Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 147 of 332
Found at i:48295242 original size:22 final size:22
Alignment explanation
Indices: 48295214--48295258 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
48295204 TTAGCCATAT
48295214 ATGCTTTCAATAGGTTCTCCAA
1 ATGCTTTCAATAGGTTCTCCAA
* *
48295236 ATGCTTTTAATGGGTTCTCCAA
1 ATGCTTTCAATAGGTTCTCCAA
48295258 A
1 A
48295259 CTACTTGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGCTTTCAATAGGTTCTCCAA
Found at i:48297598 original size:29 final size:31
Alignment explanation
Indices: 48297549--48297607 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
48297539 AATGTGTATC
* *
48297549 TATTTATTTGATGGATGAAAT-T-GAGATAG
1 TATTTATTTAATAGATGAAATGTGGAGATAG
48297578 TATTTATTATAATAGAT-AAATGTGGAGATA
1 TATTTATT-TAATAGATGAAATGTGGAGATA
48297608 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTGGAGATAG
Found at i:48297675 original size:13 final size:13
Alignment explanation
Indices: 48297657--48297682 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48297647 TAAGACCATA
48297657 GATAGGCTATGGC
1 GATAGGCTATGGC
48297670 GATAGGCTATGGC
1 GATAGGCTATGGC
48297683 AAATCGGATA
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:0.23, C:0.15, G:0.38, T:0.23
Consensus pattern (13 bp):
GATAGGCTATGGC
Found at i:48300017 original size:46 final size:46
Alignment explanation
Indices: 48299919--48300273 Score: 306
Period size: 46 Copynumber: 7.6 Consensus size: 46
48299909 CCTGTGCGCT
*** * * *
48299919 AGTGTAAGACCATGTCTGGGACATGGCATCAGCGACATTTTGTATA-CT
1 AGTGTAAGACCATGT-T-GGACATGGCATCAGCGTTGTTATG-AGAGCC
* *
48299967 AGTGTAAGACCTTGTTGGCCATGGCATCAGC-TATGTTATGAGAGCC
1 AGTGTAAGACCATGTTGGACATGGCATCAGCGT-TGTTATGAGAGCC
* *
48300013 AGTGTAAGACCATGTTGGACATGGCATCGGC-TACGTTATGAGAGCC
1 AGTGTAAGACCATGTTGGACATGGCATCAGCGT-TGTTATGAGAGCC
* **
48300059 AGTGTAAGACCATGTTGGACATGGCATCGGCGTTGGTTATGAGAATC
1 AGTGTAAGACCATGTTGGACATGGCATCAGCGTT-GTTATGAGAGCC
* * *
48300106 GGTGTAAGACCATGTTGGACATGGCATCAGCGTTGAT-TGTGAGCC
1 AGTGTAAGACCATGTTGGACATGGCATCAGCGTTGTTATGAGAGCC
* * ** *
48300151 AGTGTAAGACCATGTTGGACATGGTC-TCGGCATTGAGATGAGAGCT
1 AGTGTAAGACCATGTTGGACATGG-CATCAGCGTTGTTATGAGAGCC
* ** * * ** *
48300197 AGTGTAAGACCATGTCTGGGACATAGCATTGGCATCGACATGTGAGCC
1 AGTGTAAGACCATGT-T-GGACATGGCATCAGCGTTGTTATGAGAGCC
*
48300245 AATGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGT-T-GGACATGGCAT
48300274 TGGCAATTCA
Statistics
Matches: 263, Mismatches: 35, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
45 38 0.14
46 116 0.44
47 46 0.17
48 63 0.24
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACCATGTTGGACATGGCATCAGCGTTGTTATGAGAGCC
Found at i:48300169 original size:138 final size:141
Alignment explanation
Indices: 48299968--48300225 Score: 366
Period size: 138 Copynumber: 1.9 Consensus size: 141
48299958 TTGTATACTA
* * *
48299968 GTGTAAGACCTTGTTGGCCATGGCATCAGCTATGTTATGAGAGCCAGTGTAAGACCATGTTGGAC
1 GTGTAAGACCATGTTGGACATGGCATCAGCTATGATATGAGAGCCAGTGTAAGACCATGTTGGAC
** *
48300033 ATGG-CATCGGC-TACGTTATGAGAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCGTTG
66 ATGGTC-TCGGCAT-CGAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCGTTG
48300094 GTTATGAGAATCG
129 GTTATGAGAATCG
*
48300107 GTGTAAGACCATGTTGGACATGGCATCAGCGT-TGAT-TGTGAGCCAGTGTAAGACCATGTTGGA
1 GTGTAAGACCATGTTGGACATGGCATCAGC-TATGATATGAGAGCCAGTGTAAGACCATGTTGGA
* *
48300170 CATGGTCTCGGCATTGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATAGCAT
65 CATGGTCTCGGCATCGAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCAT
48300226 TGGCATCGAC
Statistics
Matches: 105, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
138 60 0.57
139 34 0.32
140 11 0.10
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (141 bp):
GTGTAAGACCATGTTGGACATGGCATCAGCTATGATATGAGAGCCAGTGTAAGACCATGTTGGAC
ATGGTCTCGGCATCGAGATGAGAGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCGTTGGT
TATGAGAATCG
Found at i:48306207 original size:45 final size:45
Alignment explanation
Indices: 48306111--48306474 Score: 398
Period size: 45 Copynumber: 7.9 Consensus size: 45
48306101 CATTTCATAT
48306111 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCTATGTTATGAGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGC-ATGTTATGAGA
48306157 GCCAGTGTAAGACCATGTTGGACATGGCATC-GCTATGTTATGAGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGC-ATGTTATGAGA
*
48306202 GCCAGTCTAAGACCATGTTGGACATGGCATCGGCATTGGTTATGAGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCA-T-GTTATGAGA
*
48306249 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCAT-TCACT-ATGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCATGTTA-TGA-GA
48306294 GCCAGTGTAAGACCATGTTGGACATGGCATCGGC--GTTCACT-ATGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCATGTT-A-TGA-GA
* * * ** *
48306339 GCCAGTGTAAGACCATGTTGGACATGGCCTCAGTATTGAGACGAGA
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCA-TGTTATGAGA
* * ** **
48306385 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATTTGA
1 GCCAGTGTAAGACCATG-TT-GGACATGGCATCGGCAT-GTTATGAGA
* * *
48306433 GCCAGTTTAAGACCATGTCTGGGACATGGCATTGGCAAGTTA
1 GCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCATGTTA
48306475 CCTTCTTGTG
Statistics
Matches: 277, Mismatches: 26, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
44 4 0.01
45 120 0.43
46 53 0.19
47 51 0.18
48 49 0.18
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (45 bp):
GCCAGTGTAAGACCATGTTGGACATGGCATCGGCATGTTATGAGA
Found at i:48306261 original size:92 final size:92
Alignment explanation
Indices: 48306111--48306464 Score: 409
Period size: 92 Copynumber: 3.8 Consensus size: 92
48306101 CATTTCATAT
48306111 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCTAT-GTTATGAGAGCCAGTGTAAGACCATGT
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCT-TCGTTATGAGAGCCAGTGTAAGACCATGT
*
48306175 TGGACATGGCATC-GCTATGTTATGAGA
65 TGGACATGGCATCAGCTATGTCATGAGA
* *
48306202 GCCAGTCTAAGACCATGTTGGACATGGCATCGGCATTGGTTATGAGAGCCAGTGTAAGACCATGT
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGC-TTCGTTATGAGAGCCAGTGTAAGACCATGT
*
48306267 TGGACATGGCATCGGC-AT-TCACT-ATGA
65 TGGACATGGCATCAGCTATGTCA-TGA-GA
**
48306294 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCGTTCACTAT--GAGCCAGTGTAAGACCATGT
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGC-TTCGTTATGAGAGCCAGTGTAAGACCATGT
* ** *
48306357 TGGACATGGCCTCAG-TATTGAGACGAGA
65 TGGACATGGCATCAGCTA-TGTCATGAGA
* * ** ** *
48306385 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATTTGAGCCAGTTTAAGACCATG
1 GCCAGTGTAAGACCATG-TT-GGACATGGCATCGGCTTCGTTATGAGAGCCAGTGTAAGACCATG
48306450 TCTGGGACATGGCAT
64 T-T-GGACATGGCAT
48306465 TGGCAAGTTA
Statistics
Matches: 229, Mismatches: 19, Indels: 25
0.84 0.07 0.09
Matches are distributed among these distances:
90 34 0.15
91 56 0.24
92 92 0.40
93 17 0.07
94 19 0.08
95 1 0.00
96 10 0.04
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (92 bp):
GCCAGTGTAAGACCATGTTGGACATGGCATCGGCTTCGTTATGAGAGCCAGTGTAAGACCATGTT
GGACATGGCATCAGCTATGTCATGAGA
Found at i:48306318 original size:137 final size:136
Alignment explanation
Indices: 48306111--48306464 Score: 427
Period size: 137 Copynumber: 2.6 Consensus size: 136
48306101 CATTTCATAT
*
48306111 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCTATGTTA-TGA-GAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGC-AT-TCACT-ATGAGCCAGTGTAAGACCATG
*
48306174 TTGGACATGGCATC-GCTATGTT-A-TGA-GAGCCAGTCTAAGACCATGTTGGACATGGCATCGG
63 TTGGACATGGCATCGGC---GTTCACT-ATGAGCCAGTCTAAGACCATGTTGGACATGGCATCAG
*
48306235 CATTG-GTTATGAGA
124 CATTGAG--ACGAGA
48306249 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTCACTATGAGCCAGTGTAAGACCATGTTG
1 GCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTCACTATGAGCCAGTGTAAGACCATGTTG
* * *
48306314 GACATGGCATCGGCGTTCACTATGAGCCAGTGTAAGACCATGTTGGACATGGCCTCAGTATTGAG
66 GACATGGCATCGGCGTTCACTATGAGCCAGTCTAAGACCATGTTGGACATGGCATCAGCATTGAG
48306379 ACGAGA
131 ACGAGA
* * * *
48306385 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGC-CTCGACATTTGAGCCAGTTTAAGACCAT
1 GCCAGTGTAAGACCATG-TT-GGACATGGCATCGGCATTC-AC-TATGAGCCAGTGTAAGACCAT
48306449 GTCTGGGACATGGCAT
62 GT-T-GGACATGGCAT
48306465 TGGCAAGTTA
Statistics
Matches: 193, Mismatches: 10, Indels: 23
0.85 0.04 0.10
Matches are distributed among these distances:
135 3 0.02
136 26 0.13
137 77 0.40
138 54 0.28
139 21 0.11
140 1 0.01
141 11 0.06
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (136 bp):
GCCAGTGTAAGACCATGTTGGACATGGCATCGGCATTCACTATGAGCCAGTGTAAGACCATGTTG
GACATGGCATCGGCGTTCACTATGAGCCAGTCTAAGACCATGTTGGACATGGCATCAGCATTGAG
ACGAGA
Found at i:48311127 original size:46 final size:46
Alignment explanation
Indices: 48311077--48311205 Score: 206
Period size: 46 Copynumber: 2.8 Consensus size: 46
48311067 TGGTTGAGCA
*
48311077 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
48311123 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
48311169 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48311206 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 2 0.03
46 75 0.97
ACGTcount: A:0.19, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:48322907 original size:17 final size:16
Alignment explanation
Indices: 48322883--48322916 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
48322873 GATTGAATTT
*
48322883 AAATAATGATTGTATG
1 AAATAATGAATGTATG
48322899 AAATGAATGAATGTATG
1 AAAT-AATGAATGTATG
48322916 A
1 A
48322917 GAAAAGTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (16 bp):
AAATAATGAATGTATG
Found at i:48333707 original size:50 final size:51
Alignment explanation
Indices: 48333518--48333716 Score: 330
Period size: 51 Copynumber: 3.9 Consensus size: 51
48333508 CGGATACATG
*
48333518 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
48333569 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
48333620 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACGAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
*
48333671 GTGGCCTTCA-TTAGTACCACACTTGTGTCCAAAGCTATTTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTA-TTTTATTC
48333717 CTAAGGTTCA
Statistics
Matches: 141, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
50 27 0.19
51 114 0.81
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:48333784 original size:24 final size:24
