Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 44 of 295
Found at i:12877250 original size:42 final size:41
Alignment explanation
Indices: 12877187--12877341 Score: 120
Period size: 42 Copynumber: 3.7 Consensus size: 41
12877177 AAAATGGCGA
* *
12877187 ATCTTGTCTCCCTAAGAAGTAGTGGAGCTAATTTAATCCACC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCTAATTT-ATCCACC
* * *
12877229 ATCTTATCTCCCTAAGCAGTAGTAGAGTAGGCTGAAGATTGT--A-G
1 ATCTTATCTCCCTAAGCAGTAGT-G-G-A-GCT-AA-TTTATCCACC
* *
12877273 ATCTTGTCTCCCTAAGCAGTAGTGGAGC-AGATTTGAGCCACC
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCTA-ATTT-ATCCACC
* *
12877315 ATCCTATCTCCCTAAGTAGTAGTGGAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAG
12877342 TAGGCTGAAG
Statistics
Matches: 89, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
38 3 0.03
39 1 0.01
40 2 0.02
41 2 0.02
42 46 0.52
43 2 0.02
44 23 0.26
45 2 0.02
46 3 0.03
47 3 0.03
48 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (41 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCTAATTTATCCACC
Found at i:12877343 original size:86 final size:86
Alignment explanation
Indices: 12877187--12877418 Score: 324
Period size: 86 Copynumber: 2.7 Consensus size: 86
12877177 AAAATGGCGA
* * * *
12877187 ATCTTGTCTCCCTAAGAAGTAGTGGAGCTA-ATTTAATCCACCATCTTATCTCCCTAAGCAGTAG
1 ATCTTGTCTCCCTAAGAAGTAGTGGAGC-AGATTTGAGCCACCATCCTATCTCCCTAAGTAGTAG
12877251 TAGAGTAGGCTGAAGATTGTAG
65 TAGAGTAGGCTGAAGATTGTAG
*
12877273 ATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTTGAGCCACCATCCTATCTCCCTAAGTAGTAGT
1 ATCTTGTCTCCCTAAGAAGTAGTGGAGCAGATTTGAGCCACCATCCTATCTCCCTAAGTAGTAGT
*
12877338 GGAGTAGGCTGAAGATTGTAG
66 AGAGTAGGCTGAAGATTGTAG
* * * * *
12877359 ATCTTATCGCCCTAAGTAGTAGTGGAGCAGA-TTGAAGCCATCAGCCTATCTCCCTGAAGT
1 ATCTTGTCTCCCTAAGAAGTAGTGGAGCAGATTTG-AGCCACCATCCTATCTCCCT-AAGT
12877419 TCCAGTGGAG
Statistics
Matches: 132, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
85 4 0.03
86 124 0.94
87 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (86 bp):
ATCTTGTCTCCCTAAGAAGTAGTGGAGCAGATTTGAGCCACCATCCTATCTCCCTAAGTAGTAGT
AGAGTAGGCTGAAGATTGTAG
Found at i:12877429 original size:43 final size:42
Alignment explanation
Indices: 12877379--12877531 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 42
12877369 CCTAAGTAGT
* * *
12877379 AGTGGAGCAGATTGAAGCCATCAGCCTATCTCCCTGAAGTTCC
1 AGTGGAGCAGACTGAAGCTA-CAGCCTATCTCCCTGAAGTTGC
* * * * * *
12877422 AGTGGAGCAGACTAAAGATAGCAAGCTTTATCTTCCTGAAGTAGT
1 AGTGGAGCAGACTGAAGCTA-C-AGC-CTATCTCCCTGAAGTTGC
** * *
12877467 AGTGGAGCAGGTTGAAGTTAAAGCCTTATCTCCCTGAAGTTGC
1 AGTGGAGCAGACTGAAGCTACAGCC-TATCTCCCTGAAGTTGC
12877510 AGTGGAGCAGACTGAAGCTACA
1 AGTGGAGCAGACTGAAGCTACA
12877532 AATCTCTTCT
Statistics
Matches: 84, Mismatches: 23, Indels: 6
0.74 0.20 0.05
Matches are distributed among these distances:
43 52 0.62
44 3 0.04
45 29 0.35
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.24
Consensus pattern (42 bp):
AGTGGAGCAGACTGAAGCTACAGCCTATCTCCCTGAAGTTGC
Found at i:12877501 original size:216 final size:213
Alignment explanation
Indices: 12877067--12877520 Score: 452
Period size: 216 Copynumber: 2.1 Consensus size: 213
12877057 AATCTTGTCT
* * * *
12877067 CCTAAGCAGTAGTGGAGTAGATTTAAGCCACCATCCTATCTCCTTAAGCAGTAGTGGAGTGGGTT
1 CCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCT
* * * * *
12877132 GAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCGAATCTTGTCTC
66 GAAGATTGTAGATCTTATCGCCCTAAGCAGTAGTGGAGCAGATCGAAAAT-GC-AAGCCTATCTC
* * ** * * *
12877197 CCTAAGAAGTAGTGGAGCTAATTTAATCCACCATCTTATCTCCCTAAGCAGTAGTAGAGTAGGCT
129 CCT-AGAAGTAGTGGAGCTAACTAAAGACACAAGCTTATCTCCCTAAGCAGTAGTAGAGCAGGCT
** * *
12877262 GAAGATTGTAGATCTTGTCTC
193 GAAGATTAAAGACCTTATCTC
* *
12877283 CCTAAGCAGTAGTGGAGCAGATTTGAGCCACCATCCTATCTCCCTAAGTAGTAGTGGAGTAGGCT
