Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 74 of 240
Found at i:23621874 original size:46 final size:46
Alignment explanation
Indices: 23621807--23622127 Score: 579
Period size: 46 Copynumber: 7.0 Consensus size: 46
23621797 CATGGCAAAG
* *
23621807 TGTGAAAAGTAAGTATGGTGTTTCGGTGAAGAAAATCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
23621853 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
23621899 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* *
23621945 TATGAAAAGTAGGTATGGTGTTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* *
23621991 TGTGAAAAGTAAGTATGGTGTTTCGGTGAAGAAAATCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
23622037 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
*
23622083 TGTGAAAAGTAGGTATGGTGTTTCCGTGAAGAAAACCATACTGAG
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAG
23622128 GCAATGTGAA
Statistics
Matches: 264, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 264 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
Found at i:23645635 original size:43 final size:43
Alignment explanation
Indices: 23645574--23645847 Score: 449
Period size: 43 Copynumber: 6.3 Consensus size: 43
23645564 TCTGATGCGT
* * *
23645574 GATTTCGTGTAAGACCATAACTGAGCTATTGGCATCGATCTGA
1 GATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
*
23645617 GATTTTGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
1 GATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
23645660 GATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
1 GATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
23645703 GATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
1 GATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
*
23645746 GATTTCGTGTAAGACCATAGCTGGGCTATTGACATCGATTTGA
1 GATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
* * **
23645789 GATTTTGTGTAAGACCATAGCTAGGCTATTGGCATCGATACGA
1 GATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
*
23645832 GATTTCTATGTAAGAC
1 GATTTC-GTGTAAGAC
23645848 TATGTCTGGG
Statistics
Matches: 217, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
43 209 0.96
44 8 0.04
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
Found at i:23649087 original size:91 final size:90
Alignment explanation
Indices: 23648928--23649131 Score: 239
Period size: 91 Copynumber: 2.3 Consensus size: 90
23648918 CTCTGTTTTG
* * * * * * ** *
23648928 TGGATAAACCACTAGTG-TTGCAGGTTAATACACTGCCATTAGTAGTGAGTATACAATGGGTTTG
1 TGGATAAACCACCAGTGTTTGCAGGTTAATACACTACCAGTAGTAGTAAATACACAACAGGTTTA
23648992 CAGATAAAAGTTGCCAATAAAAATTA
66 CAGATAAAAGTTGCCAAT-AAAATTA
* * *
23649018 TGGATAAACCACCAGTGTTTGCTGGTTAATACGCTACCAGTAGTTGTAAATACACAACAGGTTTA
1 TGGATAAACCACCAGTGTTTGCAGGTTAATACACTACCAGTAGTAGTAAATACACAACAGGTTTA
* ** *
23649083 CAGATAAAATTTGCCAATAAGTTTG
66 CAGATAAAAGTTGCCAATAAAATTA
*
23649108 TGGACAAACCACCAGTGTTTGCAG
1 TGGATAAACCACCAGTGTTTGCAG
23649132 ATAAACTACC
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
90 42 0.44
91 53 0.56
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (90 bp):
TGGATAAACCACCAGTGTTTGCAGGTTAATACACTACCAGTAGTAGTAAATACACAACAGGTTTA
CAGATAAAAGTTGCCAATAAAATTA
Found at i:23653118 original size:27 final size:27
Alignment explanation
Indices: 23653066--23653119 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
23653056 TTGCTTAGTT
* *
23653066 TTAATAAAATATACATTTCATGCATTA
1 TTAATAAAATAAACATTTCATACATTA
*
23653093 TTAATTAAAATAAATATTTCA-ACATTA
1 TTAA-TAAAATAAACATTTCATACATTA
23653120 AAAAAACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (27 bp):
TTAATAAAATAAACATTTCATACATTA
Found at i:23653694 original size:21 final size:21
Alignment explanation
Indices: 23653668--23653709 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
23653658 CTGCCAGTAA
*
23653668 GTTTGTGGATAAACCACCAGT
1 GTTTGTAGATAAACCACCAGT
*
23653689 GTTTGTAGATAAACTACCAGT
1 GTTTGTAGATAAACCACCAGT
23653710 AGGTTGTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (21 bp):
GTTTGTAGATAAACCACCAGT
Found at i:23653703 original size:44 final size:43
Alignment explanation
Indices: 23653655--23653790 Score: 125
Period size: 44 Copynumber: 3.1 Consensus size: 43
23653645 TTGCAGATAA
* *
23653655 AAACTGCCAGTAAGTTTGTGGATAAACCACCAGTGTTTGTAGAT
1 AAACTACCAGTAAGTTTGTGGATGAACCACCA-TGTTTGTAGAT
* * * * *
23653699 AAACTACCAGT-AGGTTGTGAATGCACAACGCA--TTTGAAGAT
1 AAACTACCAGTAAGTTTGTGGATGAACCAC-CATGTTTGTAGAT
* *
23653740 AAAAGCTACAAGTAAGTTTGTGGATGAACCACCAATGTTTGTAAAT
1 -AAA-CTACCAGTAAGTTTGTGGATGAACCACC-ATGTTTGTAGAT
23653786 AAACT
1 AAACT
23653791 GTCAGTAGGT
Statistics
Matches: 71, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
41 8 0.11
42 3 0.04
43 21 0.30
44 29 0.41
45 3 0.04
46 7 0.10
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (43 bp):
AAACTACCAGTAAGTTTGTGGATGAACCACCATGTTTGTAGAT
Found at i:23653724 original size:87 final size:87
Alignment explanation
Indices: 23653578--23653865 Score: 351
Period size: 87 Copynumber: 3.3 Consensus size: 87
23653568 CCCGAACACT
* * * * * * * *
23653578 TAAGTTTATGGATGAACCACCATTGTTTGCAAATAAACTGCCACTTGGTTGTGAATGCACAATGT
1 TAAGTTTGTGGATAAACCACCAATGTTTGTAAATAAACTGCCAGTAGGTTGTGAATGCACAACGA
* * *
23653643 ATTTGCAGATAAAAACTGCCAG
66 ATTTGAAGATAAAAGCTGCAAG
* * * *
23653665 TAAGTTTGTGGATAAACCACCAGTGTTTGTAGATAAACTACCAGTAGGTTGTGAATGCACAACGC
1 TAAGTTTGTGGATAAACCACCAATGTTTGTAAATAAACTGCCAGTAGGTTGTGAATGCACAACGA
*
23653730 ATTTGAAGATAAAAGCTACAAG
66 ATTTGAAGATAAAAGCTGCAAG
* * * * *
23653752 TAAGTTTGTGGATGAACCACCAATGTTTGTAAATAAACTGTCAGTAGGTTGTGAGTGCGCAACAA
1 TAAGTTTGTGGATAAACCACCAATGTTTGTAAATAAACTGCCAGTAGGTTGTGAATGCACAACGA
* *
23653817 ATTTGTAGATAAAAGCTGCTAG
66 ATTTGAAGATAAAAGCTGCAAG
* *
23653839 TAAATTCGTGGATAAACCACCAATGTT
1 TAAGTTTGTGGATAAACCACCAATGTT
23653866 GCCAATTATT
Statistics
Matches: 172, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
87 172 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (87 bp):
TAAGTTTGTGGATAAACCACCAATGTTTGTAAATAAACTGCCAGTAGGTTGTGAATGCACAACGA
ATTTGAAGATAAAAGCTGCAAG
Found at i:23654006 original size:38 final size:38
Alignment explanation
Indices: 23653955--23654082 Score: 184
Period size: 38 Copynumber: 3.4 Consensus size: 38
23653945 ACAATATTGA
* *
23653955 AACAATAGACATGCTTAACGTGTATTCGATTCAACAGT
1 AACAATAGACATGCTTAACATGTATTCGGTTCAACAGT
* * *
23653993 AACAATAGACATGCTTATCATGTATTCGGCTCAACGGT
1 AACAATAGACATGCTTAACATGTATTCGGTTCAACAGT
* *
23654031 AACAATAGACATGTTTAACATGTATCCGGTTCAACAGT
1 AACAATAGACATGCTTAACATGTATTCGGTTCAACAGT
*
23654069 AACAATAGGCATGC
1 AACAATAGACATGC
23654083 AATCATTAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 78 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (38 bp):
AACAATAGACATGCTTAACATGTATTCGGTTCAACAGT
Found at i:23654385 original size:12 final size:12
Alignment explanation
Indices: 23654368--23654392 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23654358 TGAGTCACAC
23654368 TCTGTGCCCGTG
1 TCTGTGCCCGTG
23654380 TCTGTGCCCGTG
1 TCTGTGCCCGTG
23654392 T
1 T
23654393 AACTCTCTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.32, G:0.32, T:0.36
Consensus pattern (12 bp):
TCTGTGCCCGTG
Found at i:23655830 original size:29 final size:29
Alignment explanation
Indices: 23655784--23655845 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
23655774 TTTTTCATAT
*
23655784 AATCACATATATAGACATGAATTAAATTC
1 AATCACATATATACACATGAATTAAATTC
23655813 AATCACATATATACACATGAATTAAATTC
1 AATCACATATATACACATGAATTAAATTC
23655842 AATC
1 AATC
23655846 TATAATAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.48, C:0.16, G:0.05, T:0.31
Consensus pattern (29 bp):
AATCACATATATACACATGAATTAAATTC
Found at i:23666427 original size:72 final size:72
Alignment explanation
Indices: 23666304--23666542 Score: 392
Period size: 72 Copynumber: 3.3 Consensus size: 72
23666294 AAAATCATAT
**
23666304 ATAAACAACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAACATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
*
23666367 GACCAAAC
65 AACCAAAC
* *
23666375 ATAAACAACTATTAATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAACATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
23666440 ACCAAAC
66 ACCAAAC
*
23666447 ATAAACAACCATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
23666512 ACCAAAC
66 ACCAAAC
*
23666519 ATAAATAACTATTGATAAAACTAG
1 ATAAACAACTATTGATAAAACTAG
23666543 TTTAGCATTG
Statistics
Matches: 156, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
71 25 0.16
72 131 0.84
ACGTcount: A:0.55, C:0.16, G:0.06, T:0.23
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:23673471 original size:38 final size:38
Alignment explanation
Indices: 23673384--23673506 Score: 110
Period size: 38 Copynumber: 3.2 Consensus size: 38
23673374 CTTATTGGTT
* *
23673384 GCATGCCTACTA-TCACTATTGAACTGAATACATGTTAAA
1 GCATTCCTACTACT-ACTGTTGAACTGAATACATGTT-AA
* * *
23673423 G-ACGT-ATACTATTA-TCGTTGAACTGAATACATGTTAA
1 GCA-TTCCTACTACTACT-GTTGAACTGAATACATGTTAA
**
23673460 GCATTCCTACTACTACTGTTGAACCAAATACATGTTAA
1 GCATTCCTACTACTACTGTTGAACTGAATACATGTTAA
*
23673498 GCATGCCTA
1 GCATTCCTA
23673507 TTGTTTCTGT
Statistics
Matches: 68, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
37 5 0.07
38 60 0.88
39 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (38 bp):
GCATTCCTACTACTACTGTTGAACTGAATACATGTTAA
Found at i:23673745 original size:91 final size:91
Alignment explanation
Indices: 23673602--23673813 Score: 273
Period size: 91 Copynumber: 2.3 Consensus size: 91
23673592 GTTTAATAAT
* **
23673602 CTGCAAACATTGGTGGTTTATCCATAAACTTACTAGCAATTTTCATTTGCAAACACATTGTGCAT
1 CTGCAAACACTGGTGGTTTATCCATAAACTTACTAGCAATTTTCATCAGCAAACACATTGTGCAT
** *
23673667 TCACAACCTACTGGCAGTGTATTAAC
66 TCACAACCTACTGGCAGCATATAAAC
* * * *
23673693 TTGCAAACACTGGTGGTTTGTCCATAAACTTACTAGCAGCTTTT-ATCAGCAAACACGTTGTGCA
1 CTGCAAACACTGGTGGTTTATCCATAAACTTACTAGCA-ATTTTCATCAGCAAACACATTGTGCA
*
23673757 TTCACAACCTATTGGCAGCATATAAAC
65 TTCACAACCTACTGGCAGCATATAAAC
** * *
23673784 CTGCAAACACTGAAGGTTCATCCACAAACT
1 CTGCAAACACTGGTGGTTTATCCATAAACT
23673814 GGAGTGTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
91 99 0.96
92 4 0.04
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.30
Consensus pattern (91 bp):
CTGCAAACACTGGTGGTTTATCCATAAACTTACTAGCAATTTTCATCAGCAAACACATTGTGCAT
TCACAACCTACTGGCAGCATATAAAC
Found at i:23680581 original size:92 final size:91
Alignment explanation
Indices: 23680424--23680632 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
23680414 TTGATTTTAG
* * *
23680424 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
23680489 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
23680516 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
23680580 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
