 TTGTAGCGGAGCAAGCTAAAAAT
66 TTGCAGCGGAGCAAGCTAAAAAT
*
16354252 AGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACA
1 AGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACA
16354298 TCTAGTTTTA
Statistics
Matches: 196, Mismatches: 24, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
87 2 0.01
88 192 0.98
89 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (88 bp):
AGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGG
TTGCAGCGGAGCAAGCTAAAAAT
Found at i:16354175 original size:44 final size:43
Alignment explanation
Indices: 16354123--16354270 Score: 127
Period size: 44 Copynumber: 3.4 Consensus size: 43
16354113 TCGAAGACAC
16354123 CAGCCTTGCCTCCCTGGGTTACAGCGGAGCAAGCTAAAAATAG
1 CAGCCTTGCCTCCCTGGGTTACAGCGGAGCAAGCTAAAAATAG
* * ** * * * * * *
16354166 CAGCTCTTGCCTTCTTGCACTGACAGCGAAGC-AGATCAAAGACAT
1 CAGC-CTTGCCTCCCTG-GGTTACAGCGGAGCAAGCT-AAAAATAG
**
16354211 CAGCCTTGCCTCCCTGGGTTGTAGCGGAGCAAGCTAAAAATAG
1 CAGCCTTGCCTCCCTGGGTTACAGCGGAGCAAGCTAAAAATAG
* *
16354254 CAGATCTTGCCTTCCTG
1 CAG-CCTTGCCTCCCTG
16354271 CACCGACAGC
Statistics
Matches: 76, Mismatches: 24, Indels: 9
0.70 0.22 0.08
Matches are distributed among these distances:
43 20 0.26
44 37 0.49
45 19 0.25
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.22
Consensus pattern (43 bp):
CAGCCTTGCCTCCCTGGGTTACAGCGGAGCAAGCTAAAAATAG
Found at i:16354359 original size:44 final size:44
Alignment explanation
Indices: 16354305--16354768 Score: 231
Period size: 44 Copynumber: 10.7 Consensus size: 44
16354295 ACATCTAGTT
16354305 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTC
* * **
16354349 TTATCCCCCTGAAGTTGCAGTGGGGCAGAC-CCATAATGTCGAA-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAA-G-C-AAGTC
* *
16354394 TTATCTCCCTGAAGTTGCAGTGGAGCAGA-T--TTAAGCCTATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAG-C-A-AGTC
* * * * * *
16354438 CTATCTTCCTGAAGTTACAGTGGAGCTGA-TTAA-AATCACAGTTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCA-AG-TC
* * * * *
16354482 TTATCTCTCTGAAGTTGCAG-AGAGTAGA-T---TACATCTAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATA-AGCAAGTC
*
16354522 TTATC-CCCTTGAAGTTGCAGTGGAGCAGACTGAATAAGCAGGTC
1 TTATCTCCC-TGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTC
* * * *
16354566 TTATCCCCCTGAAGTTACAGTGGGGCAGACCGAA-AATGGCGAA-TC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAA--GC-AAGTC
* * * * *
16354611 GTATCTCCTTGAAATTGCAGTGGAGCAGA-T--TTAAGCCTATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAG-C-A-AGTC
* * * * *
16354655 CTATCTCCCTGAAGTTGTAGTGGAGCGGA-TTAA-AATCACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCA-AG-TC
* * * * *
16354699 TTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCACAT---CTAGTT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA-ATAAGCAAGTC
* *
16354739 TTATCTCCCTGAAGTTGCACTGGGGCAGAC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGAC
16354769 CCAAAATAGC
Statistics
Matches: 323, Mismatches: 65, Indels: 66
0.71 0.14 0.15
Matches are distributed among these distances:
39 2 0.01
40 37 0.11
41 18 0.06
42 10 0.03
43 31 0.10
44 156 0.48
45 66 0.20
46 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTC
Found at i:16354670 original size:217 final size:217
Alignment explanation
Indices: 16354295--16354768 Score: 770
Period size: 217 Copynumber: 2.2 Consensus size: 217
16354285 CAGATCGAAG
16354295 ACATCTAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTCTTATCCCCCTG
1 ACATCTAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTCTTATCCCCCTG
* * * * *
16354360 AAGTTGCAGTGGGGCAGACCCATAATGTCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
66 AAGTTACAGTGGGGCAGACCCAAAATGGCGAATCGTATCTCCCTGAAATTGCAGTGGAGCAGATT
* * *
16354425 TAAGCCTATAATCCTATCTTCCTGAAGTTACAGTGGAGCTGATTAAAATCACAGTTCTTATCTCT
131 TAAGCCTATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
* *
16354490 CTGAAGTTGCAGAGAGTAGATT
196 CTGAAGTTGCAGAGAGCAGATC
* *
16354512 ACATCTAGTCTTATC-CCCTTGAAGTTGCAGTGGAGCAGACTGAATAAGCAGGTCTTATCCCCCT
1 ACATCTAGTTTTATCTCCC-TGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTCTTATCCCCCT
* *
16354576 GAAGTTACAGTGGGGCAGACCGAAAATGGCGAATCGTATCTCCTTGAAATTGCAGTGGAGCAGAT
65 GAAGTTACAGTGGGGCAGACCCAAAATGGCGAATCGTATCTCCCTGAAATTGCAGTGGAGCAGAT
**
16354641 TTAAGCCTATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAATCACAGATCTTATCTC
130 TTAAGCCTATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTC
16354706 TCTGAAGTTGCAGAGAGCAGATC
195 TCTGAAGTTGCAGAGAGCAGATC
* *
16354729 ACATCTAGTTTTATCTCCCTGAAGTTGCACTGGGGCAGAC
1 ACATCTAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
16354769 CCAAAATAGC
Statistics
Matches: 236, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
216 3 0.01
217 230 0.97
218 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (217 bp):
ACATCTAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAAGCAAGTCTTATCCCCCTG
AAGTTACAGTGGGGCAGACCCAAAATGGCGAATCGTATCTCCCTGAAATTGCAGTGGAGCAGATT
TAAGCCTATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATCACAGATCTTATCTCT
CTGAAGTTGCAGAGAGCAGATC
Found at i:16354958 original size:44 final size:44
Alignment explanation
Indices: 16354861--16354959 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 44
16354851 GAAGTGTGCG
* **
16354861 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAGGCCAAT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCAAT
* ** *
16354905 AAT-TCTATCTCCCTAAAGTTGCAGTTGAGTGGATTAAAATC-AT
1 AATCT-TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCAAT
16354948 AGATCTTATCTC
1 A-ATCTTATCTC
16354960 GCTGAAATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.09
44 40 0.89
45 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCAAT
Found at i:16356584 original size:20 final size:21
Alignment explanation
Indices: 16356559--16356601 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
16356549 GTAATTATTA
* *
16356559 TTTTTATTTTTATATGTA-AT
1 TTTTTATCTATATATGTATAT
16356579 TTTTTATCTATATATGTATAT
1 TTTTTATCTATATATGTATAT
16356600 TT
1 TT
16356602 GTTGTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTTATCTATATATGTATAT
Found at i:16368219 original size:7 final size:7
Alignment explanation
Indices: 16368207--16368231 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16368197 ATCCTTAAAA
16368207 AAAACTT
1 AAAACTT
16368214 AAAACTT
1 AAAACTT
16368221 AAAACTT
1 AAAACTT
16368228 AAAA
1 AAAA
16368232 TATCTCAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAACTT
Found at i:16374226 original size:14 final size:14
Alignment explanation
Indices: 16374203--16374233 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16374193 TGTTGCGTTC
*
16374203 TTAGTTAAATTAGA
1 TTAGTAAAATTAGA
16374217 TTAGTAAAATTAGA
1 TTAGTAAAATTAGA
16374231 TTA
1 TTA
16374234 AAAACCACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (14 bp):
TTAGTAAAATTAGA
Found at i:16374610 original size:24 final size:24
Alignment explanation
Indices: 16374550--16374599 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
16374540 GAAAATTGGG
16374550 AAGGTAAAGAGAGTGAATGAGAGA
