Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 131 of 345
Found at i:35384860 original size:108 final size:109
Alignment explanation
Indices: 35384638--35384850 Score: 261
Period size: 108 Copynumber: 2.0 Consensus size: 109
35384628 ATAAGGATAT
* * * *
35384638 ATGTAAGACCACGTCAAGGCCTGGCATGGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCA
1 ATGTAAGACCACGCCAAGGCATGGCATGGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACCA
* * * * *
35384703 TGTCAAGACATGACATTGATGAGTTACTATAAGGCAAAGGTCCC
66 TGTCAAGACATGACAATGATAAGTTACAAAAAGGAAAAGGTCCC
* * *
35384747 ATGTAAGACCATGCCAAGGCATGGCATTGG-TGAGTTC-ATAAGGCAAGGATACCACGTAAGACC
1 ATGTAAGACCACGCCAAGGCATGGCA-TGGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACC
* * *
35384810 TTGTCAAGACATGGCAATGGTAAGTT-CAAAAAGGAAAAGGT
65 ATGTCAAGACATGACAATGATAAGTTACAAAAAGGAAAAGGT
35384851 TCCTGTGTAA
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
107 12 0.14
108 44 0.50
109 29 0.33
110 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (109 bp):
ATGTAAGACCACGCCAAGGCATGGCATGGATAAGTTCTATAAGGCAAGGAAACCACGTAAGACCA
TGTCAAGACATGACAATGATAAGTTACAAAAAGGAAAAGGTCCC
Found at i:35384988 original size:12 final size:12
Alignment explanation
Indices: 35384967--35385000 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
35384957 TGAGATTATC
35384967 AAGT-ATTAAGT
1 AAGTAATTAAGT
35384978 AAGTAATTAAGT
1 AAGTAATTAAGT
35384990 AAGTAA-TAAGT
1 AAGTAATTAAGT
35385001 TTTCAGTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (12 bp):
AAGTAATTAAGT
Found at i:35385935 original size:128 final size:128
Alignment explanation
Indices: 35385707--35385963 Score: 496
Period size: 128 Copynumber: 2.0 Consensus size: 128
35385697 CACCCTAATC
35385707 TGGTAAAATCTTATCACCCTATCTCTAGTCTTGCACTCAACTGCGCTTAATTATGACAAATTTAC
1 TGGTAAAATCTTATCACCCTATCTCTAGTCTTGCACTCAACTGCGCTTAATTATGACAAATTTAC
* *
35385772 TCTTAGATAGGGTCTATTCCTCCTCTGAATAAGAGTATTAACTTGAATCAATATCCTGGAATA
66 TCTTAGACAGGGTCTATTCCTCCTCTGAATAAGAGTATTAACTTGAAGCAATATCCTGGAATA
35385835 TGGTAAAATCTTATCACCCTATCTCTAGTCTTGCACTCAACTGCGCTTAATTATGACAAATTTAC
1 TGGTAAAATCTTATCACCCTATCTCTAGTCTTGCACTCAACTGCGCTTAATTATGACAAATTTAC
35385900 TCTTAGACAGGGTCTATTCCTCCTCTGAATAAGAGTATTAACTTGAAGCAATATCCTGGAATA
66 TCTTAGACAGGGTCTATTCCTCCTCTGAATAAGAGTATTAACTTGAAGCAATATCCTGGAATA
35385963 T
1 T
35385964 TAAAACAAGA
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 127 1.00
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (128 bp):
TGGTAAAATCTTATCACCCTATCTCTAGTCTTGCACTCAACTGCGCTTAATTATGACAAATTTAC
TCTTAGACAGGGTCTATTCCTCCTCTGAATAAGAGTATTAACTTGAAGCAATATCCTGGAATA
Found at i:35388362 original size:27 final size:25
Alignment explanation
Indices: 35388325--35388374 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
35388315 AAAAGTACTT
*
35388325 AAATAAGATAAATAAAGATAAAAGTGA
1 AAATAAAAT-AATAAAGA-AAAAGTGA
*
35388352 AAATAAAATAATAAATAAAAAGT
1 AAATAAAATAATAAAGAAAAAGT
35388375 TTTTAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 7 0.33
27 8 0.38
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (25 bp):
AAATAAAATAATAAAGAAAAAGTGA
Found at i:35393748 original size:25 final size:25
Alignment explanation
Indices: 35393720--35393792 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
35393710 CCTCTTTTAA
35393720 TAACTGGGGCAAAGCCCTTTTTGAT
1 TAACTGGGGCAAAGCCCTTTTTGAT
* ** *
35393745 TAACTGGGGCAAAACCCTTTCCGGT
1 TAACTGGGGCAAAGCCCTTTTTGAT
*
35393770 AAACTGGGGCAAAGCCCTTTTTG
1 TAACTGGGGCAAAGCCCTTTTTG
35393793 CACTTCCTCC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (25 bp):
TAACTGGGGCAAAGCCCTTTTTGAT
Found at i:35393873 original size:11 final size:11
Alignment explanation
Indices: 35393857--35393897 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
35393847 GCATCTCATA
35393857 ACATATCATGT
1 ACATATCATGT
35393868 ACATATCATGT
1 ACATATCATGT
*
35393879 GCATATCATGT
1 ACATATCATGT
35393890 -CATATCAT
1 ACATATCAT
35393898 TTATATCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 8 0.28
11 21 0.72
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (11 bp):
ACATATCATGT
Found at i:35393876 original size:21 final size:21
Alignment explanation
Indices: 35393822--35393897 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
35393812 AAACCCAACC
* *
35393822 CATG-CATATAATGAATATAT
1 CATGTCATATCATGAACATAT
* *
35393842 CTTGTGCATCTCAT-AACATAT
1 CATGT-CATATCATGAACATAT
**
35393863 CATGTACATATCATGTGCATAT
1 CATGT-CATATCATGAACATAT
35393885 CATGTCATATCAT
1 CATGTCATATCAT
35393898 TTATATCAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
20 3 0.07
21 25 0.57
22 16 0.36
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (21 bp):
CATGTCATATCATGAACATAT
Found at i:35401940 original size:25 final size:25
Alignment explanation
Indices: 35401912--35401983 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
35401902 CTCTTTTAAG
*
35401912 AACTGGGGCAAAGCCCTTTTTGATT
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
35401937 AACTGGGGCAATGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
35401962 AACTGGGGCAAAGCCCTTTTTG
1 AACTGGGGCAAAGCCCTTTTTG
35401984 CACTTCCTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:35402059 original size:21 final size:21
Alignment explanation
Indices: 35402029--35402087 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
35402019 TATAATGAAT
* *
35402029 ATATCTTGTGCATCTCATAAC
1 ATATCATGTGCATATCATAAC
**
35402050 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
35402071 ATATCATGT-CATATCAT
1 ATATCATGTGCATATCAT
35402088 GTATATCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 8 0.24
21 26 0.76
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:35402073 original size:10 final size:10
Alignment explanation
Indices: 35402049--35402095 Score: 78
Period size: 10 Copynumber: 4.7 Consensus size: 10
35402039 CATCTCATAA
35402049 CATATCATGT
1 CATATCATGT
35402059 GCATATCATGT
1 -CATATCATGT
35402070 CATATCATGT
1 CATATCATGT
35402080 CATATCATGT
1 CATATCATGT
35402090 -ATATCA
1 CATATCA
35402096 AAATCTCATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.17
10 20 0.56
11 10 0.28
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (10 bp):
CATATCATGT
Found at i:35405425 original size:40 final size:40
Alignment explanation
Indices: 35405370--35405626 Score: 367
Period size: 40 Copynumber: 6.5 Consensus size: 40
35405360 GAATGATAAT
* * * * *
35405370 CGGGCTAGGTCCCGAAGGCCTTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATA-TC
*
35405410 CGGGCTAATTCCCGAAGGCATTTGAGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATC
*
35405450 CGGGCTAAGTCCCGAAGGCATTTGAGTGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATC
*
35405490 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATC
* * *
35405530 CGGGCTAGGTCCCGAAGGCATTTGTGTGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATC
35405570 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTATATC
*
35405610 C-GGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
35405627 TACTTGGTTT
Statistics
Matches: 199, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 17 0.09
40 181 0.91
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATC
Found at i:35407166 original size:20 final size:20
Alignment explanation
Indices: 35407143--35407181 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35407133 CACAACCAAA
*
35407143 TACCAAATTTTAAAAAATTT
1 TACCAAATTCTAAAAAATTT
*
35407163 TACCAAATTCTCAAAAATT
1 TACCAAATTCTAAAAAATT
35407182 ACGAAAATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TACCAAATTCTAAAAAATTT
Found at i:35410356 original size:143 final size:141
Alignment explanation
Indices: 35410148--35410442 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
35410138 TGAGTTAAAT
*
35410148 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
35410213 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTA--TGTGT
35410278 GTGTGCATGAGTA
129 GTGTGCATGAGTA
35410291 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
35410356 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
35410421 GTGCATGAGTA
131 GTGCATGAGTA
35410432 TTCGGCCATGC
1 TTCGGCCATGC
35410443 TATAGAATTT
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 29 0.19
143 122 0.81
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (141 bp):
TTCGGCCATGCATGTTGTCTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
GTGCATGAGTA
Found at i:35411118 original size:28 final size:28
Alignment explanation
Indices: 35411087--35411195 Score: 146
Period size: 29 Copynumber: 3.8 Consensus size: 28
35411077 GACGAGATTG
*
35411087 GCACTAAGTGTGCGTGCTGGAAATATAT
1 GCACTAAGTGTGCATGCTGGAAATATAT
* *
35411115 GCACTAAGTGTGCGTGCTGGAAATATAAG
1 GCACTAAGTGTGCATGCTGGAAATAT-AT
*
35411144 GCACTAAGTGTGCATGCTGGAAAAATAT
1 GCACTAAGTGTGCATGCTGGAAATATAT
* *
35411172 GACACTATGTGTGCAAGCTGGAAA
1 G-CACTAAGTGTGCATGCTGGAAA
35411196 AATACGGCAC
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
28 28 0.38
29 45 0.62
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (28 bp):
GCACTAAGTGTGCATGCTGGAAATATAT
Found at i:35411214 original size:58 final size:57
Alignment explanation
Indices: 35411086--35411206 Score: 170
Period size: 57 Copynumber: 2.1 Consensus size: 57
35411076 TGACGAGATT
* * ** *
35411086 GGCACTAAGTGTGCGTGCTGGAAATATATGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCATGCTGGAAAAATATGCACTAAGTGTGCAAGCTGGAAAAATAA
* *
35411143 GGCACTAAGTGTGCATGCTGGAAAAATATGACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCATGCTGGAAAAATATG-CACTAAGTGTGCAAGCTGGAAAAATAA
35411201 GGCACT
1 GGCACT
35411207 GGGTGTGCGA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 28 0.50
58 28 0.50
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (57 bp):
GGCACTAAGTGTGCATGCTGGAAAAATATGCACTAAGTGTGCAAGCTGGAAAAATAA
Found at i:35418270 original size:38 final size:39
Alignment explanation
Indices: 35418219--35418479 Score: 332
Period size: 39 Copynumber: 6.7 Consensus size: 39
35418209 TAATTGAGGA
* * * *
35418219 TTATAACCGGGCTAAGACCCGTAGGCCTT-GTG-TGAGAT-
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTG-G-TG
35418257 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
35418296 TTATATCTGGGCTAAGTCCCGAAGGCA-TCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