23680608 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
23680633 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:23680595 original size:24 final size:25
Alignment explanation
Indices: 23680560--23680607 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
23680550 TTATGAAATT
23680560 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
23680584 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
23680608 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:23680803 original size:16 final size:16
Alignment explanation
Indices: 23680782--23680826 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
23680772 TTATTAAATT
*
23680782 ATATATTTTAATTATA
1 ATATATTTTAATAATA
23680798 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
*
23680813 ATTATATTTAAATA
1 A-TATATTTTAATA
23680827 TGATTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 10 0.40
16 9 0.36
17 6 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:23680832 original size:16 final size:16
Alignment explanation
Indices: 23680783--23680823 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
23680773 TATTAAATTA
*
23680783 TATATTTTAATTATAA-
1 TATA-TTTAATAATAAT
23680799 TATATTTAATAATAAT
1 TATATTTAATAATAAT
23680815 TATATTTAA
1 TATATTTAA
23680824 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATATTTAATAATAAT
Found at i:23680919 original size:157 final size:157
Alignment explanation
Indices: 23680757--23681073 Score: 580
Period size: 157 Copynumber: 2.0 Consensus size: 157
23680747 AGAAGAATAT
*
23680757 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATATTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTT
* *
23680822 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
23680887 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
*
23680914 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTT
23680979 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
23681044 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
23681071 TAA
1 TAA
23681074 GGGTATTCTA
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATATTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:23680954 original size:18 final size:17
Alignment explanation
Indices: 23680926--23680960 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23680916 ATTATTAAGA
*
23680926 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
23680943 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
23680961 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:23683629 original size:95 final size:95
Alignment explanation
Indices: 23683466--23683651 Score: 309
Period size: 95 Copynumber: 2.0 Consensus size: 95
23683456 AACCGTTAAA
* * *
23683466 GAGTTTTCATATGTGTTTCCCGATGAGTTACTGAGGTTATCTCCAGATCGTGAGGGAGAGTTCAG
1 GAGTTTTCATATGTGTTTCCCGAGGAGTTACTGAGGTTACCTCCAGATCGTGAGGGAGAATTCAG
23683531 AATTGAATTGTTGCCAAGAATCGCTCTAGT
66 AATTGAATTGTTGCCAAGAATCGCTCTAGT
* *
23683561 GAGTTTTCATATGTGTTTCCCGAGGAGTTACTGAGGTTACCTTCAGGTCGTGAGGGAGAATTCAG
1 GAGTTTTCATATGTGTTTCCCGAGGAGTTACTGAGGTTACCTCCAGATCGTGAGGGAGAATTCAG
* *
23683626 AATTGAATTGTTTCCAGGAATCGCTC
66 AATTGAATTGTTGCCAAGAATCGCTC
23683652 CAATGTCCAT
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
95 84 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (95 bp):
GAGTTTTCATATGTGTTTCCCGAGGAGTTACTGAGGTTACCTCCAGATCGTGAGGGAGAATTCAG
AATTGAATTGTTGCCAAGAATCGCTCTAGT
Found at i:23700796 original size:31 final size:32
Alignment explanation
Indices: 23700761--23700829 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
23700751 ATTAGTACCT
* *
23700761 AAATTTGAGATTTTTTT-TTAATTTGGTACTG
1 AAATTTGACATTTTTTTCTTAAGTTGGTACTG
* * *
23700792 AAATTTGACCTTTTTTTCTTAAGTTGGTAGTT
1 AAATTTGACATTTTTTTCTTAAGTTGGTACTG
23700824 AAATTT
1 AAATTT
23700830 ATTGGGATCC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 15 0.47
32 17 0.53
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (32 bp):
AAATTTGACATTTTTTTCTTAAGTTGGTACTG
Found at i:23702317 original size:20 final size:19
Alignment explanation
Indices: 23702289--23702339 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
23702279 AAGTTTTTCC
* *
23702289 AAAATAAATTTAAAAATTTT
1 AAAAAAAATTTAAAAA-TCT
*
23702309 AAAAAAAATTGAAAAATCT
1 AAAAAAAATTTAAAAATCT
23702328 AAAGAAAAATTT
1 AAA-AAAAATTT
23702340 CAACTGAGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAAAAAATTTAAAAATCT
Found at i:23704665 original size:49 final size:49
Alignment explanation
Indices: 23704543--23704665 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 49
23704533 GAGGTCCCCC
* *
23704543 GTAAGACCATGTCTGAGACATGGCATGGGCACCGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGAGACATGGCATGGGCA-CGAAAAGAGAACTCCCAT
* * *
23704593 GTAAGACCATATCTGAGATATGGCATTGGCA-GTAAAAGA-AACATCCCAT
1 GTAAGACCATGTCTGAGACATGGCATGGGCACG-AAAAGAGAAC-TCCCAT
*
23704642 GTAAGACCATGTCTGGGACATGGC
1 GTAAGACCATGTCTGAGACATGGC
23704666 TTTGACATGT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
48 4 0.06
49 31 0.49
50 28 0.44
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (49 bp):
GTAAGACCATGTCTGAGACATGGCATGGGCACGAAAAGAGAACTCCCAT
Found at i:23710916 original size:19 final size:19
Alignment explanation
Indices: 23710892--23710951 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
23710882 AAAGTTTAGA
23710892 AAATTTGTCGACTTGTGAT
1 AAATTTGTCGACTTGTGAT
** * *
23710911 AAATTT-TAAAGTT-T-AG
1 AAATTTGTCGACTTGTGAT
23710927 AAATTTGTCGACTTGTGAT
1 AAATTTGTCGACTTGTGAT
23710946 AAATTT
1 AAATTT
23710952 TTGGATGTGA
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
16 7 0.23
17 5 0.17
18 5 0.17
19 13 0.43
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (19 bp):
AAATTTGTCGACTTGTGAT
Found at i:23710938 original size:35 final size:36
Alignment explanation
Indices: 23710870--23710952 Score: 143
Period size: 35 Copynumber: 2.3 Consensus size: 36
23710860 CATGGATTGG
23710870 GTGA-AAATTATTAAAGTTTAGAAAATTTGTCGACTT
1 GTGATAAATT-TTAAAGTTTAGAAAATTTGTCGACTT
23710906 GTGATAAATTTTAAAGTTTAG-AAATTTGTCGACTT
1 GTGATAAATTTTAAAGTTTAGAAAATTTGTCGACTT
23710941 GTGATAAATTTT
1 GTGATAAATTTT
23710953 TGGATGTGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
35 26 0.57
36 15 0.33
37 5 0.11
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (36 bp):
GTGATAAATTTTAAAGTTTAGAAAATTTGTCGACTT
Found at i:23712359 original size:39 final size:39
Alignment explanation
Indices: 23712308--23712398 Score: 137
Period size: 39 Copynumber: 2.3 Consensus size: 39
23712298 TCAAAATAGT
*
23712308 AAAACTACTCCTATTCACCCTTTACTTCCTATAATATAA
1 AAAACTACTCCTATTCACCCTCTACTTCCTATAATATAA
* * * *
23712347 AAAATTACTCCTATTCATCCTCTACTTCTTATAATATAG
1 AAAACTACTCCTATTCACCCTCTACTTCCTATAATATAA
23712386 AAAACTACTCCTA
1 AAAACTACTCCTA
23712399 AAATAAGTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.36, C:0.26, G:0.01, T:0.36
Consensus pattern (39 bp):
AAAACTACTCCTATTCACCCTCTACTTCCTATAATATAA
Found at i:23715825 original size:24 final size:24
Alignment explanation
Indices: 23715798--23715848 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
23715788 CCTGCCAGAC
*
23715798 CATCAACCATTATTGCAGTAGTAG
1 CATCAACCATCATTGCAGTAGTAG
* *
23715822 CATCAGCCCTCATTGCAGTAGTAG
1 CATCAACCATCATTGCAGTAGTAG
23715846 CAT
1 CAT
23715849 TCGCACGAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (24 bp):
CATCAACCATCATTGCAGTAGTAG
Found at i:23717764 original size:34 final size:34
Alignment explanation
Indices: 23717715--23717779 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
23717705 TCCTTCTAGC
*
23717715 ATACATATAATGTATTCAACAATTGATAATAGTT
1 ATACATATAACGTATTCAACAATTGATAATAGTT
* *
23717749 ATACGTATAACGTATTCAACAATTGGTAATA
1 ATACATATAACGTATTCAACAATTGATAATA
23717780 ACTATACAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (34 bp):
ATACATATAACGTATTCAACAATTGATAATAGTT
Found at i:23717786 original size:34 final size:34
Alignment explanation
Indices: 23717715--23717787 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
23717705 TCCTTCTAGC
* **
23717715 ATACATATAATGTATTCAACAATTGATAATAGTT
1 ATACATATAACGTATTCAACAATTGATAATAACT
* *
23717749 ATACGTATAACGTATTCAACAATTGGTAATAACT
1 ATACATATAACGTATTCAACAATTGATAATAACT
23717783 ATACA
1 ATACA
23717788 AGCATAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (34 bp):
ATACATATAACGTATTCAACAATTGATAATAACT
Found at i:23718314 original size:60 final size:57
Alignment explanation
Indices: 23718240--23718412 Score: 197
Period size: 60 Copynumber: 3.0 Consensus size: 57
23718230 TGATATTAAG
* *
23718240 GCTTAACTTTTTTTTAGTCCAAGTTAGTCCTTGAACTTGACAATTATTCTCACATTGA
1 GCTTGACTTTTTTTTA-TCCAAGTTAGTCATTGAACTTGACAATTATTCTCACATTGA
* *
23718298 GCTTGGACTTCTTTTTTTATCCAAGTTAGTCTTTTAACTT-AGCAATTATTCTCACATTGA
1 GCTT-GAC-T-TTTTTTTATCCAAGTTAGTCATTGAACTTGA-CAATTATTCTCACATTGA
** * * * *
23718358 GCTTGA-AATTTTTTATCAAAGTTAGTCATTGAACTGGACAATTGTTTTCACATTG
1 GCTTGACTTTTTTTTATCCAAGTTAGTCATTGAACTTGACAATTATTCTCACATTG
23718413 GAGGCATAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
56 39 0.39
57 1 0.01
58 4 0.04
59 5 0.05
60 42 0.42
61 8 0.08
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (57 bp):
GCTTGACTTTTTTTTATCCAAGTTAGTCATTGAACTTGACAATTATTCTCACATTGA
Found at i:23718400 original size:56 final size:57
Alignment explanation
Indices: 23718249--23718412 Score: 179
Period size: 56 Copynumber: 2.8 Consensus size: 57
23718239 GGCTTAACTT
* **
23718249 TTTTTTAGTCCAAGTTAGTCCTTGAACTTGACAATTATTCTCACATTGAGCTTGGACTTCT
1 TTTTTTA-TCCAAGTTAGTCATTGAAC-TGACAATTATTCTCACATTGAGCTTGGA--TAA
* * *
23718310 TTTTTTATCCAAGTTAGTCTTTTAACTTAGCAATTATTCTCACATTGAGCTT-GA-AA
1 TTTTTTATCCAAGTTAGTCATTGAACTGA-CAATTATTCTCACATTGAGCTTGGATAA
* * *
23718366 TTTTTTATCAAAGTTAGTCATTGAACTGGACAATTGTTTTCACATTG
1 TTTTTTATCCAAGTTAGTCATTGAACT-GACAATTATTCTCACATTG
23718413 GAGGCATAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
56 39 0.43
57 1 0.01
59 4 0.04
60 39 0.43
61 7 0.08
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.44
Consensus pattern (57 bp):
TTTTTTATCCAAGTTAGTCATTGAACTGACAATTATTCTCACATTGAGCTTGGATAA
Found at i:23718645 original size:263 final size:264
Alignment explanation
Indices: 23718163--23718647 Score: 651
Period size: 263 Copynumber: 1.8 Consensus size: 264
23718153 ATATAAGAAA
*
23718163 TATTTCTTTACAACATTATAATAAAAAGGGTTAATGCAATACTTTGGGCCTAAACTTGGCAAGTG
1 TATTTCTTTACAACATTATAATAAAAAGGGTTAATGCAATACTTGGGGCCTAAACTTGGCAAGTG
* *
23718228 TTTGATATTAAGGCTTAACTTTTTTTTAGTCCAAGTTAGTCCTTGAACTTGACAATTATTCTCAC
66 TTTGATATTAAGGCTTAACTTTTTTTTAGTCCAAGTTAGTACTTAAACTTGACAATTATTCTCAC
** * ** * * *
23718293 ATTGAGCTTGGACTTCTTTTTTTATCCAAGTTAGTCTTTTAACTTAGCAATTATTCTCACATTGA
131 ATTGAGCTTAAACTTCTTTTTTGATCCAAGTTAACCCTTGAACTTAGAAATTATTCTCACATTGA
23718358 GCTTGAAATTTTTTATCAAAGTTAGTCATTGAACTGGACAATTGTTTTCACATTGGAGGCATAAA