1 CCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCT
* * *
12877348 GAAGATTGTAGATCTTATCGCCCTAAGTAGTAGTGGAGCAGATTGAAGCCAT-C-AGCCTATCTC
66 GAAGATTGTAGATCTTATCGCCCTAAGCAGTAGTGGAGCAGATCGAA--AATGCAAGCCTATCTC
* * * *
12877411 CCT-GAAGTTCCAGTGGAGC-AGACTAAAGATAGCAAGCTTTATCTTCCTGAAGTAGTAGTGGAG
129 CCTAGAAG-T--AGTGGAGCTA-ACTAAAGACA-CAAGC-TTATCTCCCT-AAGCAGTAGTAGAG
*
12877474 CAGGTTGAAG-TTAAAG-CCTTATCTC
187 CAGGCTGAAGATTAAAGACCTTATCTC
** *
12877499 CCTGAAGTTGCAGTGGAGCAGA
1 CCT-AAGCAGTAGTGGAGCAGA
12877521 CTGAAGCTAC
Statistics
Matches: 195, Mismatches: 33, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
212 4 0.02
213 1 0.01
214 11 0.06
215 13 0.07
216 116 0.59
217 28 0.14
218 22 0.11
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (213 bp):
CCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCT
GAAGATTGTAGATCTTATCGCCCTAAGCAGTAGTGGAGCAGATCGAAAATGCAAGCCTATCTCCC
TAGAAGTAGTGGAGCTAACTAAAGACACAAGCTTATCTCCCTAAGCAGTAGTAGAGCAGGCTGAA
GATTAAAGACCTTATCTC
Found at i:12877943 original size:18 final size:20
Alignment explanation
Indices: 12877917--12877957 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
12877907 CGTATGACTT
12877917 CCAG-AACA-CCTCCGTACG
1 CCAGAAACAGCCTCCGTACG
*
12877935 CCAGCACACAGCCTCCGTACG
1 CCAG-AAACAGCCTCCGTACG
12877956 CC
1 CC
12877958 TAGTGCCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 4 0.21
20 3 0.16
21 12 0.63
ACGTcount: A:0.24, C:0.49, G:0.17, T:0.10
Consensus pattern (20 bp):
CCAGAAACAGCCTCCGTACG
Found at i:12878875 original size:27 final size:28
Alignment explanation
Indices: 12878836--12878894 Score: 111
Period size: 27 Copynumber: 2.1 Consensus size: 28
12878826 TGTGTTCTTA
12878836 ATTCTTGTTTTGATATTCCAGGATATTG
1 ATTCTTGTTTTGATATTCCAGGATATTG
12878864 ATTC-TGTTTTGATATTCCAGGATATTG
1 ATTCTTGTTTTGATATTCCAGGATATTG
12878891 ATTC
1 ATTC
12878895 AAGTTAAGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.49
Consensus pattern (28 bp):
ATTCTTGTTTTGATATTCCAGGATATTG
Found at i:12886345 original size:13 final size:13
Alignment explanation
Indices: 12886327--12886352 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12886317 AAGCAATCGT
12886327 ACATGGGCGTGTC
1 ACATGGGCGTGTC
12886340 ACATGGGCGTGTC
1 ACATGGGCGTGTC
12886353 CCTGCCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (13 bp):
ACATGGGCGTGTC
Found at i:12887267 original size:27 final size:27
Alignment explanation
Indices: 12887237--12887351 Score: 128
Period size: 27 Copynumber: 4.3 Consensus size: 27
12887227 GTACTCGTAG
*
12887237 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAACTAGGGGTATTTTA
*
12887264 GTAATTTTACAAA-TTGAGGGTATTTCT-
1 GTAATTTTACAAACTAG-GGGTATTT-TA
* *
12887291 GTAATTTTACAAACCAAGGGTATTTTA
1 GTAATTTTACAAACTAGGGGTATTTTA
* * *
12887318 GCAATTTTACAGACTA-GGGTATTCTA
1 GTAATTTTACAAACTAGGGGTATTTTA
12887344 GTAATTTT
1 GTAATTTT
12887352 GTAAATCGAG
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
26 19 0.25
27 55 0.73
28 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAACTAGGGGTATTTTA
Found at i:12887365 original size:53 final size:54
Alignment explanation
Indices: 12887237--12887351 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 54
12887227 GTACTCGTAG
* * * * *
12887237 GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCT
1 GTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAACTGAGGGTATTTCT
*
12887291 GTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGACT-AGGGTA-TTCT
1 GTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAACTGAGGGTATTTCT
12887343 AGTAATTTT
1 -GTAATTTT
12887352 GTAAATCGAG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
52 4 0.07
53 14 0.26
54 36 0.67
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (54 bp):
GTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAACTGAGGGTATTTCT
Found at i:12887373 original size:27 final size:27
Alignment explanation
Indices: 12887344--12887527 Score: 226
Period size: 27 Copynumber: 6.8 Consensus size: 27
12887334 GGGTATTCTA
* *
12887344 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
12887371 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
12887398 GTACTTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
12887425 GTAATTCTGTCAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
12887452 GTAATTATGTAAATCG-GGGTTAAAATG
1 GTAATTCTGTAAATCGAGGG-TAAAACG
* * *
12887479 GTAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
12887506 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
12887528 CTTTGGTAAT
Statistics
Matches: 138, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
26 3 0.02
27 132 0.96
28 3 0.02
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:12887375 original size:80 final size:81
Alignment explanation
Indices: 12887239--12887392 Score: 184
Period size: 80 Copynumber: 1.9 Consensus size: 81
12887229 ACTCGTAGGT
* * * *** * *
12887239 AATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAA
1 AATTTTACAAACTAGGGGTATTCTAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTACAAA
12887304 CCAAGGGTATTTTAGC
66 CCAAGGGTATTTTAGC
* ** *
12887320 AATTTTACAGACTA-GGGTATTCTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAA
1 AATTTTACAAACTAGGGGTATTCTAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTACAAA
*
12887384 TCAAGGGTA
66 CCAAGGGTA
12887393 AAACGGTACT
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
80 47 0.78
81 13 0.22
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (81 bp):
AATTTTACAAACTAGGGGTATTCTAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTACAAA
CCAAGGGTATTTTAGC
Found at i:12887554 original size:27 final size:27
Alignment explanation
Indices: 12887524--12887598 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
12887514 GTAAATCGGG
* *
12887524 GGTACTTTGGTAATTTTACAAGTCGAA
1 GGTACTTTAGTAATTTTACAAATCGAA
* *
12887551 GGTATTTTAGTAATTTTACAAATCGAG
1 GGTACTTTAGTAATTTTACAAATCGAA
*
12887578 GGTA-TTTCAGT-ATTTTTCAAA
1 GGTACTTT-AGTAATTTTACAAA
12887599 CTAAGCGTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 12 0.29
27 30 0.71
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
GGTACTTTAGTAATTTTACAAATCGAA
Found at i:12890383 original size:31 final size:31
Alignment explanation
Indices: 12890345--12890408 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
12890335 CCTTTTCATA
*
12890345 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
**
12890376 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
12890407 TT
1 TT
12890409 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:12890655 original size:24 final size:24
Alignment explanation
Indices: 12890602--12890771 Score: 202
Period size: 25 Copynumber: 7.0 Consensus size: 24
12890592 GCTTTATCAT
*
12890602 ATAACTGGAGGCCT-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTC
* *
12890626 AGTAACTGGGGCAAAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTC
12890651 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
* *
12890676 GTAACTGGGGCATAAGCCCTTCATC
1 ATAACTGGGGCATAAGCCCTT-TTC
*
12890701 ATAATTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TC
*
12890726 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTC
12890749 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
12890772 GCACTTCCTC
Statistics
Matches: 128, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
23 20 0.16
24 34 0.27
25 74 0.58
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTC
Found at i:12890845 original size:20 final size:20
Alignment explanation
Indices: 12890817--12890884 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