Alignment explanation
Indices: 48333752--48333851 Score: 155
Period size: 24 Copynumber: 4.0 Consensus size: 24
48333742 ACTTAGCCCA
48333752 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
48333776 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
48333800 CACATTGCCATGGACTTATTTCACTTAG
1 ---A-TGCCATGGACTTATTTCACTTAG
*
48333828 ATGCCATGGTCTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
48333852 CACAATGTCG
Statistics
Matches: 71, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
24 46 0.65
25 1 0.01
27 1 0.01
28 23 0.32
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:48333797 original size:52 final size:52
Alignment explanation
Indices: 48333740--48333858 Score: 211
Period size: 52 Copynumber: 2.3 Consensus size: 52
48333730 AGGAAATTTC
*
48333740 TCACTTAGCCCAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
* *
48333792 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
48333844 TCACTTAGCACAATG
1 TCACTTAGCACAATG
48333859 TCGTATCCTA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.35
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
Found at i:48333817 original size:28 final size:26
Alignment explanation
Indices: 48333740--48333852 Score: 153
Period size: 24 Copynumber: 4.3 Consensus size: 26
48333730 AGGAAATTTC
48333740 TCACTTAGCCCAATGCCATGGACTTATT
1 TCACTTAG-CC-ATGCCATGGACTTATT
48333768 TCACTTAG--ATGCCATGGACTTATT
1 TCACTTAGCCATGCCATGGACTTATT
48333792 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGC-CA-TGCCATGGACTTATT
*
48333820 TCACTTAG--ATGCCATGGTCTTATT
1 TCACTTAGCCATGCCATGGACTTATT
48333844 TCACTTAGC
1 TCACTTAGC
48333853 ACAATGTCGT
Statistics
Matches: 79, Mismatches: 1, Indels: 13
0.85 0.01 0.14
Matches are distributed among these distances:
24 46 0.58
25 1 0.01
27 1 0.01
28 31 0.39
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (26 bp):
TCACTTAGCCATGCCATGGACTTATT
Found at i:48335992 original size:28 final size:28
Alignment explanation
Indices: 48335952--48336010 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
48335942 CTTGCAATGA
* *
48335952 AAACATCGCTTTAGCTTTTAATCTAGCT
1 AAACATCGCTTTAACTTTTAATCTAACT
48335980 AAACATCGCTTTAACTTTTAATCTAACT
1 AAACATCGCTTTAACTTTTAATCTAACT
48336008 AAA
1 AAA
48336011 ATTAGATCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (28 bp):
AAACATCGCTTTAACTTTTAATCTAACT
Found at i:48338931 original size:43 final size:42
Alignment explanation
Indices: 48338769--48338934 Score: 147
Period size: 43 Copynumber: 3.9 Consensus size: 42
48338759 ACATAGGATC
*
48338769 CGATATGTGTTTACATGTAAGACCACA-TCTGGGACATTGGCAT
1 CGATATGTGATTACATGTAAGACCA-AGTCTGGGACA-TGGCAT
* * ** * *
48338812 CGATTTGAGATTTATGTGTAAGATCATGTCTGGGACATCGGCAT
1 CGATATGTGA-TTACATGTAAGACCAAGTCTGGGACAT-GGCAT
* * * **
48338856 C-ATATTTGATTTCATCTAAGACCCTGTCTGGGACAGTGGCAT
1 CGATATGTGATTACATGTAAGACCAAGTCTGGGACA-TGGCAT
* *
48338898 CGATATCTGATTACATGTAAGACCAAGTTTGGGACAT
1 CGATATGTGATTACATGTAAGACCAAGTCTGGGACAT
48338935 TGGTATTGTA
Statistics
Matches: 96, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
42 27 0.28
43 42 0.44
44 27 0.28
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (42 bp):
CGATATGTGATTACATGTAAGACCAAGTCTGGGACATGGCAT
Found at i:48339147 original size:24 final size:26
Alignment explanation
Indices: 48339096--48339147 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 26
48339086 ATGTGGACTT
*
48339096 ATGAAATATGTATGAAGTATACGAGA
1 ATGAAATATGTATGAAGTATAAGAGA
* *
48339122 ATGAAATGTGT-T-AAGTATAAGTGA
1 ATGAAATATGTATGAAGTATAAGAGA
48339146 AT
1 AT
48339148 TATGCACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 12 0.52
25 1 0.04
26 10 0.43
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.31
Consensus pattern (26 bp):
ATGAAATATGTATGAAGTATAAGAGA
Found at i:48342741 original size:48 final size:48
Alignment explanation
Indices: 48342697--48342872 Score: 248
Period size: 48 Copynumber: 3.7 Consensus size: 48
48342687 CTCATATCGG
* *
48342697 TGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATC-A
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA
* *
48342744 T-CATCGATGCCATGTACCAGACATGGTCTTACACTGGCACACATATTAA
1 TGC--CGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA
* *
48342793 TGCCGATGCCATGTCCCAGATATGGTTTTACACTGGCACACATATCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA
* *
48342841 TGCCGATGCAATGTCCCAGACATGGTTTTACA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACA
48342873 TGGGATCTAA
Statistics
Matches: 115, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 110 0.96
49 2 0.02
50 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAA
Found at i:48348380 original size:27 final size:27
Alignment explanation
Indices: 48348230--48348370 Score: 210
Period size: 27 Copynumber: 5.2 Consensus size: 27
48348220 TAAGTTGTAA
* *
48348230 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
48348257 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
** *
48348284 AATTATTGAAATACCCCTATAGGATAG
1 AATTACCGAAATACCCCTATAGGGTAG
* *
48348311 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
*
48348338 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
48348365 AATTAC
1 AATTAC
48348371 TGAGACACCC
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTATAGGGTAG
Found at i:48348381 original size:54 final size:54
Alignment explanation
Indices: 48348233--48348394 Score: 209
Period size: 54 Copynumber: 3.0 Consensus size: 54
48348223 GTTGTAAAAT
* * * * *
48348233 TACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
** *
48348287 TATTGAAATACCCCTATAGGATAGAATTACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
* * * *
48348341 TACCGAAATACCCCTATAGGGTAGAATTACTGAGACACCCTTGTGGGGTA-AAA
1 TACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
48348394 T
1 T
48348395 TAGCAATTTT
Statistics
Matches: 93, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
53 4 0.04
54 89 0.96
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (54 bp):
TACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
Found at i:48348389 original size:27 final size:27
Alignment explanation
Indices: 48348230--48348396 Score: 181
Period size: 27 Copynumber: 6.2 Consensus size: 27
48348220 TAAGTTGTAA
* *
48348230 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
48348257 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * * *
48348284 AATTATTGAAATACCCCTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
48348311 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
48348338 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * * *
48348365 AATTACTGAGACACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
48348392 AATTA
1 AATTA
48348397 GCAATTTTGC
Statistics
Matches: 119, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 119 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:48348396 original size:81 final size:81
Alignment explanation
Indices: 48348226--48348396 Score: 243
Period size: 81 Copynumber: 2.1 Consensus size: 81
48348216 TGGATAAGTT
* *
48348226 GTAAAATTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTATT
1 GTAAAATTACCGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACT
*
48348291 GAAATACCCCTATAGG
66 GAAACACCCCTATAGG
* * * *
48348307 ATAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACT
1 GTAAAATTACCGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACT
* * * *
48348372 GAGACACCCTTGTGGG
66 GAAACACCCCTATAGG
48348388 GTAAAATTA
1 GTAAAATTA
48348397 GCAATTTTGC
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
GTAAAATTACCGAAATACCCCTGTAAGGTAGAAATACCGAAATACCCCTATAGGGTAGAATTACT
GAAACACCCCTATAGG
Found at i:48350109 original size:18 final size:18
Alignment explanation
Indices: 48350086--48350144 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
48350076 TAGCCCATTT
48350086 CAGTAACAGTAATCAGTG
1 CAGTAACAGTAATCAGTG
* *
48350104 CAGTAAC-TTAGATCAATG
1 CAGTAACAGTA-ATCAGTG
* * *
48350122 CAATAATAGTAACCAGTG
1 CAGTAACAGTAATCAGTG
48350140 CAGTA
1 CAGTA
48350145 TGCAAGAAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
17 2 0.06
18 27 0.87
19 2 0.06
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (18 bp):
CAGTAACAGTAATCAGTG
Found at i:48351187 original size:29 final size:27
Alignment explanation
Indices: 48351170--48351239 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
48351160 ATATTAAGTC
48351170 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
48351197 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
48351225 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
48351240 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:48351233 original size:28 final size:28
Alignment explanation
Indices: 48351170--48351265 Score: 131
Period size: 28 Copynumber: 3.4 Consensus size: 28
48351160 ATATTAAGTC
*
48351170 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
48351197 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
48351225 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
48351254 CGCACACTTAGT
1 CGCACACTTAGT
48351266 CCAATCTCAT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.35
28 23 0.37
29 17 0.27
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48359197 original size:29 final size:27
Alignment explanation
Indices: 48359179--48359248 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
48359169 ATATTAAGTC
48359179 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
48359206 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
48359234 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
48359249 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:48359242 original size:28 final size:28
Alignment explanation
Indices: 48359179--48359276 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
48359169 ATATTAAGTC
*
48359179 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
48359206 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
48359234 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
48359263 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48359277 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48363988 original size:6 final size:6
Alignment explanation
Indices: 48363958--48364240 Score: 116
Period size: 6 Copynumber: 45.7 Consensus size: 6