1 AAGGTAAAGAGAGTGAATGAGAGA
16374574 AAGGTAAAGAGAGTGAATGAGAGA
1 AAGGTAAAGAGAGTGAATGAGAGA
16374598 AA
1 AA
16374600 TGAAGGAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.36, T:0.12
Consensus pattern (24 bp):
AAGGTAAAGAGAGTGAATGAGAGA
Found at i:16375868 original size:15 final size:16
Alignment explanation
Indices: 16375844--16375873 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16375834 ACCAAAAAAC
16375844 AAAAACAAAAACCTGT
1 AAAAACAAAAACCTGT
16375860 AAAAA-AAAAACCTG
1 AAAAACAAAAACCTG
16375874 ACAACAGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.17, G:0.07, T:0.10
Consensus pattern (16 bp):
AAAAACAAAAACCTGT
Found at i:16375929 original size:27 final size:26
Alignment explanation
Indices: 16375899--16375958 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 26
16375889 GGCCAATCAC
16375899 ATTGGCGGCACCAAAGGTGCCAAAG-T
1 ATTGGCGG-ACCAAAGGTGCCAAAGAT
*
16375925 GATTGGCCTGACCAAAGGTGCCAAAGAT
1 -ATTGG-CGGACCAAAGGTGCCAAAGAT
16375953 ATTGGC
1 ATTGGC
16375959 CTGACCGGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 1 0.03
27 26 0.87
28 3 0.10
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.18
Consensus pattern (26 bp):
ATTGGCGGACCAAAGGTGCCAAAGAT
Found at i:16375959 original size:27 final size:27
Alignment explanation
Indices: 16375908--16375964 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
16375898 CATTGGCGGC
16375908 ACCAAAGGTGCCAAAGTGATTGGCCTG
1 ACCAAAGGTGCCAAAGTGATTGGCCTG
16375935 ACCAAAGGTGCCAAAGAT-ATTGGCCTG
1 ACCAAAGGTGCCAAAG-TGATTGGCCTG
16375962 ACC
1 ACC
16375965 GGACTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.26, T:0.18
Consensus pattern (27 bp):
ACCAAAGGTGCCAAAGTGATTGGCCTG
Found at i:16376656 original size:19 final size:19
Alignment explanation
Indices: 16376632--16376694 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
16376622 TCTAATTAAG
16376632 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
* * ** ***
16376651 TAATAAGTTTATTAAAAAG
1 TAATAACTCTATTTTACTT
16376670 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
16376689 TAATAA
1 TAATAA
16376695 ACTATTGCTT
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATAACTCTATTTTACTT
Found at i:16376758 original size:18 final size:17
Alignment explanation
Indices: 16376729--16376763 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
16376719 GTAATGTTTC
*
16376729 AAAAAATGTTTTTAGGA
1 AAAAAATGTTTTAAGGA
16376746 AAAAAATGTTTTTAAGGA
1 AAAAAATG-TTTTAAGGA
16376764 GAAGTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (17 bp):
AAAAAATGTTTTAAGGA
Found at i:16377160 original size:27 final size:27
Alignment explanation
Indices: 16377121--16377180 Score: 104
Period size: 27 Copynumber: 2.2 Consensus size: 27
16377111 GTCCGGTCAG
16377121 GCCAATCTCTTTGGCACCTTTGGTGCC
1 GCCAATCTCTTTGGCACCTTTGGTGCC
16377148 GCCAATCAT-TTTGGCACCTTTGGTGCC
1 GCCAATC-TCTTTGGCACCTTTGGTGCC
16377175 GCCAAT
1 GCCAAT
16377181 GTGATTGGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.15, C:0.32, G:0.22, T:0.32
Consensus pattern (27 bp):
GCCAATCTCTTTGGCACCTTTGGTGCC
Found at i:16377227 original size:16 final size:17
Alignment explanation
Indices: 16377206--16377237 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16377196 AGGCTATTGT
16377206 CAGGTTTTT-TTTTTTG
1 CAGGTTTTTGTTTTTTG
16377222 CAGGTTTTTGTTTTTT
1 CAGGTTTTTGTTTTTT
16377238 TTTGTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.06, C:0.06, G:0.19, T:0.69
Consensus pattern (17 bp):
CAGGTTTTTGTTTTTTG
Found at i:16377296 original size:25 final size:26
Alignment explanation
Indices: 16377243--16377305 Score: 92
Period size: 28 Copynumber: 2.4 Consensus size: 26
16377233 TTTTTTTTGT
16377243 ATATTTTGGTAAATAAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAA--TATA
16377271 ATATTTTGGTAAATAAAAAAAA-ATA
1 ATATTTTGGTAAATAAAAAAAATATA
*
16377296 ACATTTTGGT
1 ATATTTTGGT
16377306 TATTTTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 12 0.35
28 22 0.65
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.38
Consensus pattern (26 bp):
ATATTTTGGTAAATAAAAAAAATATA
Found at i:16386583 original size:16 final size:15
Alignment explanation
Indices: 16386539--16386610 Score: 65
Period size: 16 Copynumber: 4.7 Consensus size: 15
16386529 ATATGTATAT
16386539 ATATAAATATAAAAA
1 ATATAAATATAAAAA
**
16386554 ATATTCAT-TAAAAA
1 ATATAAATATAAAAA
16386568 ATATAAATATAGAAAA
1 ATATAAATATA-AAAA
*** *
16386584 ATATTCTTAGAAATAA
1 ATATAAATATAAA-AA
16386600 ATATAAATATA
1 ATATAAATATA
16386611 TATACATATA
Statistics
Matches: 42, Mismatches: 12, Indels: 5
0.71 0.20 0.08
Matches are distributed among these distances:
14 12 0.29
15 10 0.24
16 20 0.48
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (15 bp):
ATATAAATATAAAAA
Found at i:16386607 original size:32 final size:29
Alignment explanation
Indices: 16386539--16386610 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 29
16386529 ATATGTATAT
16386539 ATATAAATATAAAAAATATTCATTAAAAA
1 ATATAAATATAAAAAATATTCATTAAAAA
16386568 ATATAAATATAGAAAAATATTC-TTAGAAATAA
1 ATATAAATATA-AAAAATATTCATT--AAA-AA
16386600 ATATAAATATA
1 ATATAAATATA
16386611 TATACATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
29 13 0.33
30 10 0.26
31 3 0.08
32 13 0.33
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (29 bp):
ATATAAATATAAAAAATATTCATTAAAAA
Found at i:16388462 original size:44 final size:44
Alignment explanation
Indices: 16388405--16388512 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 44
16388395 ACTCTACTGT
** *
16388405 AACTTCAAAGAGATAAGATCT-GTGGTTTTAATCCACTCCACTAC
1 AACTTCAGGGAGATAAGAT-TAGTGGCTTTAATCCACTCCACTAC
* * ***
16388449 AACTTCAGGGAGATAGGATTATTGGCTTTAATTTGCTCCACTAC
1 AACTTCAGGGAGATAAGATTAGTGGCTTTAATCCACTCCACTAC
*
16388493 AAATTCAGGGAGATAAGATT
1 AACTTCAGGGAGATAAGATT
16388513 GGCCATCTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 1 0.02
44 52 0.98
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTAGTGGCTTTAATCCACTCCACTAC
Found at i:16388690 original size:100 final size:100
Alignment explanation
Indices: 16388530--16388720 Score: 301
Period size: 100 Copynumber: 1.9 Consensus size: 100
16388520 TTCAGTCTTT
*
16388530 CAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATATGTTCCACTACACCGCCAGGGAAGT
1 CAATGTTGGGGAAACAAGATTCACCGTCGTAGCTTCAATATGTTCCACTACACCGCCAGGGAAGT
**
16388595 AAAATTTTCCGTTGCGGCTTCAATCTTTTTAATTG
66 AAAATTCGCCGTTGCGGCTTCAATCTTTTTAATTG
** * *
16388630 CAATGTTGGGGAAATGAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGGAGT
1 CAATGTTGGGGAAACAAGATTCACCGTCGTAGCTTCAATATGTTCCACTACACCGCCAGGGAAGT
* *
16388695 AAGATTCGCCGTTGCGGCTTTAATCT
66 AAAATTCGCCGTTGCGGCTTCAATCT
16388721 ATTCCACTGA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (100 bp):
CAATGTTGGGGAAACAAGATTCACCGTCGTAGCTTCAATATGTTCCACTACACCGCCAGGGAAGT
AAAATTCGCCGTTGCGGCTTCAATCTTTTTAATTG
Found at i:16388700 original size:50 final size:50
Alignment explanation
Indices: 16388545--16388706 Score: 128
Period size: 50 Copynumber: 3.2 Consensus size: 50
16388535 TTGGGGAAAC
* *