12890807 GCATTTATTA
*
12890817 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
12890837 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
12890857 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
12890877 ACATATCA
1 ACATATCA
12890885 CGTTTATCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:12890852 original size:11 final size:11
Alignment explanation
Indices: 12890822--12890876 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
12890812 TATTAACATC
12890822 TCATGTGCATA
1 TCATGTGCATA
*
12890833 TCA--TACATA
1 TCATGTGCATA
12890842 TCATGTGCATA
1 TCATGTGCATA
* *
12890853 TCA--TACATG
1 TCATGTGCATA
12890862 TCATGTGCATA
1 TCATGTGCATA
12890873 TCAT
1 TCAT
12890877 ACATATCACG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:12890966 original size:25 final size:25
Alignment explanation
Indices: 12890924--12890971 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
12890914 ATATATAAAC
* * *
12890924 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
*
12890949 CCTAGGGGCAAAACGGTCCTTTT
1 CCTAGGGGCAAAACGGTCATTTT
12890972 CATGTTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:12891862 original size:33 final size:33
Alignment explanation
Indices: 12891817--12891912 Score: 102
Period size: 33 Copynumber: 2.9 Consensus size: 33
12891807 TGCATTACAT
* * *
12891817 TGTTACTATATAGGGCTAAGGCCGAGATTCTAC
1 TGTTACTGTATAGGGCTAAGGCCCAGACTCTAC
* * * *
12891850 TGTTACTGTATAGGGCCAGGGCCCAGACTGTAT
1 TGTTACTGTATAGGGCTAAGGCCCAGACTCTAC
* *
12891883 TGATTACTGAATAGGGCTCAGGCCCAGACT
1 TG-TTACTGTATAGGGCTAAGGCCCAGACT
12891913 GTTACTGCAT
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
33 28 0.55
34 23 0.45
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (33 bp):
TGTTACTGTATAGGGCTAAGGCCCAGACTCTAC
Found at i:12903183 original size:27 final size:27
Alignment explanation
Indices: 12903123--12903267 Score: 128
Period size: 27 Copynumber: 5.4 Consensus size: 27
12903113 GGATAAGTTG
* * * *
12903123 TAGAATTACCGAAATACCCCTATAAGT
1 TAGAATTACCGAAATACCCTTGTAGGA
* *
12903150 TAAAATTATCGAAATACCCTTGTAGGA
1 TAGAATTACCGAAATACCCTTGTAGGA
* *
12903177 TAGAATTACCAAAATACCCTTGTAGGC
1 TAGAATTACCGAAATACCCTTGTAGGA
* * * * *
12903204 CAGAAATACCGGAATACCCCTGTAGGG
1 TAGAATTACCGAAATACCCTTGTAGGA
* * * *
12903231 TAGAATTACTGAGATACCCTTGTGGGG
1 TAGAATTACCGAAATACCCTTGTAGGA
*
12903258 TAAAATTACC
1 TAGAATTACC
12903268 ATTTTGCCCC
Statistics
Matches: 93, Mismatches: 25, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.26
Consensus pattern (27 bp):
TAGAATTACCGAAATACCCTTGTAGGA
Found at i:12904046 original size:72 final size:67
Alignment explanation
Indices: 12903894--12904051 Score: 212
Period size: 72 Copynumber: 2.3 Consensus size: 67
12903884 AGGAAGCATG
* *
12903894 CTAGCAGCCTCGCTGCAATCTGGTGGCCTGACCACATATATTTGTTCTGGTGACTTCGTCACAAT
1 CTAGCTGCCTCGCTGCAATCTGGTGGCCCGACCACATATATTTGTTCTGGTGACTTCGTCACAAT
12903959 AT
66 AT
*
12903961 CTTG-TAGCCTCGCTGCAATCTGGTGGCTCCG-CCACATATATATATTTGTATCTGGTGACTTCG
1 CTAGCT-GCCTCGCTGCAATCTGGTGGC-CCGACCAC----ATATATTTGT-TCTGGTGACTTCG
12904024 TCACAATAT
59 TCACAATAT
12904033 CTAGCTGCCTCGCTGCAAT
1 CTAGCTGCCTCGCTGCAAT
12904052 TTTTGTGGTG
Statistics
Matches: 79, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
67 28 0.35
68 2 0.03
71 10 0.13
72 38 0.48
73 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.32
Consensus pattern (67 bp):
CTAGCTGCCTCGCTGCAATCTGGTGGCCCGACCACATATATTTGTTCTGGTGACTTCGTCACAAT
AT
Found at i:12911276 original size:27 final size:27
Alignment explanation
Indices: 12911252--12911395 Score: 134
Period size: 27 Copynumber: 5.4 Consensus size: 27
12911242 TGGATAAGTT
*
12911252 GTAGAATTA-CTAAATA-CCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAAG
12911277 GTAGAATTACCGAAATACCCCTGT-AG
1 GTAGAATTACCGAAATACCCCTGTAAG
* *
12911303 GATAGAATTACCAAAATACCCTTGT-AG
1 G-TAGAATTACCGAAATACCCCTGTAAG
* * *
12911330 GCTAGAAATATCGAAATACCCCTGTAGG
1 G-TAGAATTACCGAAATACCCCTGTAAG
* * * **
12911358 GTAGAATTACTGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAAG
*
12911385 GTAAAATTACC
1 GTAGAATTACC
12911396 ATTTTGCCCC
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
25 9 0.09
26 9 0.09
27 78 0.80
28 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAAG
Found at i:12911345 original size:54 final size:54
Alignment explanation
Indices: 12911253--12911381 Score: 165
Period size: 54 Copynumber: 2.4 Consensus size: 54
12911243 GGATAAGTTG
* *
12911253 TAGAATTA-CTAAATACCC-TGTAAGGTAGAATTACCGAAATACCCCTGTAGGA
1 TAGAATTACCAAAATACCCTTGTAAGGTAGAAATACCGAAATACCCCTGTAGGA
* *
12911305 TAGAATTACCAAAATACCCTTGT-AGGCTAGAAATATCGAAATACCCCTGTAGGG
1 TAGAATTACCAAAATACCCTTGTAAGG-TAGAAATACCGAAATACCCCTGTAGGA
** *
12911359 TAGAATTACTGAGATACCCTTGT
1 TAGAATTACCAAAATACCCTTGT
12911382 GGGGTAAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
52 8 0.12
53 12 0.18
54 47 0.70
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (54 bp):
TAGAATTACCAAAATACCCTTGTAAGGTAGAAATACCGAAATACCCCTGTAGGA
Found at i:12912091 original size:27 final size:26
Alignment explanation
Indices: 12912047--12912098 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
12912037 CTCACTGCAA
*
12912047 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
12912074 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
12912099 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:12912177 original size:72 final size:67
Alignment explanation
Indices: 12912030--12912186 Score: 206
Period size: 72 Copynumber: 2.3 Consensus size: 67
12912020 GGAAGCGTTT
*
12912030 TGGTAGCCTCACTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAATA
1 TGGTAGCCTCACTACAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAATA
12912095 TC
66 TC
* * * * *
12912097 TGGCAGCCTCGCTACAATCTGGTGGCTTCGGCACATATATATATTTGTATCTGGTGACTTCGTCA
1 TGGTAGCCTCACTACAATCTGGTGGCCTC-GC-C--ACATATATCTGT-TCTGGTGACTTCGTCA
12912162 CAATATC
61 CAATATC
*
12912169 TGGTAGCCTCTCTACAAT
1 TGGTAGCCTCACTACAAT
12912187 TTCTGTGGTG
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
67 25 0.32
68 2 0.03
69 1 0.01
71 10 0.13
72 39 0.51
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.32
Consensus pattern (67 bp):
TGGTAGCCTCACTACAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAATA
TC
Found at i:12926412 original size:56 final size:56
Alignment explanation
Indices: 12926326--12926440 Score: 221
Period size: 56 Copynumber: 2.1 Consensus size: 56
12926316 TGTAAGTTAT
*
12926326 TTTCTATTGACCAAACTTTTTTCCATGAAACAAACATAGGAAAATGTAGAAAATAC
1 TTTCTATTGACCAAACTATTTTCCATGAAACAAACATAGGAAAATGTAGAAAATAC
12926382 TTTCTATTGACCAAACTATTTTCCATGAAACAAACATAGGAAAATGTAGAAAATAC
1 TTTCTATTGACCAAACTATTTTCCATGAAACAAACATAGGAAAATGTAGAAAATAC
12926438 TTT
1 TTT
12926441 TCGGAAACCA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (56 bp):
TTTCTATTGACCAAACTATTTTCCATGAAACAAACATAGGAAAATGTAGAAAATAC
Found at i:12929959 original size:26 final size:26
Alignment explanation
Indices: 12929930--12930037 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
12929920 TGGTACAAAT
12929930 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
12929956 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12929982 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
12930008 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12930034 TGAT
1 TGAT
12930038 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12931679 original size:27 final size:26
Alignment explanation
Indices: 12931624--12931734 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