48363948 AAGAAGCATT
* * *
48363958 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * *
48364007 ATCAGA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAAA ATCAGA ATTAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * * *
48364056 ATCAGGTA A-CAAA ATCAAA ATCAGA ACCAGA ATCAGA ATCAG- GTGACAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * * *
48364106 ACCAAA ATCAGT ATCAGGTA AT-AAA ATCAGA ATCAAA ATTAGGTG AT-AGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * *
48364156 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
48364206 ATCAGA ATCAGT ATCAGA TAACAGA ATCAGA ATCA
1 ATCAGA ATCAGA ATCAGA -ATCAGA ATCAGA ATCA
48364241 AAATGTGAAT
Statistics
Matches: 203, Mismatches: 47, Indels: 54
0.67 0.15 0.18
Matches are distributed among these distances:
5 14 0.07
6 156 0.77
7 24 0.12
8 9 0.04
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:48364020 original size:37 final size:37
Alignment explanation
Indices: 48363967--48364060 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
48363957 TATCAGAACT
* *
48363967 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
48364004 AGAATCAGAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
48364041 AAAATCAGAATTAGTATCAG
1 AGAATCAGAATCAGAATCAG
48364061 GTAACAAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:48364060 original size:62 final size:62
Alignment explanation
Indices: 48363981--48364147 Score: 217
Period size: 62 Copynumber: 2.7 Consensus size: 62
48363971 TCAAAATGAG
* * * *
48363981 AATCAGAATCAGAATCAGGTGACAGAATCAGAATCAGAATTAGAATCAGAATTAGGTGACAA
1 AATCAGAATCAGTATCAGGTAACAAAATCAGAATCAGAATTAGAATCAGAATCAGGTGACAA
* * ** *
48364043 AATCAGAATTAGTATCAGGTAACAAAATCAAAATCAGAACCAGAATCAGAATCAGGTGACAG
1 AATCAGAATCAGTATCAGGTAACAAAATCAGAATCAGAATTAGAATCAGAATCAGGTGACAA
* * * *
48364105 AACCAAAATCAGTATCAGGTAATAAAATCAGAATCAAAATTAG
1 AATCAGAATCAGTATCAGGTAACAAAATCAGAATCAGAATTAG
48364148 GTGATAGAAT
Statistics
Matches: 88, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
62 88 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.19
Consensus pattern (62 bp):
AATCAGAATCAGTATCAGGTAACAAAATCAGAATCAGAATTAGAATCAGAATCAGGTGACAA
Found at i:48364087 original size:37 final size:37
Alignment explanation
Indices: 48364046--48364116 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
48364036 GTGACAAAAT
* * *
48364046 CAGAATTAGTATCAGGTAACAAAATCAAAATCAGAAC
1 CAGAATCAGAATCAGGTAACAAAACCAAAATCAGAAC
* *
48364083 CAGAATCAGAATCAGGTGACAGAACCAAAATCAG
1 CAGAATCAGAATCAGGTAACAAAACCAAAATCAG
48364117 TATCAGGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.49, C:0.18, G:0.17, T:0.15
Consensus pattern (37 bp):
CAGAATCAGAATCAGGTAACAAAACCAAAATCAGAAC
Found at i:48364106 original size:25 final size:25
Alignment explanation
Indices: 48364077--48364240 Score: 184
Period size: 25 Copynumber: 6.6 Consensus size: 25
48364067 AAATCAAAAT
* *
48364077 CAGAACCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* * *
48364102 CAGAACCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* * * * *
48364127 TAAAATCAGAATCAAAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
48364152 TAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
48364177 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
48364202 CAGAATCAGAATCAGTATCAGATAA
1 CAGAATCAGAATCAGAATCAGGTAA
48364227 CAGAATCAGAATCA
1 CAGAATCAGAATCA
48364241 AAATGTGAAT
Statistics
Matches: 115, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 115 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:48364165 original size:50 final size:50
Alignment explanation
Indices: 48364077--48364244 Score: 246
Period size: 50 Copynumber: 3.4 Consensus size: 50
48364067 AAATCAAAAT
* * * * *
48364077 CAGAACCAGAATCAGAATCAGGTGACAGAACCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
* * *
48364127 TAAAATCAGAATCAAAATTAGGTGATAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
* *
48364177 CAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGATAA
1 CAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
48364227 CAGAATCAGAATCAAAAT
1 CAGAATCAGAATCAAAAT
48364245 GTGAATGCAA
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 104 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (50 bp):
CAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
Found at i:48364416 original size:27 final size:26
Alignment explanation
Indices: 48364386--48364469 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 26
48364376 GTGATTGAGT
48364386 CACCAGATACAGATATTGTGGCAAAGC
1 CACCAGA-ACAGATATTGTGGCAAAGC
*
48364413 CACCAGAACAGATATTTGTGGCATAGC
1 CACCAGAACAGATA-TTGTGGCAAAGC
* * *
48364440 CACCAGAAATAGATAATATGGCAAAGC
1 CACCAG-AACAGATATTGTGGCAAAGC
48364467 CAC
1 CAC
48364470 TTAACAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 7 0.14
27 36 0.72
28 7 0.14
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (26 bp):
CACCAGAACAGATATTGTGGCAAAGC
Found at i:48365055 original size:27 final size:26
Alignment explanation
Indices: 48364993--48365056 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
48364983 CAGTCACTTG
*
48364993 CCCACAAGGGCAAAATAGTCATTTAA
1 CCCACAAGGGCAAAATAGTAATTTAA
* * * *
48365019 CACTCTAAGGGCAAAATGGTAATTCTAC
1 CCCAC-AAGGGCAAAATAGTAATT-TAA
48365047 CCCACAAGGG
1 CCCACAAGGG
48365057 TATCTCGGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
26 3 0.10
27 21 0.72
28 5 0.17
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (26 bp):
CCCACAAGGGCAAAATAGTAATTTAA
Found at i:48365066 original size:27 final size:27
Alignment explanation
Indices: 48365036--48365170 Score: 155
Period size: 27 Copynumber: 5.0 Consensus size: 27
48365026 AGGGCAAAAT
* *
48365036 GGTAATTCTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48365063 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48365090 GGTATTTCTACCTTACAAAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48365117 GGTAATTCTACCCTACATA-GGTATTTT
1 GGTAATTCTACCCTACA-AGGGTATTTC
* * * *
48365144 AGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
48365171 AATAATTTTG
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
27 90 0.99
28 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:48370583 original size:22 final size:22
Alignment explanation
Indices: 48370558--48370601 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
48370548 AAAAAAAAAG
48370558 AATGGCTGCTTTTATGGTGAAT
1 AATGGCTGCTTTTATGGTGAAT
48370580 AATGGCTGCTTTTATGGTGAAT
1 AATGGCTGCTTTTATGGTGAAT
48370602 CTAAGCTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.27, T:0.41
Consensus pattern (22 bp):
AATGGCTGCTTTTATGGTGAAT
Found at i:48374011 original size:17 final size:17
Alignment explanation
Indices: 48373989--48374024 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
48373979 CACGCCCGGC
48373989 GCTGTCACCATTAACAA
1 GCTGTCACCATTAACAA
48374006 GCTGTCACCATTAACAA
1 GCTGTCACCATTAACAA
48374023 GC
1 GC
48374025 ATAAAGTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.31, G:0.14, T:0.22
Consensus pattern (17 bp):
GCTGTCACCATTAACAA
Found at i:48379475 original size:31 final size:31
Alignment explanation
Indices: 48379425--48379490 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
48379415 AACCCTTCCT
* * *
48379425 GCATTAAATCGAACTAAAAACAACAAATATA
1 GCATGAAATCCAACCAAAAACAACAAATATA
* *
48379456 GCATGAAATCCAACCAAAAACAGCAAATGTA
1 GCATGAAATCCAACCAAAAACAACAAATATA
48379487 GCAT
1 GCAT
48379491 AAAAAATACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.53, C:0.20, G:0.11, T:0.17
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAACAAATATA
Found at i:48379753 original size:21 final size:20
Alignment explanation
Indices: 48379728--48379775 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
48379718 TTCTGCTCTG
48379728 CTCTGCTACCATCGCTGCTGC
1 CTCTGCTACC-TCGCTGCTGC
*
48379749 CTCTGCCTTCCTCGCTGCTGC
1 CTCTG-CTACCTCGCTGCTGC
*
48379770 CGCTGC
1 CTCTGC
48379776 CTCCGCTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 19 0.79
22 4 0.17
ACGTcount: A:0.04, C:0.46, G:0.21, T:0.29
Consensus pattern (20 bp):
CTCTGCTACCTCGCTGCTGC
Found at i:48380212 original size:13 final size:14
Alignment explanation
Indices: 48380186--48380214 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
48380176 AGTAATGACA
48380186 AATTAAACCATTAT
1 AATTAAACCATTAT
48380200 AATTAAA-CATTAT
1 AATTAAACCATTAT
48380213 AA
1 AA
48380215 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:48382086 original size:21 final size:21
Alignment explanation
Indices: 48382056--48382108 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
48382046 CCCGTAACCT
* *
48382056 TAAACTCTAAACTAAATCCTC
1 TAAACCCTAAACTAAATCCCC
*
48382077 TAAACCCTAAACTATATCCCC
1 TAAACCCTAAACTAAATCCCC
*
48382098 T-AACCATAAAC
1 TAAACCCTAAAC
48382109 CACAAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAACTAAATCCCC
Found at i:48383030 original size:40 final size:40
Alignment explanation
Indices: 48382964--48383039 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
48382954 AATCTTAAAC
* *
48382964 ATATTTGCGGCGTTTTAGAGAAAAACGCCTCTAATGACAG
1 ATATTTGCGGCGTTTTACAGAAAAACGCCGCTAATGACAG
*
48383004 ATATTTCGCGGCGTTTTACA-ATAAACGCCGCTAATG
1 ATATTT-GCGGCGTTTTACAGAAAAACGCCGCTAATG
48383040 CCAGTATAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (40 bp):
ATATTTGCGGCGTTTTACAGAAAAACGCCGCTAATGACAG
Found at i:48385010 original size:45 final size:44
Alignment explanation
Indices: 48384940--48385029 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 44
48384930 GAACTATGCG
*
48384940 ATCTGAACTCATGAGTTATGATCTGAGTTTATGATATATGCGAC
1 ATCTGAACTCATGAGTTATGATCTGAGTTCATGATATATGCGAC
* *
48384984 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGAC
1 ATCTGAACTCA-TGAGTTATGATCTGAGTTCATGATATATGCGAC
48385029 A
1 A
48385030 CATGTTTTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 11 0.26
45 31 0.74
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (44 bp):
ATCTGAACTCATGAGTTATGATCTGAGTTCATGATATATGCGAC
Found at i:48396468 original size:20 final size:20
Alignment explanation
Indices: 48396443--48396891 Score: 137
Period size: 20 Copynumber: 23.8 Consensus size: 20
48396433 CTTAACTTTA
*
48396443 TAATGTTTTCAGTAATTTTG
1 TAATATTTTCAGTAATTTTG
* * *
48396463 TAATGTTTTTAG-AATTATG
1 TAATATTTTCAGTAATTTTG
* * *
48396482 GAAT-TTATT-A-CAACTTTG