16388545 AAGATTCGCCGTCGTAGCTTCAATATGTTCCACTACACCGCCAGGGAAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGGAGT
* ** * ** * ** * * ** ** *
16388595 AAAATTTTCCGTTGCGGCTTCAATCTTTTTAATTGCAATG-TTGGGGAAAT
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGG-AGT
* *
16388645 GAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGGAGT
1 AAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGGAGT
16388695 AAGATTCGCCGT
1 AAGATTCGCCGT
16388707 TGCGGCTTTA
Statistics
Matches: 73, Mismatches: 37, Indels: 4
0.64 0.32 0.04
Matches are distributed among these distances:
49 3 0.04
50 66 0.90
51 4 0.05
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (50 bp):
AAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGGAGT
Found at i:16399454 original size:15 final size:15
Alignment explanation
Indices: 16399436--16399469 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
16399426 ATAAATGTCG
16399436 CAATAACAAATACAA
1 CAATAACAAATACAA
*
16399451 CAATAATAAATACAA
1 CAATAACAAATACAA
16399466 CAAT
1 CAAT
16399470 GGCATAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (15 bp):
CAATAACAAATACAA
Found at i:16399893 original size:30 final size:30
Alignment explanation
Indices: 16399849--16399919 Score: 101
Period size: 32 Copynumber: 2.4 Consensus size: 30
16399839 ATGTATATAT
16399849 ATATAAATAT-AAAAATATTCATT-AAAAA
1 ATATAAATATAAAAAATATTCATTAAAAAA
*
16399877 ATATAAATATAGAAAAATATTCGTTAGAAAAA
1 ATATAAATATA-AAAAATATTCATTA-AAAAA
16399909 ATATAAATATA
1 ATATAAATATA
16399920 TATAGATATA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
28 10 0.26
30 12 0.32
32 16 0.42
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (30 bp):
ATATAAATATAAAAAATATTCATTAAAAAA
Found at i:16414940 original size:14 final size:16
Alignment explanation
Indices: 16414921--16414952 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
16414911 TTATGTAATA
16414921 TTTAAAA-TAT-TATT
1 TTTAAAAGTATATATT
16414935 TTTAAAAGTATATATT
1 TTTAAAAGTATATATT
16414951 TT
1 TT
16414953 CATAATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 3 0.19
16 6 0.38
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTAAAAGTATATATT
Found at i:16418222 original size:32 final size:32
Alignment explanation
Indices: 16418186--16418301 Score: 169
Period size: 32 Copynumber: 3.6 Consensus size: 32
16418176 TAAACGTGCG
* * * *
16418186 ATTTTCTGAAATGATAACAAATATTAGCTTTC
1 ATTTTGTGAAATGATAACAAATATCAACTTTA
*
16418218 ATTTTGTGAAATGCTAACAAATATCAACTTTA
1 ATTTTGTGAAATGATAACAAATATCAACTTTA
16418250 ATTTTGTGAAATGATAACAAATATCAACTTTA
1 ATTTTGTGAAATGATAACAAATATCAACTTTA
* *
16418282 ATTTTGTTAAATAATAACAA
1 ATTTTGTGAAATGATAACAA
16418302 TATTCCTCTA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 76 1.00
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (32 bp):
ATTTTGTGAAATGATAACAAATATCAACTTTA
Found at i:16423197 original size:26 final size:24
Alignment explanation
Indices: 16423163--16423218 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 24
16423153 TATATATTAA
16423163 ATATATATTTATTTTTAATCAGACAT
1 ATATATATTTATTTTTAATCA-A-AT
16423189 ATATATATTTATTTTTAATCAAAT
1 ATATATATTTATTTTTAATCAAAT
16423213 ATATAT
1 ATATAT
16423219 TAAATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 8 0.27
25 1 0.03
26 21 0.70
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (24 bp):
ATATATATTTATTTTTAATCAAAT
Found at i:16423501 original size:16 final size:16
Alignment explanation
Indices: 16423461--16423501 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
16423451 AAATCAATTG
16423461 AATATAAATTTTGAATA
1 AATATAAA-TTTGAATA
16423478 AATA-AAATTTG-ATA
1 AATATAAATTTGAATA
16423492 AATATTAAAT
1 AATA-TAAAT
16423502 AATGCTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.32
15 4 0.18
16 7 0.32
17 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (16 bp):
AATATAAATTTGAATA
Found at i:16424583 original size:16 final size:15
Alignment explanation
Indices: 16424562--16424592 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
16424552 ATTTATAAAG
16424562 CAATTGTAATATTATT
1 CAATTGTAAT-TTATT
16424578 CAATTGTAATTTATT
1 CAATTGTAATTTATT
16424593 AATCTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (15 bp):
CAATTGTAATTTATT
Found at i:16433615 original size:36 final size:36
Alignment explanation
Indices: 16433568--16433649 Score: 155
Period size: 36 Copynumber: 2.3 Consensus size: 36
16433558 GGCCCAAGTT
16433568 ACGCCCAAAAGGAGACCCAAATTCGCGCTCTATATC
1 ACGCCCAAAAGGAGACCCAAATTCGCGCTCTATATC
*
16433604 ACGCCCAAAAGGAGGCCCAAATTCGCGCTCTATATC
1 ACGCCCAAAAGGAGACCCAAATTCGCGCTCTATATC
16433640 ACGCCCAAAA
1 ACGCCCAAAA
16433650 ATACACGACC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.15
Consensus pattern (36 bp):
ACGCCCAAAAGGAGACCCAAATTCGCGCTCTATATC
Found at i:16442546 original size:27 final size:27
Alignment explanation
Indices: 16442479--16442546 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
16442469 TTTAGGATAC
**
16442479 GCCACAAAGGCAACCCATTCAAAATAT
1 GCCACAAAGGCATTCCATTCAAAATAT
* *
16442506 GGCACAAAGACATTCCATTCAAAATAT
1 GCCACAAAGGCATTCCATTCAAAATAT
*
16442533 GCCACAATGGCATT
1 GCCACAAAGGCATT
16442547 ATGCCATAAA
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:0.41, C:0.26, G:0.13, T:0.19
Consensus pattern (27 bp):
GCCACAAAGGCATTCCATTCAAAATAT
Found at i:16445656 original size:162 final size:161
Alignment explanation
Indices: 16445394--16445725 Score: 556
Period size: 162 Copynumber: 2.0 Consensus size: 161
16445384 ATAACCACAG
* * * *
16445394 AATATAGACAATGAATTAGTATCCATAACACACCTTCAACAAACAAAAACATAGGTCTAAGGCTA
1 AATATACACAATCAATTAGTAGCCATAACACACCTTAAACAAACAAAAACATAGGTCTAAGGCTA
* * *
16445459 GTTTCTCTTGGAATTGAAATTTTTGACAAACAAACTTGAAACTCAAATATCTTAATCTTTACTCA
66 GTTCCTCTTGGAACTGAAATTTTTGACAAACAAACTTGAAACTCAAA-ATCTTAATCTTTACTAA
*
16445524 TTCTCATTACCTATAATAGATTCCAATAATCT
130 TTCCCATTACCTATAATAGATTCCAATAATCT
*
16445556 AATATACACAATCAATTAGTAGCTATAACACACCTTAAACAAACAAAAACATAGGTCTAAGGCTA
1 AATATACACAATCAATTAGTAGCCATAACACACCTTAAACAAACAAAAACATAGGTCTAAGGCTA
16445621 GTTCCTCTTGGAACTGAAATTTTTGACAAACAAACTTGAAACTCAAAATCTTAATCTTTACTAAT
66 GTTCCTCTTGGAACTGAAATTTTTGACAAACAAACTTGAAACTCAAAATCTTAATCTTTACTAAT
*
16445686 TCCCATTACCTATAATAGATTCCAATCATCT
131 TCCCATTACCTATAATAGATTCCAATAATCT
16445717 AATAATACA
1 AAT-ATACA
16445726 TCTAAGAATA
Statistics
Matches: 159, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
161 49 0.31
162 110 0.69
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (161 bp):
AATATACACAATCAATTAGTAGCCATAACACACCTTAAACAAACAAAAACATAGGTCTAAGGCTA
GTTCCTCTTGGAACTGAAATTTTTGACAAACAAACTTGAAACTCAAAATCTTAATCTTTACTAAT
TCCCATTACCTATAATAGATTCCAATAATCT
Found at i:16447756 original size:36 final size:36
Alignment explanation
Indices: 16447716--16447788 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
16447706 AGGTGTCTCT
* * *
16447716 TTAATAAATGCAACTTTCAATATTCTTTCTTCTATA
1 TTAATAAATGAAACTCTCAATATTCTTTATTCTATA
*
16447752 TTAATAAATGAAACTCTCAATATTCTTTATTGTATA
1 TTAATAAATGAAACTCTCAATATTCTTTATTCTATA
16447788 T
1 T
16447789 CCTCTTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.47