12931614 AGGAAGCGTC
* **
12931624 CTGGTGGCTATGCCACAATATCTAAT
1 CTGGTGGCTCTGCCACAATATCTGTT
12931650 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGTT
*
12931677 CTGATGGCTCTGCCACAATTATCTGTAT
1 CTGGTGGCTCTGCCACAA-TATCTGT-T
* * *
12931705 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACAATATCTGTT
12931731 CTGG
1 CTGG
12931735 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 22 0.30
27 37 0.50
28 15 0.20
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGTT
Found at i:12931722 original size:55 final size:52
Alignment explanation
Indices: 12931628--12931733 Score: 149
Period size: 55 Copynumber: 2.0 Consensus size: 52
12931618 AGCGTCCTGG
*
12931628 TGGCTATGCCACAATATCTAATCTGGTGGCTCTGCCACATATATCTGTTCTGA
1 TGGCTATGCCACAATATCTAATCTGGTGACTCTGCCACAT-TATCTGTTCTGA
* * *
12931681 TGGCTCTGCCACAATTATCTGTATCTGGTGACTCTGTCACATTATCTGTTCTG
1 TGGCTATGCCACAA-TATCT-AATCTGGTGACTCTGCCACATTATCTGTTCTG
12931734 GCAGCCATGC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
53 13 0.28
54 16 0.34
55 18 0.38
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.37
Consensus pattern (52 bp):
TGGCTATGCCACAATATCTAATCTGGTGACTCTGCCACATTATCTGTTCTGA
Found at i:12937973 original size:26 final size:26
Alignment explanation
Indices: 12937944--12938051 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
12937934 TGGTACAAAT
12937944 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
12937970 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12937996 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
12938022 TGATAATGGTTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12938048 TGAT
1 TGAT
12938052 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12939243 original size:8 final size:8
Alignment explanation
Indices: 12939230--12939259 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
12939220 AGATTGGCAC
12939230 AAGCCGAA
1 AAGCCGAA
12939238 AAGCCGAA
1 AAGCCGAA
*
12939246 ATGCCGAA
1 AAGCCGAA
12939254 AAGCCG
1 AAGCCG
12939260 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:12939750 original size:27 final size:26
Alignment explanation
Indices: 12939649--12939760 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
12939639 AGGAAGCGTC
* * * *
12939649 CTGGTGGCTATGGCACAAATATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
12939676 CTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
12939703 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* * *
12939731 CTGGTGACTCTGTCTCATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
12939757 CTGG
1 CTGG
12939761 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.70
28 16 0.22
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:12939753 original size:54 final size:54
Alignment explanation
Indices: 12939649--12939760 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
12939639 AGGAAGCGTC
* *
12939649 CTGGTGGCTATGGCACAAATATCTGATCTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCTGTT
* * * * * *
12939703 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCTCAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTAGTGACTCTGCCACATATATCTGTT
12939757 CTGG
1 CTGG
12939761 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 33 0.67
55 16 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCTGTT
Found at i:12942160 original size:27 final size:27
Alignment explanation
Indices: 12942137--12942325 Score: 234
Period size: 27 Copynumber: 7.0 Consensus size: 27
12942127 CAAAATTATT
* *
12942137 GAAATATCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
12942164 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
12942191 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
12942218 GAAATACCCCTGTAAGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