35418334 TTATGTCCAGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
35418373 TTATGTCTGGTCTAAGTCTCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
35418412 TTATATTCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
35418451 TTATATCTGAGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
35418480 TGTGTTGGAA
Statistics
Matches: 197, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
38 61 0.31
39 134 0.68
40 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:35418308 original size:39 final size:39
Alignment explanation
Indices: 35418257--35418479 Score: 333
Period size: 39 Copynumber: 5.7 Consensus size: 39
35418247 TGTGTGAGAT
*
35418257 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
35418296 TTATATCTGGGCTAAGTCCCGAAGGCA-TCGTGCTGGTG
1 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* **
35418334 TTATGTCCAGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
35418373 TTATGTCTGGTCTAAGTCTCGAAGGCATTCGTGCTGGTG
1 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
35418412 TTATAT-TCGAGCTAAGTCCCGAAGGTATTCGTGCTGGTG
1 TTATATCT-GGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
35418451 TTATATCTGAGCTAAGTCCCGAAGGCATT
1 TTATATCTGGGCTAAGTCCCGAAGGCATT
35418480 TGTGTTGGAA
Statistics
Matches: 167, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
38 36 0.22
39 130 0.78
40 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (39 bp):
TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:35426480 original size:37 final size:39
Alignment explanation
Indices: 35426259--35426514 Score: 341
Period size: 38 Copynumber: 6.7 Consensus size: 39
35426249 TAATTGAGGA
* * * *
35426259 TTATAACCGGGCTAAGACCCGTAGGCCTT-GTG-TGAGAT-
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTG-G-TG
35426297 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
35426336 TTATATCCGGGCTAAGTCCC-AAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
35426374 TTATGTCCTGGC-AAGTCCCGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
35426412 TTATGTCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
35426451 TTATATCC-GGCTAAGT-CCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
35426488 TTATATCC-GGCTAAGT-CCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
35426515 TGTGTTGGAA
Statistics
Matches: 199, Mismatches: 14, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
37 53 0.27
38 89 0.45
39 55 0.28
40 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:35438591 original size:29 final size:29
Alignment explanation
Indices: 35438517--35438608 Score: 103
Period size: 29 Copynumber: 3.1 Consensus size: 29
35438507 ATGGCCCACT
*
35438517 TGGCCCATCAAGCCCCAATTCACATTCATA
1 TGGCCCATC-AGACCCAATTCACATTCATA
*
35438547 TGGCCCATCAGACCCAATTCATATTCATA
1 TGGCCCATCAGACCCAATTCACATTCATA
* * * * * *
35438576 TGGCCTATTAGGCCCAAATCACCTTTATA
1 TGGCCCATCAGACCCAATTCACATTCATA
35438605 TGGC
1 TGGC
35438609 TCGTTAGGCC
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 44 0.83
30 9 0.17
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (29 bp):
TGGCCCATCAGACCCAATTCACATTCATA
Found at i:35443433 original size:18 final size:20
Alignment explanation
Indices: 35443392--35443435 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
35443382 TCAGAGAGTT
*
35443392 ACACGGGCGTGTTTCGAGCC
1 ACACGGGCGTGTGTCGAGCC
35443412 ACACGGGCGTGTGT-GA-CC
1 ACACGGGCGTGTGTCGAGCC
35443430 ACACGG
1 ACACGG
35443436 CCTACCCGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 13 0.57
ACGTcount: A:0.18, C:0.30, G:0.36, T:0.16
Consensus pattern (20 bp):
ACACGGGCGTGTGTCGAGCC
Found at i:35449468 original size:15 final size:15
Alignment explanation
Indices: 35449440--35449480 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
35449430 TTTCTTAATG
35449440 GAAAAGATAAGAAAAA
1 GAAAAGA-AAGAAAAA
35449456 GAAAAGAAAGAAAAA
1 GAAAAGAAAGAAAAA
*
35449471 AAAAAGAAAG
1 GAAAAGAAAG
35449481 GAATTAAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.71
16 7 0.29
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (15 bp):
GAAAAGAAAGAAAAA
Found at i:35452157 original size:35 final size:35
Alignment explanation
Indices: 35452029--35452157 Score: 152
Period size: 35 Copynumber: 3.7 Consensus size: 35
35452019 AATATAGTGA
* ** *
35452029 CATGCTTAATATACGAATCAAAATCAGTA-AAGTGG
1 CATGCTTAACATGTGAATCAGAATCAGTATAA-TGG
* *
35452064 CATGCTTAACATGTGAATAAGAATCAGTATATTGG
1 CATGCTTAACATGTGAATCAGAATCAGTATAATGG
* *
35452099 CATGCTTAACATGTTAATTAGAATCAGTATAATGG
1 CATGCTTAACATGTGAATCAGAATCAGTATAATGG
* *
35452134 CATGCTTAACTTGAGAATCAGAAT
1 CATGCTTAACATGTGAATCAGAAT
35452158 ATCAACAAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
35 79 0.99
36 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (35 bp):
CATGCTTAACATGTGAATCAGAATCAGTATAATGG
Found at i:35453749 original size:25 final size:25
Alignment explanation
Indices: 35453715--35453777 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
35453705 AAGGTTATTA
*
35453715 ATTTATAGCTCGTAATAGCATACCG
1 ATTTATAGCTCGTAAGAGCATACCG
*
35453740 ATTTATAGCTCATAAGAGCATACCG
1 ATTTATAGCTCGTAAGAGCATACCG
*
35453765 ATTCATAGCTCGT
1 ATTTATAGCTCGT
35453778 GACAATATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (25 bp):
ATTTATAGCTCGTAAGAGCATACCG
Found at i:35455032 original size:12 final size:12
Alignment explanation
Indices: 35455017--35455046 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
35455007 CCAAGTTGTT
35455017 ACACGGCCTAGC
1 ACACGGCCTAGC
*
35455029 ACACGGCCTGGC
1 ACACGGCCTAGC
35455041 ACACGG
1 ACACGG
35455047 GCGTGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:35461018 original size:2 final size:2
Alignment explanation
Indices: 35461011--35461053 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
35461001 GAGACTAGTC
35461011 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35461053 A
1 A
35461054 CATGTCATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35462314 original size:63 final size:63
Alignment explanation
Indices: 35462131--35462314 Score: 176
Period size: 63 Copynumber: 2.9 Consensus size: 63
35462121 CATATAGTTC
* * * * * *
35462131 AGCTCTCTTGTAC-ACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGT
1 AGCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTACATATATCCCAT
* * * * *
35462194 AGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGTTACATATATCCC
1 AGCTCTCTTGTCTACATGGTG---TACAC-TAGTACCACCCATGCGACCTAGCTACATATATCCC
35462259 AT
62 AT
*
35462261 AGCTCTCTTGTCTA-ATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 AGCTCTCTTGTCTACATGGTGTACAC-TAGTACCACCCATGCGACCTAGCTACAT
35462315 CATAATGTCT
Statistics
Matches: 97, Mismatches: 18, Indels: 12
0.76 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 46 0.47
66 27 0.28
67 23 0.24
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.30
Consensus pattern (63 bp):
AGCTCTCTTGTCTACATGGTGTACACTAGTACCACCCATGCGACCTAGCTACATATATCCCAT
Found at i:35463082 original size:30 final size:30
Alignment explanation
Indices: 35463048--35463108 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
35463038 TCCTTAACTC
35463048 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
35463078 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
35463108 A
1 A
35463109 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:35465581 original size:40 final size:40
Alignment explanation
Indices: 35465536--35465703 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
35465526 CGGAATACAA
35465536 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
35465576 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
35465616 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
35465656 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
35465696 CCGGATAT
1 CCGGATAT
35465704 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:35473548 original size:40 final size:40
Alignment explanation
Indices: 35473503--35473670 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
35473493 CGGAATACAA
35473503 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
35473543 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
35473583 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
35473623 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
35473663 CCGGATAT
1 CCGGATAT
35473671 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:35481553 original size:40 final size:40
Alignment explanation
Indices: 35481509--35481689 Score: 197
Period size: 40 Copynumber: 4.5 Consensus size: 40
35481499 GCTCGATTGT
* * *
35481509 CTTCGGGACATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGATT-TAGTAACTCGCACAAATGC
35481549 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
35481589 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
35481629 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
35481670 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGACATAGCCCGGAT
35481690 ACCATTCGAA
Statistics
Matches: 118, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
39 2 0.02
40 87 0.74
41 27 0.23
42 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:35481607 original size:80 final size:81
Alignment explanation
Indices: 35481509--35481687 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 81
35481499 GCTCGATTGT
* * * *
35481509 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAG
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAG
* *
35481573 TAAC-TCGCACAAATGC
65 TAACTTAGCACAAAAGC
* * *
35481589 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
*
35481654 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
35481670 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
35481688 ATACCATTCG
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 58 0.67
81 28 0.33
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAAGC
Found at i:35482401 original size:2 final size:2
Alignment explanation
Indices: 35482394--35482418 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35482384 ATGTGCAAAC
35482394 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
35482419 GCTAGAGCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35485043 original size:40 final size:40
Alignment explanation