1 TAATATT-TTCAGTAATTTTG
48396500 TAATATTTT-AGTAATTTT-
1 TAATATTTTCAGTAATTTTG
* *
48396518 TAATTTTTTTAGTAATTTTG
1 TAATATTTTCAGTAATTTTG
* *
48396538 TATTATTTTCAGTAGTTATT-
1 TAATATTTTCAGTAATT-TTG
*
48396558 TAAT-TTCTT-A-TAAGTTTG
1 TAATATT-TTCAGTAATTTTG
* *
48396576 TAATGTTTTCAGTAATTTCG
1 TAATATTTTCAGTAATTTTG
*
48396596 TAATATTTTCAGTAATATTG
1 TAATATTTTCAGTAATTTTG
* * *
48396616 -AAT-TCTTACA--CA-TATG
1 TAATAT-TTTCAGTAATTTTG
* * * *
48396632 TAACTCTTTGCAATAACTTTG
1 TAA-TATTTTCAGTAATTTTG
* *
48396653 TAATATTTTAAG-AATTGCTG
1 TAATATTTTCAGTAATT-TTG
*
48396673 -AAT-TTATT-A-TAACATTT-
1 TAATATT-TTCAGTAA-TTTTG
*
48396690 TAATTTTTTCAGT-A-----
1 TAATATTTTCAGTAATTTTG
* * * *
48396704 -AATATTTTAATTACTTATG
1 TAATATTTTCAGTAATTTTG
*
48396723 TAATTTTTTCAGTAATTTTG
1 TAATATTTTCAGTAATTTTG
* * *
48396743 TAATGTTTTTAG-AATTATG
1 TAATATTTTCAGTAATTTTG
* * *
48396762 GAAT-TTATT-A-CAACTTTG
1 TAATATT-TTCAGTAATTTTG
48396780 TAATATTTT-AGTAATTTT-
1 TAATATTTTCAGTAATTTTG
* *
48396798 TAATTTTTTTAGTAATTTTG
1 TAATATTTTCAGTAATTTTG
* *
48396818 TATTATTTTCAGTAGTTATT-
1 TAATATTTTCAGTAATT-TTG
*
48396838 TAAT-TTCTT-A-TAAGTTTG
1 TAATATT-TTCAGTAATTTTG
* *
48396856 TAATGTTTTCAGTAATTTCG
1 TAATATTTTCAGTAATTTTG
48396876 TAATATTTTCAGTAAT
1 TAATATTTTCAGTAAT
48396892 ATTGAATTCT
Statistics
Matches: 318, Mismatches: 65, Indels: 92
0.67 0.14 0.19
Matches are distributed among these distances:
13 9 0.03
16 2 0.01
17 7 0.02
18 79 0.25
19 87 0.27
20 124 0.39
21 10 0.03
ACGTcount: A:0.30, C:0.06, G:0.10, T:0.53
Consensus pattern (20 bp):
TAATATTTTCAGTAATTTTG
Found at i:48396529 original size:19 final size:19
Alignment explanation
Indices: 48396505--48396593 Score: 67
Period size: 19 Copynumber: 4.6 Consensus size: 19
48396495 CTTTGTAATA
48396505 TTTTAGTAATTTTTAATTT
1 TTTTAGTAATTTTTAATTT
48396524 TTTTAGTAATTTTGT-ATTAT
1 TTTTAGTAATTTT-TAATT-T
* *
48396544 TTTCAGTAGTTATTTAA-TT
1 TTTTAGTAATT-TTTAATTT
* * *
48396563 TCTTA-TAAGTTTGTAATGT
1 TTTTAGTAA-TTTTTAATTT
*
48396582 TTTCAGTAATTT
1 TTTTAGTAATTT
48396594 CGTAATATTT
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
18 6 0.11
19 29 0.54
20 16 0.30
21 3 0.06
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (19 bp):
TTTTAGTAATTTTTAATTT
Found at i:48396545 original size:38 final size:39
Alignment explanation
Indices: 48396496--48396611 Score: 121
Period size: 38 Copynumber: 3.0 Consensus size: 39
48396486 TTATTACAAC
48396496 TTTGTAATATTTT-AGTAATTTTTAATTTTTTTAGTAAT
1 TTTGTAATATTTTCAGTAATTTTTAATTTTTTTAGTAAT
* * * *
48396534 TTTGTATTATTTTCAGTAGTTATTTAA-TTTCTTA-TAAG
1 TTTGTAATATTTTCAGTAATT-TTTAATTTTTTTAGTAAT
* * * *
48396572 TTTGTAATGTTTTCAGTAATTTCGTAATATTTTCAGTAAT
1 TTTGTAATATTTTCAGTAATTT-TTAATTTTTTTAGTAAT
48396612 ATTGAATTCT
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
37 1 0.02
38 36 0.59
39 16 0.26
40 8 0.13
ACGTcount: A:0.28, C:0.04, G:0.10, T:0.58
Consensus pattern (39 bp):
TTTGTAATATTTTCAGTAATTTTTAATTTTTTTAGTAAT
Found at i:48396603 original size:58 final size:56
Alignment explanation
Indices: 48396511--48396941 Score: 196
Period size: 57 Copynumber: 7.6 Consensus size: 56
48396501 AATATTTTAG
* * * * *
48396511 TAATTTTTAATTTTTTTAGTAATTTTGTATTATTTTCAGTAGTTATTTAATTTCTTA
1 TAATTTGTAATGTTTTCAGTAA-TTTGTAATATTTTCAGTACTTATTTAATTTCTTA
* *
48396568 TAAGTTTGTAATGTTTTCAGTAATTTCGTAATATTTTCAGTA-ATATTGAA-TTCTTA
1 TAA-TTTGTAATGTTTTCAGTAATTT-GTAATATTTTCAGTACTTATTTAATTTCTTA
* * * * * * * ** * *
48396624 CACATATGTAACTCTTTGCAATAACTTTGTAATATTTTAAG-AATTGCTGAATTTATTA
1 TA-ATTTGTAA-TGTTTTCAGTAA-TTTGTAATATTTTCAGTACTTATTTAATTTCTTA
* * * * *
48396682 TAACATTT-TAATTTTTTCAGT-A-----AATATTTTAATTACTTATGTAATTTTTTCA
1 T-A-ATTTGTAATGTTTTCAGTAATTTGTAATATTTTCAGTACTTATTTAATTTCTT-A
* * *
48396734 GTAATTTTGTAATGTTTTTAG-AATTATGGAAT-TTATTACA--ACTT-TGTAATATT-TTA
1 -TAA-TTTGTAATGTTTTCAGTAATT-TGTAATATT-TT-CAGTACTTATTTAAT-TTCTTA
* * * * *
48396790 GTAATTTTTAATTTTTTTAGTAATTTTGTATTATTTTCAGTAGTTATTTAATTTCTTA
1 -TAATTTGTAATGTTTTCAGTAA-TTTGTAATATTTTCAGTACTTATTTAATTTCTTA
* *
48396848 TAAGTTTGTAATGTTTTCAGTAATTTCGTAATATTTTCAGTA-ATATTGAA-TTCTTA
1 TAA-TTTGTAATGTTTTCAGTAATTT-GTAATATTTTCAGTACTTATTTAATTTCTTA
* * * * *
48396904 CACATATGTAACTCTTTGCAATAACTTTGTAATATTTT
1 TA-ATTTGTAA-TGTTTTCAGTAA-TTTGTAATATTTT
48396942 AAGAATTGCT
Statistics
Matches: 291, Mismatches: 48, Indels: 70
0.71 0.12 0.17
Matches are distributed among these distances:
50 10 0.03
51 11 0.04
52 5 0.02
53 12 0.04
55 16 0.05
56 41 0.14
57 95 0.33
58 90 0.31
59 10 0.03
60 1 0.00
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (56 bp):
TAATTTGTAATGTTTTCAGTAATTTGTAATATTTTCAGTACTTATTTAATTTCTTA
Found at i:48396809 original size:19 final size:19
Alignment explanation
Indices: 48396785--48396873 Score: 67
Period size: 19 Copynumber: 4.6 Consensus size: 19
48396775 CTTTGTAATA
48396785 TTTTAGTAATTTTTAATTT
1 TTTTAGTAATTTTTAATTT
48396804 TTTTAGTAATTTTGT-ATTAT
1 TTTTAGTAATTTT-TAATT-T
* *
48396824 TTTCAGTAGTTATTTAA-TT
1 TTTTAGTAATT-TTTAATTT
* * *
48396843 TCTTA-TAAGTTTGTAATGT
1 TTTTAGTAA-TTTTTAATTT
*
48396862 TTTCAGTAATTT
1 TTTTAGTAATTT
48396874 CGTAATATTT
Statistics
Matches: 54, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
18 6 0.11
19 29 0.54
20 16 0.30
21 3 0.06
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (19 bp):
TTTTAGTAATTTTTAATTT
Found at i:48396825 original size:38 final size:39
Alignment explanation
Indices: 48396723--48396891 Score: 125
Period size: 38 Copynumber: 4.4 Consensus size: 39
48396713 ATTACTTATG
* * * *
48396723 TAATTTTTTCAGTAATTTTGTAATGTTTTTAG-AATTATG
1 TAATTTTTTTAGTAATTTTGTAATATTTTCAGTAATT-TT
* * * *
48396762 GAA-TTTATTA-CAACTTTGTAATATTTT-AGTAATTTT
1 TAATTTTTTTAGTAATTTTGTAATATTTTCAGTAATTTT
* *
48396798 TAATTTTTTTAGTAATTTTGTATTATTTTCAGTAGTTATT
1 TAATTTTTTTAGTAATTTTGTAATATTTTCAGTAATT-TT
* * * *
48396838 TAA-TTTCTTA-TAAGTTTGTAATGTTTTCAGTAATTTCG
1 TAATTTTTTTAGTAATTTTGTAATATTTTCAGTAATTT-T
* *
48396876 TAATATTTTCAGTAAT
1 TAATTTTTTTAGTAAT
48396892 ATTGAATTCT
Statistics
Matches: 99, Mismatches: 23, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
36 5 0.05
37 25 0.25
38 43 0.43
39 18 0.18
40 8 0.08
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.56
Consensus pattern (39 bp):
TAATTTTTTTAGTAATTTTGTAATATTTTCAGTAATTTT
Found at i:48396949 original size:280 final size:280
Alignment explanation
Indices: 48396443--48397011 Score: 1129
Period size: 280 Copynumber: 2.0 Consensus size: 280
48396433 CTTAACTTTA
*
48396443 TAATGTTTTCAGTAATTTTGTAATGTTTTTAGAATTATGGAATTTATTACAACTTTGTAATATTT
1 TAATTTTTTCAGTAATTTTGTAATGTTTTTAGAATTATGGAATTTATTACAACTTTGTAATATTT
48396508 TAGTAATTTTTAATTTTTTTAGTAATTTTGTATTATTTTCAGTAGTTATTTAATTTCTTATAAGT
66 TAGTAATTTTTAATTTTTTTAGTAATTTTGTATTATTTTCAGTAGTTATTTAATTTCTTATAAGT
48396573 TTGTAATGTTTTCAGTAATTTCGTAATATTTTCAGTAATATTGAATTCTTACACATATGTAACTC
131 TTGTAATGTTTTCAGTAATTTCGTAATATTTTCAGTAATATTGAATTCTTACACATATGTAACTC
48396638 TTTGCAATAACTTTGTAATATTTTAAGAATTGCTGAATTTATTATAACATTTTAATTTTTTCAGT
196 TTTGCAATAACTTTGTAATATTTTAAGAATTGCTGAATTTATTATAACATTTTAATTTTTTCAGT
48396703 AAATATTTTAATTACTTATG
261 AAATATTTTAATTACTTATG
48396723 TAATTTTTTCAGTAATTTTGTAATGTTTTTAGAATTATGGAATTTATTACAACTTTGTAATATTT
1 TAATTTTTTCAGTAATTTTGTAATGTTTTTAGAATTATGGAATTTATTACAACTTTGTAATATTT
48396788 TAGTAATTTTTAATTTTTTTAGTAATTTTGTATTATTTTCAGTAGTTATTTAATTTCTTATAAGT
66 TAGTAATTTTTAATTTTTTTAGTAATTTTGTATTATTTTCAGTAGTTATTTAATTTCTTATAAGT
48396853 TTGTAATGTTTTCAGTAATTTCGTAATATTTTCAGTAATATTGAATTCTTACACATATGTAACTC
131 TTGTAATGTTTTCAGTAATTTCGTAATATTTTCAGTAATATTGAATTCTTACACATATGTAACTC
48396918 TTTGCAATAACTTTGTAATATTTTAAGAATTGCTGAATTTATTATAACATTTTAATTTTTTCAGT
196 TTTGCAATAACTTTGTAATATTTTAAGAATTGCTGAATTTATTATAACATTTTAATTTTTTCAGT
48396983 AAATATTTTAATTACTTATG
261 AAATATTTTAATTACTTATG
48397003 TAATTTTTT
1 TAATTTTTT
48397012 ACCAAGTACA
Statistics
Matches: 288, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
280 288 1.00
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.53
Consensus pattern (280 bp):
TAATTTTTTCAGTAATTTTGTAATGTTTTTAGAATTATGGAATTTATTACAACTTTGTAATATTT
TAGTAATTTTTAATTTTTTTAGTAATTTTGTATTATTTTCAGTAGTTATTTAATTTCTTATAAGT
TTGTAATGTTTTCAGTAATTTCGTAATATTTTCAGTAATATTGAATTCTTACACATATGTAACTC
TTTGCAATAACTTTGTAATATTTTAAGAATTGCTGAATTTATTATAACATTTTAATTTTTTCAGT
AAATATTTTAATTACTTATG
Found at i:48398157 original size:5 final size:5
Alignment explanation
Indices: 48398147--48398185 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
48398137 CGTTTGGTGT
* * *
48398147 TTTTA TTTTA TTTTA TTTTA CTTTA TTTTC TTCTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
48398186 CGTCAGTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:48398173 original size:20 final size:20
Alignment explanation
Indices: 48398148--48398185 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48398138 GTTTGGTGTT
*
48398148 TTTATTTTATTTTATTTTAC
1 TTTATTTTATTCTATTTTAC
*
48398168 TTTATTTTCTTCTATTTT
1 TTTATTTTATTCTATTTT
48398186 CGTCAGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTATTTTATTCTATTTTAC
Found at i:48401733 original size:11 final size:10
Alignment explanation
Indices: 48401717--48401837 Score: 56
Period size: 10 Copynumber: 12.0 Consensus size: 10
48401707 TTTTTTTCAT
48401717 AAAAATTATTA
1 AAAAATTA-TA
*
48401728 AAAAATCATA
1 AAAAATTATA
48401738 AAAAATTAT-
1 AAAAATTATA
48401747 AAAAA-TATA
1 AAAAATTATA
*
48401756 AAAATGGTTACATA
1 AAAA--ATT--ATA
*
48401770 TTAAAAA--ATG
1 --AAAAATTATA
*
48401780 AAAATTTATA
1 AAAAATTATA
** *
48401790 TGAACTTAT-
1 AAAAATTATA
*
48401799 AAATATTATA
1 AAAAATTATA
48401809 AAAAATT-TA
1 AAAAATTATA
*
48401818 ATAAATTATA
1 AAAAATTATA
48401828 AAAAATTATA
1 AAAAATTATA
48401838 GGATTAATAA
Statistics
Matches: 81, Mismatches: 17, Indels: 25
0.66 0.14 0.20
Matches are distributed among these distances:
8 7 0.09
9 22 0.27
10 37 0.46
11 7 0.09
12 1 0.01
14 3 0.04
16 4 0.05
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAATTATA
Found at i:48401738 original size:20 final size:20
Alignment explanation
Indices: 48401713--48401760 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
48401703 AATATTTTTT
48401713 TCATAAAAATTATTA-AAAAA
1 TCATAAAAA-TATTATAAAAA
48401733 TCATAAAAA-ATTATAAAAA
1 TCATAAAAATATTATAAAAA
48401752 T-ATAAAAAT
1 TCATAAAAAT
48401761 GGTTACATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 11 0.42