12942245 AAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
12942272 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * * *
12942299 TAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
12942326 ATTTTGCCCC
Statistics
Matches: 137, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 137 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:12942188 original size:54 final size:54
Alignment explanation
Indices: 12942130--12942321 Score: 262
Period size: 54 Copynumber: 3.6 Consensus size: 54
12942120 CAATTTACAA
* * *
12942130 AATTATTGAAATATCCC-TGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAG
1 AATTATCGAAATA-CCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAG
* * *
12942184 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAAGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAG
*
12942238 AATTATCAAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAG
* * * *
12942292 AATTACCTAGATACCCTTGTGGGGTA-AAAT
1 AATTATCGAAATACCCTTGTAGGGTAGAAAT
12942322 TACCATTTTG
Statistics
Matches: 123, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
53 7 0.06
54 116 0.94
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (54 bp):
AATTATCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAG
Found at i:12942993 original size:28 final size:27
Alignment explanation
Indices: 12942936--12943012 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
12942926 ATTCTGTTAA
* * *
12942936 GTGGCTTTGCCACATTATCTGTTTCAG
1 GTGGCTATGCCACAATATCTGTATCAG
*
12942963 GTGGCTATGCCACAAATATCTGTATCTG
1 GTGGCTATGCCAC-AATATCTGTATCAG
* * **
12942991 GTGACTCTATCACAATATCTGT
1 GTGGCTATGCCACAATATCTGT
12943013 TCTGGCAGCC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTATCAG
Found at i:12943144 original size:6 final size:6
Alignment explanation
Indices: 12943135--12943222 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
12943125 TTGCATTCAC
* * *
12943135 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
12943185 ATTCTG ATTCTG ATTCTT ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
12943223 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:12943166 original size:25 final size:25
Alignment explanation
Indices: 12943138--12943201 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
12943128 CATTCACATT
* *
12943138 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTCACCTAATA
*
12943163 CTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
12943188 CTGATTCTGATTCT
1 CTGATTCTGATTCT
12943202 TATTTTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:12947780 original size:13 final size:13
Alignment explanation
Indices: 12947762--12947790 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
12947752 GGTTGTTTAT
12947762 TAAACTAATTAAC
1 TAAACTAATTAAC
12947775 TAAACTAATTAAC
1 TAAACTAATTAAC
12947788 TAA
1 TAA
12947791 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:12949816 original size:13 final size:13
Alignment explanation
Indices: 12949798--12949837 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 13
12949788 AGTAGGCTCA
12949798 AAGGGGGTTCACT
1 AAGGGGGTTCACT
*
12949811 AA-GGGGCTCA--
1 AAGGGGGTTCACT
12949821 AAGGGGGTTCACT
1 AAGGGGGTTCACT
12949834 AAGG
1 AAGG
12949838 TTTAATTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
10 2 0.09
11 7 0.32
12 7 0.32
13 6 0.27
ACGTcount: A:0.28, C:0.15, G:0.40, T:0.17
Consensus pattern (13 bp):
AAGGGGGTTCACT
Found at i:12949818 original size:23 final size:23
Alignment explanation
Indices: 12949792--12949837 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12949782 AAGGTTAGTA
12949792 GGCTCAAAGGGGGTTCACTAAGG
1 GGCTCAAAGGGGGTTCACTAAGG
12949815 GGCTCAAAGGGGGTTCACTAAGG
1 GGCTCAAAGGGGGTTCACTAAGG
12949838 TTTAATTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.39, T:0.17