Consensus pattern (36 bp):
TTAATAAATGAAACTCTCAATATTCTTTATTCTATA
Found at i:16454549 original size:41 final size:41
Alignment explanation
Indices: 16454498--16454742 Score: 328
Period size: 41 Copynumber: 6.0 Consensus size: 41
16454488 GTGCATTCAA
* *
16454498 GGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATTTAG
1 GGGTACCAAAGTACAAATAGGGGCACATATGTGCAATTTAG
* * * * *
16454539 GGGTATCGAAGAACAAATAGGGGCACGTATGTGCAATTCAG
1 GGGTACCAAAGTACAAATAGGGGCACATATGTGCAATTTAG
* * * *
16454580 GGGTACCAAAGTGCAAATAGGGGCACATATATACAATTCAG
1 GGGTACCAAAGTACAAATAGGGGCACATATGTGCAATTTAG
*
16454621 GGGTACCAAAGTACAAACAGGGGCACATATGTGCAATTTAG
1 GGGTACCAAAGTACAAATAGGGGCACATATGTGCAATTTAG
* * * *
16454662 GGGTACCGAAGTACAAATAGGGGCACGTTTGTGCAATGTAG
1 GGGTACCAAAGTACAAATAGGGGCACATATGTGCAATTTAG
* *
16454703 GGGTACCAAAGTACAAACAGGGGCACATATATGCAATTTA
1 GGGTACCAAAGTACAAATAGGGGCACATATGTGCAATTTA
16454743 AAAATATTCT
Statistics
Matches: 178, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 178 1.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (41 bp):
GGGTACCAAAGTACAAATAGGGGCACATATGTGCAATTTAG
Found at i:16454643 original size:20 final size:20
Alignment explanation
Indices: 16454577--16454643 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
16454567 ATGTGCAATT
*
16454577 CAGGGGTACCAAAGTGCAAA
1 CAGGGGTACCAAAGTACAAA
* * *
16454597 TAGGGGCA-CATATA-TACAATT
1 CAGGGGTACCA-A-AGTACAA-A
16454618 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCAAAGTACAAA
16454638 CAGGGG
1 CAGGGG
16454644 CACATATGTG
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
19 2 0.06
20 18 0.51
21 13 0.37
22 2 0.06
ACGTcount: A:0.39, C:0.18, G:0.28, T:0.15
Consensus pattern (20 bp):
CAGGGGTACCAAAGTACAAA
Found at i:16454711 original size:123 final size:123
Alignment explanation
Indices: 16454492--16454740 Score: 392
Period size: 123 Copynumber: 2.0 Consensus size: 123
16454482 ATTCAAGTGC
* * * *
16454492 ATTCAAGGGTACCGAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGTATCGAAGAACAAAT
1 ATTCAAGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATTTAGGGGTACCGAAGAACAAAT
* *
16454557 AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTGCAAATAGGGGCACATATATACA
66 AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCACATATATACA
* *
16454615 ATTCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATTTAGGGGTACCGAAGTACAAAT
1 ATTCAAGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATTTAGGGGTACCGAAGAACAAAT
* *
16454680 AGGGGCACGTTTGTGCAATGT-AGGGGTACCAAAGTACAAACAGGGGCACATATATGCA
66 AGGGGCACGTATGTGCAAT-TCAGGGGTACCAAAGTACAAACAGGGGCACATATATACA
16454738 ATT
1 ATT
16454741 TAAAAATATT
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
123 114 0.99
124 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.20
Consensus pattern (123 bp):
ATTCAAGGGTACCAAAGTACAAACAGGGGCACATATGTGCAATTTAGGGGTACCGAAGAACAAAT
AGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGGGGCACATATATACA
Found at i:16457293 original size:21 final size:20
Alignment explanation
Indices: 16457267--16457306 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16457257 GGCTTGGCCA
16457267 CACTGTAGTTTTGAAAAATTT
1 CACTGT-GTTTTGAAAAATTT
* *
16457288 CACTGTTTTTTGAAGAATT
1 CACTGTGTTTTGAAAAATT
16457307 CCACGAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (20 bp):
CACTGTGTTTTGAAAAATTT
Found at i:16464340 original size:24 final size:24
Alignment explanation
Indices: 16464312--16464363 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
16464302 AACATAATAG
*
16464312 CTTTCATGTACATGGCTATGCATA
1 CTTTCATGAACATGGCTATGCATA
16464336 CTTTCATGAACATGGCTATGCATA
1 CTTTCATGAACATGGCTATGCATA
16464360 CTTT
1 CTTT
16464364 AAACATCAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.38
Consensus pattern (24 bp):
CTTTCATGAACATGGCTATGCATA
Found at i:16466079 original size:23 final size:25
Alignment explanation
Indices: 16466053--16466099 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
16466043 GATTATGCTT
16466053 AGTTCA-TTA-TTTCCATGCGTCAC
1 AGTTCAGTTATTTTCCATGCGTCAC
* *
16466076 AGTTTAGTTATTTTCTATGCGTCA
1 AGTTCAGTTATTTTCCATGCGTCA
16466100 AATATTGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 3 0.15
25 12 0.60
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (25 bp):
AGTTCAGTTATTTTCCATGCGTCAC
Found at i:16469298 original size:15 final size:16
Alignment explanation
Indices: 16469269--16469298 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16469259 CAAACATGCT
16469269 TTAACACATTATCAAA
1 TTAACACATTATCAAA
16469285 TTAACACA-TATCAA
1 TTAACACATTATCAA
16469299 CAATGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:16478053 original size:15 final size:15
Alignment explanation
Indices: 16478019--16478056 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
16478009 TCTTTTGAAC
16478019 TTTTATT-TCATTTA
1 TTTTATTGTCATTTA
* *
16478033 TGTTATTGTCTTTTA
1 TTTTATTGTCATTTA
16478048 TTTTATTGT
1 TTTTATTGT
16478057 TATTATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.16, C:0.05, G:0.08, T:0.71
Consensus pattern (15 bp):
TTTTATTGTCATTTA
Found at i:16481352 original size:42 final size:42
Alignment explanation
Indices: 16481299--16481398 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
16481289 CTATATGAAT
*
16481299 GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAATG
1 GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACG
* *
16481341 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACG
* *
16481383 GGCATTGAGTGTGCGA
1 GGCACTAAGTGTGCGA
16481399 TACCGAGAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.35, C:0.11, G:0.29, T:0.25
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACG
Found at i:16486159 original size:20 final size:20
Alignment explanation
Indices: 16486134--16486174 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
16486124 GGCTATTGGA
* *
16486134 TGGTTCAGTTTGGTTTGGTT
1 TGGTTCAGCTTGGGTTGGTT
16486154 TGGTTCAGCTTGGGTTGGTT
1 TGGTTCAGCTTGGGTTGGTT
16486174 T
1 T
16486175 TTGAGCTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.05, C:0.07, G:0.37, T:0.51
Consensus pattern (20 bp):
TGGTTCAGCTTGGGTTGGTT
Found at i:16494707 original size:47 final size:48
Alignment explanation
Indices: 16494595--16494708 Score: 149
Period size: 47 Copynumber: 2.4 Consensus size: 48
16494585 TCATAGTAAT
* **
16494595 GCAGATAAATTGCCACATAATCAAAATTGTGGACAAGCCACCAAAATC
1 GCAGATAAACTGCCACATAATCAAAACCGTGGACAAGCCACCAAAATC
* * * **
16494643 ACAAATATACTATCACATAATC-AAACCGTGGACAAGCCACCAAAATC
1 GCAGATAAACTGCCACATAATCAAAACCGTGGACAAGCCACCAAAATC
16494690 GCAGATAAACTGCCACATA
1 GCAGATAAACTGCCACATA
16494709 CTTCCACCTT
Statistics
Matches: 53, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
47 37 0.70
48 16 0.30
ACGTcount: A:0.45, C:0.25, G:0.12, T:0.18
Consensus pattern (48 bp):
GCAGATAAACTGCCACATAATCAAAACCGTGGACAAGCCACCAAAATC
Found at i:16496302 original size:8 final size:8
Alignment explanation
Indices: 16496286--16496319 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
16496276 AGGAAACATA
*
16496286 TTAAACAC
1 TTAACCAC
16496294 TTAACCAC