19 6 0.23
20 9 0.35
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (20 bp):
TCATAAAAATATTATAAAAA
Found at i:48401836 original size:29 final size:30
Alignment explanation
Indices: 48401780--48401837 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
48401770 TTAAAAAATG
* *
48401780 AAAATTTATATGAACTTATAAATATTATAA
1 AAAATTTATATGAAATTATAAAAATTATAA
48401810 AAAATTTA-AT-AAATTATAAAAAATTATA
1 AAAATTTATATGAAATTAT-AAAAATTATA
48401838 GGATTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 11 0.44
30 8 0.32
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (30 bp):
AAAATTTATATGAAATTATAAAAATTATAA
Found at i:48401879 original size:21 final size:21
Alignment explanation
Indices: 48401844--48401891 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
48401834 TATAGGATTA
* *
48401844 ATAAAACATATTTAACATTTT
1 ATAAAACATATTTAAAATTCT
48401865 ATAACAACATA-TTAAAATTCT
1 ATAA-AACATATTTAAAATTCT
48401886 ATAAAA
1 ATAAAA
48401892 ATCATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 16 0.67
22 6 0.25
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAAACATATTTAAAATTCT
Found at i:48401897 original size:22 final size:22
Alignment explanation
Indices: 48401846--48401897 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
48401836 TAGGATTAAT
* *
48401846 AAAACATATTTAACATTTTATA
1 AAAACATATTTAAAATTCTATA
*
48401868 ACAACATA-TTAAAATTCTATA
1 AAAACATATTTAAAATTCTATA
48401889 AAAATCATA
1 AAAA-CATA
48401898 AAAATATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAACATATTTAAAATTCTATA
Found at i:48401915 original size:37 final size:37
Alignment explanation
Indices: 48401864--48401947 Score: 89
Period size: 37 Copynumber: 2.2 Consensus size: 37
48401854 TTTAACATTT
*
48401864 TATAACAACATATTAAAATTC-TATAAAAATCATAAAAA
1 TATAA-AAAATATTAAAATTCTTAT-AAAATCATAAAAA
* * * * *
48401902 TATAAAAAATATTAATATTGTTATAAACTTATAAAAT
1 TATAAAAAATATTAAAATTCTTATAAAATCATAAAAA
48401939 TATAAAAAA
1 TATAAAAAA
48401948 AATCATAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
37 31 0.79
38 8 0.21
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (37 bp):
TATAAAAAATATTAAAATTCTTATAAAATCATAAAAA
Found at i:48402497 original size:9 final size:9
Alignment explanation
Indices: 48402370--48402504 Score: 62
Period size: 9 Copynumber: 14.6 Consensus size: 9
48402360 AGTTTTTACG
48402370 AATTTTTAT
1 AATTTTTAT
*
48402379 AAGTTTATATT
1 AA-TTTTTA-T
*
48402390 AATTTTAAT
1 AATTTTTAT
48402399 -A-TTTTAT
1 AATTTTTAT
*
48402406 AATTTTTAC
1 AATTTTTAT
48402415 AATTTTTATT
1 AATTTTTA-T
* * *
48402425 ACTTTTAAG
1 AATTTTTAT
* *
48402434 AATTCTAAT
1 AATTTTTAT
48402443 ACATTTTT-T
1 A-ATTTTTAT
**
48402452 AATTTGAAAT
1 AATTT-TTAT
48402462 AAGTTTTTCA-
1 AA-TTTTT-AT
* *
48402472 AATTTATAA
1 AATTTTTAT
48402481 AATCTTTTAT
1 AAT-TTTTAT
48402491 AATTTTTAT
1 AATTTTTAT
48402500 AATTT
1 AATTT
48402505 ATTAGGTTTT
Statistics
Matches: 93, Mismatches: 21, Indels: 24
0.67 0.15 0.17
Matches are distributed among these distances:
7 5 0.05
8 7 0.08
9 43 0.46
10 31 0.33
11 7 0.08
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.56
Consensus pattern (9 bp):
AATTTTTAT
Found at i:48405910 original size:14 final size:14
Alignment explanation
Indices: 48405891--48405919 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
48405881 AATAGTTTAG
48405891 GATACAAGTGACAT
1 GATACAAGTGACAT
48405905 GATACAAGTGACAT
1 GATACAAGTGACAT
48405919 G
1 G
48405920 TCACTAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (14 bp):
GATACAAGTGACAT
Found at i:48406044 original size:52 final size:52
Alignment explanation
Indices: 48405982--48406082 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
48405972 TGTATGCGGT
* *
48405982 ATTCGAGCTCGTTGAGTTGGTCCGAGTTCATAATGGATGCGATACATGTGGC
1 ATTCGAGCTCGTTGAGTTAGTCCGAGTTCATAATGGATGCAATACATGTGGC
*
48406034 ATTCGAGCTCGTTGAGTTAGTCTGAGTTCATAATGGATGCAATACATGT
1 ATTCGAGCTCGTTGAGTTAGTCCGAGTTCATAATGGATGCAATACATGT
48406083 AATTGGGTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (52 bp):
ATTCGAGCTCGTTGAGTTAGTCCGAGTTCATAATGGATGCAATACATGTGGC
Found at i:48407868 original size:2 final size:2
Alignment explanation
Indices: 48407861--48407898 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
48407851 TAATCATACT
48407861 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
48407899 TATATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:48414002 original size:37 final size:37
Alignment explanation
Indices: 48413952--48414030 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
48413942 TTATTACGAA
* *
48413952 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
48413989 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
48414026 GTCTT
1 GTCTT
48414031 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:48414227 original size:47 final size:47
Alignment explanation
Indices: 48414149--48414637 Score: 834
Period size: 47 Copynumber: 10.4 Consensus size: 47
48414139 CCCTTCGGGA
* * * * * * *
48414149 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48414196 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48414243 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48414290 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48414337 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48414384 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48414431 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48414478 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48414525 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48414572 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48414619 CTTATCACATATATACACT
1 CTTATCACATATATACACT
48414638 GTCTTGGCTG
Statistics
Matches: 419, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 419 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48420920 original size:26 final size:27
Alignment explanation
Indices: 48420891--48420950 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
48420881 CTACATATAT
* *
48420891 ATATCTGT-TTTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* *
48420917 ATATCTGTATCTGGTGACTTCGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
48420944 ATATCTG
1 ATATCTG
48420951 GCAGCTTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:48424867 original size:25 final size:25
Alignment explanation
Indices: 48424825--48424882 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
48424815 GTAAGGAGGG
48424825 GATAAGGG-AGAAGATTTAGGAGCT
1 GATAAGGGAAGAAGATTTAGGAGCT
*
48424849 GATAAGGGAAGAAGTTTTAGGAGCT
1 GATAAGGGAAGAAGATTTAGGAGCT
*
48424874 GATTAGGGA
1 GATAAGGGA
48424883 GGGCAGTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 8 0.26
25 23 0.74
ACGTcount: A:0.36, C:0.03, G:0.38, T:0.22
Consensus pattern (25 bp):
GATAAGGGAAGAAGATTTAGGAGCT
Found at i:48425737 original size:8 final size:8
Alignment explanation
Indices: 48425724--48425763 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
48425714 CTAGATCGGC
48425724 AAAAGCCG
1 AAAAGCCG
48425732 AAAAGCCG
1 AAAAGCCG
* *
48425740 AAATGCTG
1 AAAAGCCG
*
48425748 AAATGCCG
1 AAAAGCCG
48425756 AAAAGCCG
1 AAAAGCCG
48425764 GTATTTTGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.45, C:0.23, G:0.25, T:0.07
Consensus pattern (8 bp):
AAAAGCCG
Found at i:48426220 original size:27 final size:26
Alignment explanation
Indices: 48426180--48426291 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
48426170 AGGAAGCGTC
* *
48426180 CTGGTGGCTATGCCACAATTATTTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
48426207 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
48426234 CTAGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
48426262 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
48426288 CTGG
1 CTGG
48426292 CAGCTATATT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.10
27 50 0.68
28 16 0.22
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:48426284 original size:54 final size:54
Alignment explanation
Indices: 48426183--48426289 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
48426173 AAGCGTCCTG
* *
48426183 GTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTA
* * *
48426237 GTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCT
1 GTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTTCT
48426290 GGCAGCTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTA
Found at i:48427620 original size:39 final size:39
Alignment explanation
Indices: 48427566--48427718 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
48427556 CAGTGATGTT
48427566 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
*
48427605 TATCCGGACTTAAGGTCCGTAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* *
48427644 TATCCAGACTTAAGGTTCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
48427683 TAACCGAACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
48427719 ATATGTCCAG
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 105 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:48427656 original size:78 final size:78
Alignment explanation
Indices: 48427566--48427746 Score: 256
Period size: 78 Copynumber: 2.3 Consensus size: 78
48427556 CAGTGATGTT
* * * *
48427566 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGTAGGCTA
1 TATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACCGAACTTAAGGTCCGCAGGCTA
* *
48427631 TGTGCTGGAATTA
66 CGTGCTGGAAATA
*
48427644 TATCCAGACTTAAGGTTCGCAGGCTATGTGCTGGAATTATAACCGAACTTAAGGTCCGCAGGCTA
1 TATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACCGAACTTAAGGTCCGCAGGCTA
48427709 CGTGCTGGAAATA
66 CGTGCTGGAAATA
* * *
48427722 TGTCCAGGC-TAAAGTCCCGCAGGCT
1 TATCCAGACTTAAGGT-CCGCAGGCT
48427747 TCGAGCTGGT
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
77 5 0.05
78 86 0.95
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (78 bp):
TATCCAGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACCGAACTTAAGGTCCGCAGGCTA
CGTGCTGGAAATA
Found at i:48437273 original size:47 final size:47
Alignment explanation
Indices: 48437211--48437378 Score: 146
Period size: 47 Copynumber: 3.6 Consensus size: 47
48437201 AACTTAGCCA
48437211 ATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGGCCG
1 ATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGGCCG
* * * *
48437258 ATGCATGTCCAAGACATGTCTTACACTGGC--AC-TCACCTCTACGCCG