196 GCTTGAAATTTTTTATCAAAGTTAGTCATTGAACTGGACAATTGTTTTCACATTGGAGGCATAAA
23718423 TTAT
261 TTAT
* ** * *
23718427 TATTT-TTTACAACATTATAATAAAAAGGGTTAATGCATTGGTTGGGGTCTAAACTT-GTAAGTG
1 TATTTCTTTACAACATTATAATAAAAAGGGTTAATGCAATACTTGGGGCCTAAACTTGGCAAGTG
* * * *
23718490 TTCCT-ATATTAAGGTTTAACTTTTTTTTAGTCCAAGTTTGTATTTAAACTTTG-TAATTATTCT
66 TT--TGATATTAAGGCTTAACTTTTTTTTAGTCCAAGTTAGTACTTAAAC-TTGACAATTATTCT
23718553 CACATTGAGGC-TAAAC-T-TTTTTTGATCCAAGTTAACCCTTGAACTTAGAAATTATTCTCACA
128 CACATTGA-GCTTAAACTTCTTTTTTGATCCAAGTTAACCCTTGAACTTAGAAATTATTCTCACA
* * * *
23718615 TTGTGGCTTGAACCTTTTTTTTCCAAGTTAGTC
192 TTG-AGCTTGAA-ATTTTTTATCAAAGTTAGTC
23718648 CACGATATTT
Statistics
Matches: 191, Mismatches: 24, Indels: 13
0.84 0.11 0.06
Matches are distributed among these distances:
261 42 0.22
262 16 0.08
263 122 0.64
264 11 0.06
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (264 bp):
TATTTCTTTACAACATTATAATAAAAAGGGTTAATGCAATACTTGGGGCCTAAACTTGGCAAGTG
TTTGATATTAAGGCTTAACTTTTTTTTAGTCCAAGTTAGTACTTAAACTTGACAATTATTCTCAC
ATTGAGCTTAAACTTCTTTTTTGATCCAAGTTAACCCTTGAACTTAGAAATTATTCTCACATTGA
GCTTGAAATTTTTTATCAAAGTTAGTCATTGAACTGGACAATTGTTTTCACATTGGAGGCATAAA
TTAT
Found at i:23720704 original size:27 final size:26
Alignment explanation
Indices: 23720674--23720806 Score: 178
Period size: 27 Copynumber: 5.0 Consensus size: 26
23720664 CACGTTAGGC
23720674 CGAAATACCCTTATAGGGTAAAATGAT
1 CGAAATACCC-TATAGGGTAAAATGAT
* *
23720701 CGAAATACCCCTGTAGAGTAAAATGA-
1 CGAAATA-CCCTATAGGGTAAAATGAT
23720727 CTGAAATACCCTATAGGGTAAAATGAT
1 C-GAAATACCCTATAGGGTAAAATGAT
*
23720754 CGAAATACCCCTGTAGGGTAAAATGAT
1 CGAAATA-CCCTATAGGGTAAAATGAT
*
23720781 CGAAATACACCCATAGGGTAAAATGA
1 CGAAATAC-CCTATAGGGTAAAATGA
23720807 CTGTTATACC
Statistics
Matches: 94, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
26 24 0.26
27 67 0.71
28 3 0.03
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (26 bp):
CGAAATACCCTATAGGGTAAAATGAT
Found at i:23720756 original size:53 final size:53
Alignment explanation
Indices: 23720674--23720806 Score: 214
Period size: 53 Copynumber: 2.5 Consensus size: 53
23720664 CACGTTAGGC
23720674 CGAAATACCCTTATAGGGTAAAATGATCGAAATACCCCTGTAGAGTAAAATGA-
1 CGAAATACCC-TATAGGGTAAAATGATCGAAATACCCCTGTAGAGTAAAATGAT
*
23720727 CTGAAATACCCTATAGGGTAAAATGATCGAAATACCCCTGTAGGGTAAAATGAT
1 C-GAAATACCCTATAGGGTAAAATGATCGAAATACCCCTGTAGAGTAAAATGAT
*
23720781 CGAAATACACCCATAGGGTAAAATGA
1 CGAAATAC-CCTATAGGGTAAAATGA
23720807 CTGTTATACC
Statistics
Matches: 75, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
53 49 0.65
54 26 0.35
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (53 bp):
CGAAATACCCTATAGGGTAAAATGATCGAAATACCCCTGTAGAGTAAAATGAT
Found at i:23720815 original size:27 final size:26
Alignment explanation
Indices: 23720675--23720822 Score: 142
Period size: 27 Copynumber: 5.6 Consensus size: 26
23720665 ACGTTAGGCC
*
23720675 GAAATACCCTTATAGGGTAAAATGA-T
1 GAAATACCC-CATAGGGTAAAATGACT
* *
23720701 CGAAATACCCCTGTAGAGTAAAATGACT
1 -GAAATACCCC-ATAGGGTAAAATGACT
*
23720729 GAAATACCCTATAGGGTAAAATGA-T
1 GAAATACCCCATAGGGTAAAATGACT
*
23720754 CGAAATACCCCTGTAGGGTAAAATGA-T
1 -GAAATACCCC-ATAGGGTAAAATGACT
23720781 CGAAATACACCCATAGGGTAAAATGACT
1 -GAAATAC-CCCATAGGGTAAAATGACT
**
23720809 GTTATACCCC-TAGG
1 GAAATACCCCATAGG
23720823 AGATGGAATG
Statistics
Matches: 104, Mismatches: 11, Indels: 14
0.81 0.09 0.11
Matches are distributed among these distances:
25 5 0.05
26 24 0.23
27 70 0.67
28 5 0.05
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (26 bp):
GAAATACCCCATAGGGTAAAATGACT
Found at i:23743043 original size:15 final size:15
Alignment explanation
Indices: 23743025--23743057 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23743015 CAAATGCCAA
23743025 AATAATAAATACAAC
1 AATAATAAATACAAC
*
23743040 AATAATAAATACATC
1 AATAATAAATACAAC
23743055 AAT
1 AAT
23743058 GACATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:23743459 original size:28 final size:28
Alignment explanation
Indices: 23743430--23743491 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 28
23743420 ATACGTCTAA
*
23743430 ATACAAAAATATTTATTAAAAAAATAAAAT
1 ATACAAAAATATTCA-T-AAAAAATAAAAT
*
23743460 ATAGAAAAATATTCATAAAAAATAAATAT
1 ATACAAAAATATTCATAAAAAATAAA-AT
23743489 ATA
1 ATA
23743492 TACATATGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 10 0.34
29 6 0.21
30 13 0.45
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (28 bp):
ATACAAAAATATTCATAAAAAATAAAAT
Found at i:23743479 original size:29 final size:30
Alignment explanation
Indices: 23743434--23743491 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 30
23743424 GTCTAAATAC
*
23743434 AAAAATATTTATTAAAAAAATAAA-ATATAG
1 AAAAATATTCATT-AAAAAATAAATATATAG
23743464 AAAAATATTCA-TAAAAAATAAATATATA
1 AAAAATATTCATTAAAAAATAAATATATA
23743492 TACATATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 10 0.38
29 6 0.23
30 10 0.38
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (30 bp):
AAAAATATTCATTAAAAAATAAATATATAG
Found at i:23743508 original size:27 final size:28
Alignment explanation
Indices: 23743478--23743538 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
23743468 ATATTCATAA
*
23743478 AAAATAAAT-AT-ATATACATATGTAGAT
1 AAAATAAATAATAAT-TACATATATAGAT
*
23743505 AAAAT-AATAATAATTACATATATATAT
1 AAAATAAATAATAATTACATATATAGAT
23743532 AAAATAA
1 AAAATAA
23743539 TTACATTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (28 bp):
AAAATAAATAATAATTACATATATAGAT
Found at i:23743740 original size:6 final size:6
Alignment explanation
Indices: 23743729--23743760 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
23743719 GCGGCGGACC
23743729 AAATAA AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA
23743761 TGTGTAGCGA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:23745188 original size:44 final size:44
Alignment explanation
Indices: 23745140--23745255 Score: 130
Period size: 44 Copynumber: 2.6 Consensus size: 44
23745130 CTAATCCACT
* * *
23745140 CCACTACAACTTTAGGGAGATAGGA-TTTTTTCATTCAGTCTGCC
1 CCACTACAACTTTAGGGAGATAAGACTTTCTT-ATTCAGTCTACC
* *
23745184 CCACTATAA-TTTCAAGGGA-ATAAGACTTTCTTATTCAGTCTACT
1 CCACTACAACTTT--AGGGAGATAAGACTTTCTTATTCAGTCTACC
*
23745228 CCACTACAACTTCAGGGAGATAAGACTT
1 CCACTACAACTTTAGGGAGATAAGACTT
23745256 ACGCGATCTG
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
43 8 0.13
44 40 0.67
45 12 0.20
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (44 bp):
CCACTACAACTTTAGGGAGATAAGACTTTCTTATTCAGTCTACC
Found at i:23745969 original size:72 final size:72
Alignment explanation
Indices: 23745836--23745981 Score: 220
Period size: 72 Copynumber: 2.0 Consensus size: 72
23745826 TGCTATTTTT
* * * *
23745836 AACCTGTTCCGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTATTGGTGCA
1 AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCAATCTACTTCACTATTGGTGCA
23745901 GGAAGGC
66 GGAAGGC
* * **
23745908 AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTTTTGGTTTA
1 AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCAATCTACTTCACTATTGGTGCA
23745973 GGAAGGC
66 GGAAGGC
23745980 AA
1 AA
23745982 GATCTGTTAT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.21, C:0.25, G:0.29, T:0.25
Consensus pattern (72 bp):
AACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCAATCTACTTCACTATTGGTGCA
GGAAGGC
Found at i:23746064 original size:88 final size:88
Alignment explanation
Indices: 23745921--23746082 Score: 270
Period size: 88 Copynumber: 1.8 Consensus size: 88
23745911 CTGCTCCGCT
*** **
23745921 GCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTTTTGGTTTAGGAAGGCAAGATC
1 GCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTGCCGGTGCAGGAAGGCAAGATC
23745986 TGTTATCTTTAACCTACTTCGCA
66 TGTTATCTTTAACCTACTTCGCA
*
23746009 GCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCGCTGCCGGTGCAGGAAGGCAAGATC
1 GCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTGCCGGTGCAGGAAGGCAAGATC
23746074 TGTTATCTT
66 TGTTATCTT
23746083 CACTGATCTG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 68 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (88 bp):
GCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTCACTGCCGGTGCAGGAAGGCAAGATC
TGTTATCTTTAACCTACTTCGCA
Found at i:23749892 original size:24 final size:21
Alignment explanation
Indices: 23749853--23749896 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 21
23749843 TATATTTCAA
23749853 AAAGAAAAAAAACAAATAAAT
1 AAAGAAAAAAAACAAATAAAT
23749874 AAAGAATAATAAAACCAAATAAA
1 AAAGAA-AA-AAAA-CAAATAAA
23749897 ATTAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 2 0.10
23 4 0.20
24 8 0.40
ACGTcount: A:0.77, C:0.07, G:0.05, T:0.11
Consensus pattern (21 bp):
AAAGAAAAAAAACAAATAAAT
Found at i:23751038 original size:16 final size:16
Alignment explanation
Indices: 23751008--23751058 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
23750998 AATTAATTGA
*
23751008 TTTATT-GTTATTATT
1 TTTATTAGTCATTATT
23751023 TTTATTAGTCATTATT
1 TTTATTAGTCATTATT
* *
23751039 ATTATTAGTCTTTTATT
1 TTTATTAGTC-ATTATT
23751056 TTT
1 TTT
23751059 TTATTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 6 0.20
16 17 0.57
17 7 0.23
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.69
Consensus pattern (16 bp):
TTTATTAGTCATTATT
Found at i:23751065 original size:7 final size:8
Alignment explanation
Indices: 23751049--23751076 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
23751039 ATTATTAGTC
23751049 TTTTATTT
1 TTTTATTT
23751057 TTTTATTT
1 TTTTATTT
23751065 TTTTATTT
1 TTTTATTT
23751073 TTTT
1 TTTT
23751077 CTCTTAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTATTT
Found at i:23756229 original size:25 final size:25
Alignment explanation
Indices: 23756175--23756234 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
23756165 AGTTCAGATC
23756175 CAAAAAAAAAAATCAAAGTCAAAAGT
1 CAAAAAAAAAAATC-AAGTCAAAAGT
23756201 -AAAAAAGGAAAAATC-AGTC-AAAGT
1 CAAAAAA--AAAAATCAAGTCAAAAGT
*
23756225 CAAAATAAAA
1 CAAAAAAAAA
23756235 TATGAAAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
23 3 0.10
24 5 0.17
25 15 0.50
27 7 0.23
ACGTcount: A:0.68, C:0.10, G:0.10, T:0.12
Consensus pattern (25 bp):
CAAAAAAAAAAATCAAGTCAAAAGT
Found at i:23759940 original size:44 final size:42
Alignment explanation
Indices: 23759843--23760220 Score: 167
Period size: 44 Copynumber: 8.7 Consensus size: 42
23759833 AAGAGTTCTA
* * * *
23759843 GATCTTATCTCCCTAAGATTACAGCGGATCAGATTGAAGCTAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATC-AG
* * * *
23759886 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATCAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAATC-AG
** * * * *
23759931 GATCTTATCTTTCTGA-AGTTACAGTAGAGTAGATCGCATCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAATCAG
* * *
23759973 G-TCTTATCTCCTTGAGATTACAGTGGAATAGACCGA-AGAATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGG---AG-CAGATTGAA--TCAG
* * ** ** *
23760018 GATCTTATCTCCCTGAGATTATAGCGGAATAGACCAAAGAATTTTA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAG---ATTGAA--TCAG
** *
23760064 GATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATC-AG
* * * * *
23760107 TAATCCTATCTCCCTGAGATTACAGTGGAGTAGATTAAAATAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAAT-CAG
* ** * * *
23760152 GATCCTATCTCTTTGA-AGTTACAGTAGAGTAGATTGCATCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAATCAG
*
23760194 G-TCTTATCTCACTGAGATTACAGTGGA
1 GATCTTATCTCCCTGAGATTACAGTGGA
23760221 ATAGACCGAA
Statistics
Matches: 252, Mismatches: 61, Indels: 45
0.70 0.17 0.13
Matches are distributed among these distances:
41 39 0.15
42 10 0.04
43 12 0.05
44 117 0.46
45 13 0.05
46 61 0.24
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (42 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAATCAG
Found at i:23760047 original size:46 final size:46
Alignment explanation
Indices: 23759969--23760088 Score: 186
Period size: 46 Copynumber: 2.6 Consensus size: 46
23759959 GTAGATCGCA
* * * *
23759969 TCAGGTCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAATAGACCAAAGAATT
*
23760015 TCAGATCTTATCTCCCTGAGATTATAGCGGAATAGACCAAAGAATT
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAATAGACCAAAGAATT
*
23760061 TTAGATCTTATCTCCCTGAGATTACAGC
1 TCAGATCTTATCTCCCTGAGATTACAGC
23760089 AGAGCAGATT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (46 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAATAGACCAAAGAATT
Found at i:23760224 original size:221 final size:221
Alignment explanation
Indices: 23759841--23760246 Score: 699
Period size: 221 Copynumber: 1.8 Consensus size: 221
23759831 TGAAGAGTTC
* *
23759841 TAGATCTTATCTCCCTAAGATTACAGCGGATCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAT
1 TAGATCTTATCTCCCTAAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAT
* * *
23759906 TACAGTGGAGCGGATTAAAATCAAGGATCTTATCTTTCTGAAGTTACAGTAGAGTAGATCGCATC
66 TACAGTGGAGCAGATTAAAATAAAGGATCCTATCTTTCTGAAGTTACAGTAGAGTAGATCGCATC
*
23759971 AGGTCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGA
131 AGGTCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTATCTCCCTGAGA
23760036 TTATAGCGGAATAGACCAAAGAATTT
196 TTATAGCGGAATAGACCAAAGAATTT
*
23760062 TAGATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAT
1 TAGATCTTATCTCCCTAAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAT
* *
23760127 TACAGTGGAGTAGATTAAAATAAAGGATCCTATCTCTT-TGAAGTTACAGTAGAGTAGATTGCAT
66 TACAGTGGAGCAGATTAAAATAAAGGATCCTATCT-TTCTGAAGTTACAGTAGAGTAGATCGCAT
23760191 CAGGTCTTATCTCAC-TGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTAT
130 CAGGTCTTATCTC-CTTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTAT
23760247 TTTCCCTGGC
Statistics
Matches: 174, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
221 171 0.98
222 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (221 bp):
TAGATCTTATCTCCCTAAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGAT
TACAGTGGAGCAGATTAAAATAAAGGATCCTATCTTTCTGAAGTTACAGTAGAGTAGATCGCATC
AGGTCTTATCTCCTTGAGATTACAGTGGAATAGACCGAAGAATTACAGATCTTATCTCCCTGAGA
TTATAGCGGAATAGACCAAAGAATTT
Found at i:23760324 original size:50 final size:50
Alignment explanation
Indices: 23760270--23760853 Score: 392
Period size: 50 Copynumber: 11.7 Consensus size: 50
23760260 GCAGTGGAAT
* *
23760270 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * ** ** *
23760320 AGATTAAAGCTACAACAGCGAATCTTAC-TCCCC-AGGTGATGCAGTGGAAC
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACAT--TGCAGTTAAAA
*
23760370 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * * ** *
23760420 AGATTAAAGCTACAAT-AGTGAATCTTATTTCCCAGGCAGTGCAGTGGAAT
1 AGATTAAAGCCAC-ATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * *
23760470 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * * * * * * **
23760520 AGACTAAAGCCATAGCGGTGAGTGTTACTTCCCTGGCAATACAGTGAAGC
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * *
23760570 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * *** * * * * * **
23760620 GGATTAAAGTCACAAT-AACGAATCTCACTCTCTCAGCCAGTGCAG-TAGAGC
1 AGATTAAAGCCAC-ATCGGTGAATCTTACT-TCCCCGACATTGCAGTTA-AAA
* *** * *
23760671 AGATTAAAGCCACAAT-GGTGAATCTTGCTTTTTCGACATTGTAGCTAAAA
1 AGATTAAAGCCAC-ATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * ** * * * *
23760721 AGATTAAAGCTACAACAGTGAATCTTACTT-CCCAAGCGGTGTAATGGAACA
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGA-CATTGCAGT-TAAAA
*
23760772 A-ATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * *
23760821 AGATTAAAGCTACAGCGGCGAATCTTACTTCCC
1 AGATTAAAGCCACATCGGTGAATCTTACTTCCC
23760854 TAGCAGTGCA
Statistics
Matches: 392, Mismatches: 127, Indels: 30
0.71 0.23 0.05
Matches are distributed among these distances:
48 2 0.01
49 13 0.03
50 324 0.83
51 51 0.13
52 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (50 bp):
AGATTAAAGCCACATCGGTGAATCTTACTTCCCCGACATTGCAGTTAAAA
Found at i:23760432 original size:100 final size:100
Alignment explanation
Indices: 23760259--23760928 Score: 708
Period size: 100 Copynumber: 6.7 Consensus size: 100
23760249 TCCCTGGCAG
* *
23760259 TGCAGTGGAATAGATTAAAGCCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
*
23760324 TAAAGCTACAACAGCGAATCTTACTCCCCAGGTGA
66 TAAAGCTACAACAGCGAATCTTACTCCCCAGGCGA
23760359 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
* * * *
23760424 TAAAGCTACAATAGTGAATCTTATTTCCCAGGC-A
66 TAAAGCTACAACAGCGAATCTTACTCCCCAGGCGA
* * *
23760458 GTGCAGTGGAATAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGA
1 -TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGA
* * * * * * * * * * *
23760523 CTAAAGCCATAGCGGTGAGTGTTACTTCCCTGGCAA
65 TTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGA
* * * *
23760559 TACAGT-GAAGCAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGA
1 TGCAGTGGAA-CAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGA
* * * * *
23760623 TTAAAG-TCACAATAACGAATCTCACTCTCTCA-GCCA
65 TTAAAGCT-ACAACAGCGAATCTTACTC-CCCAGGCGA
* * *** * *
23760659 GTGCAGTAGAGCAGATTAAAGCCACAAT-GGTGAATCTTGCTTTTTCGACATTGTAGCTAAAAAG
1 -TGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
* * * *
23760723 ATTAAAGCTACAACAGTGAATCTTACTTCCCAAGCGG
64 ATTAAAGCTACAACAGCGAATCTTACTCCCCAGGCGA
* * *
23760760 TGTAATGGAACAAATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
* * *
23760825 TAAAGCTACAGCGGCGAATCTTACTTCCCTA-GC-A
66 TAAAGCTACAACAGCGAATCTTAC-TCCCCAGGCGA
* * * * ** **
23760859 GTGCAGTGGAACGGATTAAAGCTACAAT-GGCGAATCTTGCTTCCTCGACATCACAGTTAAGCAG
1 -TGCAGTGGAACAGATTAAAGCCAC-ATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
23760923 ATTAAA
64 ATTAAA
23760929 ATTGTGAGTT
Statistics
Matches: 473, Mismatches: 83, Indels: 28
0.81 0.14 0.05
Matches are distributed among these distances:
99 6 0.01
100 381 0.81
101 82 0.17
102 4 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (100 bp):
TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
TAAAGCTACAACAGCGAATCTTACTCCCCAGGCGA
Found at i:23760926 original size:50 final size:47
Alignment explanation
Indices: 23760289--23760928 Score: 226
Period size: 50 Copynumber: 12.8 Consensus size: 47
23760279 CCACATCAGT
* **
23760289 GAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGC
1 GAATCTTGCTT-CCCGACA-TGCAGTT-AACAGATTAAAGCTACAATGGC
* * ** * * *
23760339 GAATCTTACTCCCCAGGTGATGCAGTGGAACAGATTAAAGCCAC-ATCGGT
1 GAATCTTGCTTCCC--GACATGCAGT-TAACAGATTAAAGCTACAAT-GGC
* * *
23760389 GAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAATAGT
1 GAATCTTGCTT-CCCGACA-TGCAGTT-AACAGATTAAAGCTACAATGGC
** * * * * *
23760439 GAATCTTATTTCCCAGGCAGTGCAGTGGAATAGATTAAAGCCACAACGGC
1 GAATCTTGCTTCCC-GACA-TGCAGT-TAACAGATTAAAGCTACAATGGC
* * * * ** *
23760489 GAATCTTGCTTCCCCGACATTGCAGTTAAAAAGACTAAAGCCATAGCGGT
1 GAATCTTGCTT-CCCGACA-TGCAGTT-AACAGATTAAAGCTACAATGGC
* * * * * * * * *
23760539 GAGTGTTACTTCCCTGGCAATACAGTGAAGCAGATTAAAGCCACAACGGT
1 GAATCTTGCTTCCC-GAC-ATGCAGTTAA-CAGATTAAAGCTACAATGGC
* **
23760589 GAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAG-TCACAATAAC
1 GAATCTTGC-TTCCCGACA-TGCAGTTAACA-GATTAAAGCT-ACAATGGC
** * * * *
23760639 GAATCTCACTCTCTCAGCCAGTGCAG-TAGAGCAGATTAAAGCCACAATGGT
1 GAATCTTGCT-TC-CCGACA-TGCAGTTA-A-CAGATTAAAGCTACAATGGC
** * * * ** *
23760690 GAATCTTGCTTTTTCGACATTGTAGCTAAAAAGATTAAAGCTACAACAGT
1 GAATCTTGC-TTCCCGACA-TGCAG-TTAACAGATTAAAGCTACAATGGC
* * * * * * * * *
23760740 GAATCTTACTTCCCAAGCGGTGTAATGGAACAAATTAAAGCCAC-ATCGGT
1 GAATCTTGCTTCCCGA-C-ATGCAGT-TAACAGATTAAAGCTACAAT-GGC
* **
23760790 GAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAGCGGC
1 GAATCTTGCTT-CCCGACA-TGCAGTT-AACAGATTAAAGCTACAATGGC
* * * *
23760840 GAATCTTACTTCCCTAGCAGTGCAGTGGAACGGATTAAAGCTACAATGGC
1 GAATCTTGCTTCCCGA-CA-TGCAGT-TAACAGATTAAAGCTACAATGGC
*
23760890 GAATCTTGCTTCCTCGACATCACAGTTAAGCAGATTAAA
1 GAATCTTGCTTCC-CGACAT-GCAGTTAA-CAGATTAAA
23760929 ATTGTGAGTT
Statistics
Matches: 430, Mismatches: 120, Indels: 80
0.68 0.19 0.13
Matches are distributed among these distances:
49 30 0.07
50 343 0.80
51 54 0.13
52 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (47 bp):
GAATCTTGCTTCCCGACATGCAGTTAACAGATTAAAGCTACAATGGC
Found at i:23761204 original size:26 final size:25
Alignment explanation
Indices: 23761149--23761222 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 25
23761139 CATATATTTC
* * *
23761149 AAAAAGAAAAAAAACAAAT-AAATA
1 AAAAATAATAAAACCAAATAAAATA
23761173 AAAAATAATAAAACCAAATAAAATTA
1 AAAAATAATAAAACCAAATAAAA-TA
* * *
23761199 ATAAATAATAGAATCCAATTAAAA
1 AAAAATAATA-AAACCAAATAAAA
23761223 GTCCATTTAC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
24 16 0.39
25 3 0.07
26 11 0.27
27 11 0.27
ACGTcount: A:0.73, C:0.07, G:0.03, T:0.18
Consensus pattern (25 bp):
AAAAATAATAAAACCAAATAAAATA
Found at i:23765543 original size:15 final size:15
Alignment explanation
Indices: 23765525--23765557 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23765515 CAAATGCCAA
23765525 AATAATAAATACAAC
1 AATAATAAATACAAC
*
23765540 AATAATAAATACATC
1 AATAATAAATACAAC
23765555 AAT
1 AAT
23765558 GGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:23765980 original size:29 final size:32
Alignment explanation
Indices: 23765935--23765994 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
23765925 GTATAAATAC
*
23765935 AAAAATATTTATTAAAAAA-ATAAA-ATATAG
1 AAAAATATTCATTAAAAAATATAAATATATAG
23765965 AAAAATATTCA-TAAAAAATATAAATATATA
1 AAAAATATTCATTAAAAAATATAAATATATA
23765995 TACATATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 7 0.26
30 15 0.56
31 5 0.19