1 TTAACCAC
16496302 TTAACCAC
1 TTAACCAC
16496310 TTAACCAC
1 TTAACCAC
16496318 TT
1 TT
16496320 GATCACTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.29
Consensus pattern (8 bp):
TTAACCAC
Found at i:16507393 original size:27 final size:27
Alignment explanation
Indices: 16507021--16507391 Score: 421
Period size: 27 Copynumber: 13.8 Consensus size: 27
16507011 CCCAAAAATA
* *
16507021 GGTAAAATGACCGAAATACCACCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
* * * *
16507048 GGTAAAATGACCGAGATACTCCCACAG
1 GGTAAAATGACTGAAATACCCCCATAG
*
16507075 GGTAAAATGGCTGAAATA-CCCCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
* *
16507101 GGTAAAATGACTGAAATGCCCTCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
16507128 GGT-AAATGACTGAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
*
16507154 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
*
16507181 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
* * * *
16507208 TGTAGAATGACCGAAATACCCCTATAG
1 GGTAAAATGACTGAAATACCCCCATAG
* * *
16507235 GGTAGAATGACTAAAATACCCCTATAG
1 GGTAAAATGACTGAAATACCCCCATAG
* *
16507262 AGTAAAATGA-TCGAAATATCCCCATAG
1 GGTAAAATGACT-GAAATACCCCCATAG
* *
16507289 GGTAAAATAACCGAAATACCCCCATAG
1 GGTAAAATGACTGAAATACCCCCATAG
*
16507316 GATAGAAA-GA-TCGAAATACCCCCATAG
1 GGTA-AAATGACT-GAAATACCCCCATAG
* *
16507343 GGTAAAATGA-TCAGAATACCCCTATAG
1 GGTAAAATGACTGA-AATACCCCCATAG
**
16507370 GGTAAAATGACTGTTATACCCC
1 GGTAAAATGACTGAAATACCCC
16507392 TAGGAGATGA
Statistics
Matches: 296, Mismatches: 39, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
26 51 0.17
27 241 0.81
28 4 0.01
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCCCATAG
Found at i:16510565 original size:25 final size:25
Alignment explanation
Indices: 16510514--16510565 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
16510504 CAGCTCGTAT
* **
16510514 GAGCTTACCGATTTACAACTCGTGA
1 GAGCATACCGATTTACAACTCAAGA
* *
16510539 GAGCATACCGATTTATAGCTCAAGA
1 GAGCATACCGATTTACAACTCAAGA
16510564 GA
1 GA
16510566 AAGAGCATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (25 bp):
GAGCATACCGATTTACAACTCAAGA
Found at i:16512850 original size:41 final size:41
Alignment explanation
Indices: 16512800--16512913 Score: 149
Period size: 41 Copynumber: 2.8 Consensus size: 41
16512790 CCAGTGAATC
16512800 AATTCAGGCTTAAAGCCTAGCAGGCTAAGTGCCAATGAACTG
1 AATT-AGGCTTAAAGCCTAGCAGGCTAAGTGCCAATGAACTG
** *
16512842 AATTAGGC-TATAAGCCTAGCAGGCTAAGTGCCGGTGATCTG
1 AATTAGGCTTA-AAGCCTAGCAGGCTAAGTGCCAATGAACTG
* * *
16512883 AATCAGGCTTTAAGCCTAGCAGACTAAGTGC
1 AATTAGGCTTAAAGCCTAGCAGGCTAAGTGC
16512914 TAGTGAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
40 2 0.03
41 57 0.89
42 5 0.08
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (41 bp):
AATTAGGCTTAAAGCCTAGCAGGCTAAGTGCCAATGAACTG
Found at i:16514043 original size:14 final size:14
Alignment explanation
Indices: 16514024--16514051 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16514014 TTAGGCTAAC
16514024 ATGTTGGTGAAAAT
1 ATGTTGGTGAAAAT
16514038 ATGTTGGTGAAAAT
1 ATGTTGGTGAAAAT
16514052 GTGCTTATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (14 bp):
ATGTTGGTGAAAAT
Found at i:16517707 original size:50 final size:50
Alignment explanation
Indices: 16517632--16517824 Score: 197
Period size: 50 Copynumber: 3.7 Consensus size: 50
16517622 TTTCTTGTAT
* * * * ** *
16517632 TGCCAATGTCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGA
* ** * *
16517682 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGA
* *
16517732 TGCCAATGCCATGTCCCAGACATGTTCTTCCATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GA
*
16517788 TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
16517825 TCTCATCCTC
Statistics
Matches: 115, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
50 78 0.68
53 1 0.01
56 36 0.31
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGA
Found at i:16517766 original size:100 final size:104
Alignment explanation
Indices: 16517632--16517818 Score: 229
Period size: 100 Copynumber: 1.8 Consensus size: 104
16517622 TTTCTTGTAT
* * ** * *
16517632 TGCCAATGTCATATCCCAAATATGGTCTTACATGGGAGTTCTCAT-A-T-A-GGTGCCCATGCCA
1 TGCCAATGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATAACTAATGATGCCAATGCCA
16517693 TGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGA
66 TGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGA
* * * * *
16517732 TGCCAATGCCATGTCCCAGACATGTTCTTCCATGGGACCTCTCATAATCTCAATGATGCCAATTC
1 TGCCAATGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATAA-CT-AATGATGCCAATGC
16517797 CATGTCCCAGACATGGTCTTAC
64 CATGTCCCAGACATGGTCTTAC
16517819 ATGGGATCTC
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
103 1 0.01
105 1 0.01
106 30 0.43
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (104 bp):
TGCCAATGCCATATCCCAAACATGGTCTTACATGGGACCTCTCATAACTAATGATGCCAATGCCA
TGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGA
Found at i:16519173 original size:20 final size:18
Alignment explanation
Indices: 16519148--16519184 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
16519138 ACCTAACATG
16519148 AATTAAATTTAAGACATATT
1 AATTAAA-TTAA-ACATATT
16519168 AATTAAATTAAACATAT
1 AATTAAATTAAACATAT
16519185 CAACATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTAAATTAAACATATT
Found at i:16519425 original size:10 final size:10
Alignment explanation
Indices: 16519410--16519434 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16519400 AGGTAATGGG
16519410 GAAGAACAAT
1 GAAGAACAAT
16519420 GAAGAACAAT
1 GAAGAACAAT
16519430 GAAGA
1 GAAGA
16519435 GAGAAAAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.08, G:0.24, T:0.08
Consensus pattern (10 bp):
GAAGAACAAT
Found at i:16527218 original size:49 final size:50
Alignment explanation
Indices: 16527154--16527270 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 50
16527144 CAAAGCTATG
* * * * * *
16527154 TCCCAGACATAGTCTTACATTGGATGTT-TCTTGTA-ATGCCAATGTCATA
1 TCCCAAACATGGTCTTACATAGGA-GTTCTCATATAGATGCCAATGCCATA
* *
16527203 TCCCAAATATGGTCTTACATAGGAGTTCTCATATAGATGCCCATGCCATA
1 TCCCAAACATGGTCTTACATAGGAGTTCTCATATAGATGCCAATGCCATA
*
16527253 TCCCAGACATGGTCTTAC
1 TCCCAAACATGGTCTTAC
16527271 GGGGGACCTC
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
48 3 0.05
49 25 0.45
50 28 0.50
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (50 bp):
TCCCAAACATGGTCTTACATAGGAGTTCTCATATAGATGCCAATGCCATA
Found at i:16527327 original size:50 final size:51
Alignment explanation
Indices: 16527247--16527375 Score: 138
Period size: 50 Copynumber: 2.5 Consensus size: 51
16527237 AGATGCCCAT
* * *
16527247 GCCATATCCCAGACATGGTCTTACGGGGGACCTC-TCATCTC-GGTGTCAAC
1 GCCATGTCCCAGACATGGTCTTA-GGGGGACCTCTTAATCTCTGATGTCAAC
*
16527297 GCCATGTCCCAGACATGGTCTT-GGATGGGACCTCTTATAATCTCTATGATGTCAAT
1 GCCATGTCCCAGACATGGTCTTAGG--GGGACCTC-T-TAATCTC--TGATGTCAAC
16527353 GCCATGTCCCAGACATGGTCTTA
1 GCCATGTCCCAGACATGGTCTTA
16527376 CATGGGATCT
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
48 2 0.03
50 29 0.44
53 6 0.09
56 29 0.44