Indices: 35484956--35485138 Score: 135
Period size: 40 Copynumber: 4.6 Consensus size: 40
35484946 AATTGATTGA
* * * **
35484956 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* * *
35484996 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
35485037 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
* * *
35485076 TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCATGA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCAT-AC
* * *
35485116 TATCCGGGTTAAGTCCCGTAGGC
1 TATCCGGGCTAAGACCCGAAGGC
35485139 CTTGGTGCGG
Statistics
Matches: 115, Mismatches: 19, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 107 0.93
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:35486683 original size:18 final size:18
Alignment explanation
Indices: 35486660--35486695 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35486650 TCGGTAACAT
*
35486660 GATCGGTACTCAGCCATC
1 GATCGGTACACAGCCATC
*
35486678 GATCGGTCCACAGCCATC
1 GATCGGTACACAGCCATC
35486696 TCGGGTGACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.36, G:0.22, T:0.19
Consensus pattern (18 bp):
GATCGGTACACAGCCATC
Found at i:35487028 original size:27 final size:27
Alignment explanation
Indices: 35486998--35487132 Score: 164
Period size: 27 Copynumber: 5.0 Consensus size: 27
35486988 GGGGCAAAAT
* * *
35486998 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
35487025 GGTAATTCTACGCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
35487052 TATATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
35487079 GGTAATTCTATCCTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
*
35487106 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
35487133 AATAATTTTG
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
26 3 0.03
27 84 0.93
28 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:35487153 original size:27 final size:27
Alignment explanation
Indices: 35487123--35487227 Score: 93
Period size: 27 Copynumber: 3.9 Consensus size: 27
35487113 CTACCCTACA
*
35487123 AGGGTATTTCAATAATTTTGTAAATCG
1 AGGGTATTTCAGTAATTTTGTAAATCG
*** *
35487150 AGGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTATTTCAGTAATTTTGTAAATCG
* ** ** *
35487177 GGGGTATTTTGGTAATTTTACAAGTCG
1 AGGGTATTTCAGTAATTTTGTAAATCG
* *
35487204 AGGGTATTCCAGTAATTTGGTAAA
1 AGGGTATTTCAGTAATTTTGTAAA
35487228 CTAAAATATT
Statistics
Matches: 57, Mismatches: 21, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTGTAAATCG
Found at i:35490710 original size:14 final size:15
Alignment explanation
Indices: 35490681--35490710 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35490671 TGTGAAGAAA
35490681 TATTTTTCTTCTCCT
1 TATTTTTCTTCTCCT
35490696 TATTTTTCTTC-CCT
1 TATTTTTCTTCTCCT
35490710 T
1 T
35490711 GGTCGAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTCTTCTCCT
Found at i:35492119 original size:31 final size:31
Alignment explanation
Indices: 35492084--35492146 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
35492074 AACCTATTTT
35492084 TCCGTTGCATTTATGAAAAATGAGTTTTTAA
1 TCCGTTGCATTTATGAAAAATGAGTTTTTAA
35492115 TCCGTTGCATTTATGAAAAATGAGTTTTTAA
1 TCCGTTGCATTTATGAAAAATGAGTTTTTAA
35492146 T
1 T
35492147 AAAATTAGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.43
Consensus pattern (31 bp):
TCCGTTGCATTTATGAAAAATGAGTTTTTAA
Found at i:35494324 original size:25 final size:25
Alignment explanation
Indices: 35494296--35494374 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
35494286 ACTCGGCCCT
35494296 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
35494321 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
35494343 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
35494368 ATCACAT
1 ATCACAT
35494375 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:35494420 original size:49 final size:49
Alignment explanation
Indices: 35494246--35494599 Score: 540
Period size: 49 Copynumber: 7.3 Consensus size: 49
35494236 CCCTTCGGGA
* * * * *
35494246 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
35494293 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
35494340 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
**
35494387 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
35494436 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
35494485 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
35494534 CTTATCACATATATACACACTTTCACATTCATCACGTTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
35494583 CTTATCACATATATATA
1 CTTATCACATATATATA
35494600 TCTCATACAT
Statistics
Matches: 287, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 91 0.32
49 195 0.68
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:35500348 original size:19 final size:20
Alignment explanation
Indices: 35500306--35500349 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
35500296 GAAAAAAAAT
35500306 CAAAAGTAAGAACGACAAGA
1 CAAAAGTAAGAACGACAAGA
35500326 -AAAAGTACAGAAC-A-AAGA
1 CAAAAGTA-AGAACGACAAGA
35500344 CAAAAG
1 CAAAAG
35500350 CATTGTGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.18
19 13 0.59
20 5 0.23
ACGTcount: A:0.64, C:0.14, G:0.18, T:0.05
Consensus pattern (20 bp):
CAAAAGTAAGAACGACAAGA
Found at i:35503915 original size:13 final size:13
Alignment explanation
Indices: 35503897--35503926 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
35503887 TTAGTATAGT
35503897 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
*
35503910 AAAAAGAAAGAAG
1 AAAAAGAAAAAAG
35503923 AAAA
1 AAAA
35503927 GAAGAAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:35503928 original size:18 final size:17
Alignment explanation
Indices: 35503899--35503935 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
35503889 AGTATAGTAA
35503899 AAAGAAAAAAGAAAAAG
1 AAAGAAAAAAGAAAAAG
*
35503916 AAAGAAGAAAAGAAGAAG
1 AAAGAA-AAAAGAAAAAG
35503934 AA
1 AA
35503936 TGCACGGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAGAAAAAG
Found at i:35508056 original size:2 final size:2
Alignment explanation
Indices: 35508038--35508072 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
35508028 CGGAATATAA
* *
35508038 AG AG GG AG AG GG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
35508073 AGAATAGCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35515580 original size:5 final size:5
Alignment explanation
Indices: 35515560--35515592 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
35515550 AGAAAAAGGT
*
35515560 AAAA- AAAAG AAGAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
35515593 AAGAACCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:35518732 original size:175 final size:175
Alignment explanation
Indices: 35518441--35518790 Score: 700
Period size: 175 Copynumber: 2.0 Consensus size: 175
35518431 TCAAAACGTA
35518441 TGTAAGGTTATATTAGTAATTAGGTTTTAAGAAAAATAAAGTCATCCATTTTGTTACTCTTTTCC
1 TGTAAGGTTATATTAGTAATTAGGTTTTAAGAAAAATAAAGTCATCCATTTTGTTACTCTTTTCC
35518506 TATTTTCACAGTTCTAGGAAACGGTTCTTCTCCACGATTTCTCTCTTTTTTATTCAGATATCCCA
66 TATTTTCACAGTTCTAGGAAACGGTTCTTCTCCACGATTTCTCTCTTTTTTATTCAGATATCCCA
35518571 ATTTTATTTTTATTATTTATTATTTTCTCTCATGTAAATAATATT
131 ATTTTATTTTTATTATTTATTATTTTCTCTCATGTAAATAATATT
35518616 TGTAAGGTTATATTAGTAATTAGGTTTTAAGAAAAATAAAGTCATCCATTTTGTTACTCTTTTCC
1 TGTAAGGTTATATTAGTAATTAGGTTTTAAGAAAAATAAAGTCATCCATTTTGTTACTCTTTTCC
35518681 TATTTTCACAGTTCTAGGAAACGGTTCTTCTCCACGATTTCTCTCTTTTTTATTCAGATATCCCA
66 TATTTTCACAGTTCTAGGAAACGGTTCTTCTCCACGATTTCTCTCTTTTTTATTCAGATATCCCA
35518746 ATTTTATTTTTATTATTTATTATTTTCTCTCATGTAAATAATATT
131 ATTTTATTTTTATTATTTATTATTTTCTCTCATGTAAATAATATT
35518791 ATCTATATTT
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 175 1.00
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (175 bp):
TGTAAGGTTATATTAGTAATTAGGTTTTAAGAAAAATAAAGTCATCCATTTTGTTACTCTTTTCC
TATTTTCACAGTTCTAGGAAACGGTTCTTCTCCACGATTTCTCTCTTTTTTATTCAGATATCCCA
ATTTTATTTTTATTATTTATTATTTTCTCTCATGTAAATAATATT
Found at i:35521159 original size:3 final size:3
Alignment explanation
Indices: 35521146--35521199 Score: 74
Period size: 3 Copynumber: 17.7 Consensus size: 3
35521136 CTTTCGTAGC
*
35521146 ATT ATTT ATT ATT A-T ATT AATT GTT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
35521192 ATT ATT AT
1 ATT ATT AT
35521200 ATATATACAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 2 0.04
3 38 0.83
4 6 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:35521241 original size:25 final size:24
Alignment explanation
Indices: 35521169--35521252 Score: 68
Period size: 25 Copynumber: 3.5 Consensus size: 24
35521159 ATATTAATTG
35521169 TTATTATTATTAT-T--AT-TATT
1 TTATTATTATTATATACATATATT
***
35521189 ATTATTATTATATATATACATGCCTT
1 -TTATTATTAT-TATATACATATATT
35521215 TTATTATTATTCATATACATATATT
1 TTATTATTATT-ATATACATATATT
*
35521240 TTAAATATTATTA
1 TT-ATTATTATTA
35521253 CCATTATTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
21 10 0.20
22 3 0.06
23 1 0.02
24 1 0.02
25 25 0.50
26 10 0.20
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (24 bp):
TTATTATTATTATATACATATATT
Found at i:35534213 original size:128 final size:126
Alignment explanation
Indices: 35533860--35534265 Score: 523
Period size: 128 Copynumber: 3.2 Consensus size: 126
35533850 AGCTTTAACC
* * *
35533860 CCCTAAGCAGTAGGGTAACAAGCT-GATGTTCATAAGATCTTAAACCCCTAAGCAGTAGGGTAAC
1 CCCTAAGCAGTAGGGTAACAAGCTAAAT-TT-ACAAG-CCTTAAACCCCTAAGCAGTAGGGTAAC
* * * * *
35533924 AGAC-CAAATTGCAGATCTTAATCCCCTAAGTAGTAGGGAAATAGATCGAAGATGATGGGCTTTA
63 AGGCTGAAATTACAGATCTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGC-TTA
35533988 A
126 A
* *
35533989 CCCCCTAAGCAGTAGGGTAACAAGCCAAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACA
1 --CCCTAAGCAGTAGGGTAACAAGCTAAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACA
* *
35534054 GGCTG-AATTACAGATCTTAACCCTTAAGCAGTAGGGAAACAGATCAAAGATGATGGGCTTAA
64 GGCTGAAATTACAGATCTTAACCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTAA
35534116 CCCTAAGCAGTAGGGTAACAAGCTAAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGG
1 CCCTAAGCAGTAGGGTAACAAGCTAAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGG
* * * **
35534181 CTGAAGATTTACAGATCTTAACCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGAACCTTAA
66 CTGAA-A-TTACAGATCTTAACCCCTAAGCAGTAG-GGAAACAGATCGAAGATGATG-GGCTT-A