1 ATGCATGTCCCAGACACGTCTTACACTGGCTAACATCA--TCGAGGCCG
* *** * * * * *
48437304 ATGCCATGTCCTAGATGTGGTCTTACACGGGCTATCATGAT-GCGGCTG
1 ATG-CATGTCCCAGA-CACGTCTTACACTGGCTAACATCATCGAGGCCG
*
48437352 ATGCATGTCCCAGACACATCTTACACT
1 ATGCATGTCCCAGACACGTCTTACACT
48437379 AGCCCTCGTC
Statistics
Matches: 93, Mismatches: 21, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 18 0.19
47 48 0.52
48 18 0.19
49 1 0.01
50 1 0.01
51 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (47 bp):
ATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGGCCG
Found at i:48437359 original size:94 final size:91
Alignment explanation
Indices: 48437163--48437381 Score: 226
Period size: 94 Copynumber: 2.4 Consensus size: 91
48437153 GTGTATACGT
*
48437163 GCTGATGCATGTCCTAGACATGTCTTACACTAGCATGAAACTTAGCCAATGCATGTCCCAGACAC
1 GCTGATGCATGTCCAAGACATGTCTTACACTAGCATGAAACTTAGCCAATGCATGTCCCAGACAC
*
48437228 GTCTTACACTGGCTAACATCATCGAG
66 GTCTTACACGGGCTAACATCATCGAG
* * * * * *
48437254 GCCGATGCATGTCCAAGACATGTCTTACACTGGCACT-CACCTCTACGCCGATGCCATGTCCTAG
1 GCTGATGCATGTCCAAGACATGTCTTACACTAGCA-TGAAACT-TA-GCCAATG-CATGTCCCAG
*** * * *
48437318 ATGTGGTCTTACACGGGCTATCATGAT-GCG
62 A-CACGTCTTACACGGGCTAACATCATCGAG
* **
48437348 GCTGATGCATGTCCCAGACACATCTTACACTAGC
1 GCTGATGCATGTCCAAGACATGTCTTACACTAGC
48437382 CCTCGTCTCA
Statistics
Matches: 104, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
91 35 0.34
92 3 0.03
93 6 0.06
94 41 0.39
95 19 0.18
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (91 bp):
GCTGATGCATGTCCAAGACATGTCTTACACTAGCATGAAACTTAGCCAATGCATGTCCCAGACAC
GTCTTACACGGGCTAACATCATCGAG
Found at i:48437422 original size:94 final size:94
Alignment explanation
Indices: 48437214--48437422 Score: 213
Period size: 94 Copynumber: 2.2 Consensus size: 94
48437204 TTAGCCAATG
* * **
48437214 CATGTCCCAGACACGTCTTACACTGGCTAACATCATCGAGGCCGATGCATGTCCAAGACATGTCT
1 CATGTCCCAGACATGTCTTACACGGGCTAACATCATCGAGGCCGATGCATGTCCAAGACACATCT
* *
48437279 TACACTGGCACTCACCTCTACGCCGATGC
66 TACACTAGCACTCACCTCAACGCCGATGC
* ** * * * * *
48437308 CATGTCCTAGATGTGGTCTTACACGGGCTATCATGAT-GCGGCTGATGCATGTCCCAGACACATC
1 CATGTCCCAGACAT-GTCTTACACGGGCTAACATCATCGAGGCCGATGCATGTCCAAGACACATC
* ** ** *
48437372 TTACACTAGCCCTCGTCTCAATTCTGATGC
65 TTACACTAGCACTCACCTCAACGCCGATGC
48437402 CATGTCCCAGACATGATCTTA
1 CATGTCCCAGACATG-TCTTA
48437423 TACTGGTTCT
Statistics
Matches: 90, Mismatches: 23, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
93 1 0.01
94 70 0.78
95 19 0.21
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACGGGCTAACATCATCGAGGCCGATGCATGTCCAAGACACATCT
TACACTAGCACTCACCTCAACGCCGATGC
Found at i:48438722 original size:15 final size:15
Alignment explanation
Indices: 48438690--48438718 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48438680 ATTTTCTATG
48438690 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
48438705 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
48438719 ATTTTCGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:48439864 original size:43 final size:43
Alignment explanation
Indices: 48439803--48439904 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 43
48439793 CATAGGATTT
* * * * *
48439803 TCGATATGTGTTTTCGTGTAAGACCACATCT-GGGACGTTGGCA
1 TCGATATCTGATTACGTGTAAGACCACAT-TAGGGACATCGGCA
*
48439846 TCGATATCTGATTACGTGTAAGACCATATTAGGGACATCGGCA
1 TCGATATCTGATTACGTGTAAGACCACATTAGGGACATCGGCA
*
48439889 TCG-TATTTGATTACGT
1 TCGATATCTGATTACGT
48439905 TGGCATTGTA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 13 0.25
43 38 0.75
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
TCGATATCTGATTACGTGTAAGACCACATTAGGGACATCGGCA
Found at i:48441055 original size:26 final size:26
Alignment explanation
Indices: 48441026--48441076 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
48441016 ATTGAGTAGA
*
48441026 TAAAAATGCAAAATGAGTTATTGATG
1 TAAAAATACAAAATGAGTTATTGATG
48441052 TAAAAATACAAAATGAGTTATTGAT
1 TAAAAATACAAAATGAGTTATTGAT
48441077 TATGGAATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.31
Consensus pattern (26 bp):
TAAAAATACAAAATGAGTTATTGATG
Found at i:48444581 original size:45 final size:45
Alignment explanation
Indices: 48444520--48444615 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
48444510 TAGGATTCTG
* *
48444520 ATATGTGATTTTGTGTAAAACCACATTTGGGACATTGGCATCGAT
1 ATATGTAATTTCGTGTAAAACCACATTTGGGACATTGGCATCGAT
* ** *
48444565 ATATGTAATTTCGTGTAAGACCATGTTTGGGACGTTGGCATCGAT
1 ATATGTAATTTCGTGTAAAACCACATTTGGGACATTGGCATCGAT
48444610 ATATGT
1 ATATGT
48444616 GGTTACGTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.36
Consensus pattern (45 bp):
ATATGTAATTTCGTGTAAAACCACATTTGGGACATTGGCATCGAT
Found at i:48444625 original size:45 final size:45
Alignment explanation
Indices: 48444545--48444644 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
48444535 TAAAACCACA
* *
48444545 TTTGGGACATTGGCATCGATATATGTAATTTCGTGTAAGACCATG
1 TTTGGGACATTGGCATCGATATATGTAATTACGTGTAAGACAATG
* **
48444590 TTTGGGACGTTGGCATCGATATATGTGGTTACGTGTAAGACAATG
1 TTTGGGACATTGGCATCGATATATGTAATTACGTGTAAGACAATG
*
48444635 TCTGGGACAT
1 TTTGGGACAT
48444645 CGACATCATA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.34
Consensus pattern (45 bp):
TTTGGGACATTGGCATCGATATATGTAATTACGTGTAAGACAATG
Found at i:48447344 original size:43 final size:41
Alignment explanation
Indices: 48447213--48447369 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 41
48447203 TTTCGATGTG
* **
48447213 TGATTTCGTGTAAGACCAC-GTCTGGGACGTTGGCATCGATT
1 TGATTTCATGTAAGACC-CTGTCTGGGACAATGGCATCGATT
* ** *
48447254 TGAGATTTACATGTAAGACCATGTCTGGGACACCGACATCGTATT
1 T--GATTT-CATGTAAGACCCTGTCTGGGACAATGGCATCG-ATT
* *
48447299 TGATTTCTTGTAAGACCCTGTCTAGGACAATGGCATCGAAATT
1 TGATTTCATGTAAGACCCTGTCTGGGACAATGGCATCG--ATT
*
48447342 TGATTACATGTAAGACCACT-TCTGGGAC
1 TGATTTCATGTAAGACC-CTGTCTGGGAC
48447370 GTTGGTATTG
Statistics
Matches: 93, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 1 0.01
42 26 0.28
43 35 0.38
44 27 0.29
45 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (41 bp):
TGATTTCATGTAAGACCCTGTCTGGGACAATGGCATCGATT
Found at i:48452558 original size:40 final size:40
Alignment explanation
Indices: 48452514--48452702 Score: 308
Period size: 40 Copynumber: 4.7 Consensus size: 40
48452504 GCTACTTGCT
48452514 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
48452554 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
48452594 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
48452634 CAAATTCCTTCGGGACTTAGCCCGGATT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
*
48452674 CAAATGCCTTCAGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
48452703 CATCCGAATA
Statistics
Matches: 138, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.01
40 135 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:48452613 original size:80 final size:79
Alignment explanation
Indices: 48452491--48452702 Score: 320
Period size: 80 Copynumber: 2.7 Consensus size: 79
48452481 CCTTCAGAAT
* *
48452491 TTAG-CCGGCTATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
1 TTAGCCCGGTTATAG-TACTTGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
48452555 AAATGCCTTCGGGAC
65 AAATGCCTTCGGGAC
*
48452570 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
1 TTAGCCCGGTTATAGT-ACTTGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
*
48452635 AAATTCCTTCGGGAC
65 AAATGCCTTCGGGAC
* *
48452650 TTAGCCCGGATT-TAGTCACTAGCACAAATGCCTTCAGGACTTAGCCCGGTTAT
1 TTAGCCCGG-TTATAGT-ACTTGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
48452703 CATCCGAATA
Statistics
Matches: 122, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
79 5 0.04
80 115 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (79 bp):
TTAGCCCGGTTATAGTACTTGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACA
AATGCCTTCGGGAC
Found at i:48456152 original size:25 final size:25
Alignment explanation
Indices: 48456124--48456173 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
48456114 TTTTTCAGAT
* *
48456124 TCTCAAGGATACGTTGAGGTGTTGC
1 TCTCAAGGATACATTGAGATGTTGC
*
48456149 TCTCGAGGATACATTGAGATGTTGC
1 TCTCAAGGATACATTGAGATGTTGC
48456174 ATTCTTGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (25 bp):
TCTCAAGGATACATTGAGATGTTGC
Found at i:48459089 original size:29 final size:29
Alignment explanation
Indices: 48459026--48459093 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
48459016 TAATCAACCA
48459026 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
48459055 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
48459084 CGCACACTTA
1 CGCACACTTA
48459094 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:48459205 original size:173 final size:173
Alignment explanation
Indices: 48458916--48459241 Score: 573
Period size: 173 Copynumber: 1.9 Consensus size: 173
48458906 AACTCAAGGT
*
48458916 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
48458981 GAAAATATATATTGGGTTGCACACATAATGTTTAGTAATCAACCACGCACACTTAGTGCCATGCA
66 GAAAATATATATTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
48459046 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
48459089 ACTTACCTTTTCCGCTGTCCAAAA-TGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * *
48459153 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTT-GCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
48459218 ACTTTAAACTCGCACACTTAGTGC
130 ACTTTAAACTCACACACTTAGTGC
48459242 TGTACAATTT
Statistics
Matches: 145, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
172 57 0.39
173 88 0.61
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (173 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTGCACACATAATGCTTAATAATCAACCACGCACACTTAGTGCCATGCA
CTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:48459233 original size:29 final size:30
Alignment explanation
Indices: 48459194--48459272 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
48459184 CTTAATAATC
48459194 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
48459224 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
48459253 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
48459273 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:48461509 original size:42 final size:43
Alignment explanation
Indices: 48461401--48461534 Score: 123