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (51 bp):
GCCATGTCCCAGACATGGTCTTAGGGGGACCTCTTAATCTCTGATGTCAAC
Found at i:16527381 original size:56 final size:50
Alignment explanation
Indices: 16527245--16527382 Score: 150
Period size: 56 Copynumber: 2.6 Consensus size: 50
16527235 ATAGATGCCC
* ** * *
16527245 ATGCCATATCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGTCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCGATGTCA
* **
16527295 ACGCCATGTCCCAGACATGGTCTTGGATGGGACCTCTTATAATCTCTATGATGTCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGACCTC---TAATCTC---GATGTCA
16527351 ATGCCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGA
16527383 TCTCATCCTC
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
50 30 0.42
53 6 0.08
56 35 0.49
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATCTCGATGTCA
Found at i:16527759 original size:30 final size:30
Alignment explanation
Indices: 16527725--16527781 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
16527715 CCTCGACTCT
* *
16527725 AACTTTGACAAAATTATAATTTTGCCCCTA
1 AACTTTAACAAAATTACAATTTTGCCCCTA
* *
16527755 AACTTTAACATAATTACACTTTTGCCC
1 AACTTTAACAAAATTACAATTTTGCCC
16527782 GAAAGCTCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAACAAAATTACAATTTTGCCCCTA
Found at i:16531081 original size:102 final size:102
Alignment explanation
Indices: 16530966--16531169 Score: 399
Period size: 102 Copynumber: 2.0 Consensus size: 102
16530956 ATAATTAAAA
16530966 GAAAAATTTATTCTGAGAGGAAATAATTTCAATTTTTCGGTCCCCCTACTTAAGATGAACAATGT
1 GAAAAATTTATTCTGAGAGGAAATAATTTCAATTTTTCGGTCCCCCTACTTAAGATGAACAATGT
*
16531031 CCTTATTATTAAAAGTAAATAGATACTATACACCAGG
66 CCTCATTATTAAAAGTAAATAGATACTATACACCAGG
16531068 GAAAAATTTATTCTGAGAGGAAATAATTTCAATTTTTCGGTCCCCCTACTTAAGATGAACAATGT
1 GAAAAATTTATTCTGAGAGGAAATAATTTCAATTTTTCGGTCCCCCTACTTAAGATGAACAATGT
16531133 CCTCATTATTAAAAGTAAATAGATACTATACACCAGG
66 CCTCATTATTAAAAGTAAATAGATACTATACACCAGG
16531170 TAGGATTCTA
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (102 bp):
GAAAAATTTATTCTGAGAGGAAATAATTTCAATTTTTCGGTCCCCCTACTTAAGATGAACAATGT
CCTCATTATTAAAAGTAAATAGATACTATACACCAGG
Found at i:16538811 original size:18 final size:18
Alignment explanation
Indices: 16538788--16538822 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
16538778 GAAAGAATCG
16538788 CTCACCTTTATAAACAGA
1 CTCACCTTTATAAACAGA
16538806 CTCACCTTTATAAACAG
1 CTCACCTTTATAAACAG
16538823 TCTTAAGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.29, G:0.06, T:0.29
Consensus pattern (18 bp):
CTCACCTTTATAAACAGA
Found at i:16548095 original size:33 final size:33
Alignment explanation
Indices: 16547978--16548128 Score: 140
Period size: 33 Copynumber: 4.5 Consensus size: 33
16547968 TACTCCCTGT
** *
16547978 TTGGTGTGATGAATGGTTTAGCTCTTGTGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTGTGAGCA
* * * *
16548011 TTTGTGTAATGGTTGGATAAGCTCTTTTGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTGTGAGCA
* *
16548044 TTAGTGTGATGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTGTGAGCA
* ** * **
16548077 TTGGTGTGTTGGAGGGATTGGCTCAGGTGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTGTGAGCA
*
16548110 TCTGGTGTGTTTGGTTGGA
1 T-TGGTGTG-ATGGTTGGA
16548129 CTAACAATGT
Statistics
Matches: 95, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
33 81 0.85
34 7 0.07
35 7 0.07
ACGTcount: A:0.17, C:0.09, G:0.35, T:0.39
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTTGTGAGCA
Found at i:16556165 original size:27 final size:27
Alignment explanation
Indices: 16555954--16556167 Score: 193
Period size: 27 Copynumber: 7.9 Consensus size: 27
16555944 AAAATTATCT
* *
16555954 AAATACCCTCTAAAGGTAAAATTACCG
1 AAATACCCTCGAAAGGTAAAATGACCG
* * *
16555981 AAATACCCTCGATAGGTAAAATAACTG
1 AAATACCCTCGAAAGGTAAAATGACCG
* * **
16556008 AAATACCCTCGATAGGCAAAAATGATTG
1 AAATACCCTCGAAAGG-TAAAATGACCG
* * *
16556036 AAA-ACCC-CTGAAGGGTAAAATTATCG
1 AAATACCCTC-GAAAGGTAAAATGACCG
* *
16556062 AAATACCCTTGATAA-GTAAAATGATCG
1 AAATACCCTCGA-AAGGTAAAATGACCG
*
16556089 AAATACCCTCGAAAGGTAAAAAT-ACCA
1 AAATACCCTCGAAAGGT-AAAATGACCG
* **
16556116 AAATACCTTCGACGGGTAAAATGACCG
1 AAATACCCTCGAAAGGTAAAATGACCG
*
16556143 AAATACCCTCAAAAGGTAAAATGAC
1 AAATACCCTCGAAAGGTAAAATGAC
16556168 TGTTATACCC
Statistics
Matches: 153, Mismatches: 26, Indels: 16
0.78 0.13 0.08
Matches are distributed among these distances:
26 19 0.12
27 117 0.76
28 17 0.11
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (27 bp):
AAATACCCTCGAAAGGTAAAATGACCG
Found at i:16556177 original size:81 final size:81
Alignment explanation
Indices: 16555968--16556169 Score: 214
Period size: 81 Copynumber: 2.5 Consensus size: 81
16555958 ACCCTCTAAA
* * * *
16555968 GGTAAAATTACCGAAATACCCTCGATAGGTAAAATAACTGAAATACCCTCGATAGGCAAAAATGA
1 GGTAAAATTACCGAAATACCCTCAAAAGGTAAAATGACTGAAATACCCTCGAAAGGCAAAAATGA
***
16556033 TTGAAAACCCCTGAAG
66 CCAAAAACCCCTGAAG
* * * *
16556049 GGTAAAATTATCGAAATACCCTTGATAA-GTAAAATGA-TCGAAATACCCTCGAAAGGTAAAAAT
1 GGTAAAATTACCGAAATACCC-TCAAAAGGTAAAATGACT-GAAATACCCTCGAAAGGCAAAAAT
* *
16556112 -ACCAAAATA-CCTTCGACG
64 GACCAAAA-ACCCCT-GAAG
*
16556130 GGTAAAATGACCGAAATACCCTCAAAAGGTAAAATGACTG
1 GGTAAAATTACCGAAATACCCTCAAAAGGTAAAATGACTG
16556170 TTATACCCCT
Statistics
Matches: 98, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
80 12 0.12
81 83 0.85
82 3 0.03
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (81 bp):
GGTAAAATTACCGAAATACCCTCAAAAGGTAAAATGACTGAAATACCCTCGAAAGGCAAAAATGA
CCAAAAACCCCTGAAG
Found at i:16556408 original size:26 final size:26
Alignment explanation
Indices: 16556314--16556410 Score: 106
Period size: 26 Copynumber: 3.7 Consensus size: 26
16556304 AGGGGAAGTA
** * *
16556314 TACTG-TACTGGTGGCTTTGCCACAT
1 TACTGTTACTGGCAGCTTTGCTACGT
*
16556339 ATACTGTTACTGGCAGCCTTGCTACGT
1 -TACTGTTACTGGCAGCTTTGCTACGT
* *
16556366 TACTATTACTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTACGT
*
16556392 TACTGTTACTGGTAGCTTT
1 TACTGTTACTGGCAGCTTT
16556411 ACTGCAATAT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 45 0.75
27 15 0.25
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTACGT
Found at i:16556415 original size:26 final size:26
Alignment explanation
Indices: 16556340--16556415 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
16556330 TTGCCACATA
* *
16556340 TACTGTTACTGGCAGCCTTGCTACGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
*
16556366 TACTATTACTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* *
16556392 TACTGTTACTGGTAGCTTTACTGC
1 TACTGTTACTGGCAGCTTTGCTGC
16556416 AATATTGGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCGT
Found at i:16557085 original size:20 final size:20
Alignment explanation
Indices: 16557060--16557102 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
16557050 TTCCAAACTT
*
16557060 AAGAAACGAGTTTTATCAAC
1 AAGAAACGAGTCTTATCAAC
*
16557080 AAGAAATGAGTCTTATCAAC
1 AAGAAACGAGTCTTATCAAC
16557100 AAG
1 AAG
16557103 TCTAAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (20 bp):
AAGAAACGAGTCTTATCAAC
Found at i:16560437 original size:10 final size:10