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (32 bp):
AAAAATATTCATTAAAAAATATAAATATATAG
Found at i:23765995 original size:23 final size:23
Alignment explanation
Indices: 23765956--23766000 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
23765946 TTAAAAAAAT
*
23765956 AAAATATAGAAAAATATTCATAA
1 AAAATATAGAAAAATATACATAA
*
23765979 AAAATATA-AATATATATACATA
1 AAAATATAGAA-AAATATACATA
23766001 TGTAGATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAATATAGAAAAATATACATAA
Found at i:23766239 original size:6 final size:6
Alignment explanation
Indices: 23766228--23766253 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
23766218 GCGACGGACC
23766228 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
23766254 TGTGCAACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:23768861 original size:5 final size:5
Alignment explanation
Indices: 23768853--23768878 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23768843 GAGATGGAAT
23768853 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
23768879 ATATTTGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:23769281 original size:19 final size:19
Alignment explanation
Indices: 23769248--23769295 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
23769238 TAAACAATTC
23769248 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
23769265 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
23769284 AATAATATAAAT
1 AATAATATAAAT
23769296 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:23775179 original size:59 final size:57
Alignment explanation
Indices: 23775113--23775301 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
23775103 ATTTTATTAA
23775113 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
23775172 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
23775233 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
23775292 ATCATATATT
1 ATCATATATT
23775302 ATGATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:23775210 original size:66 final size:64
Alignment explanation
Indices: 23775140--23775338 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
23775130 AAATATATTT
23775140 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
23775205 G
64 G
* * * * * **
23775206 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
23775260 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
23775325 G
64 G
*
23775326 AATATTGATTATT
1 AATATTAATTATT
23775339 AAGAATTTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 8 0.08
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.27
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:23775242 original size:61 final size:61
Alignment explanation
Indices: 23775175--23775362 Score: 192
Period size: 61 Copynumber: 3.1 Consensus size: 61
23775165 TTATAGTATC
23775175 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
23775236 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
23775294 C
61 T
*
23775295 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
23775356 ATATATT
1 ATATATT
23775363 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 16 0.17
61 25 0.26
62 7 0.07
63 11 0.11
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:23775262 original size:15 final size:15
Alignment explanation
Indices: 23775227--23775278 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
23775217 TTAAGAATTT
*
23775227 TATTAAATTAT-ATA
1 TATTTAATTATAATA
23775241 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
23775255 TATTTAATAATAAT-
1 TATTTAATTATAATA
23775269 TATGTTAATT
1 TAT-TTAATT
23775279 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:23775304 original size:120 final size:121
Alignment explanation
Indices: 23775102--23775399 Score: 519
Period size: 120 Copynumber: 2.5 Consensus size: 121
23775092 AATTATTTTA
* * * *
23775102 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATATTT
23775166 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
23775222 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATATTT
*
23775286 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
23775342 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAAT
23775400 ATGATTAAAT
Statistics
Matches: 169, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 164 0.97
121 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (121 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATATTT
TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:23775377 original size:16 final size:16
Alignment explanation
Indices: 23775356--23775397 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
23775346 TTATTAAATT
*
23775356 ATATATTTTAATTATA
1 ATATATTTTAATAATA
23775372 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
23775387 AT-TATGTTTAA
1 ATATAT-TTTAA
23775398 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:23775382 original size:15 final size:15
Alignment explanation
Indices: 23775347--23775388 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23775337 TTAAGAATTT
*
23775347 TATTAAATTAT-ATA
1 TATTTAATTATAATA
23775361 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
23775375 TATTTAATAATAAT
1 TATTTAATTATAAT
23775389 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:23775547 original size:16 final size:16
Alignment explanation
Indices: 23775526--23775556 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23775516 TCCATTATGC
23775526 TATTACACCTCTATTT
1 TATTACACCTCTATTT
*
23775542 TATTACGCCTCTATT
1 TATTACACCTCTATT
23775557 CCAATACAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.26, G:0.03, T:0.48
Consensus pattern (16 bp):
TATTACACCTCTATTT
Found at i:23779431 original size:6 final size:6
Alignment explanation
Indices: 23779415--23779445 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
23779405 CATTATCAGG
23779415 ATATCAA ATATAA ATATAA ATATAA ATATAA
1 ATAT-AA ATATAA ATATAA ATATAA ATATAA
23779446 GAATGGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:23780412 original size:41 final size:41
Alignment explanation
Indices: 23780320--23780413 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 41
23780310 TGTTTTGTAG
* * * *
23780320 GTCTTGAGACTTAGGGGTTATGTTTCGAGACCTATCCTCAT
1 GTCTCGAGACTTAGGGGGTATGTCTAGAGACCTATCCTCAT
* *
23780361 GTCTCCAGACTTAGGGGGTATGTCTAGATACCTAGTCGC-C-T
1 GTCTCGAGACTTAGGGGGTATGTCTAGAGACCTA-TC-CTCAT
23780402 GTCTCGAGACTT
1 GTCTCGAGACTT
23780414 TGGGTCTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 40 0.91
42 3 0.07
43 1 0.02
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (41 bp):
GTCTCGAGACTTAGGGGGTATGTCTAGAGACCTATCCTCAT
Found at i:23783841 original size:19 final size:20
Alignment explanation
Indices: 23783790--23783841 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
23783780 TTTGGGTCTT
*
23783790 GGTCTCAATTTTTGGTTCTCA
1 GGTC-CAATTTTTGATTCTCA
* *
23783811 GTTCCAACTTTTGATT-TCA
1 GGTCCAATTTTTGATTCTCA
23783830 GGTCCAATTTTT
1 GGTCCAATTTTT
23783842 AAGTTCAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 13 0.50
20 10 0.38
21 3 0.12
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.48
Consensus pattern (20 bp):
GGTCCAATTTTTGATTCTCA
Found at i:23785851 original size:43 final size:43
Alignment explanation
Indices: 23785737--23785852 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 43
23785727 TATGCGTTTT
* * *
23785737 CATGTAAGACCACGTCTGGGACGTTGGCATCGACTTTTGTTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATCA
** *
23785780 TGTGTAAGACC-CTGTCTAGGACAG-TGGCATCGA-TCTGTGATCA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGATCA
*
23785823 CATGTAAGACCACGTATGGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
23785853 TGTACGAGCT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
42 3 0.05
43 53 0.91
44 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATCA
Found at i:23791782 original size:18 final size:21
Alignment explanation
Indices: 23791759--23791796 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 21
23791749 TTGTCCAGCT
23791759 TGATCA-A-GTCTTG-CTATA
1 TGATCACAGGTCTTGTCTATA
23791777 TGATCACAGGTCTTGTCTAT
1 TGATCACAGGTCTTGTCTAT
23791797 GTATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 1 0.06
20 6 0.35
21 4 0.24
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (21 bp):
TGATCACAGGTCTTGTCTATA
Found at i:23797442 original size:587 final size:587
Alignment explanation
Indices: 23796330--23797507 Score: 2214
Period size: 587 Copynumber: 2.0 Consensus size: 587
23796320 AAAGAAAACT
* *
23796330 TAAAGTATGAAAACCTATCATTCAACAAGTGTTTTAAGAGCCTATTTATAGAGTTAGGGTTGTCG
1 TAAAGTATGAAAAACTATCATTCAACAAGTGTTTTAAGAGCCTATTTATAGAGTTAGGGTTGCCG
23796395 TCGTCCTCAACCCAAGGTTAGCTGACGTTCCCGTGTTTAATTTCTATTATGTATACCAAAACACC
66 TCGTCCTCAACCCAAGGTTAGCTGACGTTCCCGTGTTTAATTTCTATTATGTATACCAAAACACC
*
23796460 CTTGGCTTGTAAGTGCTTCCCGTACAGGACCGATGGTACGACACCATAGTCTTTGTGTCACAACA
131 CTTGGCTTGTAAGTGCTTCCCGTACAGGACCGATGGTACGACACCATAGTATTTGTGTCACAACA
*
23796525 TTAACGACAGTATACGTAGTTCAGGGGTGTGTAGTGACACCCAAGGCACTGTAGATATTCTAGAA
196 TTAACGACAATATACGTAGTTCAGGGGTGTGTAGTGACACCCAAGGCACTGTAGATATTCTAGAA
23796590 TTTTACTCATTATGTTGCGACATTGAACTCCTCGTGTTTCAACACAACGACCAGCTTTAAGTTCT
261 TTTTACTCATTATGTTGCGACATTGAACTCCTCGTGTTTCAACACAACGACCAGCTTTAAGTTCT
*
23796655 TATGCCTTTGAATGGTCTCCTACACACTTACTAAGTATGTTAGCGTGCCTTCAGGCCTCATTCGG
326 TATGCCTTTGAATGGTCTCCTACACACTTACTAAGTATGTTAGCGTGCCTTCAAGCCTCATTCGG
23796720 CCCCTAAGGTCAATAAAAGACTCAAACTACACTTTTTACTGAATTTAACTAAACTAATAAAACAT
391 CCCCTAAGGTCAATAAAAGACTCAAACTACACTTTTTACTGAATTTAACTAAACTAATAAAACAT
23796785 GACTAAAACATACTAAAATTGCTCATAATCAACCTCATTAAATATGAAAACTAGTTTAATCTGCT
456 GACTAAAACATACTAAAATTGCTCATAATCAACCTCATTAAATATGAAAACTAGTTTAATCTGCT
*
23796850 ACACCAAATTATGACAGATCAAACTCCCCCACGCTTAAGTCATTGCTTGTCTTCAAGCAAAGCAA
521 ACACCAAATTATGACAGATCAAACTCCCCCACACTTAAGTCATTGCTTGTCTTCAAGCAAAGCAA
23796915 AA
586 AA
23796917 TAAAGTATGAAAAACTATCATT-ATACAAGTGTTTTAAGAGCCTATTTATAGAGTTAGGGTTGCC
1 TAAAGTATGAAAAACTATCATTCA-ACAAGTGTTTTAAGAGCCTATTTATAGAGTTAGGGTTGCC
* *
23796981 GTCGTCCTCAACCCAAGGTTAGCTGACGTTCTCGTGTTTAATTTCTATTGTGTATACCAAAACAC
65 GTCGTCCTCAACCCAAGGTTAGCTGACGTTCCCGTGTTTAATTTCTATTATGTATACCAAAACAC
*
23797046 CCTTGGCTTGTAAGTGCTTCCCGTACAGGACCGATGTTACGACACCATAGTATTTGTGTCACAAC
130 CCTTGGCTTGTAAGTGCTTCCCGTACAGGACCGATGGTACGACACCATAGTATTTGTGTCACAAC
*
23797111 ATTAACGACAATATACGTGGTTCAGGGGTGTGTAGTGACACCCAAGGCACTGTAGATATTCTAGA
195 ATTAACGACAATATACGTAGTTCAGGGGTGTGTAGTGACACCCAAGGCACTGTAGATATTCTAGA
* *
23797176 ATTTTTCTCATTATGTTGCGATATTGAACTCCTCGTGTTTCAACACAACGACCAGCTTTAAGTTC
260 ATTTTACTCATTATGTTGCGACATTGAACTCCTCGTGTTTCAACACAACGACCAGCTTTAAGTTC
*
23797241 TTATGCCTTTGAATGGTCTCCTGCACACTTACTAAGTATGTTAGCGTGCCTTCAAGCCTCATTCG
325 TTATGCCTTTGAATGGTCTCCTACACACTTACTAAGTATGTTAGCGTGCCTTCAAGCCTCATTCG