35534245 A
126 A
35534246 CCCTAAGCAGTAGGGTAACA
1 CCCTAAGCAGTAGGGTAACA
35534266 GGTTGAATTG
Statistics
Matches: 246, Mismatches: 21, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
125 66 0.27
126 1 0.00
127 5 0.02
128 74 0.30
129 47 0.19
130 26 0.11
131 25 0.10
132 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (126 bp):
CCCTAAGCAGTAGGGTAACAAGCTAAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACAGG
CTGAAATTACAGATCTTAACCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTAA
Found at i:35534231 original size:44 final size:43
Alignment explanation
Indices: 35533854--35534397 Score: 244
Period size: 43 Copynumber: 12.8 Consensus size: 43
35533844 CCACCAAGCT
* * *
35533854 TTAACCCCCTAAGCAGTAGGGTAACA-AGCTGATG-TTCATAAGATC
1 TTAA-CCCCTAAGCAGTAGGGTAACAGATC-GAAGATT-A-CAGATC
* *
35533899 TTAAACCCCTAAGCAGTAGGGTAACAGA-CCAA-ATTGCAGATC
1 TT-AACCCCTAAGCAGTAGGGTAACAGATCGAAGATTACAGATC
* * * * * **
35533941 TTAATCCCCTAAGTAGTAGGGAAATAGATCGAAGATGA-TGGGC
1 TTAA-CCCCTAAGCAGTAGGGTAACAGATCGAAGATTACAGATC
* * *
35533984 TTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-AGCC
1 -TTAA-CCCCTAAGCAGTAGGGTAACAGATCGAAGA-TTACAGA-TC
*
35534028 TTAACCCCCTAAGCAGTAGGGTAACAG-GCTG-A-ATTACAGATC
1 TTAA-CCCCTAAGCAGTAGGGTAACAGATC-GAAGATTACAGATC
* * * * * **
35534070 TTAACCCTTAAGCAGTAGGGAAACAGATCAAAGATGA-TGGGC
1 TTAACCCCTAAGCAGTAGGGTAACAGATCGAAGATTACAGATC
* * *
35534112 TTAA-CCCTAAGCAGTAGGGTAACA-AGCTAA-ATTTACA-AGCC
1 TTAACCCCTAAGCAGTAGGGTAACAGATCGAAGA-TTACAGA-TC
*
35534153 TTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGATC
1 TT-AACCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TTACAGATC
* ** *
35534198 TTAACCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGA-AGAACC
1 TTAACCCCTAAGCAGTAG-GGTAACAGATCGAAGATTACAG-ATC
* * * *
35534241 TTAAACCCTAAGCAGTAGGGTAACAGGTTG-A-ATTGCAGATC
1 TTAACCCCTAAGCAGTAGGGTAACAGATCGAAGATTACAGATC
* * * ** *
35534282 TTATCTCCCTAAGCAGTAGTGG-AGCAGACCGAACG---GGA-ACC
1 TTAAC-CCCTAAGCAGTAG-GGTAACAGATCGAA-GATTACAGATC
* * * *
35534323 TTAAACCCTAAGCAGTA-GGTAACAGGTTG-AGTTTACAGATC
1 TTAACCCCTAAGCAGTAGGGTAACAGATCGAAGATTACAGATC
* * * * *
35534364 TAAAACCCTAAGCAGTAGGGAAATAGATCAAAGA
1 TTAACCCCTAAGCAGTAGGGTAACAGATCGAAGA
35534398 CGACAAGCCT
Statistics
Matches: 377, Mismatches: 80, Indels: 86
0.69 0.15 0.16
Matches are distributed among these distances:
37 1 0.00
38 3 0.01
39 6 0.02
40 19 0.05
41 72 0.19
42 82 0.22
43 98 0.26
44 55 0.15
45 37 0.10
46 4 0.01
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (43 bp):
TTAACCCCTAAGCAGTAGGGTAACAGATCGAAGATTACAGATC
Found at i:35534339 original size:82 final size:86
Alignment explanation
Indices: 35534151--35534381 Score: 323
Period size: 82 Copynumber: 2.7 Consensus size: 86
35534141 AATTTACAAG
*
35534151 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCTAAGCAGTAG
1 CCTTAAA-CCCTAAGCAGTAGGGTAACAGGTTG-AGATTTACAGATCTTAACCCCTAAGCAGTAG
*
35534216 TGGAGCAGATCGAAGACGAAGAA
64 TGGAGCAGACCGAAGACGAAGAA
* *
35534239 CCTTAAACCCTAAGCAGTAGGGTAACAGGTTGA-A-TTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAAACCCTAAGCAGTAGGGTAACAGGTTGAGATTTACAGATCTTAAC-CCCTAAGCAGTAGT
*
35534302 GGAGCAGACCG-A-ACG-GGAA
65 GGAGCAGACCGAAGACGAAGAA
* *
35534321 CCTTAAACCCTAAGCAGTA-GGTAACAGGTTGAG-TTTACAGATCTAAAACCCTAAGCAGTAG
1 CCTTAAACCCTAAGCAGTAGGGTAACAGGTTGAGATTTACAGATCTTAACCCCTAAGCAGTAG
35534382 GGAAATAGAT
Statistics
Matches: 131, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
81 26 0.20
82 32 0.24
83 3 0.02
84 13 0.10
85 25 0.19
86 1 0.01
87 24 0.18
88 7 0.05
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (86 bp):
CCTTAAACCCTAAGCAGTAGGGTAACAGGTTGAGATTTACAGATCTTAACCCCTAAGCAGTAGTG
GAGCAGACCGAAGACGAAGAA
Found at i:35535656 original size:79 final size:79
Alignment explanation
Indices: 35535561--35535718 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
35535551 GATAATAAAA
35535561 GCAAAAATGCAAATTTATTAATGTTAGTAAATACTTACAAAATGTGTCTCTAAATAGACATAGTA
1 GCAAAAATGCAAATTTATTAATGTTAGTAAATACTTACAAAATGTGTCTCTAAATAGACATAGTA
35535626 ATAAAAACATCATT
66 ATAAAAACATCATT
35535640 GCAAAAATGCAAATTTATTAATGTTAGTAAATACTTACAAAATGTGTCTCTAAATAGACATAGTA
1 GCAAAAATGCAAATTTATTAATGTTAGTAAATACTTACAAAATGTGTCTCTAAATAGACATAGTA
35535705 ATAAAAACATCATT
66 ATAAAAACATCATT
35535719 AATCATCTTC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.32
Consensus pattern (79 bp):
GCAAAAATGCAAATTTATTAATGTTAGTAAATACTTACAAAATGTGTCTCTAAATAGACATAGTA
ATAAAAACATCATT
Found at i:35537720 original size:27 final size:28
Alignment explanation
Indices: 35537682--35537738 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
35537672 TTGAAAGATG
*
35537682 AAATGGAAAATGTTG-ATATAAGTACTT
1 AAATGGAAAATGATGTATATAAGTACTT
* * *
35537709 AAATTGAAAATGATGTTTATAAGTTCTT
1 AAATGGAAAATGATGTATATAAGTACTT
35537737 AA
1 AA
35537739 TGCATGAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.37
Consensus pattern (28 bp):
AAATGGAAAATGATGTATATAAGTACTT
Found at i:35539763 original size:2 final size:2
Alignment explanation
Indices: 35539756--35539823 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
35539746 ATATTGCCTC
35539756 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35539798 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
35539824 CTTAATGTAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35540353 original size:116 final size:116
Alignment explanation
Indices: 35540149--35540377 Score: 361
Period size: 116 Copynumber: 2.0 Consensus size: 116
35540139 TAGAAAAATG
* *
35540149 AATTATATTCTTTTCAAAAGAATATTAATTTCCAAGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCAAGTCTTTTATATTTTAACCGAAATTAATTAA
*
35540214 TATAATTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATATT
66 TATAATTGTTTATATTAATAAATTTCGTAAAATATATACAATTAATATATT
* * * *
35540265 AATTATATTCTTTCCAAACGAATATTAATTTTCATGTCTTTTATATTTTAACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCAAGTCTTTTATATTTTAACCGAAATTAATTAA
* *
35540330 TTTAACTT-TTTGTATTAATAAATTTCGTAAAATATATACAATTAATAT
66 TATAA-TTGTTTATATTAATAAATTTCGTAAAATATATACAATTAATAT
35540378 TTTGTATGAA
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
116 101 0.98
117 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (116 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCAAGTCTTTTATATTTTAACCGAAATTAATTAA
TATAATTGTTTATATTAATAAATTTCGTAAAATATATACAATTAATATATT
Found at i:35540428 original size:138 final size:140
Alignment explanation
Indices: 35540253--35540550 Score: 451
Period size: 138 Copynumber: 2.1 Consensus size: 140
35540243 AAATATATAC
* * *
35540253 AATTAATATATTAATTATATTCTTTCCAAACGAATATTAATTT-TCATGTCTTTTATATTTTAAC
1 AATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCT-ATATCTTTTATATTTTAAC
* * *
35540317 TGAAATTAATTAATTTAACT-TTT-TGTATTAATAAATTTC-GTAAAATATATACAATTAATATT
65 CGAAATTAATTAATATAACTGTTTATATATTAATAAA-TTCAGTAAAATATATACAATTAATATT
35540379 TTGTATGAATCA
129 TTGTATGAATCA
* * *
35540391 AATTCATAAATTAATTATATTCTTTCGAAAAGAATATTAATTTCTATATCTTTTATATTTTGACC
1 AATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCTATATCTTTTATATTTTAACC
* *
35540456 GAAATTAATTAATATAATTGTTTATATATTAATAAATTCAGTAATATATATACAATTAATATTTT
66 GAAATTAATTAATATAACTGTTTATATATTAATAAATTCAGTAAAATATATACAATTAATATTTT
35540521 GTATGAATCA
131 GTATGAATCA
35540531 AATTCATATATTAATTATAT
1 AATTCATATATTAATTATAT
35540551 CTAAGTTTTT
Statistics
Matches: 144, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
138 73 0.51
139 7 0.05
140 64 0.44
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (140 bp):
AATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCTATATCTTTTATATTTTAACC
GAAATTAATTAATATAACTGTTTATATATTAATAAATTCAGTAAAATATATACAATTAATATTTT
GTATGAATCA
Found at i:35540540 original size:69 final size:70
Alignment explanation
Indices: 35540342--35540550 Score: 166
Period size: 69 Copynumber: 3.0 Consensus size: 70
35540332 TAACTTTTTG
*
35540342 TATTAATAAATTTC-GTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATA-AATTAA
1 TATTAATAAA-TTCAGTAATATATATACAATTAATATTTTGTATGAATCAAATTCATATAATTAA
35540405 TTATAT
65 TTATAT
* * * * * * * * * *
35540411 TCTTTCGAA-AAGAAT-ATTAATTTCTATATC-TTTTATATTTTG-ACCGAAAT-TAATTAATAT
1 T-ATT--AATAA-ATTCAGTAATATATATA-CAATTAATATTTTGTA-TG-AATCAAATTCATAT
**
35540471 AATTGTTTATA-
59 AATTAATTATAT
35540482 TATTAATAAATTCAGTAATATATATACAATTAATATTTTGTATGAATCAAATTCATAT-ATTAAT
1 TATTAATAAATTCAGTAATATATATACAATTAATATTTTGTATGAATCAAATTCATATAATTAAT
35540546 TATAT
66 TATAT
35540551 CTAAGTTTTT
Statistics
Matches: 100, Mismatches: 25, Indels: 30
0.65 0.16 0.19
Matches are distributed among these distances:
68 16 0.16
69 32 0.32
70 6 0.06
71 30 0.30
72 16 0.16
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (70 bp):
TATTAATAAATTCAGTAATATATATACAATTAATATTTTGTATGAATCAAATTCATATAATTAAT
TATAT
Found at i:35540901 original size:63 final size:63
Alignment explanation
Indices: 35540802--35540930 Score: 258
Period size: 63 Copynumber: 2.0 Consensus size: 63
35540792 TATGGCCGAA
35540802 TTTGAAAAGCTACATTGGCCACCAGAATGGCCTAAAAAAGCTTTCGTAATTTCAAACGTACTT
1 TTTGAAAAGCTACATTGGCCACCAGAATGGCCTAAAAAAGCTTTCGTAATTTCAAACGTACTT
35540865 TTTGAAAAGCTACATTGGCCACCAGAATGGCCTAAAAAAGCTTTCGTAATTTCAAACGTACTT
1 TTTGAAAAGCTACATTGGCCACCAGAATGGCCTAAAAAAGCTTTCGTAATTTCAAACGTACTT
35540928 TTT
1 TTT
35540931 AAGCCATTTC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (63 bp):
TTTGAAAAGCTACATTGGCCACCAGAATGGCCTAAAAAAGCTTTCGTAATTTCAAACGTACTT
Found at i:35541517 original size:27 final size:31
Alignment explanation
Indices: 35541476--35541537 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
35541466 CGTAATTTAA
35541476 CATAAAAAGTCTCAAAT-AGT-AAT-AAAGTC
1 CATAAAAAGTCTCAAATCA-TAAATAAAAGTC
35541505 CATAAAAA-T-TCAAATCATAAATAAAAGTC
1 CATAAAAAGTCTCAAATCATAAATAAAAGTC
35541534 CATA
1 CATA
35541538 TTTATTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
27 7 0.23
28 5 0.17
29 18 0.60
ACGTcount: A:0.55, C:0.15, G:0.06, T:0.24
Consensus pattern (31 bp):
CATAAAAAGTCTCAAATCATAAATAAAAGTC
Found at i:35547864 original size:28 final size:27
Alignment explanation
Indices: 35547801--35547870 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
35547791 ATAGTGAGTC
35547801 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* *