Period size: 44 Copynumber: 3.1 Consensus size: 43
48461391 TTCCGATGTA
* * * *
48461401 TGATTTCGTGTAAGACCACGTTTGGGAC-GTTGGCATCGAT-TT
1 TGATTTTGTGTAAGACCATGTCTAGGACAG-TGGCATCGATATT
* **
48461443 GAGATTTACATGTAAGACCATGTCTAGGACA-TCGGCATCG-TATT
1 -TGATTT-TGTGTAAGACCATGTCTAGGACAGT-GGCATCGATATT
* *
48461487 TGATTTTGTGTAAGACCCTGTCTAGGATAGTGGCATCGATATT
1 TGATTTTGTGTAAGACCATGTCTAGGACAGTGGCATCGATATT
48461530 TGATT
1 TGATT
48461535 ACATGTAAGA
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
42 26 0.35
43 22 0.29
44 27 0.36
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (43 bp):
TGATTTTGTGTAAGACCATGTCTAGGACAGTGGCATCGATATT
Found at i:48461544 original size:43 final size:42
Alignment explanation
Indices: 48461431--48461545 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 42
48461421 TTTGGGACGT
*
48461431 TGGCATCGAT-TTGAGATTTACATGTAAGACCATGTCTAGGACA
1 TGGCATCGATATT-TGA-TTACATGTAAGACCATGTCTAGGACA
*** * *
48461474 TCGGCATCG-TATTTGATTTTGTGTAAGACCCTGTCTAGGATA
1 T-GGCATCGATATTTGATTACATGTAAGACCATGTCTAGGACA
48461516 GTGGCATCGATATTTGATTACATGTAAGAC
1 -TGGCATCGATATTTGATTACATGTAAGAC
48461546 GACATCTGAG
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
42 28 0.47
43 22 0.37
44 9 0.15
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (42 bp):
TGGCATCGATATTTGATTACATGTAAGACCATGTCTAGGACA
Found at i:48465515 original size:56 final size:55
Alignment explanation
Indices: 48465440--48465547 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 55
48465430 GTATCCATTG
* *
48465440 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATGGATAATTAAATTTGTAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATT-AATTTGTAA
* *
48465496 GATGATAAATTATCGCTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
48465548 CAGTCTATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
55 6 0.12
56 42 0.88
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTAA
Found at i:48466593 original size:10 final size:10
Alignment explanation
Indices: 48466575--48466608 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
48466565 AATGTTATCA
*
48466575 TAATAATATT
1 TAATTATATT
48466585 TAATTATATT
1 TAATTATATT
48466595 TAATTATAATT
1 TAATTAT-ATT
48466606 TAA
1 TAA
48466609 ACAAATATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 16 0.73
11 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TAATTATATT
Found at i:48469337 original size:30 final size:30
Alignment explanation
Indices: 48469301--48469362 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
48469291 AATCAGAAGT
*
48469301 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTATGCGATTTAAACTAGC
*
48469331 TTTGGCACTATGTATGCGATTTAAACTAGC
1 TTTGGCACTAAGTATGCGATTTAAACTAGC
48469361 TT
1 TT
48469363 CGGCTACTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (30 bp):
TTTGGCACTAAGTATGCGATTTAAACTAGC
Found at i:48475953 original size:27 final size:28
Alignment explanation
Indices: 48475841--48475966 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
48475831 CATGAGATTG
* * * *
48475841 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
48475870 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48475898 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48475926 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48475953 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
48475967 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.26
28 50 0.54
29 18 0.20
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48475963 original size:55 final size:57
Alignment explanation
Indices: 48475841--48475966 Score: 193
Period size: 55 Copynumber: 2.2 Consensus size: 57
48475831 CATGAGATTG
* *
48475841 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
* *
48475898 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
*
48475953 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
48475967 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 24 0.38
56 22 0.34
57 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48475977 original size:27 final size:27
Alignment explanation
Indices: 48475869--48475979 Score: 143
Period size: 28 Copynumber: 4.0 Consensus size: 27
48475859 TAAATTGTAC
*
48475869 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
48475897 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
48475925 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
48475952 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGATTATAT
48475979 A
1 A
48475980 CTTTTGAATC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
27 30 0.38
28 48 0.62
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:48481950 original size:27 final size:26
Alignment explanation
Indices: 48481919--48482096 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
48481909 ATATTGAGTC
* *
48481919 CGCACACTCAGTGCTATATCATCAACT
1 CGCACACTTAGTGCTACAT-ATCAACT
* *
48481946 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACAT-ATCAACT
48481973 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATA-TC-AACT
** * *
48482001 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACAT-ATCAACT
**
48482028 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATA-TCAACT
* *
48482055 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATA-TCAACT
48482082 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48482097 GTACAATTTA
Statistics
Matches: 127, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 103 0.81
28 23 0.18
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (26 bp):
CGCACACTTAGTGCTACATATCAACT
Found at i:48482058 original size:82 final size:81
Alignment explanation
Indices: 48481940--48482095 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48481930 TGCTATATCA
* *
48481940 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
48482005 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
48482022 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
48482086 CACTTAGTGC
65 CACTTAGTGC
48482096 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48489979 original size:27 final size:27
Alignment explanation
Indices: 48489922--48490098 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48489912 ATATTGAGTC
* * *
48489922 CGCACACTCAGTGCTATATA-TCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48489948 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48489975 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
48490003 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
48490030 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48490057 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48490084 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48490099 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
26 17 0.13
27 88 0.68
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48490013 original size:55 final size:53
Alignment explanation
Indices: 48489922--48490098 Score: 212
Period size: 55 Copynumber: 3.3 Consensus size: 53
48489912 ATATTGAGTC
* * * * *
48489922 CGCACACTCAGTGCTATATATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATATCAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
48489975 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATA-TC-AACTCGCACACTTAGTGCAACATAGTCAAAT
**
48490030 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATA-TCAACTCGCACACTTAGTGCAACATAGTCAAAT
48490084 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48490099 GTACAATTTA
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
53 18 0.17
54 42 0.40
55 45 0.43
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:48490041 original size:82 final size:81
Alignment explanation
Indices: 48489942--48490097 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48489932 GTGCTATATA
* *
48489942 TCAACTCGCACACTTAGTGC-TACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
48490006 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
48490024 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
48490089 ACTTAGTGC
66 ACTTAGTGC
48490098 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48495580 original size:27 final size:28
Alignment explanation
Indices: 48495468--48495593 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
48495458 CATGAGATTG
* * * *
48495468 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
48495497 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48495525 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48495553 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48495580 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
48495594 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.26
28 50 0.54
29 18 0.20
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48495590 original size:55 final size:57
Alignment explanation
Indices: 48495468--48495593 Score: 193
Period size: 55 Copynumber: 2.2 Consensus size: 57
48495458 CATGAGATTG
* *
48495468 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
* *
48495525 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
*
48495580 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
48495594 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 24 0.38
56 22 0.34
57 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48495604 original size:27 final size:27
Alignment explanation
Indices: 48495496--48495606 Score: 143
Period size: 28 Copynumber: 4.0 Consensus size: 27
48495486 TAAATTGTAC
*
48495496 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
48495524 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
48495552 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
48495579 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGATTATAT
48495606 A
1 A
48495607 CTTTTGAATC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
27 30 0.38
28 48 0.62
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:48499654 original size:28 final size:29
Alignment explanation
Indices: 48499613--48499685 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 29
48499603 AAGTCCACAT
* *
48499613 ACATGCTTATGGCCCATTAGGCTC-AATC
1 ACATGCATATGGCCCATTAGGCCCAAATC
*
48499641 TCATGCATATGGCCCATTAGGCCCAAATC
1 ACATGCATATGGCCCATTAGGCCCAAATC
48499670 ACAT-CTATATGGCCCA
1 ACATGC-ATATGGCCCA
