Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002189.1 Hibiscus syriacus cultivar Beakdansim tig00004457_pilon, whole genome shotgun sequence
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: 292373
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 2 of 2
Found at i:154054 original size:20 final size:20
Alignment explanation
Indices: 154029--154084 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
154019 ATCTTATTCC
*
154029 CTGATAATCTTACATTCTCA
1 CTGATAATCTTACATTCCCA
154049 CTGATAATCTTACATTCCCA
1 CTGATAATCTTACATTCCCA
*
154069 CTGGTAATCTTACATT
1 CTGATAATCTTACATT
154085 TCGTGAACCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (20 bp):
CTGATAATCTTACATTCCCA
Found at i:154764 original size:20 final size:19
Alignment explanation
Indices: 154716--154765 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
154706 AAATGACCAA
* *
154716 CAAAATCGCAATGCGATCT
1 CAAATTCGCAATGCGAACT
*
154735 TAAATTCGCAATGCGAACT
1 CAAATTCGCAATGCGAACT
*
154754 CCAACTTCGCAA
1 -CAAATTCGCAA
154766 CTCAGTTTCC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (19 bp):
CAAATTCGCAATGCGAACT
Found at i:154817 original size:20 final size:20
Alignment explanation
Indices: 154779--154817 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
154769 AGTTTCCAAA
* **
154779 TTCGCGTTGCGATTTTCCAT
1 TTCGCATTGCGATAGTCCAT
154799 TTCGCATTGCGATAGTCCA
1 TTCGCATTGCGATAGTCCA
154818 AAATCGTAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (20 bp):
TTCGCATTGCGATAGTCCAT
Found at i:154833 original size:41 final size:41
Alignment explanation
Indices: 154787--154891 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 41
154777 AATTCGCGTT
*
154787 GCGATTTTCCATTTCGCATTGCGATAGTCCAAAATCGTAAC
1 GCGATTTTCCATTTCGCATTGCGATAGTCCAAAATCGCAAC
* *
154828 TCGA-TTTGCATATTCGCATTGCGATAGTCCAAAATCGCAAC
1 GCGATTTTCCAT-TTCGCATTGCGATAGTCCAAAATCGCAAC
* *
154869 GCGATTTTCTATTTCGCGTTGCG
1 GCGATTTTCCATTTCGCATTGCG
154892 CTTTTCAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 6 0.11
41 44 0.80
42 5 0.09
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (41 bp):
GCGATTTTCCATTTCGCATTGCGATAGTCCAAAATCGCAAC
Found at i:154890 original size:102 final size:102
Alignment explanation
Indices: 154779--154979 Score: 303
Period size: 102 Copynumber: 2.0 Consensus size: 102
154769 AGTTTCCAAA
* * * * * *
154779 TTCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTCCAAAATCGTAACTCGATTTGCATATTCG
1 TTCGCGTTGCGATTTTCAAATTCGCATTGCGATAGTCCAAAATCGCAACGCGATTTGCAGATTCA
*
154844 CATTGCGATAGTCCAAAATCGCAACGCGATTTTCTAT
66 CATTGCGATAGTCCAAAATCGCAACGAGATTTTCTAT
* * * *
154881 TTCGCGTTGCGCTTTTCAAATTCGCGTTGCGATAGTCTAAAATCGCAACGCGATTTGTAGATTCA
1 TTCGCGTTGCGATTTTCAAATTCGCATTGCGATAGTCCAAAATCGCAACGCGATTTGCAGATTCA
154946 CATTGCGATAGTCCAAAATCGCAACGAGATTTTC
66 CATTGCGATAGTCCAAAATCGCAACGAGATTTTC
154980 AGATTCGCAT
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 88 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (102 bp):
TTCGCGTTGCGATTTTCAAATTCGCATTGCGATAGTCCAAAATCGCAACGCGATTTGCAGATTCA
CATTGCGATAGTCCAAAATCGCAACGAGATTTTCTAT
Found at i:154952 original size:41 final size:41
Alignment explanation
Indices: 154893--155033 Score: 176
Period size: 41 Copynumber: 3.4 Consensus size: 41
154883 CGCGTTGCGC
* * * *
154893 TTTTCAAATTCGCGTTGCGATAGTCTAAAATCGCAACGCGA
1 TTTTCAGATTCACATTGCGATAGTCCAAAATCGCAACGCGA
*
154934 TTTGT-AGATTCACATTGCGATAGTCCAAAATCGCAACGAGA
1 TTT-TCAGATTCACATTGCGATAGTCCAAAATCGCAACGCGA
* * *
154975 TTTTCAGATTCGCATTACGATAGTCCAAAATCTCAACGCGA
1 TTTTCAGATTCACATTGCGATAGTCCAAAATCGCAACGCGA
* *
155016 TTTTCAAATTCGCATTGC
1 TTTTCAGATTCACATTGC
155034 CAATGTTTAG
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.01
41 85 0.98
42 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (41 bp):
TTTTCAGATTCACATTGCGATAGTCCAAAATCGCAACGCGA
Found at i:155062 original size:27 final size:27
Alignment explanation
Indices: 155032--155088 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
155022 AATTCGCATT
*
155032 GCCAATGTTTAGATTCAACTGATCCAA
1 GCCAATGTTTAGATTCAACTAATCCAA
155059 GCCAATGTTTAGATTCAACTAATCCAA
1 GCCAATGTTTAGATTCAACTAATCCAA
155086 GCC
1 GCC
155089 GACTCGGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (27 bp):
GCCAATGTTTAGATTCAACTAATCCAA
Found at i:155475 original size:21 final size:21
Alignment explanation
Indices: 155445--155489 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
155435 CGCGCAATGA
* *
155445 AAAATCGCAACGCGGATTTGG
1 AAAATCGCAACACGAATTTGG
*
155466 AAAATTGCAACACGAATTTGG
1 AAAATCGCAACACGAATTTGG
155487 AAA
1 AAA
155490 CTGAGTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (21 bp):
AAAATCGCAACACGAATTTGG
Found at i:155949 original size:20 final size:17
Alignment explanation
Indices: 155924--155968 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 17
155914 GTTTAAAAAA
155924 CGGTTAATATACAACGTGAC
1 CGGTTAA-A-ACAA-GTGAC
155944 CGGTT-AAACAAGTGAC
1 CGGTTAAAACAAGTGAC
155960 CGGTTAAAA
1 CGGTTAAAA
155969 TTGAAATCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 10 0.42
17 7 0.29
18 1 0.04
19 1 0.04
20 5 0.21
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (17 bp):
CGGTTAAAACAAGTGAC
Found at i:155960 original size:16 final size:17
Alignment explanation
Indices: 155934--155967 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
155924 CGGTTAATAT
155934 ACAACGTGACCGGTTAA
1 ACAACGTGACCGGTTAA
155951 ACAA-GTGACCGGTTAA
1 ACAACGTGACCGGTTAA
155967 A
1 A
155968 ATTGAAATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.18
Consensus pattern (17 bp):
ACAACGTGACCGGTTAA
Found at i:156044 original size:23 final size:23
Alignment explanation
Indices: 156018--156065 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
156008 ATAAAGTACA
* *
156018 ATAACATACTAGGTAGCTCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
156041 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
156064 AT
1 AT
156066 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:156518 original size:23 final size:23
Alignment explanation
Indices: 156492--156554 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
156482 ATATAACCAC
156492 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
156515 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
156538 TACCTATTACATCATAT
1 TACCTATTACATTATAT
156555 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:156930 original size:427 final size:430
Alignment explanation
Indices: 156132--157183 Score: 1970
Period size: 427 Copynumber: 2.5 Consensus size: 430
156122 TATTACATTA
*
156132 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
156197 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
156262 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
156327 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
156392 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCATCAGTGAAAAAAGTATGGACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCATCAGTGAAAAAAGTATGGACACTT
156457 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
156522 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
* *
156562 TATTATATTGAAAGTGTCTATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
156627 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
**
156692 TTTGCAC-AAAAATTATTTGATTG-TTTGATATTTTATAAAATTTTATTTAGAATTTTTAATTTA
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
156755 ATAATAATATATATCGTAACGTAAAAAA-AAATCATTAGACGCCTATAATTACTAAATTAATATC
196 ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
*
156819 TTAAAACTCACTCAAATGATAACCTTAAATTAATGTTTTCCA-CAGTGAAAAAAGTATGGACACT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT-CATCAGTGAAAAAAGTATGGACACT
* * *
156883 TTTATAAAAATGATAGATACTTTACAATATAATCACTACCTATTACATTATATAAACGATACGTA
325 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
156948 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
390 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
156989 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
157054 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
*
157119 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA-TTTAAATTTA
131 TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
157183 A
196 A
157184 CAACATTAAC
Statistics
Matches: 605, Mismatches: 14, Indels: 8
0.96 0.02 0.01
Matches are distributed among these distances:
427 334 0.55
428 94 0.16
429 43 0.07
430 134 0.22
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (430 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
TTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTA
ATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATC
TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCATCAGTGAAAAAAGTATGGACACTT
TTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:156949 original size:23 final size:23
Alignment explanation
Indices: 156919--156981 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
156909 ATATAATCAC
156919 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
156942 TACGTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
156965 TACCTATTACATCATAT
1 TACCTATTACATTATAT
156982 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:157456 original size:39 final size:39
Alignment explanation
Indices: 157402--157488 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
157392 TCAAGTTGTA
*
157402 GATTTTGATTTCCTTTTGCTTAGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTAGCACCATATGAGATTTG
* *
157441 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTAGCACCATATGAGATTTG
157480 GATTTTGAT
1 GATTTTGAT
157489 GAGCATCGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.18, C:0.14, G:0.20, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTAGCACCATATGAGATTTG
Found at i:157757 original size:18 final size:18