35547828 CACACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
35547856 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35547871 GTACAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:35549569 original size:49 final size:49
Alignment explanation
Indices: 35549502--35549738 Score: 305
Period size: 49 Copynumber: 4.8 Consensus size: 49
35549492 TAGCCAAAGC
* * * * *
35549502 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
35549551 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
35549600 TATCTGGTACACGTAGTAGCCTGCACTTAGTAC-ACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * *
35549649 CATGTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * * *
35549700 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
35549739 TGCGACCTCA
Statistics
Matches: 164, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
48 12 0.07
49 107 0.65
50 10 0.06
51 34 0.21
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:35549685 original size:26 final size:26
Alignment explanation
Indices: 35549607--35549686 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
35549597 AATTATCTGG
35549607 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTGCACTTAGTAC
* * *
35549633 ACACACGT-G-A-CCT-AAC-CATGTGA-
1 -TACACGTAGTAGCCTGCACTTA-GT-AC
35549656 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTGCACTTAGTAC
35549682 TACAC
1 TACAC
35549687 ACGTGATCAC
Statistics
Matches: 39, Mismatches: 6, Indels: 17
0.63 0.10 0.27
Matches are distributed among these distances:
22 7 0.18
23 5 0.13
24 5 0.13
25 5 0.13
26 10 0.26
27 7 0.18
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (26 bp):
TACACGTAGTAGCCTGCACTTAGTAC
Found at i:35551923 original size:15 final size:15
Alignment explanation
Indices: 35551867--35551931 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
35551857 TAAAGATAAC
*
35551867 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
35551881 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
35551896 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
35551911 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
35551926 AAGAAA
1 AAGAAA
35551932 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:35551933 original size:30 final size:31
Alignment explanation
Indices: 35551867--35551935 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
35551857 TAAAGATAAC
*
35551867 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
35551897 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
35551926 AAGAAACCCA
1 AAGAAACCCA
35551936 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:35553848 original size:80 final size:80
Alignment explanation
Indices: 35553764--35553912 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
35553754 TATGGTAACC
* * * *
35553764 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
35553828 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
35553844 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
35553909 CCGG
66 CCGG
35553913 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:35553854 original size:40 final size:38
Alignment explanation
Indices: 35553805--35553912 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
35553795 ATCACGATTT
*
35553805 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
35553845 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
35553885 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
35553913 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:35560365 original size:80 final size:80
Alignment explanation
Indices: 35560189--35560382 Score: 239
Period size: 80 Copynumber: 2.4 Consensus size: 80
35560179 TTCGAATGAT
* * * * * *
35560189 ATCCGGGTTAATTCCCAAAGGCATTTGTGTGAGTTACTAAATCCGGGTTAATTCCCGAAGGCATT
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATT
* *
35560254 TGTGCGAGTTACCAA
66 TGCGCGAATTACCAA
*
35560269 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATT
*
35560334 TGCGCGAATTACTATA
66 TGCGCGAATTACCA-A
* * *
35560350 A-CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGT
1 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAGT
35560383 AGCTATATTC
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
79 2 0.02
80 96 0.96
81 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAGTTACCAAATCCGGGTTAAGTCCCGAAGGCATT
TGCGCGAATTACCAA
Found at i:35560368 original size:40 final size:40
Alignment explanation
Indices: 35560189--35560345 Score: 251
Period size: 40 Copynumber: 3.9 Consensus size: 40
35560179 TTCGAATGAT
* * *
35560189 ATCCGGGTTAATTCCCAAAGGCATTTGTGTGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
35560229 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
*
35560269 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
* * *
35560309 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTAC
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTAC
35560346 TATAACCGGG
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 109 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACCAA
Found at i:35563713 original size:25 final size:24
Alignment explanation
Indices: 35563679--35563734 Score: 85
Period size: 25 Copynumber: 2.3 Consensus size: 24
35563669 AAATACATAC
*
35563679 CAGAGGAAGACCTAAGGGGGAGATG
1 CAGAGGAAGACCTAAGGGGG-GACG
*
35563704 CAGAGGAAGACCTAATGGGGGACG
1 CAGAGGAAGACCTAAGGGGGGACG
35563728 CAGAGGA
1 CAGAGGA
35563735 GAGCACATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.36, C:0.14, G:0.43, T:0.07
Consensus pattern (24 bp):
CAGAGGAAGACCTAAGGGGGGACG
Found at i:35570951 original size:49 final size:49
Alignment explanation
Indices: 35570895--35571367 Score: 558
Period size: 49 Copynumber: 9.4 Consensus size: 49
35570885 TACATATATG
* * *
35570895 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
35570944 TGTGATAAGGCCT-ATGGCCGATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* * *
35570992 TGTGATGAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGGTGAATGTGAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT-GT--ATGT-ATA
* * * * ** *
35571045 GTGTATGTATATGTG-ATAA-GGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 -TG--TG-ATAAG-GCCTAATGGCC-GAT-G-TGATG-AATG-T---GAAAGTGTATGTATA
*
35571105 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
35571153 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* * *
35571202 TGTGATGAGGCCTAATGGCCGATGTGGTGGATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
35571251 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
35571300 TGTGATAAGGCCTAATGGCCGATGTGGTGGATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
35571349 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
35571368 TAATGTAAAA
Statistics
Matches: 376, Mismatches: 27, Indels: 42
0.84 0.06 0.09
Matches are distributed among these distances:
48 91 0.24
49 213 0.57
50 2 0.01
52 4 0.01
53 4 0.01
54 6 0.02
55 2 0.01
56 15 0.04
57 14 0.04
58 2 0.01
59 7 0.02
60 4 0.01
61 4 0.01
63 2 0.01
64 6 0.02
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:35571039 original size:15 final size:15
Alignment explanation
Indices: 35571019--35571047 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35571009 GCCGATGCGA
35571019 TGAATGTGAAAGTGG
1 TGAATGTGAAAGTGG
35571034 TGAATGTGAAAGTG
1 TGAATGTGAAAGTG
35571048 TATGTATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.38, T:0.28
Consensus pattern (15 bp):
TGAATGTGAAAGTGG
Found at i:35571048 original size:64 final size:64
Alignment explanation
Indices: 35570970--35571096 Score: 227
Period size: 64 Copynumber: 2.0 Consensus size: 64
35570960 GCCGATGCGA
*
35570970 TGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGG
1 TGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGG
* *
35571034 TGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTG
1 TGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTG
35571097 TATGTATATG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.30, C:0.07, G:0.34, T:0.29
Consensus pattern (64 bp):
TGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGG
Found at i:35571105 original size:113 final size:112
Alignment explanation
Indices: 35570922--35571143 Score: 399
Period size: 113 Copynumber: 2.0 Consensus size: 112
35570912 GCCAATGCGA
35570922 TGAATGTGAAAGTGTATGTATATGTGATAAGGCCTATGGCCGATGCGATGAATGTGAAAGTGTAT
1 TGAATGTGAAAGTGTATGTATATGTGATAAGGCCTATGGCCGATGCGATGAATGTGAAAGTGTAT
*
35570987 GTATATGTGATGAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGG
66 GTATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGG
* *
35571034 TGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
1 TGAATGTGAAAGTGTATGTATATGTGATAAGGCCT-ATGGCCGATGCGATGAATGTGAAAGTGTA
*
35571099 TGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
65 TGTATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAG
35571144 GGATGTATAT
Statistics
Matches: 105, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
112 35 0.33
113 70 0.67
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.29
Consensus pattern (112 bp):
TGAATGTGAAAGTGTATGTATATGTGATAAGGCCTATGGCCGATGCGATGAATGTGAAAGTGTAT
GTATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGG
Found at i:35571383 original size:49 final size:49
Alignment explanation
Indices: 35571030--35571367 Score: 615
Period size: 49 Copynumber: 6.9 Consensus size: 49
35571020 GAATGTGAAA
35571030 GTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGAT
1 GTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGAT
35571079 GTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGAT
1 GTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGAT
* * *
35571128 GTGATGAATGTGAAAG-GGATGTATATGTGATGAGGCCTAATGGCCGAT
1 GTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGAT
*
35571176 GTGGTGAATGTGAAAGTGTATGTATATGTGATGAGGCCTAATGGCCGAT
1 GTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGAT
*
35571225 GTGGTGGATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGAT
1 GTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGAT
35571274 GTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGAT
1 GTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGAT
*
35571323 GTGGTGGATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