23797306 GCCCCTAAGGTCAATAAAAGACTCAAACTACACTTTTTACTGAATTTAACTAAACTAATAAAACA
390 GCCCCTAAGGTCAATAAAAGACTCAAACTACACTTTTTACTGAATTTAACTAAACTAATAAAACA
*
23797371 TGACTAAAACATACTAAAATTGCTCGTAATCAACCTCATTAAATATGAAAACTAGTTTAATCTGC
455 TGACTAAAACATACTAAAATTGCTCATAATCAACCTCATTAAATATGAAAACTAGTTTAATCTGC
23797436 TACACCAAATTATGACAGATCAAACTCCCCCACACTTAAGTCATTGCTTGTCTTCAAGCAAAGCA
520 TACACCAAATTATGACAGATCAAACTCCCCCACACTTAAGTCATTGCTTGTCTTCAAGCAAAGCA
23797501 AAA
585 AAA
23797504 TAAA
1 TAAA
23797508 ATAAAAGCAT
Statistics
Matches: 576, Mismatches: 14, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
586 1 0.00
587 575 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (587 bp):
TAAAGTATGAAAAACTATCATTCAACAAGTGTTTTAAGAGCCTATTTATAGAGTTAGGGTTGCCG
TCGTCCTCAACCCAAGGTTAGCTGACGTTCCCGTGTTTAATTTCTATTATGTATACCAAAACACC
CTTGGCTTGTAAGTGCTTCCCGTACAGGACCGATGGTACGACACCATAGTATTTGTGTCACAACA
TTAACGACAATATACGTAGTTCAGGGGTGTGTAGTGACACCCAAGGCACTGTAGATATTCTAGAA
TTTTACTCATTATGTTGCGACATTGAACTCCTCGTGTTTCAACACAACGACCAGCTTTAAGTTCT
TATGCCTTTGAATGGTCTCCTACACACTTACTAAGTATGTTAGCGTGCCTTCAAGCCTCATTCGG
CCCCTAAGGTCAATAAAAGACTCAAACTACACTTTTTACTGAATTTAACTAAACTAATAAAACAT
GACTAAAACATACTAAAATTGCTCATAATCAACCTCATTAAATATGAAAACTAGTTTAATCTGCT
ACACCAAATTATGACAGATCAAACTCCCCCACACTTAAGTCATTGCTTGTCTTCAAGCAAAGCAA
AA
Found at i:23800476 original size:21 final size:20
Alignment explanation
Indices: 23800448--23800486 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
23800438 GAAATTAGGG
*
23800448 TTTGAAGAATTTTGAGATAA
1 TTTGAAGAATTTAGAGATAA
*
23800468 TTTGAAAGAGTTTAGAGAT
1 TTTG-AAGAATTTAGAGAT
23800487 TGAAAAGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (20 bp):
TTTGAAGAATTTAGAGATAA
Found at i:23813614 original size:17 final size:17
Alignment explanation
Indices: 23813582--23813615 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23813572 GATAAGTATA
**
23813582 TATTGTCATTGGATTTT
1 TATTGTCATTACATTTT
23813599 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
23813616 CATATTAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:23814169 original size:2 final size:2
Alignment explanation
Indices: 23814162--23814199 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
23814152 CTTATTCCAA
* *
23814162 AT AT AT AT AT AT AT AT AT AT AT A- AT GT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23814200 CTTAGTATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:23820157 original size:12 final size:12
Alignment explanation
Indices: 23820140--23820201 Score: 51
Period size: 12 Copynumber: 5.1 Consensus size: 12
23820130 AATTTAATAG
23820140 ATTTAATATTAA
1 ATTTAATATTAA
23820152 ATTTAATA-TAA
1 ATTTAATATTAA
23820163 TATTT-ATATTGATA
1 -ATTTAATATT-A-A
23820177 AGTATT-ATATT-A
1 A-T-TTAATATTAA
23820189 ATTTAATATTAA
1 ATTTAATATTAA
23820201 A
1 A
23820202 GTGATTAAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
10 2 0.05
11 12 0.29
12 17 0.40
13 2 0.05
14 2 0.05
15 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:23820196 original size:58 final size:58
Alignment explanation
Indices: 23820082--23820196 Score: 151
Period size: 58 Copynumber: 1.9 Consensus size: 58
23820072 AATGATTATC
*
23820082 TTAATATTAAATTAAATTAATATTTATCTTATAGAAAAATATTCTATTAATTTAATAGAT
1 TTAATATTAAATTAAATTAATATTTA--TTATAGAAAAATATTATATTAATTTAATAGAT
* * * *
23820142 TTAATATTAAATTTAATATAATATTTA-TATTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTAAAT-TAATATTTATTATAGAAAAATATTATATTAATTTAATA
23820197 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 24 0.49
60 16 0.33
61 9 0.18
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (58 bp):
TTAATATTAAATTAAATTAATATTTATTATAGAAAAATATTATATTAATTTAATAGAT
Found at i:23821941 original size:5 final size:5
Alignment explanation
Indices: 23821933--23822015 Score: 67
Period size: 5 Copynumber: 16.6 Consensus size: 5
23821923 CTTTAATATT
* * * ** *
23821933 TCATA TCATA TCATA TCATA TCATA TCATA ACGTA ACGGA TCATG TCATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
* * ***
23821983 TCATA TCATA CCATT TTGGA TCATA TCATA TCA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCA
23822016 CATAATGTCC
Statistics
Matches: 60, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
5 60 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (5 bp):
TCATA
Found at i:23821976 original size:30 final size:30
Alignment explanation
Indices: 23821942--23822015 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 30
23821932 TTCATATCAT
*
23821942 ATCATATCATATCATATCATAACGTAACGG
1 ATCATATCATATCATATCATAACATAACGG
* * ***
23821972 ATCATGTCATATCATATCATACCATTTTGG
1 ATCATATCATATCATATCATAACATAACGG
23822002 ATCATATCATATCA
1 ATCATATCATATCA
23822016 CATAATGTCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.35
Consensus pattern (30 bp):
ATCATATCATATCATATCATAACATAACGG
Found at i:23822361 original size:19 final size:18
Alignment explanation
Indices: 23822337--23822373 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
23822327 TGCAAATCAC
*
23822337 AACATATCACATTATCAAA
1 AACATATAACA-TATCAAA
23822356 AACATATAACATATCAAA
1 AACATATAACATATCAAA
23822374 GTGTCTTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.57, C:0.19, G:0.00, T:0.24
Consensus pattern (18 bp):
AACATATAACATATCAAA
Found at i:23823043 original size:20 final size:22
Alignment explanation
Indices: 23823006--23823050 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
23822996 AAGAAGAAGG
23823006 AGAAAAGAAAAGAAAATAAAGA
1 AGAAAAGAAAAGAAAATAAAGA
*
23823028 AGAAAAG-AAA-AAAATAGAGA
1 AGAAAAGAAAAGAAAATAAAGA
23823048 AGA
1 AGA
23823051 GAGGGAGAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 3 0.14
22 7 0.32
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (22 bp):
AGAAAAGAAAAGAAAATAAAGA
Found at i:23828267 original size:14 final size:14
Alignment explanation
Indices: 23828248--23828286 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
23828238 TTACACACAT
23828248 ATATAAATATTATA
1 ATATAAATATTATA
23828262 ATAT-AA-A--ATA
1 ATATAAATATTATA
23828272 ATATAAATATTATA
1 ATATAAATATTATA
23828286 A
1 A
23828287 ACAATTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 8
0.72 0.00 0.28
Matches are distributed among these distances:
10 7 0.33
11 2 0.10
12 2 0.10
13 2 0.10
14 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATATAAATATTATA
Found at i:23828280 original size:16 final size:16
Alignment explanation
Indices: 23828246--23828287 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
23828236 TCTTACACAC
*
23828246 ATATATAAATATTATA
1 ATATATAAATAATATA
23828262 ATATA-AAATAATATAA
1 ATATATAAATAATAT-A
23828278 ATATTATAAA
1 ATA-TATAAA
23828288 CAATTATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.36
16 9 0.41
17 2 0.09
18 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATATAAATAATATA
Found at i:23829269 original size:17 final size:16
Alignment explanation
Indices: 23829227--23829273 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
23829217 ACTTATTCAC
23829227 TTTAATATTAAATTAA
1 TTTAATATTAAATTAA
* *
23829243 TATAAGTATTAGATTAAA
1 TTTAA-TATTAAATT-AA
23829261 TTTAATATTAAAT
1 TTTAATATTAAAT
23829274 CTATTAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 4 0.16
17 15 0.60
18 6 0.24
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (16 bp):
TTTAATATTAAATTAA
Found at i:23832143 original size:26 final size:26
Alignment explanation
Indices: 23832107--23832161 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
23832097 TACACTTAGA
23832107 AATATCCCTAAAAGTGTCGTATAAGG
1 AATATCCCTAAAAGTGTCGTATAAGG
23832133 AATATCCCTAAAAGTGTCGTATAAGG
1 AATATCCCTAAAAGTGTCGTATAAGG
23832159 AAT
1 AAT
23832162 CAACTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (26 bp):
AATATCCCTAAAAGTGTCGTATAAGG
Found at i:23834480 original size:42 final size:41
Alignment explanation
Indices: 23834401--23834577 Score: 230
Period size: 42 Copynumber: 4.2 Consensus size: 41
23834391 TCCAGCACTT
* * * *
23834401 AGCCTGCTAGACATATAGTTTGA-AATGTTTCAACGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTC-ACGGCATTA
23834442 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCATCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCA-CGGCATTA
* * *
23834484 AGCCTACTAGACGTAAAGTCTGAAATTATTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCA-CGGCATTA
* *
23834526 AGCCTGCTAGACGTAAAGTCTGATCTTGTTTCACTGGCAATA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCAC-GGCATTA
23834568 AGCCTGCTAG
1 AGCCTGCTAG
23834578 GCGCTAAGCC
Statistics
Matches: 120, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
41 22 0.18
42 98 0.82
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACGGCATTA
Found at i:23834529 original size:84 final size:83
Alignment explanation
Indices: 23834401--23834577 Score: 257
Period size: 84 Copynumber: 2.1 Consensus size: 83
23834391 TCCAGCACTT
* * *
23834401 AGCCTGCTAGACATATAGTTTGAAATGTTTCAACGGCATTAAGCCTGCTAGACGTAAAGTCTGAT
1 AGCCTGCTAGACATAAAGTCTGAAATATTTCAACGGCATTAAGCCTGCTAGACGTAAAGTCTGAT
*
23834466 ATTGTTTCA-TCGGCATTA
66 ATTGTTTCACT-GGCAATA
* * *
23834484 AGCCTACTAGACGTAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGA
1 AGCCTGCTAGACATAAAGTCTGAAA-TATTTCAACGGCATTAAGCCTGCTAGACGTAAAGTCTGA
*
23834549 TCTTGTTTCACTGGCAATA
65 TATTGTTTCACTGGCAATA
23834568 AGCCTGCTAG
1 AGCCTGCTAG
23834578 GCGCTAAGCC
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
83 21 0.25
84 61 0.73
85 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (83 bp):
AGCCTGCTAGACATAAAGTCTGAAATATTTCAACGGCATTAAGCCTGCTAGACGTAAAGTCTGAT
ATTGTTTCACTGGCAATA
Found at i:23845424 original size:6 final size:6
Alignment explanation
Indices: 23845415--23845469 Score: 103
Period size: 6 Copynumber: 9.3 Consensus size: 6
23845405 AATTACACTC
23845415 TTTATT TTTA-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
23845462 TTTATT TT
1 TTTATT TT
23845470 GTAGGTAGAC
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.10
6 43 0.90
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:23845745 original size:22 final size:22
Alignment explanation
Indices: 23845714--23845761 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
23845704 AGAAAAAAAA
23845714 CCTAACCTTTCACCCATCAAAT
1 CCTAACCTTTCACCCATCAAAT
* * *
23845736 CCTAAGCTTTCACCTATCACAT
1 CCTAACCTTTCACCCATCAAAT
23845758 CCTA
1 CCTA
23845762 GCCATCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.40, G:0.02, T:0.29
Consensus pattern (22 bp):
CCTAACCTTTCACCCATCAAAT
Found at i:23848742 original size:12 final size:12
Alignment explanation
Indices: 23848725--23848749 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23848715 ATGCAATATA
23848725 TCCTTCATTATT
1 TCCTTCATTATT
23848737 TCCTTCATTATT
1 TCCTTCATTATT
23848749 T
1 T