Alignment explanation
Indices: 157734--157770 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
157724 CGAAATATAT
157734 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
157752 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
157770 A
1 A
157771 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:158184 original size:25 final size:25
Alignment explanation
Indices: 158156--158205 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
158146 CATTATTTTC
*
158156 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
158181 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
158206 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:158520 original size:23 final size:23
Alignment explanation
Indices: 158494--158552 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
158484 AACCACTACA
158494 TATTACATTATATAAACGATACC
1 TATTACATTATATAAACGATACC
* *
158517 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACC
*
158540 TATTACATCATAT
1 TATTACATTATAT
158553 TTTTACCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACC
Found at i:158955 original size:25 final size:25
Alignment explanation
Indices: 158898--158963 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
158888 CACTCAAAAG
*
158898 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
158923 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
158948 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
158964 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:161747 original size:183 final size:182
Alignment explanation
Indices: 161434--161925 Score: 885
Period size: 183 Copynumber: 2.7 Consensus size: 182
161424 TAAAATTACT
161434 GACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
1 GACACTTTTTTAAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
* *
161499 TTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTA
65 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
*
161564 TATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTC
130 TATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGTC
161617 GACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
1 GACACTTTTTTAAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
* *
161682 TTAAAAAATGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATATCGGTTA
65 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
*
161747 TATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTC
130 TATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGTC
*
161800 GACACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
1 GACACTTTTTTA-AATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
*
161865 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAATCGGTATATTTATACCG
65 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
161926 ATAGCATTGC
Statistics
Matches: 297, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
183 294 0.99
184 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (182 bp):
GACACTTTTTTAAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATAT
TAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTAT
ATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGTC
Found at i:162339 original size:23 final size:23
Alignment explanation
Indices: 162313--162375 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
162303 ATATAACCAC
162313 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
162336 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
162359 TACCTATTACATCATAT
1 TACCTATTACATTATAT
162376 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:163971 original size:3 final size:3
Alignment explanation
Indices: 163963--164028 Score: 78
Period size: 3 Copynumber: 22.0 Consensus size: 3
163953 ACTTGTTTGG
* * * *
163963 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC ATC ATC TTC ATC GTC AGC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* *
164011 TTC ATC GTC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC
164029 GTCAGCTTCA
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.26, C:0.33, G:0.05, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:163980 original size:12 final size:12
Alignment explanation
Indices: 163963--164040 Score: 75
Period size: 12 Copynumber: 6.2 Consensus size: 12
163953 ACTTGTTTGG
163963 ATCATCATCTTC
1 ATCATCATCTTC
163975 ATCATCATCATCATC
1 ATCATCATC-T--TC
163990 ATCATCATCTTC
1 ATCATCATCTTC
* *
164002 ATCGTCAGCTTC
1 ATCATCATCTTC
* *
164014 ATCGTCATCATC
1 ATCATCATCTTC
* *
164026 ATCGTCAGCTTC
1 ATCATCATCTTC
164038 ATC
1 ATC
164041 TTCTGCGACC
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
12 44 0.77
13 1 0.02
14 1 0.02
15 11 0.19
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.36
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:163995 original size:24 final size:24
Alignment explanation
Indices: 163965--164043 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 24
163955 TTGTTTGGAT
*
163965 CATCATCTTCATCATCA---TCAT
1 CATCATCTTCATCATCATCGTCAG
* *
163986 CATCATCATCATCTTCATCGTCAG
1 CATCATCTTCATCATCATCGTCAG
* *
164010 CTTCATCGTCATCATCATCGTCAG
1 CATCATCTTCATCATCATCGTCAG
*
164034 CTTCATCTTC
1 CATCATCTTC
164044 TGCGACCGCT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
21 15 0.31
24 33 0.69
ACGTcount: A:0.23, C:0.34, G:0.06, T:0.37
Consensus pattern (24 bp):
CATCATCTTCATCATCATCGTCAG
Found at i:166432 original size:199 final size:198
Alignment explanation
Indices: 165509--166676 Score: 2129
Period size: 198 Copynumber: 5.9 Consensus size: 198
165499 TTTAAATTAG
*
165509 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
*
165574 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCAATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
* *
165639 GACACTTTTTATATATGGATCGATACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
165704 AAA
196 AAA
*
165707 TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
*
165772 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGAGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
* *
165837 GACACTTTTTATATATGGATCGACACTTTATGGGTGTACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
165902 AAA
196 AAA
*
165905 TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
*
165970 TTGTACCGGTTAGATTGAAAAAATACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
*
166035 GACACTTTTTATATATGGATCGACACTTTATGATTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
166100 AAA
196 AAA
* *
166103 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTTTCATAAAAGCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
*
166168 TTGTACCGGTTAGATTGAAAAATTACATATTACAATATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
* *
166233 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTCGAACAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
166298 AAA
196 AAA
*
166301 TATCAACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
166366 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
* *
166431 CGACACTTTTTATATATGGGTCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
130 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
166496 AAAA
195 AAAA
166500 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
166565 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGA
166630 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
129 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
166677 GGCCATATTG
Statistics
Matches: 940, Mismatches: 28, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
198 592 0.63
199 286 0.30
200 62 0.07
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (198 bp):
TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
AAA
Found at i:168532 original size:33 final size:33
Alignment explanation
Indices: 168495--168560 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
168485 CATCTTAATA
*
168495 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
168528 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
168561 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:168619 original size:21 final size:21
Alignment explanation
Indices: 168594--168637 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
168584 CCCCTTATGC
168594 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
168615 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
168636 CT
1 CT
168638 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:170873 original size:17 final size:18
Alignment explanation
Indices: 170851--170893 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
170841 ATATATCCAG
170851 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
170868 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
170888 TATCAT
1 TATCAT
170894 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:170911 original size:20 final size:19
Alignment explanation
Indices: 170856--170902 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
170846 TCCAGTATCA
170856 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
170875 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
170896 TTTTACC
1 TTTTACC
170903 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:171237 original size:182 final size:182
Alignment explanation
Indices: 170823--171296 Score: 706
Period size: 182 Copynumber: 2.6 Consensus size: 182
170813 CGTACTTACG
* * * *
170823 AAAGTATCGACACTTTCAATATATCCAGTATCATTTTACCGGTTTTATCATTTTG-ATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTATACCGATT
* * *
170887 TTATCATATTTTTACCTGTTATATCGTTGTGGATCGATA-TTTTTTTTAAAGTATCGACACATTA
66 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
170951 TAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 TAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
171003 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTA-ACCGATT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTATACCGATT
* *
171067 TTATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTA
66 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
** *
171132 TAGG-ATTCAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 TAGGCGCT-AAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * * *
171185 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCA-TTTCTATACCGATT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTATACCGATT
* * *
171249 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTTA
66 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTA
171297 TTTGGATCGA
Statistics
Matches: 267, Mismatches: 22, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
180 96 0.36
181 74 0.28
182 97 0.36
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTATACCGATT
TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
TAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:171309 original size:182 final size:179
Alignment explanation
Indices: 170823--171296 Score: 698
Period size: 180 Copynumber: 2.6 Consensus size: 179
170813 CGTACTTACG
* * * *
170823 AAAGTATCGACACTTTCAATATATCCAGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTT-ATACCGATTT
* **
170888 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATTTTTTTTAAAGTATCGACACATTATA
65 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATA
170953 GGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
130 GGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
*
171003 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTAACCGATTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTAT-ACCGATTT
* *
171068 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
65 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTT-AAAGTATCGACACATTAT
** *
171133 AGG-ATTCAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
129 AGGCGCT-AAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * *
171185 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCTATACCGATTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TATACCGATTT
* * *
171250 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTTA
65 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTA
171297 TTTGGATCGA
Statistics
Matches: 266, Mismatches: 23, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
179 1 0.00
180 101 0.38
181 63 0.24
182 99 0.37
183 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.42
Consensus pattern (179 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTATACCGATTTT
ATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATAG
GCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:171816 original size:230 final size:228
Alignment explanation
Indices: 171365--171856 Score: 862
Period size: 230 Copynumber: 2.1 Consensus size: 228
171355 ACTTTTATAC
171365 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATATAATTTACTTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATATAATTTACTTTTCAATTT
171430 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
66 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
*
171495 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAT
131 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
*
171560 ATAATAATAAATATGTTTTCCACAGTGAAATAA
196 ATAATAATAAATATATTTTCCACAGTGAAATAA
* *
171593 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTTTGTAATTTA-TGTTTCAATT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATATAATTTACT-TTTCAA--
*
171657 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAA
63 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA
*
171722 AATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACC
128 AATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACC
171787 AAAGATAATAATAAATATATTTT-CACAGTGAAATAA
192 AAAGATAATAATAAATATATTTTCCACAGTGAAATAA
* *
171823 GTATGGACACTTTTATAAAAAGGATAGATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
171857 ACAATATAAC
Statistics
Matches: 252, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
227 1 0.00
228 58 0.23
230 121 0.48
231 72 0.29
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.45
Consensus pattern (228 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATATAATTTACTTTTCAATTT
TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
ATAATAATAAATATATTTTCCACAGTGAAATAA
Found at i:175759 original size:21 final size:21
Alignment explanation
Indices: 175735--175775 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
175725 TAAAAAATAT
*
175735 TTAAAATATTATTATTTTTAC
1 TTAAAATATTAATATTTTTAC
175756 TTAAAATATTAATATTTTTA
1 TTAAAATATTAATATTTTTA
175776 ATATTTTCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TTAAAATATTAATATTTTTAC
Found at i:175956 original size:22 final size:24
Alignment explanation
Indices: 175925--175972 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
175915 CGATAACATC
*
175925 TTTCATTTTTACTTTTA-C-TAGT
1 TTTCAATTTTACTTTTATCATAGT
*
175947 TTTCAATTTTAGTTTTATCATAGT
1 TTTCAATTTTACTTTTATCATAGT
175971 TT
1 TT
175973 AATATTAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
23 1 0.05
24 6 0.27
ACGTcount: A:0.21, C:0.10, G:0.06, T:0.62
Consensus pattern (24 bp):
TTTCAATTTTACTTTTATCATAGT
Found at i:178470 original size:6 final size:6
Alignment explanation
Indices: 178459--178490 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
178449 GGAGGAAGAT
178459 AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG AA
1 AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG AA
178491 GTCGAAGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (6 bp):
AAAGGG
Found at i:186454 original size:21 final size:20
Alignment explanation
Indices: 186430--186468 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
186420 AGTGCCCAAC
*
186430 AATAACAAAATCGGTAGAAAA
1 AATAACAAAA-CGATAGAAAA
186451 AATAACAAAACGATAGAA
1 AATAACAAAACGATAGAA
186469 GTATTAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.64, C:0.10, G:0.13, T:0.13
Consensus pattern (20 bp):
AATAACAAAACGATAGAAAA
Found at i:193403 original size:29 final size:29
Alignment explanation
Indices: 193370--193425 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
193360 TCCCAATACA
*
193370 TAGGTCGCCATGCTCTTCGGGCGACCTTG
1 TAGGTCGCCATGCTCTCCGGGCGACCTTG
193399 TAGGTCGCCATGCTCTCCGGGCGACCT
1 TAGGTCGCCATGCTCTCCGGGCGACCT
193426 ACTCTTGCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.11, C:0.34, G:0.30, T:0.25
Consensus pattern (29 bp):
TAGGTCGCCATGCTCTCCGGGCGACCTTG
Found at i:193464 original size:23 final size:23
Alignment explanation
Indices: 193436--193500 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
193426 ACTCTTGCTC
193436 GCTCGCTCGGCTGCCCTCGCATA
1 GCTCGCTCGGCTGCCCTCGCATA
*
193459 GTTCGCTCGGCTGCCCTCGCATA
1 GCTCGCTCGGCTGCCCTCGCATA
* * *
193482 GCTCGGTCGGATGGCCTCG
1 GCTCGCTCGGCTGCCCTCG
193501 GATGCTCTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.08, C:0.38, G:0.31, T:0.23
Consensus pattern (23 bp):
GCTCGCTCGGCTGCCCTCGCATA
Found at i:193501 original size:33 final size:33
Alignment explanation
Indices: 193464--193572 Score: 146
Period size: 33 Copynumber: 3.3 Consensus size: 33
193454 GCATAGTTCG
* * *
193464 CTCGGCTGCCCTCGCATAGCTCGGTCGGATGGC
1 CTCGGATGCCCTCGTATATCTCGGTCGGATGGC
*
193497 CTCGGATGCTCTCGTATATCTCGGTCGGATGGC
1 CTCGGATGCCCTCGTATATCTCGGTCGGATGGC
* * **
193530 CTCGGATGCTCTCGTATATCTTGACCGGATGGC
1 CTCGGATGCCCTCGTATATCTCGGTCGGATGGC
193563 CTCGGATGCC
1 CTCGGATGCC
193573 TAGCGTGTTG
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.12, C:0.31, G:0.30, T:0.27
Consensus pattern (33 bp):
CTCGGATGCCCTCGTATATCTCGGTCGGATGGC
Found at i:193647 original size:29 final size:29
Alignment explanation
Indices: 193610--193667 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
193600 GCAATCTCTC
193610 GTAGCTCGCCAAGAAGACATGGCGACCTA
1 GTAGCTCGCCAAGAAGACATGGCGACCTA
* ** *
193639 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGCTCGCCAAGAAGACATGGCGACCTA
193668 CGGCCAACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.14
Consensus pattern (29 bp):
GTAGCTCGCCAAGAAGACATGGCGACCTA
Found at i:194593 original size:23 final size:23
Alignment explanation
Indices: 194543--194594 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
194533 TTATATTAGG
*
194543 AATGAACTTATAAAATTTTAGAA
1 AATGAACTTATAAAATTTTAAAA
*
194566 AATGAATTTATAAAA-TTTAAAA
1 AATGAACTTATAAAATTTTAAAA
194588 AGATGAA
1 A-ATGAA
194595 AAAAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.33
Consensus pattern (23 bp):
AATGAACTTATAAAATTTTAAAA
Found at i:194636 original size:18 final size:19
Alignment explanation
Indices: 194596--194637 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
194586 AAAGATGAAA
194596 AAAATTATTAATAAAAATT
1 AAAATTATTAATAAAAATT
194615 -AAATTA-T-ATAAAAATTT
1 AAAATTATTAATAAAAA-TT
194632 AAAATT
1 AAAATT
194638 TTCAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.33
17 3 0.14
18 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTATTAATAAAAATT
Found at i:202228 original size:45 final size:39
Alignment explanation
Indices: 202148--202225 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
202138 TGACACACAC
202148 ACACACAAGAAGAAGAAAAAAAGAAACTTTTGGTTTTGG
1 ACACACAAGAAGAAGAAAAAAAGAAACTTTTGGTTTTGG
202187 ACACACAAGAAGAAGAAAAAAAGAAACTTTTGGTTTTGG
1 ACACACAAGAAGAAGAAAAAAAGAAACTTTTGGTTTTGG
202226 TTTCATGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.21
Consensus pattern (39 bp):
ACACACAAGAAGAAGAAAAAAAGAAACTTTTGGTTTTGG
Found at i:205311 original size:234 final size:234
Alignment explanation
Indices: 204902--205369 Score: 936
Period size: 234 Copynumber: 2.0 Consensus size: 234
204892 TTCATGCTAA
204902 CAGAAACAGATCCCTGCAAAAGCAAGTACATAAGGCATTCACTGATAATGAAGCCAACTTCATAT
1 CAGAAACAGATCCCTGCAAAAGCAAGTACATAAGGCATTCACTGATAATGAAGCCAACTTCATAT