1 GTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
35571368 TAATGTAAAA
Statistics
Matches: 279, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 45 0.16
49 234 0.84
ACGTcount: A:0.28, C:0.08, G:0.34, T:0.30
Consensus pattern (49 bp):
GTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGAT
Found at i:35571517 original size:37 final size:37
Alignment explanation
Indices: 35571467--35571588 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
35571457 GGAATATGTT
* *
35571467 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTATGGAGATTATGA
35571504 CCGGGTAAGACCCGATGACTACGTATGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTATGGAGATTATGA
*
35571541 CCGGGTAAGACCCGATGACTACGTATGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTATGGAGATTATGA
35571578 CCGGGTAAGAC
1 CCGGGTAAGAC
35571589 TTCTTTTATA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 82 1.00
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTATGGAGATTATGA
Found at i:35573477 original size:39 final size:40
Alignment explanation
Indices: 35573396--35573479 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
35573386 GAGAATTGAG
** * * *
35573396 AGTGATGTATCCGGACTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGGCCCAAAGAGCAATCATACT
* *
35573436 AGTGATGTATCCGGGCT-AGGCCCGAAGAGCAATCATACT
1 AGTGATGTATCCGGACTAAGGCCCAAAGAGCAATCATACT
35573475 AGTGA
1 AGTGA
35573480 CGTGTATTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 21 0.57
40 16 0.43
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGGCCCAAAGAGCAATCATACT
Found at i:35573719 original size:29 final size:29
Alignment explanation
Indices: 35573674--35573896 Score: 396
Period size: 29 Copynumber: 7.8 Consensus size: 29
35573664 TGTGCGAATG
35573674 ATTGAGGCACTATGTGTGCGAGATCAGTA
1 ATTGAGGCACTATGTGTGCGAGATCAGTA
*
35573703 ATCGAGGCACTATGTGTGCGAGATCAGTA
1 ATTGAGGCACTATGTGTGCGAGATCAGTA
*
35573732 ATCGAGGCACTATGTGTGCGAGATCAGTA
1 ATTGAGGCACTATGTGTGCGAGATCAGTA
35573761 ATTGAGGCACTATGTGTGCGAGATCAGTA
1 ATTGAGGCACTATGTGTGCGAGATCAGTA
35573790 ATTGAGGCACTATGTGTGC-A-ATCAGTA
1 ATTGAGGCACTATGTGTGCGAGATCAGTA
*
35573817 ATCGAGGCACTATGTGTGCGAGATCAGTA
1 ATTGAGGCACTATGTGTGCGAGATCAGTA
35573846 ATTGAGGCACTATGTGTGCGAGATCAGTA
1 ATTGAGGCACTATGTGTGCGAGATCAGTA
*
35573875 ATTGAGGCACTGTGTGTGCGAG
1 ATTGAGGCACTATGTGTGCGAG
35573897 TTTTTCAACG
Statistics
Matches: 187, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
27 25 0.13
28 2 0.01
29 160 0.86
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
ATTGAGGCACTATGTGTGCGAGATCAGTA
Found at i:35573856 original size:85 final size:87
Alignment explanation
Indices: 35573674--35573896 Score: 414
Period size: 85 Copynumber: 2.6 Consensus size: 87
35573664 TGTGCGAATG
*
35573674 ATTGAGGCACTATGTGTGCGAGATCAGTAATCGAGGCACTATGTGTGCGAGATCAGTAATCGAGG
1 ATTGAGGCACTATGTGTGCGAGATCAGTAATTGAGGCACTATGTGTGCGAGATCAGTAATCGAGG
35573739 CACTATGTGTGCGAGATCAGTA
66 CACTATGTGTGCGAGATCAGTA
35573761 ATTGAGGCACTATGTGTGCGAGATCAGTAATTGAGGCACTATGTGTGC-A-ATCAGTAATCGAGG
1 ATTGAGGCACTATGTGTGCGAGATCAGTAATTGAGGCACTATGTGTGCGAGATCAGTAATCGAGG
35573824 CACTATGTGTGCGAGATCAGTA
66 CACTATGTGTGCGAGATCAGTA
*
35573846 ATTGAGGCACTATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGTGCGAG
1 ATTGAGGCACTATGTGTGCGAGATCAGTAATTGAGGCACTATGTGTGCGAG
35573897 TTTTTCAACG
Statistics
Matches: 132, Mismatches: 2, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
85 83 0.63
86 2 0.02
87 47 0.36
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.26
Consensus pattern (87 bp):
ATTGAGGCACTATGTGTGCGAGATCAGTAATTGAGGCACTATGTGTGCGAGATCAGTAATCGAGG
CACTATGTGTGCGAGATCAGTA
Found at i:35574476 original size:40 final size:41
Alignment explanation
Indices: 35574378--35574476 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
35574368 TTCGAATGGT
* ** * *
35574378 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTTACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAA
35574419 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAA-TCACTATA
1 ATCCGGGCT-ATGTCCCGAAGGCAATTGTGCGAAGTCACTA-A
35574460 A-CCGGGCTATGTCCCGA
1 ATCCGGGCTATGTCCCGA
35574477 GAACAATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 2 0.04
40 18 0.36
41 29 0.58
42 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAA
Found at i:35577595 original size:195 final size:196
Alignment explanation
Indices: 35577262--35577676 Score: 717
Period size: 195 Copynumber: 2.1 Consensus size: 196
35577252 TACATATATG
* *
35577262 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCAATGCGATGAATGTGAAAGTGGATGTATATGTGATAAGGCCTAAT
*
35577327 GGCCGATGTGATGAATGTGAAAGGGGATGTATATGTGATGAGGCCTAATGGCCGATGTGGTGAAT
66 GGCCGATGTGATGAATGTGAAAGGGGATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
35577392 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTAT
131 GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTAT
35577457 A
196 A
* * *
35577458 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GGATGTATATGTGATGAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCAATGCGATGAATGTGAAAGTGGATGTATATGTGATAAGGCCTAAT
* *
35577522 GGCCGATGT-AGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAA
66 GGCCGATGTGA-TGAATGTGAAAGGGGATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAA
*
35577586 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGGATGTGAAAGTGTATGTA
130 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTA
35577651 TA
195 TA
*
35577653 TGTGATAAGGCCTAATGGCTAATG
1 TGTGATAAGGCCTAATGGCCAATG
35577677 TAAAATATGT
Statistics
Matches: 207, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
194 1 0.00
195 170 0.82
196 36 0.17
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (196 bp):
TGTGATAAGGCCTAATGGCCAATGCGATGAATGTGAAAGTGGATGTATATGTGATAAGGCCTAAT
GGCCGATGTGATGAATGTGAAAGGGGATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAAT
GTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTAT
A
Found at i:35577687 original size:49 final size:49
Alignment explanation
Indices: 35577262--35577671 Score: 680
Period size: 49 Copynumber: 8.4 Consensus size: 49
35577252 TACATATATG
* * *
35577262 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
35577311 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
35577360 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
35577409 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
35577458 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
35577506 TGTGATGAGGCCTAATGGCCGATGT-AGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGA-TGAATGTGAAAGTGTATGTATA
*
35577555 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
35577604 TGTGATAAGGCCTAATGGCCGATGTGGTGGATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
35577653 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
35577672 TAATGTAAAA
Statistics
Matches: 341, Mismatches: 17, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
47 1 0.00
48 44 0.13
49 296 0.87
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:35577821 original size:37 final size:37
Alignment explanation
Indices: 35577771--35577892 Score: 208
Period size: 37 Copynumber: 3.3 Consensus size: 37
35577761 GGAATATGTT
* *
35577771 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTATGGAGATTATGA
35577808 CCGGGTAAGACCCGATGACTACGTATGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTATGGAGATTATGA
* *
35577845 CCGGGTAAGACCTGATGACTACGTATGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTATGGAGATTATGA
35577882 CCGGGTAAGAC
1 CCGGGTAAGAC
35577893 TTCTTTTATA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 81 1.00
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTATGGAGATTATGA
Found at i:35582611 original size:30 final size:30
Alignment explanation
Indices: 35582575--35582652 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 30
35582565 ATTGAGTCCA
*
35582575 TTTATCTTTATGTTTATTTTT-TGTTTTTTT
1 TTTATCTTTATGTTTATTTTTAT-TTTTCTT
35582605 TTTATCTTTATGTTTATTTTTATTTTTCTT
1 TTTATCTTTATGTTTATTTTTATTTTTCTT
*
35582635 TCT-T-TTTATGTTTATTTT
1 TTTATCTTTATGTTTATTTT
35582653 GTTTTCCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 14 0.31
29 1 0.02
30 29 0.64
31 1 0.02
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.78
Consensus pattern (30 bp):
TTTATCTTTATGTTTATTTTTATTTTTCTT
Found at i:35582634 original size:22 final size:23
Alignment explanation
Indices: 35582575--35582652 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 23
35582565 ATTGAGTCCA
* * *
35582575 TTTATCTTTATGTTTATTTTTTGTT
1 TTTAT-TTTATCTTTA-TGTTTATT
*
35582600 TTTTTTTTATCTTTATGTTTATT
1 TTTATTTTATCTTTATGTTTATT
* * *
35582623 TTTATTTT-TCTTTCTTTTTATG
1 TTTATTTTATCTTTATGTTTATT
35582645 TTTATTTT
1 TTTATTTT
35582653 GTTTTCCTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
22 19 0.42
23 13 0.29
24 9 0.20
25 4 0.09
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.78
Consensus pattern (23 bp):
TTTATTTTATCTTTATGTTTATT
Found at i:35590107 original size:16 final size:17
Alignment explanation
Indices: 35590072--35590104 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35590062 GTTTTTGAGA
35590072 AAATGATTAAATTGATT
1 AAATGATTAAATTGATT
35590089 AAAT-ATTAGAATTGAT
1 AAATGATTA-AATTGAT
35590105 AAAGGGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
AAATGATTAAATTGATT
Found at i:35592095 original size:27 final size:27
Alignment explanation
Indices: 35592064--35592118 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
35592054 ACCCTCTAAT
*
35592064 TGATAAAATGACTGTTATGCCCCTATG
1 TGATAAAATGACTATTATGCCCCTATG
*
35592091 TGATAAAATGACTATTTTGCCCCTATG
1 TGATAAAATGACTATTATGCCCCTATG
35592118 T
1 T
35592119 AATGTATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (27 bp):
TGATAAAATGACTATTATGCCCCTATG
Found at i:35595871 original size:27 final size:27
Alignment explanation
Indices: 35595840--35595897 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
35595830 ACCCTCTAAT
*
35595840 TGATAAAATGATTGTTATGCCCCTATG
1 TGATAAAATGACTGTTATGCCCCTATG
* * *
35595867 TGATAAAATGACTGTTTTGTCCTTATG
1 TGATAAAATGACTGTTATGCCCCTATG
35595894 TGAT
1 TGAT
35595898 GTATGATTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (27 bp):