23848750 TTTGTTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCCTTCATTATT
Found at i:23854165 original size:42 final size:42
Alignment explanation
Indices: 23854078--23854251 Score: 233
Period size: 42 Copynumber: 4.2 Consensus size: 42
23854068 GACACTTAGT
* * * * *
23854078 CTGCTAGACATATAGTCTGA-AATGTTTCGCCGGCATTAAGT
1 CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGC
*
23854119 CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAATC
1 CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGC
* * *
23854161 CTGCTAGACGTAAAGTCTAAAATTATTTCACCGGCATTAAGC
1 CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGC
* * *
23854203 CTGCTAAACGTAAAGTCTGATATTGTTTCACTGGCAATAAGC
1 CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGC
23854245 CTGCTAG
1 CTGCTAG
23854252 GCGCTAAGCC
Statistics
Matches: 115, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 18 0.16
42 97 0.84
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (42 bp):
CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGC
Found at i:23855193 original size:4 final size:4
Alignment explanation
Indices: 23855184--23855214 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
23855174 TACAATAGAT
23855184 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
23855215 TTGATTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:23858039 original size:43 final size:43
Alignment explanation
Indices: 23857976--23858159 Score: 269
Period size: 43 Copynumber: 4.3 Consensus size: 43
23857966 TTGGGATTCA
* *
23857976 TGTAAGACTATAGCTAGGCTATTGGCATCAATTTGAGATTTCG
1 TGTAAGACCATAGCTGGGCTATTGGCATCAATTTGAGATTTCG
* **
23858019 TGTAAGACCATAGTTGGGCTATTGGCATTGATTTGAGATTTCG
1 TGTAAGACCATAGCTGGGCTATTGGCATCAATTTGAGATTTCG
**
23858062 TGTAAGACCATAGCTGGGCTATTGGCATTGATTTGAGATTTCG
1 TGTAAGACCATAGCTGGGCTATTGGCATCAATTTGAGATTTCG
** *
23858105 TGTAAGACCATAGCTGGGCTATTGGCATCAATACGAGATTTCCA
1 TGTAAGACCATAGCTGGGCTATTGGCATCAATTTGAGATTT-CG
23858149 TGTAAGACCAT
1 TGTAAGACCAT
23858160 GATTGGGACA
Statistics
Matches: 129, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
43 117 0.91
44 12 0.09
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATAGCTGGGCTATTGGCATCAATTTGAGATTTCG
Found at i:23858076 original size:86 final size:86
Alignment explanation
Indices: 23857922--23858159 Score: 284
Period size: 86 Copynumber: 2.8 Consensus size: 86
23857912 TCCAAAGTCG
** * * * * *
23857922 ATTTGAGATCCCGTATAAGATCATA-TCTGGGATA-TGGCAATGATTTGGGA-TTCATGTAAGAC
1 ATTTGAGATTTCGTGTAAGACCATAGT-TGGGCTATTGGCATTGATTTGAGATTTCATGTAAGAC
*
23857984 TATAGCTAGGCTATTGGCATCA
65 CATAGCTAGGCTATTGGCATCA
*
23858006 ATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGCATTGATTTGAGATTTCGTGTAAGACC
1 ATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGCATTGATTTGAGATTTCATGTAAGACC
* **
23858071 ATAGCTGGGCTATTGGCATTG
66 ATAGCTAGGCTATTGGCATCA
* ** **
23858092 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCAATACGAGATTTCCATGTAAGAC
1 ATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGCATTGATTTGAGATTT-CATGTAAGAC
23858157 CAT
65 CAT
23858160 GATTGGGACA
Statistics
Matches: 132, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
84 27 0.20
85 15 0.11
86 78 0.59
87 12 0.09
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (86 bp):
ATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGCATTGATTTGAGATTTCATGTAAGACC
ATAGCTAGGCTATTGGCATCA
Found at i:23858177 original size:129 final size:127
Alignment explanation
Indices: 23857921--23858159 Score: 325
Period size: 129 Copynumber: 1.9 Consensus size: 127
23857911 TTCCAAAGTC
* * * *
23857921 GATTTGAGATCCCGTATAAGATCATATCTGGGATATGGCAATGATTTGGGATTCATGTAAGACTA
1 GATTTGAGATCCCGTATAAGACCATAGCTGGGATATGGCAATGATTTGAGATTCATGTAAGACCA
** *
23857986 TAGCTAGGCTATTGGCATCAATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGCATT
66 TAGCTAGGCTATTGGCATCAATACGAGATTTCATGTAAGACCATAGTTGGGCTATTGGCATT
** * * * *
23858048 GATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATTGATTTGAGATTTCGTGTAAGAC
1 GATTTGAGATCCCGTATAAGACCATAGCTGGGATA-TGGCAATGATTTGAGA-TTCATGTAAGAC
*
23858113 CATAGCTGGGCTATTGGCATCAATACGAGATTTCCATGTAAGACCAT
64 CATAGCTAGGCTATTGGCATCAATACGAGATTT-CATGTAAGACCAT
23858160 GATTGGGACA
Statistics
Matches: 95, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
127 29 0.31
128 14 0.15
129 40 0.42
130 12 0.13
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (127 bp):
GATTTGAGATCCCGTATAAGACCATAGCTGGGATATGGCAATGATTTGAGATTCATGTAAGACCA
TAGCTAGGCTATTGGCATCAATACGAGATTTCATGTAAGACCATAGTTGGGCTATTGGCATT
Found at i:23868250 original size:14 final size:14
Alignment explanation
Indices: 23868231--23868258 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23868221 ACATCATACT
23868231 ATAAAATCAATAAC
1 ATAAAATCAATAAC
23868245 ATAAAATCAATAAC
1 ATAAAATCAATAAC
23868259 TTGAGATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAAAATCAATAAC
Found at i:23871043 original size:7 final size:7
Alignment explanation
Indices: 23871033--23871058 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
23871023 ATTATTTTTA
23871033 ATTTAAT
1 ATTTAAT
23871040 ATTTAAT
1 ATTTAAT
23871047 ATTTAAT
1 ATTTAAT
23871054 ATTTA
1 ATTTA
23871059 TTAAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTAAT
Found at i:23871062 original size:24 final size:25
Alignment explanation
Indices: 23871035--23871082 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
23871025 TATTTTTAAT
* *
23871035 TTAATATTTAATAT-TTAATATTTA
1 TTAAAATTTAATATATAAATATTTA
*
23871059 TTAAAATTTTATATATAAATATTT
1 TTAAAATTTAATATATAAATATTT
23871083 TAACATTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTAAAATTTAATATATAAATATTTA
Found at i:23874405 original size:20 final size:19
Alignment explanation
Indices: 23874364--23874405 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
23874354 CCTTTCAAAT
*
23874364 TTTCTTATTTTCATTTGGA
1 TTTCTTATTTTCATTTGCA
23874383 TTTCATTATTTTCCATTT-CA
1 TTTC-TTATTTT-CATTTGCA
23874403 TTT
1 TTT
23874406 ACTATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 11 0.55
21 5 0.25
ACGTcount: A:0.17, C:0.14, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTCTTATTTTCATTTGCA
Found at i:23876436 original size:43 final size:42
Alignment explanation
Indices: 23876382--23876744 Score: 395
Period size: 43 Copynumber: 8.5 Consensus size: 42
23876372 AGCGCCGTTT
* *
23876382 TTTTCCACAAACGCCGCTAAAGAT-AATAACCTTTAGCGGCGC
1 TTTTCCACAAACGCCGCTATAGATCAA-GACCTTTAGCGGCGC
* * *
23876424 TTTTTCCACAAACACTGCTATAGATCAAGATCTTTAGCGGCGC
1 -TTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
* * * * * *
23876467 TTTTTACACAAATGCCGCTATAGCTAAAGACCTTTAGCAGCAGT
1 -TTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGC-GC
* * * *
23876511 TTTTACACAAACGCCGCTGTAAATTAAGACCTTTAGCGGCGC
1 TTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
*
23876553 TTTTCTCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCAC
1 TTTTC-CACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
* * * * *
23876596 TTTTCCAACGAATGCCTCTATAGCTCAAGATCTTTAGCGGCGC
1 TTTTCC-ACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
* * * *
23876639 TTTTCCAACAAACGTCGCTATAGCTCAAGACCTTTAGCGACAC
1 TTTTCC-ACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
* *
23876682 TTTTCTCACAAACGTCGCTATAGATCAAGACCTTTAACGGCGC
1 TTTTC-CACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
23876725 TTTTCACACAAACGCCGCTA
1 TTTTC-CACAAACGCCGCTA
23876745 ATAACATATC
Statistics
Matches: 270, Mismatches: 45, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
42 6 0.02
43 260 0.96
44 4 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (42 bp):
TTTTCCACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGC
Found at i:23876817 original size:30 final size:32
Alignment explanation
Indices: 23876781--23876842 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
23876771 ATAATATTTA
23876781 TTTCTATGATAAATATT-A-TTT-AAATTAAAT
1 TTTCTATGA-AAATATTAACTTTAAAATTAAAT
*
23876811 TTTCTATGAAAATTTTAACTTTAAAATTAAAT
1 TTTCTATGAAAATATTAACTTTAAAATTAAAT
23876843 ATAAAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 6 0.21
30 10 0.36
31 3 0.11
32 9 0.32
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (32 bp):
TTTCTATGAAAATATTAACTTTAAAATTAAAT
Found at i:23876868 original size:34 final size:39
Alignment explanation
Indices: 23876824--23876909 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
23876814 CTATGAAAAT
* *
23876824 TTTAACTTTAAAA-TT-AAAT-ATAAA-AAATAA-TTAA
1 TTTAAATTTAAAATTTAAAATAATAAATAAATAACATAA
*
23876858 TTTAAATTTAAAATTTAAAATAATAAATTAATAACATAA
1 TTTAAATTTAAAATTTAAAATAATAAATAAATAACATAA
*
23876897 TTAAAATTTAAAA
1 TTTAAATTTAAAA
23876910 GTTAGAACTC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
34 12 0.28
35 2 0.05
36 4 0.09
37 5 0.12
38 5 0.12
39 15 0.35
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.38
Consensus pattern (39 bp):
TTTAAATTTAAAATTTAAAATAATAAATAAATAACATAA
Found at i:23877042 original size:43 final size:43
Alignment explanation
Indices: 23876976--23877059 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
23876966 ACATATGCAA
* * *
23876976 GGTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
* *
23877019 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATC
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATC
23877060 AAAGATATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:23882696 original size:33 final size:33
Alignment explanation
Indices: 23882654--23882725 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
23882644 AATCTAAATT
* ** *
23882654 CTAAACCCTAACCCGACCTTGAATCCCTAATCC
1 CTAAACCCTAACCCAACCCAGAATCCCTAACCC
23882687 CTAAACCCTAACCCAACCCAGAATCCCTAACCC
1 CTAAACCCTAACCCAACCCAGAATCCCTAACCC
23882720 CTAAAC
1 CTAAAC
23882726 ATTATTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.44, G:0.04, T:0.17
Consensus pattern (33 bp):
CTAAACCCTAACCCAACCCAGAATCCCTAACCC
Found at i:23882796 original size:15 final size:16
Alignment explanation
Indices: 23882770--23882801 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
23882760 ATCTAAATTT
23882770 AACCCTTAAATCCATA
1 AACCCTTAAATCCATA
23882786 AACCC-TAAATCCATA
1 AACCCTTAAATCCATA
23882801 A
1 A
23882802 CTGATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (16 bp):
AACCCTTAAATCCATA
Found at i:23882835 original size:7 final size:7
Alignment explanation
Indices: 23882815--23882854 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
23882805 ATATTAACAT
*
23882815 CTAACCT
1 CTAACCC
23882822 CTAACCC
1 CTAACCC
23882829 CTAACCC
1 CTAACCC
*
23882836 TTAACCC
1 CTAACCC
*
23882843 CTAGCCC
1 CTAACCC
23882850 CTAAC
1 CTAAC
23882855 ACATAAACCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.28, C:0.50, G:0.03, T:0.20
Consensus pattern (7 bp):