204967 TGCAACAGATCAAAATATAGAGGCATAGCTTTCAGGATGGTGGAACCGGGCGACCGTTTAACCGA
66 TGCAACAGATCAAAATATAGAGGCATAGCTTTCAGGATGGTGGAACCGGGCGACCGTTTAACCGA
205032 TTCAACTTTCGGTACTTTTGGTTCAGTTTTTTCAACCATGGGTACCAATGACATCCGAAAAGCAT
131 TTCAACTTTCGGTACTTTTGGTTCAGTTTTTTCAACCATGGGTACCAATGACATCCGAAAAGCAT
205097 AATCCACAGAACAGGGGAAAAGTGATTACCTTGTTTCCC
196 AATCCACAGAACAGGGGAAAAGTGATTACCTTGTTTCCC
205136 CAGAAACAGATCCCTGCAAAAGCAAGTACATAAGGCATTCACTGATAATGAAGCCAACTTCATAT
1 CAGAAACAGATCCCTGCAAAAGCAAGTACATAAGGCATTCACTGATAATGAAGCCAACTTCATAT
205201 TGCAACAGATCAAAATATAGAGGCATAGCTTTCAGGATGGTGGAACCGGGCGACCGTTTAACCGA
66 TGCAACAGATCAAAATATAGAGGCATAGCTTTCAGGATGGTGGAACCGGGCGACCGTTTAACCGA
205266 TTCAACTTTCGGTACTTTTGGTTCAGTTTTTTCAACCATGGGTACCAATGACATCCGAAAAGCAT
131 TTCAACTTTCGGTACTTTTGGTTCAGTTTTTTCAACCATGGGTACCAATGACATCCGAAAAGCAT
205331 AATCCACAGAACAGGGGAAAAGTGATTACCTTGTTTCCC
196 AATCCACAGAACAGGGGAAAAGTGATTACCTTGTTTCCC
205370 AAGTAGCCCA
Statistics
Matches: 234, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
234 234 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (234 bp):
CAGAAACAGATCCCTGCAAAAGCAAGTACATAAGGCATTCACTGATAATGAAGCCAACTTCATAT
TGCAACAGATCAAAATATAGAGGCATAGCTTTCAGGATGGTGGAACCGGGCGACCGTTTAACCGA
TTCAACTTTCGGTACTTTTGGTTCAGTTTTTTCAACCATGGGTACCAATGACATCCGAAAAGCAT
AATCCACAGAACAGGGGAAAAGTGATTACCTTGTTTCCC
Found at i:205604 original size:32 final size:33
Alignment explanation
Indices: 205568--205636 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
205558 ATCAGATATC
* *
205568 TCAGAG-AAAAATGAACTTGTTGGTTTTCATCT
1 TCAGAGAAAAAACGAACTTGTTGATTTTCATCT
205600 TCAGAGAAAAAACGAACTTGTTGATTTTCATCT
1 TCAGAGAAAAAACGAACTTGTTGATTTTCATCT
205633 TCAG
1 TCAG
205637 GCCACACTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (33 bp):
TCAGAGAAAAAACGAACTTGTTGATTTTCATCT
Found at i:205915 original size:34 final size:34
Alignment explanation
Indices: 205876--205943 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
205866 CGGCCTGTTA
*
205876 TCCTCGGCTCCCAGTATATTTCCGGCATTCAAAG
1 TCCTCGGCTCCCAGTACATTTCCGGCATTCAAAG
*
205910 TCCTCGGCTCTCAGTACATTTCCGGCATTCAAAG
1 TCCTCGGCTCCCAGTACATTTCCGGCATTCAAAG
205944 GGACTACCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.21, C:0.32, G:0.18, T:0.29
Consensus pattern (34 bp):
TCCTCGGCTCCCAGTACATTTCCGGCATTCAAAG
Found at i:228289 original size:23 final size:23
Alignment explanation
Indices: 228263--228310 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
228253 ATAAAGTACA
* *
228263 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
**
228286 ATAATGTAATAGATAGCGCTTAT
1 ATAACATAATAGATAGCGCTTAT
228309 AT
1 AT
228311 TTACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGATAGCGCTTAT
Found at i:228718 original size:21 final size:22
Alignment explanation
Indices: 228693--228744 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
228683 ACACTTTACA
*
228693 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
228716 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
228739 ATATAA
1 ATATAA
228745 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:228729 original size:23 final size:23
Alignment explanation
Indices: 228703--228765 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
228693 ATATAACCAC
228703 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
228726 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
228749 TACCTATTACATCATAT
1 TACCTATTACATTATAT
228766 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:229147 original size:39 final size:39
Alignment explanation
Indices: 229091--229177 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
229081 TCAAGTTGTA
* *
229091 GATTTTGATTTCTTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
229130 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGTTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
229169 GATTTTGAT
1 GATTTTGAT
229178 GAGCATCGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.17, C:0.11, G:0.21, T:0.51
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:229459 original size:18 final size:18
Alignment explanation
Indices: 229436--229472 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
229426 CGAAATATAT
229436 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
229454 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
229472 A
1 A
229473 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:229749 original size:25 final size:25
Alignment explanation
Indices: 229721--229771 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
229711 TTAATCCAAA
*
229721 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
229746 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
229771 T
1 T
229772 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:230065 original size:21 final size:22
Alignment explanation
Indices: 230040--230091 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
230030 ACACTTTACA
*
230040 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
230063 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
230086 ATATAA
1 ATATAA
230092 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:230076 original size:23 final size:23
Alignment explanation
Indices: 230050--230112 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
230040 ATATAACCAC
230050 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
230073 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
230096 TACCTATTACATCATAT
1 TACCTATTACATTATAT
230113 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:230531 original size:23 final size:23
Alignment explanation
Indices: 230468--230540 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
230458 ACACTTTACA
* *
230468 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* * *
230491 ATATAAACGATACATATTTCATT
1 ATATAAACGCTACCTATTACATT
** *
230514 ATATAAGGGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
230537 ATAT
1 ATAT
230541 GTTTACCTAT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:230924 original size:21 final size:22
Alignment explanation
Indices: 230899--230950 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
230889 AAACTTTACA
*
230899 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
230922 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
230945 ATATAA
1 ATATAA
230951 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:230935 original size:23 final size:23
Alignment explanation
Indices: 230909--230971 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
230899 ATATAACCAC
230909 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
230932 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
230955 TACCTATTACATCATAT
1 TACCTATTACATTATAT
230972 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:231025 original size:431 final size:430
Alignment explanation
Indices: 229806--231500 Score: 3146
Period size: 431 Copynumber: 3.9 Consensus size: 430
229796 GAATTATTTA
* * * *
229806 ATTTAATAATTTCATTTACACAAAAAATTATTTAATTGTTTTGATATTTTATAAAATAATATTTA
1 ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
* *
229871 GAATTTTTAATTTAATAATAATATATATCGCAACGTAAAAAATAAATCATTAGACGCCTATAATT
66 GAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
* *
229936 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTTAAAA
131 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAA
*
230001 AAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATA
196 AAGTATGGACACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTACCTATTACATTATA
230066 TAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGA
261 TAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGA
230131 AAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCA
326 AAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCA
*
230196 ATTTTTTAACATTGTTTCATGTTTTCCACCTACAATATTG
391 ATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
230236 ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
1 ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
230301 GAA-TTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
66 GAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
* *
230365 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACATTGAAAA
131 ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAA
*
230430 AAGTATGGACACTTTTAT-AAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATA
196 AAGTATGGACACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTACCTATTACATTATA
* *
230494 TAAACGATACATATTTCATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGA
261 TAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGA
230559 AAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCA
326 AAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCA
230624 ATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
391 A-TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
*
230665 ATTTAATAATTTCATTTGCAGAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
1 ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
230730 GAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
66 GAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
*
230795 ACTAAATTAATATCTTAAAACTCACTCAAAA-ATTAATATTAAATTAATGTTTTCCACAGTGAAA
131 ACTAAATTAATATCTTAAAACTCACTCAAAAGA-TAACATTAAATTAATGTTTTCCACAGTGAAA
230859 AAAGTATGGACACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTACCTATTACATTAT
195 AAAGTATGGACACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTACCTATTACATTAT
230924 ATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTG
260 ATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTG
230989 AAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTC
325 AAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTC
231054 AATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
390 AA-TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
*
231096 ATTTAATAATTTCATTTGCAGAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
1 ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
*
231161 GAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCTTATAATT
66 GAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
*
231226 ACTAAATTAATATCTTAAAACTCACTCAAAA-ATTAATATTAAATTAATGTTTTCCACAGTGAAA
131 ACTAAATTAATATCTTAAAACTCACTCAAAAGA-TAACATTAAATTAATGTTTTCCACAGTGAAA
231290 AAAGTATGGACACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTACCTATTACATTAT
195 AAAGTATGGACACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTACCTATTACATTAT
231355 ATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTG
260 ATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTG
231420 AAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTC
325 AAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTC
231485 AATTTTTTAACAGTGT
390 AATTTTTTAACAGTGT
231501 ACTGCGAATT
Statistics
Matches: 1242, Mismatches: 19, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
428 175 0.14
429 246 0.20
430 217 0.17
431 604 0.49
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.40
Consensus pattern (430 bp):
ATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTA
GAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATT
ACTAAATTAATATCTTAAAACTCACTCAAAAGATAACATTAAATTAATGTTTTCCACAGTGAAAA
AAGTATGGACACTTTTATAAAAAGGATAGAAACTTTACAATATAACCACTACCTATTACATTATA
TAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGA
AAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCA
ATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTG
Found at i:231355 original size:21 final size:22
Alignment explanation
Indices: 231330--231381 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
231320 AAACTTTACA
*
231330 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
231353 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
231376 ATATAA
1 ATATAA
231382 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:231366 original size:23 final size:23
Alignment explanation
Indices: 231340--231402 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
231330 ATATAACCAC
231340 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
231363 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
231386 TACCTATTACATCATAT
1 TACCTATTACATTATAT
231403 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:234279 original size:184 final size:184
Alignment explanation
Indices: 233970--234497 Score: 948
Period size: 184 Copynumber: 2.9 Consensus size: 184
233960 TTCAAATTAC
*
233970 CGACACTTTTTTAAATGGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAAT
234035 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
234100 ATATTACAAAATTATCTATTACATTATAATTATGGGTTGCGATGTGTAAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTGCGATGTGTAAAATGT
234154 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAAT
234219 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
234284 ATATTACAAAATTATCTATTACATTATAATTATGGGTTGCGATGTGTAAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTGCGATGTGTAAAATGT
* * *
234338 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACACT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAAT
* * *
234403 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
66 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
* * * **
234468 ATATTGCAAATTTACCTATTTTATTATAAT
131 ATATTACAAAATTATCTATTACATTATAAT
234498 ATGTTGAAAG
Statistics
Matches: 332, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
184 332 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (184 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAAT
ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTGCGATGTGTAAAATGT
Found at i:235970 original size:3 final size:3
Alignment explanation
Indices: 235962--236048 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
235952 ACTTGTTTGG
* * * **
235962 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
236010 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
236049 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:235985 original size:18 final size:18
Alignment explanation
Indices: 235962--236063 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
235952 ACTTGTTTGG
235962 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
235980 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
235998 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
236016 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
236034 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
236052 AGCTTCATCTTC
1 ATCATCATCTTC
236064 TGCGACCGCT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:236029 original size:42 final size:42
Alignment explanation
Indices: 235970--236060 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
235960 GGATCATCAT
*
235970 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
236012 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
236054 CTTCATC
1 CTTCATC
236061 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:237847 original size:198 final size:199
Alignment explanation
Indices: 237509--239194 Score: 3178
Period size: 198 Copynumber: 8.5 Consensus size: 199
237499 TTTAAATTAG
237509 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
237574 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
237639 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
237703 AAAA
196 AAAA
237707 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
237772 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
237837 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
237901 AAAA
196 AAAA
237905 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
237970 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
238035 CGACAC-TTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTAATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
238097 AAAA
196 AAAA
238101 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
238166 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
238231 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCATCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
238295 AAAA
196 AAAA
*
238299 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
238364 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
238429 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCTATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
238493 AAAA
196 AAAA
238497 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
238562 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
238626 CGACACTTTTTATATATGGATTGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
238690 AAAA
196 AAAA
*
238694 TATCGACACAAACTATATTAGTGTCG--ACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
238757 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
238822 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
238887 AAAA
196 AAAA
*
238891 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAGAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
238956 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
239021 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
239086 AAAA
196 AAAA
*
239090 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAGAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
239155 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA
239195 TGGATCGACA
Statistics
Matches: 1465, Mismatches: 16, Indels: 13
0.98 0.01 0.01
Matches are distributed among these distances:
195 77 0.05
196 278 0.19
197 146 0.10
198 690 0.47
199 274 0.19
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAAA
Found at i:238239 original size:394 final size:398
Alignment explanation
Indices: 237509--239194 Score: 3178
Period size: 394 Copynumber: 4.3 Consensus size: 398
237499 TTTAAATTAG
237509 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
237574 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
237639 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
237703 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGG
237768 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
237833 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
237898 -AAAAAAA
391 AAAAAAAA
237905 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
237970 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
238035 CGACAC-TTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTAATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
238097 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGG
238162 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
238227 GGATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCATCCTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
238291 AAAAAAAA
391 AAAAAAAA
*
238299 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
238364 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
238429 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCTATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
238493 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGG
238558 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
* *
238622 GGATCGACACTTTTTATATATGGATTGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
238687 -AAAAAAA
391 AAAAAAAA
*
238694 TATCGACACAAACTATATTAGTGTCG--ACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
238757 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
238822 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
*
238887 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAGAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGG
238952 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
239017 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
239082 AAAAAAAA
391 AAAAAAAA
*
239090 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAGAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
239155 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA
239195 TGGATCGACA
Statistics
Matches: 1264, Mismatches: 17, Indels: 16
0.97 0.01 0.01
Matches are distributed among these distances:
393 160 0.13
394 501 0.40
395 195 0.15
396 333 0.26
398 75 0.06
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (398 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGG
TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
AAAAAAAA
Found at i:238639 original size:592 final size:595
Alignment explanation
Indices: 237509--239194 Score: 3192
Period size: 592 Copynumber: 2.8 Consensus size: 595
237499 TTTAAATTAG
237509 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
237574 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
237639 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTGGAAAA
237703 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGG
237768 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
237833 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
237898 -AAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAA
391 AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAA
237962 CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
456 CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
238027 TTTGGGATCGACACTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTAATTC
521 TTTGGGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAATTC
238091 TGGAAAAAAA
586 TGGAAAAAAA
238101 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
238166 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
238231 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCATCC-TGTTTTCCATTCATTCTGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCA-CCATGTTTTCCATTCATTCTGGAAA
*
238294 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
195 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCG
238359 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
260 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
*
238424 GGGATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCTATTCATTCTG
325 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTG
238488 GAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAA
390 GAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAA
238553 ACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGGTTCGATGA
455 ACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
* * *
238617 TTTTGGGATCGACACTTTTTATATATGGATTGACACTTTATGGGTGCACCTTGTTTTCCATTCAT
520 TTTTGGGATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAAT
238682 TCTGGAAAAAAA
584 TCTGGAAAAAAA
*
238694 TATCGACACAAACTATATTAGTGTCG--ACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
238757 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
238822 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTGGAAAA
*
238887 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAGAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGG
238952 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
239017 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
*
239082 AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAGAA
391 AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAA
239147 CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA
456 CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATA
239195 TGGATCGACA
Statistics
Matches: 1074, Mismatches: 12, Indels: 15
0.98 0.01 0.01
Matches are distributed among these distances:
591 241 0.22
592 610 0.57
593 223 0.21
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (595 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCATGTTTTCCATTCATTCTGGAAAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGG
TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
AAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAA
CCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
TTTGGGATCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTAATTC
TGGAAAAAAA
Found at i:239386 original size:19 final size:19
Alignment explanation
Indices: 239340--239388 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
239330 TTATATTCAC
*
239340 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
239359 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
239378 ATACAAAATTA
1 ATACAAAATTA
239389 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:243560 original size:17 final size:18
Alignment explanation
Indices: 243538--243580 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
243528 ATATATCTGG
243538 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
243555 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
243575 TATCAT
1 TATCAT
243581 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:243598 original size:20 final size:19
Alignment explanation
Indices: 243543--243589 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
243533 TCTGGTATCA
243543 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
243562 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
243583 TTTTACC
1 TTTTACC
243590 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:243736 original size:20 final size:20
Alignment explanation
Indices: 243710--243755 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
243700 CACTTTTAAA
243710 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
243729 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
243750 TTTACC
1 TTTACC
243756 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:244342 original size:225 final size:228
Alignment explanation
Indices: 243820--244491 Score: 1219
Period size: 227 Copynumber: 3.0 Consensus size: 228
243810 TTAAAACTGC
243820 TTTGAAAGTTATGTAATTTATGTTTCAA-TTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
243884 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAATATTATT
66 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAATATTATT
243949 TAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAAG
131 TAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAAG
244014 TATGGACACTTTTATAAAAATGATATATACTTT
196 TATGGACACTTTTATAAAAATGATATATACTTT
244047 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
244112 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTAT-AATATTATT
66 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAATATTATT
244176 TAGAATTTAAATTTAACAATATTAACCAAATATAATAAT-AATATGTTTTCAACAGTGAAATAAG
131 TAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAAG
244240 TATGGACAC-TTTATAAAAATGATATATACTTT
196 TATGGACACTTTTATAAAAATGATATATACTTT
*
244272 TTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
* **
244337 TTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
66 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTAT-AAATATTAT
* * * *
244402 TTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTC-ACAGTGAAATAA
130 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAA
*
244466 GTATGGACACTTTTATAAAAAGGATA
195 GTATGGACACTTTTATAAAAATGATA
244492 GATAATTTAC
Statistics
Matches: 431, Mismatches: 9, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
225 139 0.32
226 34 0.08
227 143 0.33
228 115 0.27
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.45
Consensus pattern (228 bp):
TTTGAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAATATTATT
TAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAAG
TATGGACACTTTTATAAAAATGATATATACTTT
Found at i:246886 original size:22 final size:21
Alignment explanation
Indices: 246827--246891 Score: 71
Period size: 20 Copynumber: 3.1 Consensus size: 21
246817 ATTTAATATT
246827 AAAT-TTAAAATATAATTTAA
1 AAATATTAAAATATAATTTAA
*
246847 AAATA-TAAAAAATGAATTATAA
1 AAATATTAAAATAT-AATT-TAA
* *
246869 ATATATTAAATTATAATTTAA
1 AAATATTAAAATATAATTTAA
246890 AA
1 AA
246892 TAATAACTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
20 11 0.31
21 8 0.22
22 11 0.31
23 6 0.17
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
AAATATTAAAATATAATTTAA
Found at i:246970 original size:20 final size:21
Alignment explanation
Indices: 246938--246983 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
246928 ACCAAATATT
246938 TATTTTTATAATTCAT-TTTTA
1 TATTTTTATAATT-ATATTTTA
246959 TATTTTTA-AATTATATTTTA
1 TATTTTTATAATTATATTTTA
*
246979 AATTT
1 TATTT
246984 AATATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 2 0.09
20 13 0.57
21 8 0.35
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTTTTATAATTATATTTTA
Found at i:248521 original size:21 final size:21
Alignment explanation
Indices: 248495--248538 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
248485 TGATGATCTT
248495 GAATAGCTTAAAGAGTGCTTC
1 GAATAGCTTAAAGAGTGCTTC
248516 GAATAGCTTAAAGAGTGCTTC
1 GAATAGCTTAAAGAGTGCTTC
248537 GA
1 GA
248539 CTTCACTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (21 bp):
GAATAGCTTAAAGAGTGCTTC
Found at i:250596 original size:62 final size:61
Alignment explanation
Indices: 250435--250603 Score: 173
Period size: 60 Copynumber: 2.8 Consensus size: 61
250425 GATGACTTTG
* ** * * ** *
250435 GGGATGAAATTG-AAAGATTCAAAAGTTTAGGGACCAATTTGGAATGAGAGTCATAATATG
1 GGGATGAAATTGTAAATATTCAAAAGTTTAAAGACCAATTTAGAATGAAAAACATAATATA
* * * * * * *
250495 GGGATGGAATT-TAAATATTTAAAATTTTAAAGACTAATTTAGAATGAAAAACGTATTTTA
1 GGGATGAAATTGTAAATATTCAAAAGTTTAAAGACCAATTTAGAATGAAAAACATAATATA
250555 GGGATGAAATTGTATAATATTCAAAAGTTTAAAGACCAATTTA-AATGAA
1 GGGATGAAATTGTA-AATATTCAAAAGTTTAAAGACCAATTTAGAATGAA
250604 GATCATAGTT
Statistics
Matches: 87, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