TGATAAAATGACTGTTATGCCCCTATG
Found at i:35597650 original size:46 final size:46
Alignment explanation
Indices: 35597583--35597711 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
35597573 TGTAACCCGG
* * *
35597583 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
35597629 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
35597675 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35597712 TGCCAAAATA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:35599811 original size:40 final size:40
Alignment explanation
Indices: 35599727--35599815 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
35599717 ATTGCAGCCA
*
35599727 GTGCCCCTGTAAACACTTCAATGTCCCTATTTGCACAATT
1 GTGCCCCTGTAAACACTTCAATGTCCCTATTAGCACAATT
* * * *
35599767 GTGCCCCTGTAAACACTTCAGTGTCCTTGTTAGCA-TATT
1 GTGCCCCTGTAAACACTTCAATGTCCCTATTAGCACAATT
35599806 CGTGCCCCTG
1 -GTGCCCCTG
35599816 ACTGCACTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.07
40 40 0.93
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (40 bp):
GTGCCCCTGTAAACACTTCAATGTCCCTATTAGCACAATT
Found at i:35599851 original size:20 final size:21
Alignment explanation
Indices: 35599797--35599859 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 21
35599787 GTGTCCTTGT
*
35599797 TAGCATATTCGTGCCCCTGAC
1 TAGCACATTCGTGCCCCTGAC
*
35599818 T-GCAC-TTTGATGCCCCTGA-
1 TAGCACATTCG-TGCCCCTGAC
*
35599837 TAGCACATTCGTGCCCTTGAC
1 TAGCACATTCGTGCCCCTGAC
35599858 TA
1 TA
35599860 CACTCCGGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 4 0.12
20 24 0.71
21 6 0.18
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.30
Consensus pattern (21 bp):
TAGCACATTCGTGCCCCTGAC
Found at i:35599872 original size:40 final size:40
Alignment explanation
Indices: 35599797--35599874 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
35599787 GTGTCCTTGT
* * **
35599797 TAGCATATTCGTGCCCCTGACTGCACTTTGATGCCCCTGA
1 TAGCACATTCGTGCCCCTGACTACACTCCGATGCCCCTGA
* *
35599837 TAGCACATTCGTGCCCTTGACTACACTCCGGTGCCCCT
1 TAGCACATTCGTGCCCCTGACTACACTCCGATGCCCCT
35599875 ATTTTACATC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.17, C:0.36, G:0.19, T:0.28
Consensus pattern (40 bp):
TAGCACATTCGTGCCCCTGACTACACTCCGATGCCCCTGA
Found at i:35614097 original size:7 final size:7
Alignment explanation
Indices: 35614085--35614111 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
35614075 CACATTTCTA
35614085 CTCATCC
1 CTCATCC
35614092 CTCATCC
1 CTCATCC
35614099 CTCATCC
1 CTCATCC
35614106 CTCATC
1 CTCATC
35614112 ATTCATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.56, G:0.00, T:0.30
Consensus pattern (7 bp):
CTCATCC
Found at i:35614117 original size:14 final size:14
Alignment explanation
Indices: 35614084--35614118 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
35614074 TCACATTTCT
35614084 ACTCATCCCTCATC
1 ACTCATCCCTCATC
*
35614098 CCTCATCCCTCATC
1 ACTCATCCCTCATC
*
35614112 ATTCATC
1 ACTCATC
35614119 ATTCTCTCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.20, C:0.49, G:0.00, T:0.31
Consensus pattern (14 bp):
ACTCATCCCTCATC
Found at i:35620985 original size:41 final size:41
Alignment explanation
Indices: 35620940--35621057 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
35620930 TGAAAGATAA
35620940 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
35620981 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35621011 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35621052 ATGTAG
1 ATGTAG
35621058 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:35620996 original size:71 final size:71
Alignment explanation
Indices: 35620908--35621071 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35620898 GAGATGTATC
35620908 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35620973 AGGACA
66 AGGACA
35620979 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35621044 AGGACA
66 AGGACA
35621050 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35621072 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:35628560 original size:41 final size:41
Alignment explanation
Indices: 35628515--35628632 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
35628505 TGAAAGATAA
35628515 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
35628556 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35628586 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
35628627 ATGTAG
1 ATGTAG
35628633 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:35628571 original size:71 final size:71
Alignment explanation
Indices: 35628483--35628646 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35628473 GAGATGTATC
35628483 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35628548 AGGACA
66 AGGACA
35628554 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35628619 AGGACA
66 AGGACA
35628625 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35628647 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:35633256 original size:15 final size:15
Alignment explanation
Indices: 35633182--35633254 Score: 101
Period size: 15 Copynumber: 4.9 Consensus size: 15
35633172 GAGATGACAT
*
35633182 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* *
35633197 GAAGTCCAAGACAAA
1 GAAATCCAAGATAAA
35633212 GAAATCCAAGATAAA
1 GAAATCCAAGATAAA
* *
35633227 AAAATCCAAGATACA
1 GAAATCCAAGATAAA
35633242 GAAATCCAAGATA
1 GAAATCCAAGATA
35633255 CAATATCATA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 50 1.00
ACGTcount: A:0.59, C:0.16, G:0.14, T:0.11
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:35640189 original size:28 final size:28
Alignment explanation
Indices: 35640157--35640249 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
35640147 ATGTACTAGA
*
35640157 ATACCCTTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
35640185 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* *
35640213 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
35640241 ATACCCCTA
1 ATACCCCTA
35640250 GGGTTAATTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:35640396 original size:28 final size:28
Alignment explanation
Indices: 35640355--35640522 Score: 184
Period size: 28 Copynumber: 6.1 Consensus size: 28
35640345 AGGAAGCGTC
*
35640355 CTGGTGGCTGTGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCACAAATTATCTGAT
* *
35640383 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACAAATTATCTGAT
*
35640410 CTGGTGGTTCTGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCACAAATTATCTGAT
* * *
35640438 CTGGTGGCTCTGCCATATATT-TCTGTT
1 CTGGTGGCTCTGCCACAAATTATCTGAT
* *
35640465 CTGGTGGTTCTGCCAC-GATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATTATCTG-AT
* * *
35640493 CTGGTGACTCTGTCAC--ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATTATCTGAT
35640519 CTGG
1 CTGG
35640523 CAGCCATGCT
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 8 0.07
27 55 0.46
28 56 0.47
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAAATTATCTGAT
Found at i:35640415 original size:27 final size:27
Alignment explanation
Indices: 35640355--35640522 Score: 178
Period size: 27 Copynumber: 6.1 Consensus size: 27
35640345 AGGAAGCGTC
* * *
35640355 CTGGTGGCTGTGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCACATATT-TCTGTT
35640383 CTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACATATTTCTGTT
* * *
35640410 CTGGTGGTTCTGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCACATATT-TCTGTT
*
35640438 CTGGTGGCTCTGCCATATATTTCTGTT
1 CTGGTGGCTCTGCCACATATTTCTGTT
* *
35640465 CTGGTGGTTCTGCCACGAT-TATCTGTAT
1 CTGGTGGCTCTGCCAC-ATATTTCTGT-T
* * *
35640493 CTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACATATTTCTGTT
35640519 CTGG
1 CTGG
35640523 CAGCCATGCT
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
26 5 0.04
27 58 0.48
28 58 0.48
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATTTCTGTT
Found at i:35640439 original size:55 final size:55
Alignment explanation
Indices: 35640355--35640522 Score: 250
Period size: 55 Copynumber: 3.1 Consensus size: 55
35640345 AGGAAGCGTC
* *
35640355 CTGGTGGCTGTGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGTTCTGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
*
35640410 CTGGTGGTTCTGCCACAAATTATCTGATCTGGTGGCTCTGCCATATATTTCTGTT
1 CTGGTGGTTCTGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
* * * *
35640465 CTGGTGGTTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGTTCTGCCACAAATTATCTG-ATCTGGTGGCTCTGCCACATATTTCTGTT
35640519 CTGG
1 CTGG
35640523 CAGCCATGCT
Statistics
Matches: 104, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
54 19 0.18
55 85 0.82
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (55 bp):
CTGGTGGTTCTGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
Found at i:35643107 original size:18 final size:20
Alignment explanation
Indices: 35643080--35643131 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
35643070 AGTGTCCCTA
35643080 ATAGTGCATTTGAGCCCCCG
1 ATAGTGCATTTGAGCCCCCG
*
35643100 A-A-TGCATTCTGGTGCCCCCG
1 ATAGTGCATT-T-GAGCCCCCG
35643120 ATAGTGCATTTG
1 ATAGTGCATTTG
35643132 TTCCCTTGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
18 6 0.22
19 2 0.07
20 11 0.41
21 2 0.07
22 6 0.22
ACGTcount: A:0.19, C:0.27, G:0.25, T:0.29
Consensus pattern (20 bp):
ATAGTGCATTTGAGCCCCCG
Found at i:35643174 original size:20 final size:19
Alignment explanation
Indices: 35643151--35643202 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
35643141 CTGCACTTGG
35643151 GTGCCCCTGATTGCACACTC
1 GTGCCCCTGATTGCACAC-C
* * * *
35643171 GTGCTCTTGACTGCACTCC
1 GTGCCCCTGATTGCACACC
35643190 GATGCCCCTGATT
1 G-TGCCCCTGATT
35643203 ACACTTTGGT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.13, C:0.37, G:0.21, T:0.29
Consensus pattern (19 bp):
GTGCCCCTGATTGCACACC
Found at i:35651214 original size:42 final size:43
Alignment explanation
Indices: 35651143--35651269 Score: 152
Period size: 42 Copynumber: 3.0 Consensus size: 43
35651133 CATAGGATCT
* *
35651143 GATATGTGGTTTCGTGTAAGACCAC-GTCTGGGACGTTGGCATC
1 GATATTTGATTTCGTGTAAGACC-CTGTCTGGGACGTTGGCATC
*
35651186 -ATATTTGATTTCGTGTAAGACCCTGTCTGGGACAG-GGGCATC
1 GATATTTGATTTCGTGTAAGACCCTGTCTGGGAC-GTTGGCATC
* * **
35651228 GATATTTGATTACATGTAAGACTGTGTCTGGGACGTTGGCAT