CTAACCC
Found at i:23883831 original size:41 final size:41
Alignment explanation
Indices: 23883594--23883830 Score: 277
Period size: 41 Copynumber: 5.9 Consensus size: 41
23883584 TTTTATTATT
* ** *
23883594 ATTAGCGGCG-TTTTTTTAAAACGCCGCTAAAGGTCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
23883634 ATTAGCGACGCTT-TATC---AATGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCT-TCAAAAACGCCGCTAAAGGCCAGAGC
* *
23883672 ATTAGCGGCGCTTCTTCAAAAACGCCTCTGAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* * * *
23883713 ATTAGCGGCGCTACATCAAAAACGCTGCTAAAGCCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* * * *
23883754 ATTAGCGGCGCTTTTTAAAAAACGCTGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
*
23883795 ATTAGCGGCGCTTCTTCAATAACGCCGCTAAAGGCC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
23883831 CCAAAAACTC
Statistics
Matches: 167, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
38 33 0.20
39 1 0.01
40 10 0.06
41 123 0.74
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.21
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
Found at i:23884001 original size:40 final size:39
Alignment explanation
Indices: 23883867--23884001 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 39
23883857 GGGCTTAGGC
*
23883867 TTTTT-GCGGCGCTTTTCAGAAAA-CGCCGCTAATGCT-TA
1 TTTTTAGCGGCG-TTTTTA-AAAAGCGCCGCTAATGCTCTA
* * * *
23883905 TTTTTAGCGGTGTTTTCCAAAAAGCCCCACTAATGCTCTA
1 TTTTTAGCGGCGTTTT-TAAAAAGCGCCGCTAATGCTCTA
** *
23883945 CCTTTAGCGGCGTTTTTATAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTA-AAAAGCGCCGCTAATGCTCTA
*
23883985 TTTTTAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
23884002 TGTCCAAATG
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
38 13 0.16
39 19 0.24
40 47 0.59
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTTAAAAAGCGCCGCTAATGCTCTA
Found at i:23884024 original size:12 final size:12
Alignment explanation
Indices: 23884007--23884032 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23883997 TTTTTTGTCC
23884007 AAATGCCGCTAA
1 AAATGCCGCTAA
23884019 AAATGCCGCTAA
1 AAATGCCGCTAA
23884031 AA
1 AA
23884033 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (12 bp):
AAATGCCGCTAA
Found at i:23885122 original size:4 final size:4
Alignment explanation
Indices: 23885108--23885145 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
23885098 ATAACCAAAC
*
23885108 AAAG AACG AAAG AAAG AAAG AAAG AAAG AAAG -AAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
23885146 ATAAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.74, C:0.03, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:23890077 original size:17 final size:17
Alignment explanation
Indices: 23890050--23890090 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
23890040 CATGAGATAG
23890050 AAAAA-AATAA-GGAAA
1 AAAAAGAATAAGGGAAA
23890065 AAAACAGAATAAGGGAAA
1 AAAA-AGAATAAGGGAAA
23890083 AAAAAGAA
1 AAAAAGAA
23890091 GAATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.17
16 1 0.04
17 9 0.39
18 9 0.39
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (17 bp):
AAAAAGAATAAGGGAAA
Found at i:23919126 original size:8 final size:8
Alignment explanation
Indices: 23919117--23919146 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
23919107 TAGAATATGT
*
23919117 ATGAATGT
1 ATGAATGC
23919125 ATGAATGC
1 ATGAATGC
23919133 ATGAATGC
1 ATGAATGC
23919141 ATGAAT
1 ATGAAT
23919147 TTGCCATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (8 bp):
ATGAATGC
Found at i:23926067 original size:27 final size:27
Alignment explanation
Indices: 23926028--23926537 Score: 451
Period size: 27 Copynumber: 19.1 Consensus size: 27
23926018 AATGGGCCTC
* *
23926028 TAAAATGACCGAAATACCCTCGAT-GGG
1 TAAAATGATCGAAATACCC-CCATAGGG
*
23926055 TAAAATGATCGAAATACCCTCGA-AGGG
1 TAAAATGATCGAAATACCC-CCATAGGG
* * * *
23926082 TAAAGTTA-CTAAAATACCCTCGA-AGGG
1 TAAAATGATC-GAAATACCC-CCATAGGG
* * *
23926109 TAAAATTA-CAAATATACCCTCGAT-GGG
1 TAAAATGATCGAA-ATACCC-CCATAGGG
* *
23926136 TAAAATTA-CTGAAATACCCTCA-ATGGG
1 TAAAATGATC-GAAATACCCCCATA-GGG
** *
23926163 T-AAATTTTC--AATACCCCCATAAGG
1 TAAAATGATCGAAATACCCCCATAGGG
*
23926187 TAAAATGA-CTAAAATACCCCCATAGGG
1 TAAAATGATC-GAAATACCCCCATAGGG
* * * *
23926214 TAAAATGACCAAAATA-CTCCATATGG
1 TAAAATGATCGAAATACCCCCATAGGG
* *
23926240 TAAAATTATCGAAATACCCCCATAAGG
1 TAAAATGATCGAAATACCCCCATAGGG
** *
23926267 TAAAATGA-CTGAAATATTCCTATAGGG
1 TAAAATGATC-GAAATACCCCCATAGGG
23926294 TAAAATGATCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
**
23926321 TAAAATGATCGAAATACCTTCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
* * *
23926348 TAAAATGACCGAAACACCCCCATAGGA
1 TAAAATGATCGAAATACCCCCATAGGG
*
23926375 T-AAATGACCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
*
23926401 TAAAATGATCGAAATACCCCTATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
*
23926428 TAAAATGA-C-AAATACCCCTATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
* *
23926453 TAGAATGATCGAAATACCCCTATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
*
23926480 AAAAATGATCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
* * * *
23926507 TAAAATAACCAAAATACCCCCATCGGG
1 TAAAATGATCGAAATACCCCCATAGGG
23926534 TAAA
1 TAAA
23926538 GTGACTGTTA
Statistics
Matches: 414, Mismatches: 49, Indels: 40
0.82 0.10 0.08
Matches are distributed among these distances:
24 13 0.03
25 28 0.07
26 58 0.14
27 311 0.75
28 4 0.01
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCCCATAGGG
Found at i:23926272 original size:80 final size:81
Alignment explanation
Indices: 23926028--23926542 Score: 491
Period size: 80 Copynumber: 6.4 Consensus size: 81
23926018 AATGGGCCTC
* * * * * *
23926028 TAAAATGACCGAAATACCCTCGAT-GGGTAAAATGATCGAAATACCCTCGA-AGGGTAAAGTTA-
1 TAAAATGACCAAAATACCC-CCATAGGGTAAAATGACCGAAATACCC-CCATAGGGTAAAATGAT
* *
23926090 CTAAAATACCCTCGA-AGGG
64 C-GAAATACCC-CCATAGGG
* * * * * **
23926109 TAAAATTA-CAAATATACCCTCGAT-GGGTAAAATTACTGAAATACCCTCA-ATGGGT-AAATTT
1 TAAAATGACCAAA-ATACCC-CCATAGGGTAAAATGACCGAAATACCCCCATA-GGGTAAAATGA
*
23926170 TC--AATACCCCCATAAGG
63 TCGAAATACCCCCATAGGG
* * * * *
23926187 TAAAATGACTAAAATACCCCCATAGGGTAAAATGACCAAAATA-CTCCATATGGTAAAATTATCG
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
*
23926251 AAATACCCCCATAAGG
66 AAATACCCCCATAGGG
** ** * *
23926267 TAAAATGACTGAAATATTCCTATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGATCG
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
**
23926332 AAATACCTTCATAGGG
66 AAATACCCCCATAGGG
* * *
23926348 TAAAATGACCGAAACACCCCCATAGGAT-AAATGACCGAAATACCCCCATAGGGTAAAATGATCG
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
*
23926412 AAATACCCCTATAGGG
66 AAATACCCCCATAGGG
* * * * *
23926428 TAAAATGA-C-AAATACCCCTATAGGGTAGAATGATCGAAATACCCCTATAGGGAAAAATGATCG
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
23926491 AAATACCCCCATAGGG
66 AAATACCCCCATAGGG
* * *
23926507 TAAAATAACCAAAATACCCCCATCGGGTAAAGTGAC
1 TAAAATGACCAAAATACCCCCATAGGGTAAAATGAC
23926543 TGTTATATCC
Statistics
Matches: 363, Mismatches: 57, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
77 11 0.03
78 61 0.17
79 58 0.16
80 118 0.33
81 115 0.32
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (81 bp):
TAAAATGACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCG
AAATACCCCCATAGGG
Found at i:23927309 original size:27 final size:27
Alignment explanation
Indices: 23927271--23927460 Score: 195
Period size: 27 Copynumber: 7.1 Consensus size: 27
23927261 TTACACTGTT
* * **
23927271 ATGATCGAAATACCCTGATAAGGTTGA
1 ATGACCGAAATACCCTCATAAGGTAAA
*
23927298 ATGACCGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCTCATAAGGTAAA
* * *
23927325 ATGATCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCTCATAAGGTAAA
* * *
23927352 ATGATCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCTCATAAGGTAAA
*
23927379 ATGACTGAAATACCC-CATAAGGTAAA
1 ATGACCGAAATACCCTCATAAGGTAAA
* *
23927405 ATGACTGAAATACCCTCAT-AGTGTAGA
1 ATGACCGAAATACCCTCATAAG-GTAAA
** * *
23927432 ATGACTTAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCTCATAAGGTAAA
23927459 AT
1 AT
23927461 AACTGTTATT
Statistics
Matches: 145, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
26 27 0.19
27 117 0.81
28 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (27 bp):
ATGACCGAAATACCCTCATAAGGTAAA
Found at i:23927355 original size:54 final size:54
Alignment explanation
Indices: 23927277--23927460 Score: 237
Period size: 54 Copynumber: 3.4 Consensus size: 54
23927267 TGTTATGATC
** **
23927277 GAAATACCCTGATAAGGTTGAATGACCGAAATACCCTCATAGGGTAAAATGA-T
1 GAAATACCCCCATAAGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACT
* * *
23927330 CGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACT
1 -GAAATACCCCCATAAGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACT
* * *
23927385 GAAATA-CCCCATAAGGTAAAATGACTGAAATACCCTCATAGTGTAGAATGACT
1 GAAATACCCCCATAAGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACT
* *
23927438 TAAATACCCCCATAGGGTAAAAT
1 GAAATACCCCCATAAGGTAAAAT
23927461 AACTGTTATT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 46 0.41
54 66 0.58
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (54 bp):
GAAATACCCCCATAAGGTAAAATGACCGAAATACCCTCATAGGGTAAAATGACT
Found at i:23927443 original size:80 final size:81
Alignment explanation
Indices: 23927271--23927465 Score: 243
Period size: 80 Copynumber: 2.4 Consensus size: 81
23927261 TTACACTGTT
** * ** * *
23927271 ATGATCGAAATACCCTGATAAGGTTGAATGACCGAAATACCCTCATAGGGTAAAATGATCGAAAT
1 ATGATCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCTCATAAGGTAAAATGATCGAAAT
23927336 ACCCCCATAGGGTAAA
66 ACCCCCATAGGGTAAA
23927352 ATGATCGAAATACCCCCATAGGGTAAAATGACTGAAATACCC-CATAAGGTAAAATGA-CTGAAA
1 ATGATCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCTCATAAGGTAAAATGATC-GAAA
* * *
23927415 TACCCTCATAGTGTAGA
65 TACCCCCATAGGGTAAA
* *
23927432 ATGA-CTTAAATACCCCCATAGGGTAAAATAACTG
1 ATGATC-GAAATACCCCCATAGGGTAAAATGACTG
23927466 TTATTTCCCC
Statistics
Matches: 100, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
79 2 0.02
80 62 0.62
81 36 0.36
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (81 bp):
ATGATCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCTCATAAGGTAAAATGATCGAAAT
ACCCCCATAGGGTAAA
Found at i:23935008 original size:28 final size:28
Alignment explanation
Indices: 23934968--23935026 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
23934958 CATCAGGTGA
23934968 GAAAAAACGATATATGAAATGGTTATAT
1 GAAAAAACGATATATGAAATGGTTATAT
* * *
23934996 GAAAAAATGATATGTGTAATGGTTATAT
1 GAAAAAACGATATATGAAATGGTTATAT
23935024 GAA
1 GAA
23935027 TTGGTTACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (28 bp):
GAAAAAACGATATATGAAATGGTTATAT
Done.