48499686 CTCGGCCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 22 0.56
29 17 0.44
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
ACATGCATATGGCCCATTAGGCCCAAATC
Found at i:48499680 original size:29 final size:28
Alignment explanation
Indices: 48499613--48499699 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 28
48499603 AAGTCCACAT
* *
48499613 ACATGCTTATGGCCCATTAGGCTCAATC
1 ACATGCATATGGCCCATTAGGCCCAATC
*
48499641 TCATGCATATGGCCCATTAGGCCCAAATC
1 ACATGCATATGGCCCATTAGGCCC-AATC
* * *
48499670 ACAT-CTATATGGCCCACTCGGCCTAATC
1 ACATGC-ATATGGCCCATTAGGCCCAATC
48499698 AC
1 AC
48499700 TTTTACAATC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 28 0.56
29 22 0.44
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (28 bp):
ACATGCATATGGCCCATTAGGCCCAATC
Found at i:48503635 original size:28 final size:28
Alignment explanation
Indices: 48503594--48503673 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 28
48503584 CATACATGCT
*
48503594 TATGGCCCACTAGGCCCAATCTCAT-TCA
1 TATGGCCCACTAGGCCCAATCACATCT-A
* *
48503622 TATGACCCATTAGGCCCAAATCACATCTA
1 TATGGCCCACTAGGCCC-AATCACATCTA
48503651 TATGGCCCACTAGGCCCAATCAC
1 TATGGCCCACTAGGCCCAATCAC
48503674 TTTTACAGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
28 21 0.47
29 23 0.51
30 1 0.02
ACGTcount: A:0.29, C:0.35, G:0.14, T:0.23
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATCTA
Found at i:48503654 original size:29 final size:28
Alignment explanation
Indices: 48503594--48503673 Score: 108
Period size: 28 Copynumber: 2.8 Consensus size: 28
48503584 CATACATGCT
*
48503594 TATGGCCCACTAGGCCCAATCTCATTCA
1 TATGGCCCACTAGGCCCAATCACATTCA
* *
48503622 TATGACCCATTAGGCCCAAATCACA-TCTA
1 TATGGCCCACTAGGCCC-AATCACATTC-A
48503651 TATGGCCCACTAGGCCCAATCAC
1 TATGGCCCACTAGGCCCAATCAC
48503674 TTTTACAGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
28 23 0.51
29 22 0.49
ACGTcount: A:0.29, C:0.35, G:0.14, T:0.23
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATTCA
Found at i:48510378 original size:8 final size:8
Alignment explanation
Indices: 48510365--48510389 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
48510355 AAAAGTGTAG
48510365 CCTTAAAT
1 CCTTAAAT
48510373 CCTTAAAT
1 CCTTAAAT
48510381 CCTTAAAT
1 CCTTAAAT
48510389 C
1 C
48510390 ACTTGGCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.28, G:0.00, T:0.36
Consensus pattern (8 bp):
CCTTAAAT
Found at i:48511880 original size:45 final size:45
Alignment explanation
Indices: 48511784--48511880 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 45
48511774 AGATCTTGAT
* * *
48511784 TGAAAGACGTAATAGCATCACGATTTTATCGAGTAAGACAATGAC
1 TGAAAGACATAATAGCATCACGATTCTATCGAGTAACACAATGAC
* * * *
48511829 TAAAAGACATTATGGCATCACGATTCTATCGAGTAACACTAT-AGC
1 TGAAAGACATAATAGCATCACGATTCTATCGAGTAACACAATGA-C
48511874 TGAAAGA
1 TGAAAGA
48511881 TGCTATGGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (45 bp):
TGAAAGACATAATAGCATCACGATTCTATCGAGTAACACAATGAC
Found at i:48511975 original size:46 final size:45
Alignment explanation
Indices: 48511904--48512014 Score: 125
Period size: 46 Copynumber: 2.5 Consensus size: 45
48511894 TGAATCAAAC
* * *
48511904 AAATAAGGCCATGGTTGAAAAACACTATGGCAACATGATAGAAAAT
1 AAATAAGACCATGGTTGAAAAACACTACGGCAACAAGAT-GAAAAT
* * * * * *
48511950 GAATAAGACCAAGGTTGAGAGACACTACGGCATCAAGATGAGAAT
1 AAATAAGACCATGGTTGAAAAACACTACGGCAACAAGATGAAAAT
48511995 AAATAAGACCATGGTT-AAAA
1 AAATAAGACCATGGTTGAAAA
48512015 GATACCATGG
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
44 2 0.04
45 19 0.37
46 31 0.60
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.18
Consensus pattern (45 bp):
AAATAAGACCATGGTTGAAAAACACTACGGCAACAAGATGAAAAT
Found at i:48516985 original size:21 final size:23
Alignment explanation
Indices: 48516961--48517003 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
48516951 GACCAAACAC
48516961 CACC-ACAGAT-ATATATATATA
1 CACCTACAGATAATATATATATA
**
48516982 CACCTTGAGATAATATATATAT
1 CACCTACAGATAATATATATAT
48517004 CATACCAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 4 0.22
23 10 0.56
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (23 bp):
CACCTACAGATAATATATATATA
Found at i:48517036 original size:34 final size:34
Alignment explanation
Indices: 48516993--48517071 Score: 140
Period size: 34 Copynumber: 2.3 Consensus size: 34
48516983 ACCTTGAGAT
*
48516993 AATATATATATCATACCAACACATCATGGGCATA
1 AATATATATATCATACCAACACATCATGGACATA
*
48517027 AATATATATATCATACCAACACATCATGTACATA
1 AATATATATATCATACCAACACATCATGGACATA
48517061 AATATATATAT
1 AATATATATAT
48517072 GTGCAAGTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.47, C:0.18, G:0.05, T:0.30
Consensus pattern (34 bp):
AATATATATATCATACCAACACATCATGGACATA
Found at i:48519268 original size:14 final size:15
Alignment explanation
Indices: 48519251--48519279 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48519241 TCATGAAAAT
48519251 TTCACACAT-ATAAA
1 TTCACACATAATAAA
48519265 TTCACACATAATAAA
1 TTCACACATAATAAA
48519280 CATATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:48521775 original size:29 final size:29
Alignment explanation
Indices: 48521700--48521845 Score: 170
Period size: 29 Copynumber: 5.1 Consensus size: 29
48521690 ACCCCTACAT
*
48521700 ACATGCATATGGCCCACTT-GGCCC-AATC
1 ACATTCATATGGCCCA-TTAGGCCCAAATC
* * *
48521728 TCATTTATATGGCCCATTAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
48521757 ACATTCATATGGCCTATTAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
48521786 ATATTCATATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
48521815 AAATTTATATGGCCCGTTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
48521844 AC
1 AC
48521846 CTTATTTTCA
Statistics
Matches: 100, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
27 2 0.02
28 18 0.18
29 80 0.80
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:48532584 original size:29 final size:29
Alignment explanation
Indices: 48532536--48532668 Score: 162
Period size: 29 Copynumber: 4.7 Consensus size: 29
48532526 GGCACACTTA
*
48532536 GCCC-AATCTCATTTATATGGCCCATCAG
1 GCCCAAATCACATTTATATGGCCCATCAG
*
48532564 GCCCAATTCACATTTATATGGCCCATCAG
1 GCCCAAATCACATTTATATGGCCCATCAG
* * * *
48532593 GCCCAATTCATATTCATATGGCCCATTAG
1 GCCCAAATCACATTTATATGGCCCATCAG
* * **
48532622 GCCCAAATCACCTTTATATGGCCCGTTGG
1 GCCCAAATCACATTTATATGGCCCATCAG
48532651 GCCCAAATCACA-TTATAT
1 GCCCAAATCACATTTATAT
48532669 TCATGCTCAC
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 10 0.11
29 82 0.89
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (29 bp):
GCCCAAATCACATTTATATGGCCCATCAG
Found at i:48535722 original size:48 final size:48
Alignment explanation
Indices: 48535665--48535936 Score: 289
Period size: 48 Copynumber: 5.7 Consensus size: 48
48535655 AATATTTGAA
* * *
48535665 CCAGTGTAAGACCATGT-TTGGAGCATGGCATCAGCATTGTTGTGAGAG
1 CCAGTGTAAGACCATGTCTGGGA-CATGGCATCGGCATTGTTATGAGAG
* * * ** *
48535713 CTAGTGTAAGACCATGTCTGGGACATGGCATTGAC-TTCAATATGTGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT-GTTATGAGAG
* ** * *
48535761 CCAGTGTAAGACCATGTTTGAAAGATGGTATC-GCATTGTTATGAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGAGAG
* * *** **
48535808 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATCTGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGAGAG
* * *
48535856 CCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATAAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGAGAG
48535904 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
48535937 ACATCTTACC
Statistics
Matches: 177, Mismatches: 43, Indels: 8
0.78 0.19 0.04
Matches are distributed among these distances:
47 36 0.20
48 137 0.77
49 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTTATGAGAG
Found at i:48535819 original size:95 final size:95
Alignment explanation
Indices: 48535654--48535938 Score: 419
Period size: 95 Copynumber: 3.0 Consensus size: 95
48535644 GATACTAGGG
* * * *
48535654 CAATATTTGAACCAGTGTAAGACCATGTTTGGAGCATGGCATCAGCATTGTTGTGAGAGCTAGTG
1 CAATATCTGAGCCAGTGTAAGACCATGTTTGAAG-ATGGCATCAGCATTGTTATGAGAGCTAGTG
* *
48535719 TAAGACCATGTCTGGGACATGGCATTGACTT
65 TAAGACCATGTCTGGGACATGGCATCGACCT
* *
48535750 CAATATGTGAGCCAGTGTAAGACCATGTTTGAAAGATGGTATC-GCATTGTTATGAGAGCTAGTG
1 CAATATCTGAGCCAGTGTAAGACCATGTTTG-AAGATGGCATCAGCATTGTTATGAGAGCTAGTG
*
48535814 TAAGACCATGTCTGGGACATGGCATCGGCCT
65 TAAGACCATGTCTGGGACATGGCATCGACCT
* * * *
48535845 CAATATCTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATAAGAGCCAGTG
1 CAATATCTGAGCCAGTGTAAGACCATGTTT-GAAGATGGCATCAGCATTGTTATGAGAGCTAGTG
48535910 TAAGACCATGTCTGGGACATGGCATCGAC
65 TAAGACCATGTCTGGGACATGGCATCGAC
48535939 ATCTTACCCT
Statistics
Matches: 172, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
95 86 0.50
96 84 0.49
97 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (95 bp):
CAATATCTGAGCCAGTGTAAGACCATGTTTGAAGATGGCATCAGCATTGTTATGAGAGCTAGTGT
AAGACCATGTCTGGGACATGGCATCGACCT
Found at i:48537880 original size:16 final size:17
Alignment explanation
Indices: 48537859--48537897 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
48537849 AGTGTAATGC
*
48537859 CCCAAAAATCTCGAAA-
1 CCCAAAAATCCCGAAAT
48537875 CCCAAAAATCCCGAAAT
1 CCCAAAAATCCCGAAAT
48537892 CCCAAA
1 CCCAAA
48537898 CTTTCTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.49, C:0.36, G:0.05, T:0.10
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAT
Found at i:48539825 original size:40 final size:40
Alignment explanation
Indices: 48539731--48539875 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
48539721 TACTCGAATG
*
48539731 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
48539772 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
48539812 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
48539852 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
48539876 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:48549237 original size:19 final size:19
Alignment explanation
Indices: 48549205--48549241 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
48549195 ACTTGGGTTG
*
48549205 AGAATTGGCCAAATGGGCT
1 AGAATGGGCCAAATGGGCT
*
48549224 AGAATGGGCTAAATGGGC
1 AGAATGGGCCAAATGGGC
48549242 CTAATGGGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.14, G:0.35, T:0.19
Consensus pattern (19 bp):
AGAATGGGCCAAATGGGCT
Done.