60 54 0.62
61 8 0.09
62 25 0.29
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.31
Consensus pattern (61 bp):
GGGATGAAATTGTAAATATTCAAAAGTTTAAAGACCAATTTAGAATGAAAAACATAATATA
Found at i:261728 original size:19 final size:20
Alignment explanation
Indices: 261703--261915 Score: 84
Period size: 20 Copynumber: 10.6 Consensus size: 20
261693 AAAATGACCA
261703 ACAAAATCGCAACGCGATAT
1 ACAAAATCGCAACGCGATAT
* *
261723 -CAAAATCGCAACGTGATTT
1 ACAAAATCGCAACGCGATAT
* * *
261742 AGAAAATCGCAACGTTGA-AA
1 ACAAAATCGCAACG-CGATAT
* *
261762 AGAAAATCGCAACG-G-TCAAA
1 ACAAAATCGCAACGCGAT--AT
* *
261782 AGAAAATCGCAACGCGATCTT
1 ACAAAATCGCAACGCGAT-AT
* * ***
261803 CCAAGAATCGCAATGCGAGCC
1 ACAA-AATCGCAACGCGATAT
***
261824 A-AAGAATCGCGTTGCGAT-T
1 ACAA-AATCGCAACGCGATAT
*
261843 CCAAGAATCGCAACGCGAT-T
1 ACAA-AATCGCAACGCGATAT
*
261863 CCAATAATCGCAACGCGAT-T
1 ACAA-AATCGCAACGCGATAT
*
261883 GAGAAAATCGCAACGCGAT-T
1 -ACAAAATCGCAACGCGATAT
*
261903 CCAAGAATCGCAA
1 ACAA-AATCGCAA
261916 AACGGCAAAA
Statistics
Matches: 154, Mismatches: 28, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
18 1 0.01
19 19 0.12
20 113 0.73
21 8 0.05
22 13 0.08
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (20 bp):
ACAAAATCGCAACGCGATAT
Found at i:261749 original size:20 final size:20
Alignment explanation
Indices: 261705--261795 Score: 89
Period size: 20 Copynumber: 4.6 Consensus size: 20
261695 AATGACCAAC
* *
261705 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGTGATATAG
*
261724 AAAATCGCAACGTGATTTAG
1 AAAATCGCAACGTGATATAG
*
261744 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-TGATATAG
* *
261764 AAAATCGCAACGGTCA-AAAG
1 AAAATCGCAAC-GTGATATAG
261784 AAAATCGCAACG
1 AAAATCGCAACG
261796 CGATCTTCCA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.27
20 42 0.67
21 4 0.06
ACGTcount: A:0.46, C:0.20, G:0.19, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACGTGATATAG
Found at i:261830 original size:20 final size:20
Alignment explanation
Indices: 261803--261915 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 20
261793 ACGCGATCTT
261803 CCAAGAATCGCAATGCGA-G
1 CCAAGAATCGCAATGCGATG
** *
261822 CCAAAGAATCGCGTTGCGATT
1 CC-AAGAATCGCAATGCGATG
* *
261843 CCAAGAATCGCAACGCGATT
1 CCAAGAATCGCAATGCGATG
* *
261863 CCAATAATCGCAACGCGATTG
1 CCAAGAATCGCAATGCGA-TG
** * *
261884 AGAA-AATCGCAACGCGATT
1 CCAAGAATCGCAATGCGATG
261903 CCAAGAATCGCAA
1 CCAAGAATCGCAA
261916 AACGGCAAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
19 5 0.06
20 67 0.87
21 5 0.06
ACGTcount: A:0.36, C:0.27, G:0.21, T:0.16
Consensus pattern (20 bp):
CCAAGAATCGCAATGCGATG
Found at i:261872 original size:40 final size:40
Alignment explanation
Indices: 261786--261915 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
261776 GTCAAAAGAA
* *
261786 AATCGCAACGCGATCTTCCAAGAATCGCAATGCGA-GCCAAAG
1 AATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTCC-AAG
*** *
261828 AATCGCGTTGCGATTCCAAGAATCGCAACGCGATTCCAAT
1 AATCGCAACGCGATTCCAAGAATCGCAACGCGATTCCAAG
* *
261868 AATCGCAACGCGATT-GAGAAAATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCA-AGAATCGCAACGCGATTCCAAG
261908 AATCGCAA
1 AATCGCAA
261916 AACGGCAAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 61 0.82
41 2 0.03
42 10 0.14
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.17
Consensus pattern (40 bp):
AATCGCAACGCGATTCCAAGAATCGCAACGCGATTCCAAG
Found at i:261893 original size:60 final size:61
Alignment explanation
Indices: 261786--261915 Score: 156
Period size: 60 Copynumber: 2.1 Consensus size: 61
261776 GTCAAAAGAA
* ***
261786 AATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAGAATCGCGTTGCGATTCCAAG
1 AATCGCAACGCGA-CTTCCAAGAATCGCAACGCGAGCCAAAGAATCGCAACGCGATTCCAAG
* ***
261848 AATCGCAACGCGA-TTCCAATAATCGCAACGCGATTGAGAA-AATCGCAACGCGATTCCAAG
1 AATCGCAACGCGACTTCCAAGAATCGCAACGCGAGCCA-AAGAATCGCAACGCGATTCCAAG
261908 AATCGCAA
1 AATCGCAA
261916 AACGGCAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
60 44 0.75
61 2 0.03
62 13 0.22
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.17
Consensus pattern (61 bp):
AATCGCAACGCGACTTCCAAGAATCGCAACGCGAGCCAAAGAATCGCAACGCGATTCCAAG
Found at i:262036 original size:6 final size:6
Alignment explanation
Indices: 262025--262082 Score: 116
Period size: 6 Copynumber: 9.7 Consensus size: 6
262015 AGACACGTAT
262025 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
262073 GACCAC GACC
1 GACCAC GACC
262083 CGAGACGAGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:262845 original size:6 final size:6
Alignment explanation
Indices: 262836--262935 Score: 200
Period size: 6 Copynumber: 16.7 Consensus size: 6
262826 GTCTCGTCTC
262836 TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG
1 TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG
262884 TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG
1 TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG
262932 TGGT
1 TGGT
262936 AATACGTGTC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 94 1.00
ACGTcount: A:0.00, C:0.16, G:0.50, T:0.34
Consensus pattern (6 bp):
TGGTCG
Found at i:263069 original size:20 final size:22
Alignment explanation
Indices: 263044--263093 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
263034 TTTTGCCGTT
263044 TTGCGATTCTTGG-A-ATCGCG
1 TTGCGATTCTTGGAAGATCGCG
263064 TTGCGATTCTTGGAAGATCGCG
1 TTGCGATTCTTGGAAGATCGCG
263086 TTGCGATT
1 TTGCGATT
263094 TTCTTTTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 13 0.46
21 1 0.04
22 14 0.50
ACGTcount: A:0.16, C:0.18, G:0.30, T:0.36
Consensus pattern (22 bp):
TTGCGATTCTTGGAAGATCGCG
Found at i:263109 original size:20 final size:20
Alignment explanation
Indices: 263084--263137 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
263074 TGGAAGATCG
* *
263084 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTCAA
263104 CGTTGCGATTTTCTTTTCAA
1 CGTTGCGATTTTCTTTTCAA
*
263124 CATTGCGATTTTCT
1 CGTTGCGATTTTCT
263138 AAATCGCGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTCAA
Found at i:269489 original size:29 final size:29
Alignment explanation
Indices: 269376--269491 Score: 162
Period size: 29 Copynumber: 4.0 Consensus size: 29
269366 CAGTGCAGCC
*
269376 GTAGGTCGCCATGGCATCCGAGCGAGCTTG
1 GTAGGTCGCCATGGCATCCGAGCGA-CATG
* *
269406 G-AGATCGCCATGGCATCCGAGCGACATT
1 GTAGGTCGCCATGGCATCCGAGCGACATG
* *
269434 GTAGGACGCCATGGCATCCCAGCGACATG
1 GTAGGTCGCCATGGCATCCGAGCGACATG
*
269463 GTAGGTCGCCAAGGCATCCGAGCGACATG
1 GTAGGTCGCCATGGCATCCGAGCGACATG
269492 CATGCTTTGC
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
28 3 0.04
29 71 0.95
30 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.33, T:0.16
Consensus pattern (29 bp):
GTAGGTCGCCATGGCATCCGAGCGACATG
Found at i:269633 original size:12 final size:11
Alignment explanation
Indices: 269613--269693 Score: 72
Period size: 11 Copynumber: 7.1 Consensus size: 11
269603 GAATTCAGCT
269613 GCATTATTGCA
1 GCATTATTGCA
**
269624 GCACTTATTGTT
1 GCA-TTATTGCA
269636 GCATTATTGCA
1 GCATTATTGCA
* *
269647 GCCCTTATTGCT
1 G-CATTATTGCA
269659 GCATTATTGCA
1 GCATTATTGCA
* **
269670 GTCCTTATTGTT
1 G-CATTATTGCA
269682 GCATTATTGCA
1 GCATTATTGCA
269693 G
1 G
269694 TCGTTCAGCT
Statistics
Matches: 53, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
11 27 0.51
12 26 0.49
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.42
Consensus pattern (11 bp):
GCATTATTGCA
Found at i:269694 original size:23 final size:23
Alignment explanation
Indices: 269612--269695 Score: 134
Period size: 23 Copynumber: 3.7 Consensus size: 23
269602 TGAATTCAGC
269612 TGCATTATTGCAG-CACTTATTGT
1 TGCATTATTGCAGTC-CTTATTGT
* *
269635 TGCATTATTGCAGCCCTTATTGC
1 TGCATTATTGCAGTCCTTATTGT
269658 TGCATTATTGCAGTCCTTATTGT
1 TGCATTATTGCAGTCCTTATTGT
269681 TGCATTATTGCAGTC
1 TGCATTATTGCAGTC
269696 GTTCAGCTCA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
23 56 0.98
24 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.43
Consensus pattern (23 bp):
TGCATTATTGCAGTCCTTATTGT
Found at i:269942 original size:39 final size:39
Alignment explanation
Indices: 269899--270007 Score: 143
Period size: 39 Copynumber: 2.8 Consensus size: 39
269889 TTATTATTTT
** *
269899 AAATTATTAGTTTGTTAGTTTA-TGGTTTAAGGTAAAACA
1 AAATT-TTAGTTAATTAGTTTAGTAGTTTAAGGTAAAACA
269938 AAATTTTAGTTAATTAG-TTAGTTAGTTTAAGGTAAAACA
1 AAATTTTAGTTAATTAGTTTAG-TAGTTTAAGGTAAAACA
269977 AAATTTTAGTTAATTAGTTT-GTTAGTTTAAG
1 AAATTTTAGTTAATTAGTTTAG-TAGTTTAAG
270008 TTATATTATT
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
37 3 0.05
38 10 0.16
39 49 0.77
40 2 0.03
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.45
Consensus pattern (39 bp):
AAATTTTAGTTAATTAGTTTAGTAGTTTAAGGTAAAACA
Found at i:270019 original size:21 final size:21
Alignment explanation
Indices: 269995--270034 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
269985 GTTAATTAGT
269995 TTGTTAGTTTAAGTTATATTA
1 TTGTTAGTTTAAGTTATATTA
270016 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAGTTATAT
270035 GATACATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAGTTATATTA
Found at i:270331 original size:26 final size:28
Alignment explanation
Indices: 270271--270332 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
270261 ATAAAAGAAT
*
270271 AATTATTTAAATTAGTTTATTATTATAA
1 AATTAGTTAAATTAGTTTATTATTATAA
270299 ATTATTAGTT-AATTAGTTTATTATTAT-A
1 A--ATTAGTTAAATTAGTTTATTATTATAA
270327 AATTAG
1 AATTAG
270333 GGTAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
26 5 0.16
28 3 0.10
29 17 0.55
30 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.53
Consensus pattern (28 bp):
AATTAGTTAAATTAGTTTATTATTATAA
Found at i:270385 original size:21 final size:21
Alignment explanation
Indices: 270360--270399 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