Alignment explanation
Indices: 16560422--16560464 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
16560412 ATTAAAATTT
16560422 TTAATTTTAA
1 TTAATTTTAA
16560432 TTAATTTTATAA
1 TTAA-TTT-TAA
* *
16560444 TAAATTTTGA
1 TTAATTTTAA
16560454 TTAATTTTAA
1 TTAATTTTAA
16560464 T
1 T
16560465 CATTTTCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
10 15 0.56
11 6 0.22
12 6 0.22
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:16566169 original size:12 final size:12
Alignment explanation
Indices: 16566154--16566179 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16566144 AGAACAATAG
16566154 AAAGAAATCTAA
1 AAAGAAATCTAA
16566166 AAAGAAATCTAA
1 AAAGAAATCTAA
16566178 AA
1 AA
16566180 CCTAAGAACG
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:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (12 bp):
AAAGAAATCTAA
Found at i:16567723 original size:24 final size:24
Alignment explanation
Indices: 16567656--16567733 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
16567646 AAATGCAAAT
16567656 TAATGATTTTAGGCTCGAGGTTTA
1 TAATGATTTTAGGCTCGAGGTTTA
* ** * **
16567680 TAATGAGGTCCA-TCAAGAGGTTTA
1 TAATGA-TTTTAGGCTCGAGGTTTA
16567704 TAATGATTTTAGGCTCGAGGTTTA
1 TAATGATTTTAGGCTCGAGGTTTA
16567728 TAATGA
1 TAATGA
16567734 GGCCAAATTT
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.37
Consensus pattern (24 bp):
TAATGATTTTAGGCTCGAGGTTTA
Found at i:16588893 original size:50 final size:50
Alignment explanation
Indices: 16588833--16588938 Score: 122
Period size: 50 Copynumber: 2.1 Consensus size: 50
16588823 TAATGAGGTT
* * ** * *
16588833 ATGAGAGGTCCCACGTCAGACCTTGTTTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACATAAGACCACGTTTGGGACATGGCATGGGCACCGAG
* * * *
16588883 ATGAGTGGTCCCTCATAAGACCACGTTTGGGACATGGCATGGGCACCAAT
1 ATGAGAGGTCCCACATAAGACCACGTTTGGGACATGGCATGGGCACCGAG
16588933 ATGAGA
1 ATGAGA
16588939 ACTCTCATGT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAGACCACGTTTGGGACATGGCATGGGCACCGAG
Found at i:16590642 original size:20 final size:20
Alignment explanation
Indices: 16590608--16590721 Score: 86
Period size: 20 Copynumber: 5.7 Consensus size: 20
16590598 CCAATTTGTG
* *
16590608 GACAAGCCACTAGTAATGCA
1 GACAAGCTACCAGTAATGCA
* *
16590628 GACAAGTTACCAGTAGTGCA
1 GACAAGCTACCAGTAATGCA
* *
16590648 GGCAAGCTGCCAGTAATGCA
1 GACAAGCTACCAGTAATGCA
* * * *
16590668 GATAAACTGCCAATCAA-GCA
1 GACAAGCTACCAGT-AATGCA
* **
16590688 GACAAGCTGCCAGTAATGTG
1 GACAAGCTACCAGTAATGCA
*
16590708 GACAAGCCACCAGT
1 GACAAGCTACCAGT
16590722 GATGTAGATA
Statistics
Matches: 73, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
19 2 0.03
20 69 0.95
21 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.24, T:0.16
Consensus pattern (20 bp):
GACAAGCTACCAGTAATGCA
Found at i:16601634 original size:20 final size:20
Alignment explanation
Indices: 16601609--16601659 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
16601599 AAAAATCCAT
*
16601609 AGTATCGATACATTTAACCA
1 AGTATCGATACATCTAACCA
*
16601629 AGTATCGATACCTCTAACCA
1 AGTATCGATACATCTAACCA
*
16601649 AATATCGATAC
1 AGTATCGATAC
16601660 CAATTTGAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (20 bp):
AGTATCGATACATCTAACCA
Found at i:16603762 original size:36 final size:36
Alignment explanation
Indices: 16603701--16603785 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 36
16603691 ACCTTGAATC
* *
16603701 TTTC-ATTTGTAATGTTATTTAAGTAAA-TATATAGT
1 TTTCTATTTATAATATTATTTAAGTAAATTATATA-T
*
16603736 TTTCTATTTATAATATTATTTAAGTAAATTTTATAT
1 TTTCTATTTATAATATTATTTAAGTAAATTATATAT
16603772 TATT-TATTTATAAT
1 T-TTCTATTTATAAT
16603786 GTGGTTTAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
35 4 0.09
36 33 0.75
37 7 0.16
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.56
Consensus pattern (36 bp):
TTTCTATTTATAATATTATTTAAGTAAATTATATAT
Found at i:16603794 original size:36 final size:36
Alignment explanation
Indices: 16603717--16603796 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
16603707 TTGTAATGTT
*
16603717 ATTTAAGTAAATATATAGTTTTCTATTTATAATATT
1 ATTTAAGTAAATATATAGTTTTCTATTTATAATATG
* *
16603753 ATTTAAGTAAATTTTATA-TTATT-TATTTATAATGTG
1 ATTTAAGTAAA-TATATAGTT-TTCTATTTATAATATG
*
16603789 GTTTAAGT
1 ATTTAAGT
16603797 TTTAGATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 31 0.82
37 7 0.18
ACGTcount: A:0.36, C:0.01, G:0.09, T:0.54
Consensus pattern (36 bp):
ATTTAAGTAAATATATAGTTTTCTATTTATAATATG
Found at i:16608843 original size:20 final size:20
Alignment explanation
Indices: 16608797--16608851 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
16608787 ACGGGATTTT
* * * *
16608797 CACTTTGATGCCCCTTTTTG
1 CACTTCGATGCCCCTGTATA
*
16608817 CAGTTCGATGCCCCTGTATA
1 CACTTCGATGCCCCTGTATA
*
16608837 CACTTCGGTGCCCCT
1 CACTTCGATGCCCCT
16608852 ATTCGCACTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.13, C:0.35, G:0.18, T:0.35
Consensus pattern (20 bp):
CACTTCGATGCCCCTGTATA
Found at i:16610558 original size:21 final size:20
Alignment explanation
Indices: 16610533--16610574 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
16610523 TGAATCGAGT
16610533 TCAATTCAGCTCAATTTTAGC
1 TCAA-TCAGCTCAATTTTAGC
* *
16610554 TCAATGAGCTCATTTTTAGC
1 TCAATCAGCTCAATTTTAGC
16610574 T
1 T
16610575 TACTTTAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (20 bp):
TCAATCAGCTCAATTTTAGC
Found at i:16618091 original size:39 final size:39
Alignment explanation
Indices: 16617994--16618092 Score: 153
Period size: 39 Copynumber: 2.5 Consensus size: 39
16617984 ATTCACTTTT
* * *
16617994 AAGCATGTATCACATTACGCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
16618033 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
16618072 AAGCATATATCATAGTACTCA
1 AAGCATATATCACAATACTCA
16618093 AAAACATGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.43, C:0.22, G:0.06, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:16618359 original size:28 final size:28
Alignment explanation
Indices: 16618319--16618412 Score: 181
Period size: 28 Copynumber: 3.4 Consensus size: 28
16618309 TTATTTCCCT
16618319 TCACATGTCCCATTGAATGGAACTTAGC
1 TCACATGTCCCATTGAATGGAACTTAGC
16618347 TCACATGTCCCATTGAATGGAACTTAGC
1 TCACATGTCCCATTGAATGGAACTTAGC
16618375 TCACATGTCCCATTGAATGGAACTTAGC
1 TCACATGTCCCATTGAATGGAACTTAGC
16618403 TCACAT-TCCC
1 TCACATGTCCC
16618413 TTATTCCTCT
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
27 4 0.06
28 62 0.94
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (28 bp):
TCACATGTCCCATTGAATGGAACTTAGC
Found at i:16619192 original size:131 final size:132
Alignment explanation
Indices: 16619016--16619281 Score: 462
Period size: 131 Copynumber: 2.0 Consensus size: 132
16619006 AAGCAATAAG
* * * *
16619016 AAACATAAGCCTAAGTTGTAATAGCCCGTTTTTAGTAAAATCAGAACAGTGGTTTTAAGACCAAA
1 AAACATAAGCCTAAGCTGTAACAACCCGTTTTCAGTAAAATCAGAACAGTGGTTTTAAGACCAAA
*
16619081 AATCCAATGTAAAAATATTCATTTTATTACTAATTTAATGTCTACAGTATTTTAGCAAGCTCATA
66 AATCCAATGTAAAAATATTCATTTTATTACTAATTTAATGTCTACAGTATTTTAGCAAGATCATA
16619146 TA
131 TA
16619148 AAACATAAGCCT-AGCTGTAACAACCCGTTTTCAGTAAAATCAGAACAGTGGTTTTAAGACCAAA