1 GATATTTGATTTCGTGTAAGACCCTGTCTGGGACGTTGGCAT
35651270 TGTACGAGTT
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.01
42 36 0.50
43 35 0.49
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (43 bp):
GATATTTGATTTCGTGTAAGACCCTGTCTGGGACGTTGGCATC
Found at i:35651247 original size:43 final size:42
Alignment explanation
Indices: 35651157--35651269 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
35651147 TGTGGTTTCG
* * *
35651157 TGTAAGACCAC-GTCTGGGACGTTGGCATCATATTTGATTTCG
1 TGTAAGACC-CTGTCTGGGACGTGGGCATCATATTTGATTACA
35651199 TGTAAGACCCTGTCTGGGACAG-GGGCATCGATATTTGATTACA
1 TGTAAGACCCTGTCTGGGAC-GTGGGCATC-ATATTTGATTACA
** *
35651242 TGTAAGACTGTGTCTGGGACGTTGGCAT
1 TGTAAGACCCTGTCTGGGACGTGGGCAT
35651270 TGTACGAGTT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
41 1 0.02
42 25 0.41
43 35 0.57
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (42 bp):
TGTAAGACCCTGTCTGGGACGTGGGCATCATATTTGATTACA
Found at i:35653510 original size:42 final size:42
Alignment explanation
Indices: 35653443--35653570 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 42
35653433 GTAATCAAAT
*
35653443 ATCGATGCCACTGTCCCAGACATGGTCTTACAAGAAA-ACAA
1 ATCGATGCCAATGTCCCAGACATGGTCTTACAAGAAACACAA
* * * * *
35653484 ATATGATGTCGATGTCCCAGACATGGTCTTACATGTAAATCTCAA
1 AT-CGATGCCAATGTCCCAGACATGGTCTTACAAG-AAA-CACAA
* *
35653529 ATCGATGCCAACGTCCCAGACATGGTCTTACACGAAATCACA
1 ATCGATGCCAATGTCCCAGACATGGTCTTACAAGAAA-CACA
35653571 TTTCGGAATC
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 2 0.03
42 27 0.38
43 10 0.14
44 27 0.38
45 5 0.07
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (42 bp):
ATCGATGCCAATGTCCCAGACATGGTCTTACAAGAAACACAA
Found at i:35657784 original size:40 final size:40
Alignment explanation
Indices: 35657738--35657892 Score: 215
Period size: 40 Copynumber: 3.9 Consensus size: 40
35657728 TATGCTGGAA
* *
35657738 ATTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-C
1 ATTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTC
**
35657777 GGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTC
1 -ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTC
*
35657818 ATTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTC
* *
35657858 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGC
35657893 ACATGCTTAT
Statistics
Matches: 105, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 3 0.03
40 101 0.96
41 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTC
Found at i:35665821 original size:40 final size:40
Alignment explanation
Indices: 35665755--35665905 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
35665745 AAATTGAATG
* *
35665755 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
35665794 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
**
35665834 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
35665874 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
35665906 ACATGCTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:35665919 original size:40 final size:39
Alignment explanation
Indices: 35665792--35665921 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
35665782 ATGCTGGAAA
* * *
35665792 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
35665833 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
35665871 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
35665912 TTATATCCGG
1 TTATATCCGG
35665922 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:35671314 original size:14 final size:15
Alignment explanation
Indices: 35671297--35671325 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
35671287 TCACGAAAAT
35671297 TTCACACAT-ATAAA
1 TTCACACATAATAAA
35671311 TTCACACATAATAAA
1 TTCACACATAATAAA
35671326 CATAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:35676736 original size:40 final size:40
Alignment explanation
Indices: 35676652--35676836 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
35676642 TCGAATGATG
* *
35676652 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
35676691 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
35676732 TCCGGGCTAAG-CCCAAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
35676771 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
35676810 AACCGGGCTATGTCCAGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
35676837 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:35676858 original size:79 final size:77
Alignment explanation
Indices: 35676686--35676869 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 77
35676676 GTGCTAAGTG
* *
35676686 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCAAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGG
**
35676751 CATTGGTGCGAGTT
64 CATTGGAACGAGTT
* * * *
35676765 ACTAAATCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCAGAA
1 ACTATATC-CGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAGCCCA-AA
*
35676829 GGCATTTGAACGAG-T
62 GGCATTGGAACGAGTT
*
35676844 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
35676870 TACATGATTC
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
78 3 0.03
79 60 0.69
80 24 0.28
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCA
TTGGAACGAGTT
Found at i:35698419 original size:27 final size:27
Alignment explanation
Indices: 35698389--35698441 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
35698379 GACCCCGGTT
*
35698389 TGTAAAATCACCGAAATACCCTTGTAG
1 TGTAAAATCACCGAAATACCCCTGTAG
* *
35698416 TGTAAAATGACCGTAATACCCCTGTA
1 TGTAAAATCACCGAAATACCCCTGTA
35698442 TGGTAGAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (27 bp):
TGTAAAATCACCGAAATACCCCTGTAG
Found at i:35698900 original size:27 final size:28
Alignment explanation
Indices: 35698870--35698929 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
35698860 GCATCTGATA
* *
35698870 CTGATTCTG-TGTTGGGCTTAGGCCCAC
1 CTGATTCTGTTATTGGGCTAAGGCCCAC
*
35698897 CTGATTCTGTTATTGGGCTAAGGCCGAC
1 CTGATTCTGTTATTGGGCTAAGGCCCAC
35698925 CTGAT
1 CTGAT
35698930 ACTATTTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 9 0.31
28 20 0.69
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.33
Consensus pattern (28 bp):
CTGATTCTGTTATTGGGCTAAGGCCCAC
Found at i:35700922 original size:40 final size:40
Alignment explanation
Indices: 35700760--35700940 Score: 172
Period size: 40 Copynumber: 4.5 Consensus size: 40
35700750 AATGATATCT
* * *
35700760 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCC
** * *
35700800 GGAATAAGAT-CCGACGGCATACGTGCGAGTTACTAAATCC
1 GGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAATCC
* * * *
35700840 GGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAAATCC
1 GGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAATCC
* *
35700880 GGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTAA-CC
1 GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AAATCC
*
35700920 GGGCTATGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
35700941 TGAATGTGTA
Statistics
Matches: 116, Mismatches: 21, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 1 0.01
40 107 0.92
41 8 0.07
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCC
Found at i:35700934 original size:80 final size:80
Alignment explanation
Indices: 35700760--35700943 Score: 198
Period size: 80 Copynumber: 2.3 Consensus size: 80
35700750 AATGATATCT
* *
35700760 GGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGAATAAGATCCGACGGCATACGTG
1 GGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATACGTG
35700825 CGAGTTACTAAATCC
66 CGAGTTACTAAATCC
* * ** *
35700840 GGACTAAGAT-CCGAAGGCTTTCGAGC-GAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 GGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGAATAAGAT-CCGAAGGCATA
*
35700901 CGTGCGAGTTACTGTAA-CC
62 CGTGCGAGTTACT-AAATCC
*
35700920 GGGCTATGTCCCGAAGGCATTTGA
1 GGGCTAAGTCCCGAAGGC-TTTGA
35700944 ATGTGTAGCC
Statistics
Matches: 87, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
79 2 0.02
80 75 0.86
81 10 0.11
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATACGTG
CGAGTTACTAAATCC
Found at i:35707282 original size:40 final size:39
Alignment explanation
Indices: 35707236--35707414 Score: 173
Period size: 40 Copynumber: 4.5 Consensus size: 39
35707226 GCTCGATTGT
* *
35707236 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
*
35707276 CATCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
35707316 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
35707356 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
35707397 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
35707415 ATACCATTCG
Statistics
Matches: 113, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.02
40 85 0.75
41 24 0.21
42 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:35707334 original size:80 final size:81
Alignment explanation
Indices: 35707236--35707414 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 81
35707226 GCTCGATTGT
* * * *
35707236 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCATCGGGAATT-AGCCCGGATTTAG
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCATCGGGAATTGA-CCCGGATTTAG
* *
35707300 TAAC-TCGCACAAATGC
65 TAACTTAGCACAAAAGC
* * * *
35707316 CTTCGGGACTTAACCCGGTTTTGGTAACTCACACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCATCGGGAATTGACCCGGATTTAGT
*
35707381 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
35707397 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
35707415 ATACCATTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
80 57 0.67
81 28 0.33
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCATCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAAGC
Found at i:35709234 original size:39 final size:39
Alignment explanation
Indices: 35709153--35709276 Score: 185
Period size: 39 Copynumber: 3.2 Consensus size: 39
35709143 TATGGTAACC
** *
35709153 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
35709193 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
35709232 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
35709271 CGCACA
1 CGCACA
35709277 TTCATTCACA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
39 60 0.79
40 16 0.21
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Done.