270350 GTTAATTAGT
270360 TTGTTAGTTTAAGTTATATAA
1 TTGTTAGTTTAAGTTATATAA
270381 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAGTTATAT
270400 CATATAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (21 bp):
TTGTTAGTTTAAGTTATATAA
Found at i:270646 original size:4 final size:4
Alignment explanation
Indices: 270637--270663 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
270627 GTGTTGTAAA
270637 TTAG TTAG TTAG TTAG TTAG TTAG TTA
1 TTAG TTAG TTAG TTAG TTAG TTAG TTA
270664 CTTAACATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TTAG
Found at i:270824 original size:15 final size:14
Alignment explanation
Indices: 270792--270839 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
270782 GTCATTTGGG
*
270792 AATAATTGTGAATAA
1 AATAATTGTTAAT-A
270807 AATAATTGTTTAATA
1 AATAATTG-TTAATA
* *
270822 AATTATTATTAATA
1 AATAATTGTTAATA
270836 AATA
1 AATA
270840 TTTGAATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 9 0.32
15 15 0.54
16 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (14 bp):
AATAATTGTTAATA
Found at i:277751 original size:20 final size:19
Alignment explanation
Indices: 277724--277784 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 19
277714 CATTTTGGTG
277724 CAGAGGGAATCGATCCCCC
1 CAGAGGGAATCGATCCCCC
*
277743 CATGAGGGAACCGATTCCCCC
1 CA-GAGGGAATCGA-TCCCCC
*
277764 CACAGGGGAATCGATACCCCC
1 CAGA-GGGAATCGAT-CCCCC
277785 TGGGGTTCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 2 0.06
20 12 0.34
21 21 0.60
ACGTcount: A:0.26, C:0.38, G:0.25, T:0.11
Consensus pattern (19 bp):
CAGAGGGAATCGATCCCCC
Found at i:277763 original size:21 final size:20
Alignment explanation
Indices: 277726--277765 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
277716 TTTTGGTGCA
*
277726 GAGGGAATCGATCCCCCCAT
1 GAGGGAACCGATCCCCCCAT
277746 GAGGGAACCGATTCCCCCCA
1 GAGGGAACCGA-TCCCCCCA
277766 CAGGGGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCAT
Found at i:282362 original size:17 final size:17
Alignment explanation
Indices: 282342--282383 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
282332 ATTAGTATCA
282342 AATAATTAAATATTAAT
1 AATAATTAAATATTAAT
* *
282359 AATAAATCAATATTAAT
1 AATAATTAAATATTAAT
282376 AATAATTA
1 AATAATTA
282384 CTAAATCATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAATTAAATATTAAT
Found at i:282399 original size:11 final size:11
Alignment explanation
Indices: 282361--282471 Score: 87
Period size: 11 Copynumber: 9.2 Consensus size: 11
282351 ATATTAATAA
*
282361 TAAATCAATAT
1 TAAATCATTAT
* *
282372 TAATAATAATTAC
1 T-A-AATCATTAT
282385 TAAATCATTAT
1 TAAATCATTAT
282396 TAAATCATTAT
1 TAAATCATTAT
282407 TAAATCATTATT
1 TAAATCATTA-T
282419 ATCAAATCATTATT
1 -T-AAATCATTA-T
*
282433 ATAATGATTATTAT
1 -TAA--ATCATTAT
282447 TAAATCATTAT
1 TAAATCATTAT
*
282458 TATAATAATTAT
1 TA-AATCATTAT
282470 TA
1 TA
282472 TCAAATCAGT
Statistics
Matches: 84, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
11 38 0.45
12 13 0.15
13 13 0.15
14 14 0.17
15 6 0.07
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.45
Consensus pattern (11 bp):
TAAATCATTAT
Found at i:282408 original size:14 final size:14
Alignment explanation
Indices: 282391--282479 Score: 93
Period size: 14 Copynumber: 6.9 Consensus size: 14
282381 TTACTAAATC
282391 ATTATTAAATC---
1 ATTATTAAATCATT
282402 ATTATTAAATCATT
1 ATTATTAAATCATT
*
282416 ATTATCAAATCATT
1 ATTATTAAATCATT
*
282430 ATTA-T-AATGATT
1 ATTATTAAATCATT
282442 ATTATTAAATCATT
1 ATTATTAAATCATT
*
282456 ATTA-T-AATAATT
1 ATTATTAAATCATT
*
282468 ATTATCAAATCA
1 ATTATTAAATCA
282480 GTACTAAATC
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
11 11 0.17
12 20 0.31
13 2 0.03
14 31 0.48
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.46
Consensus pattern (14 bp):
ATTATTAAATCATT
Found at i:282451 original size:26 final size:26
Alignment explanation
Indices: 282391--282479 Score: 135
Period size: 26 Copynumber: 3.5 Consensus size: 26
282381 TTACTAAATC
* *
282391 ATTATTAAATCATTATTA-AATCATT
1 ATTATCAAATCATTATTATAATAATT
*
282416 ATTATCAAATCATTATTATAATGATT
1 ATTATCAAATCATTATTATAATAATT
*
282442 ATTATTAAATCATTATTATAATAATT
1 ATTATCAAATCATTATTATAATAATT
282468 ATTATCAAATCA
1 ATTATCAAATCA
282480 GTACTAAATC
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
25 17 0.29
26 41 0.71
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.46
Consensus pattern (26 bp):
ATTATCAAATCATTATTATAATAATT
Found at i:283025 original size:49 final size:49
Alignment explanation
Indices: 282907--283101 Score: 329
Period size: 49 Copynumber: 4.0 Consensus size: 49
282897 ATTATTAATC
282907 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTT-ATT
1 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
*
282956 ATTATTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
*
283005 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATC
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
* * *
283054 ATTAGTAATTATTATTATCAAATCATTAAATATTAATAATAATTTCAT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCAT
283102 ACGAAGGTAA
Statistics
Matches: 139, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
48 39 0.28
49 100 0.72
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.44
Consensus pattern (49 bp):
ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATT
Found at i:283039 original size:21 final size:21
Alignment explanation
Indices: 283015--283091 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
283005 ATTACTAATC
*
283015 ATTACTATCAAATCATTAAAT
1 ATTAATATCAAATCATTAAAT
283036 ATTAATAAT-AATTTCATCATTAGTAATT
1 ATTAAT-ATCAA----ATCATTA--AA-T
*
283064 ATTATTATCAAATCATTAAAT
1 ATTAATATCAAATCATTAAAT
283085 ATTAATA
1 ATTAATA
283092 ATAATTTCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 18
0.68 0.05 0.28
Matches are distributed among these distances:
21 14 0.32
22 4 0.09
24 7 0.16
25 7 0.16
27 4 0.09
28 8 0.18
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (21 bp):
ATTAATATCAAATCATTAAAT
Found at i:284041 original size:26 final size:24
Alignment explanation
Indices: 283981--284041 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
283971 TACTAATATT
*
283981 ATTAATAATGATTTAATAATTATT
1 ATTAATAATGATTTAATAATTATG
* *
284005 ATTAATCTAATGATTTGATATTTAATG
1 ATTAA--TAATGATTTAATAATT-ATG
284032 ATTTAATAAT
1 A-TTAATAAT
284042 AATATGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.17
26 18 0.60
27 3 0.10
28 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (24 bp):
ATTAATAATGATTTAATAATTATG
Found at i:285083 original size:21 final size:21
Alignment explanation
Indices: 285050--285098 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
285040 AATATAATAT
285050 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
285071 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
285092 ATTAACT
1 A-TAACT
285099 AAATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:285261 original size:12 final size:12
Alignment explanation
Indices: 285246--285280 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
285236 AATTTCTATA
*
285246 TCTGCTTCTTCT
1 TCTGCTTCTACT
285258 TCTGCTTCTACT
1 TCTGCTTCTACT
285270 TCTGCTTCTAC
1 TCTGCTTCTAC
285281 CCTAAACCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.06, C:0.34, G:0.09, T:0.51
Consensus pattern (12 bp):
TCTGCTTCTACT
Found at i:285574 original size:29 final size:29
Alignment explanation
Indices: 285532--285645 Score: 135
Period size: 29 Copynumber: 3.9 Consensus size: 29
285522 GTAAAGCTTG
*
285532 GTCGCCGGGCGTGCATGGTGACCTACCAT
1 GTCGCTGGGCGTGCATGGTGACCTACCAT
*
285561 GTCGCTGGGCGTGCAT-GTCAACCTACCAT
1 GTCGCTGGGCGTGCATGGT-GACCTACCAT
* * *
285590 GTCGCTGGGCGTACATGGCGACCTACCAC
1 GTCGCTGGGCGTGCATGGTGACCTACCAT
285619 GTCG-TCGGGAC-TGCATGGTGACCTACC
1 GTCGCT-GGG-CGTGCATGGTGACCTACC
285646 CCAAGAACAT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
28 3 0.04
29 68 0.93
30 2 0.03
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.21
Consensus pattern (29 bp):
GTCGCTGGGCGTGCATGGTGACCTACCAT
Found at i:285696 original size:30 final size:29
Alignment explanation
Indices: 285662--285729 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
285652 ACATTCGACG
285662 TGCATAAG-TCATGCACAACTCCCACATGCA
1 TGCATAAGCTCATG-A-AACTCCCACATGCA
*
285692 TGCAT-AGCTCGTGAAACTCCCACATGCA
1 TGCATAAGCTCATGAAACTCCCACATGCA
285720 TGCAT-AGCTC
1 TGCATAAGCTC
285730 GAGACCTACG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 24 0.67
29 3 0.08
30 9 0.25
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.22
Consensus pattern (29 bp):
TGCATAAGCTCATGAAACTCCCACATGCA
Found at i:286263 original size:42 final size:42
Alignment explanation
Indices: 286192--286280 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
286182 CCCGACCCGA
* *
286192 TCGGGTCGGATTTTTTTAAAAAAAATTCGGATTCGGGTCGG-G
1 TCGGGTCGGATTTTTTT-AAAAAAATTCGGAGTCAGGTCGGAG
**
286234 TCGGGTCGGATTTTATATT-AAAATTTTCGGAGTCAGGTCGGAG
1 TCGGGTCGGATTTT-T-TTAAAAAAATTCGGAGTCAGGTCGGAG
286277 TCGG
1 TCGG
286281 ATTTAAGGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
42 32 0.80
43 6 0.15
44 2 0.05
ACGTcount: A:0.22, C:0.12, G:0.31, T:0.34
Consensus pattern (42 bp):
TCGGGTCGGATTTTTTTAAAAAAATTCGGAGTCAGGTCGGAG
Found at i:286293 original size:38 final size:36
Alignment explanation
Indices: 286223--286295 Score: 92
Period size: 38 Copynumber: 2.0 Consensus size: 36
286213 AAAATTCGGA
* * *
286223 TTCGGGTCGGGTCGGGTCGGATTTTATATTAAAATT
1 TTCGGGTCAGGTCGGGTCGGATTTAAGATTAAAATT
*
286259 TTCGGAGTCAGGTCGGAGTCGGATTTAAGGTTAAAAT
1 TTCGG-GTCAGGTCGG-GTCGGATTTAAGATTAAAAT
286296 AACCCGACCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 5 0.16
37 9 0.29
38 17 0.55
ACGTcount: A:0.23, C:0.11, G:0.32, T:0.34
Consensus pattern (36 bp):
TTCGGGTCAGGTCGGGTCGGATTTAAGATTAAAATT
Done.