1 AAACATAAGCCTAAGCTGTAACAACCCGTTTTCAGTAAAATCAGAACAGTGGTTTTAAGACCAAA
* *
16619212 AATCCAATGTGAAAATATTTATTTTATTACTAATTTAATGTCTACAGTATTTTAGCAAGATCATA
66 AATCCAATGTAAAAATATTCATTTTATTACTAATTTAATGTCTACAGTATTTTAGCAAGATCATA
16619277 TA
131 TA
16619279 AAA
1 AAA
16619282 ATTTCGTTAA
Statistics
Matches: 127, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
131 115 0.91
132 12 0.09
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (132 bp):
AAACATAAGCCTAAGCTGTAACAACCCGTTTTCAGTAAAATCAGAACAGTGGTTTTAAGACCAAA
AATCCAATGTAAAAATATTCATTTTATTACTAATTTAATGTCTACAGTATTTTAGCAAGATCATA
TA
Found at i:16621589 original size:12 final size:12
Alignment explanation
Indices: 16621572--16621602 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
16621562 TGAGGCAGTT
16621572 ACATGGCCTAGC
1 ACATGGCCTAGC
16621584 ACATGGCCTAGC
1 ACATGGCCTAGC
*
16621596 ATATGGC
1 ACATGGC
16621603 TTGGAACAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.19
Consensus pattern (12 bp):
ACATGGCCTAGC
Found at i:16627983 original size:61 final size:61
Alignment explanation
Indices: 16627867--16627994 Score: 168
Period size: 61 Copynumber: 2.1 Consensus size: 61
16627857 TTTTTAAATA
* * * * * *
16627867 TTTAGAATTAGAATTAAATTAATAACTATTTGTAATTATTGAGAGATAAATTTATTGAGTT
1 TTTAGAATTAGAATTAAAATAACAAATATTTGTAAATATTAAGAGATAAATTTATTGACTT
* *
16627928 TATTAGAATTAGAATTAAAATAACAAAT-TTTGTAAATATTAATAGTTAAATTTATTGACTT
1 T-TTAGAATTAGAATTAAAATAACAAATATTTGTAAATATTAAGAGATAAATTTATTGACTT
16627989 TTTAGA
1 TTTAGA
16627995 TTTAAGATCA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
60 5 0.09
61 30 0.52
62 23 0.40
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (61 bp):
TTTAGAATTAGAATTAAAATAACAAATATTTGTAAATATTAAGAGATAAATTTATTGACTT
Found at i:16630169 original size:17 final size:17
Alignment explanation
Indices: 16630149--16630182 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
16630139 ATTATTTTAA
16630149 TATT-TATATTATAGTAT
1 TATTATATATT-TAGTAT
16630166 TATTATATATTTAGTAT
1 TATTATATATTTAGTAT
16630183 ATGTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TATTATATATTTAGTAT
Found at i:16633307 original size:13 final size:13
Alignment explanation
Indices: 16633289--16633314 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16633279 ATTTCAAAAA
16633289 AAATCAAATATTT
1 AAATCAAATATTT
16633302 AAATCAAATATTT
1 AAATCAAATATTT
16633315 CAAAATATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATCAAATATTT
Found at i:16633696 original size:43 final size:43
Alignment explanation
Indices: 16633632--16633725 Score: 170
Period size: 43 Copynumber: 2.2 Consensus size: 43
16633622 ACCTACAGGG
16633632 GACACACGGTAGTGTCACCTGGCCGTGTGTCACACACGGATGA
1 GACACACGGTAGTGTCACCTGGCCGTGTGTCACACACGGATGA
* *
16633675 GACACACGGTCGTGTCGCCTGGCCGTGTGTCACACACGGATGA
1 GACACACGGTAGTGTCACCTGGCCGTGTGTCACACACGGATGA
16633718 GACACACG
1 GACACACG
16633726 CCCGTGTCTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.22, C:0.30, G:0.31, T:0.17
Consensus pattern (43 bp):
GACACACGGTAGTGTCACCTGGCCGTGTGTCACACACGGATGA
Found at i:16638834 original size:30 final size:30
Alignment explanation
Indices: 16638800--16639076 Score: 210
Period size: 30 Copynumber: 9.2 Consensus size: 30
16638790 TCATCGACCA
* *
16638800 ATGAAATGGGATAGCTTCGACTATCGAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* *
16638830 ATGAAAATGGG-TAGCTTCGGCTGTCAAATT
1 ATGAAAA-GGGATAGCTTCGACTATCAAATT
*
16638860 ATGAAAAGGGATAGCTTC-AGCTATCAAATC
1 ATGAAAAGGGATAGCTTCGA-CTATCAAATT
* * * * *
16638890 ATGAAAAAGAAT-GGTGAT-GACCATCAAA-A
1 ATGAAAAGGGATAGCT--TCGACTATCAAATT
* ** * *
16638919 ATGAAAAGGGAT-GGTGAT-GACCGTCGAACT
1 ATGAAAAGGGATAGCT--TCGACTATCAAATT
*
16638949 ATGAAAAGGGATAGCTTCGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* *
16638979 ATGAAAAGGGATAGCTTCGGCTATGAAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* * * *
16639009 ATGAAAAGGGAT-GGTGACGACCATCAAAAT
1 ATGAAAAGGGATAGCT-TCGACTATCAAATT
* *
16639039 CTGAAAAGGGATAGCTTCGACTATCGAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
16639069 ATGGAAAA
1 AT-GAAAA
16639077 AGATGGTGAC
Statistics
Matches: 198, Mismatches: 37, Indels: 23
0.77 0.14 0.09
Matches are distributed among these distances:
29 32 0.16
30 152 0.77
31 14 0.07
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGACTATCAAATT
Found at i:16638932 original size:29 final size:30
Alignment explanation
Indices: 16638890--16638960 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
16638880 CTATCAAATC
* *
16638890 ATGAAAAAGAATGGTGATGACCATC-AAAA
1 ATGAAAAGGGATGGTGATGACCATCGAAAA
* **
16638919 ATGAAAAGGGATGGTGATGACCGTCGAACT
1 ATGAAAAGGGATGGTGATGACCATCGAAAA
16638949 ATGAAAAGGGAT
1 ATGAAAAGGGAT
16638961 AGCTTCGGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 22 0.61
30 14 0.39
ACGTcount: A:0.44, C:0.10, G:0.28, T:0.18
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGATGACCATCGAAAA
Found at i:16639013 original size:119 final size:120
Alignment explanation
Indices: 16638823--16639050 Score: 352
Period size: 119 Copynumber: 1.9 Consensus size: 120
16638813 GCTTCGACTA
* *
16638823 TCGAATTATGAAAATGGGTAGCTTCGGCTGTCAAATTATGAAAAGGGATAGCTTCAGCTATCAAA
1 TCGAACTATGAAAATGGGTAGCTTCGGCTATCAAATTATGAAAAGGGATAGCTTCAGCTATCAAA
*
16638888 TCATGAAAAAGAATGGTGATGACCATCAAAA-ATGAAAAGGGATGGTGATGACCG
66 TCATGAAAAAGAATGGTGACGACCATCAAAATATGAAAAGGGATGGTGATGACCG
* *
16638942 TCGAACTATGAAAA-GGGATAGCTTCGGCTATCAAATTATGAAAAGGGATAGCTTCGGCTATGAA
1 TCGAACTATGAAAATGGG-TAGCTTCGGCTATCAAATTATGAAAAGGGATAGCTTCAGCTATCAA
* * * *
16639006 ATTATGAAAAGGGATGGTGACGACCATCAAAATCTGAAAAGGGAT
65 ATCATGAAAAAGAATGGTGACGACCATCAAAATATGAAAAGGGAT
16639051 AGCTTCGACT
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
118 3 0.03
119 84 0.86
120 11 0.11
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.23
Consensus pattern (120 bp):
TCGAACTATGAAAATGGGTAGCTTCGGCTATCAAATTATGAAAAGGGATAGCTTCAGCTATCAAA
TCATGAAAAAGAATGGTGACGACCATCAAAATATGAAAAGGGATGGTGATGACCG
Found at i:16642124 original size:29 final size:29
Alignment explanation
Indices: 16642089--16642303 Score: 143
Period size: 29 Copynumber: 7.4 Consensus size: 29
16642079 TCATCGATCA
*
16642089 ATGAAAAGGGATAGCTGTGGTTATCGATT
1 ATGAAAAGGGATAGCTGTGGCTATCGATT
* ** * *
16642118 ATGAAAAGGGAT-GGTGACGATCATCGAAT
1 ATGAAAAGGGATAGCTGTGGCT-ATCGATT
*
16642147 ATGAAAAGGGATAGCT-TCGGCTATTGATT
1 ATGAAAAGGGATAGCTGT-GGCTATCGATT
* * *
16642176 ATGAAAAAGGATAGCTTTGGCTATTGATT
1 ATGAAAAGGGATAGCTGTGGCTATCGATT
* * * *
16642205 ATGAAAAGGGATAG-TGATGACCATCAACT
1 ATGAAAAGGGATAGCTG-TGGCTATCGATT
* * * *
16642234 ATGAAAAGGGAT-GGTGACGACCATCGATT
1 ATGAAAAGGGATAGCTG-TGGCTATCGATT
* * * *
16642263 AATGAAAAGGGATAG-TTTCGACCATCGAAT
1 -ATGAAAAGGGATAGCTGT-GGCTATCGATT
16642293 ATGAAAAGGGA
1 ATGAAAAGGGA
16642304 CAGTTACGAC
Statistics
Matches: 152, Mismatches: 25, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
28 7 0.05
29 116 0.76
30 28 0.18
31 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.28, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTGTGGCTATCGATT
Done.