Consensus pattern (23 bp):
GGCTCAAAGGGGGTTCACTAAGG
Found at i:12950741 original size:6 final size:6
Alignment explanation
Indices: 12950732--12950783 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
12950722 TTCAAAAGAA
** * * *
12950732 AAAAAT -AAAAT TGAAAT GAAAAT AAAAGT AAAAAG AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
12950779 AAAAA
1 AAAAA
12950784 GATAAGAGGA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:12950771 original size:18 final size:18
Alignment explanation
Indices: 12950732--12950785 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
12950722 TTCAAAAGAA
* * *
12950732 AAAAATAAAATTGAAATG
1 AAAAATAAAAATAAAAAG
*
12950750 -AAAATAAAAGTAAAAAG
1 AAAAATAAAAATAAAAAG
12950767 AAAAATAAAAATAAAAAG
1 AAAAATAAAAATAAAAAG
12950785 A
1 A
12950786 TAAGAGGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 14 0.45
18 17 0.55
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (18 bp):
AAAAATAAAAATAAAAAG
Found at i:12954205 original size:21 final size:21
Alignment explanation
Indices: 12954179--12954218 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
12954169 TACTTCTAGT
12954179 AGACATGATTCAAAGTAAAGC
1 AGACATGATTCAAAGTAAAGC
12954200 AGACATGATTCAAAGTAAA
1 AGACATGATTCAAAGTAAA
12954219 TAAATCCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.20
Consensus pattern (21 bp):
AGACATGATTCAAAGTAAAGC
Found at i:12954270 original size:44 final size:44
Alignment explanation
Indices: 12954207--12954297 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
12954197 AGCAGACATG
12954207 ATTCAAAGTAAATAAATCCCAAAAGAAAAACTTTAAAAGGCCTT
1 ATTCAAAGTAAATAAATCCCAAAAGAAAAACTTTAAAAGGCCTT
12954251 ATTCAAAGTAAATAAATCCCAAAAGAAAAACTTTAAAAGGCCTT
1 ATTCAAAGTAAATAAATCCCAAAAGAAAAACTTTAAAAGGCCTT
12954295 ATT
1 ATT
12954298 AGAAAACAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.52, C:0.15, G:0.09, T:0.24
Consensus pattern (44 bp):
ATTCAAAGTAAATAAATCCCAAAAGAAAAACTTTAAAAGGCCTT
Found at i:12954569 original size:34 final size:34
Alignment explanation
Indices: 12954526--12954603 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
12954516 AGTGATAGTC
* *
12954526 CAGTATCAGT-TAGGGTCATAGCCCATTACAGTAT
1 CAGTATCAGTGT-GGGCCATAGCCCATTACAGTAA
*
12954560 CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
1 CAGTATCAGTGTGGGCCATAGCCCATTACAGTAA
*
12954594 CAGTAACAGT
1 CAGTATCAGT
12954604 AATACAATCA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 38 0.97
35 1 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCATAGCCCATTACAGTAA
Found at i:12956731 original size:76 final size:76
Alignment explanation
Indices: 12956622--12956770 Score: 262
Period size: 76 Copynumber: 2.0 Consensus size: 76
12956612 CTTGATATCC
*
12956622 CCACACACATTTAAAAACCCACTATCCAAAACCCAGGGTTTTATTCAAATTTAACAAAAATTTTA
1 CCACACACATTTAAAAACCCACTATCCAAAACCCACGGTTTTATTCAAATTTAACAAAAATTTTA
12956687 CTAAAACCTCT
66 CTAAAACCTCT
* * *
12956698 CCACACACATTTAAAAACCCACTATCTAGAACCCACGGTTTTATTCAAATTTAACAAAAATTTTG
1 CCACACACATTTAAAAACCCACTATCCAAAACCCACGGTTTTATTCAAATTTAACAAAAATTTTA
12956763 CTAAAACC
66 CTAAAACC
12956771 CAAGTTTGAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.28
Consensus pattern (76 bp):
CCACACACATTTAAAAACCCACTATCCAAAACCCACGGTTTTATTCAAATTTAACAAAAATTTTA
CTAAAACCTCT
Found at i:12973351 original size:8 final size:8
Alignment explanation
Indices: 12973338--12973365 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
12973328 GGCTAAAGCC
12973338 AAAAAAGA
1 AAAAAAGA
12973346 AAAAAAGA
1 AAAAAAGA
12973354 AAAAAAGA
1 AAAAAAGA
12973362 AAAA
1 AAAA
12973366 GATACATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:12980063 original size:43 final size:43
Alignment explanation
Indices: 12980016--12980139 Score: 185
Period size: 43 Copynumber: 2.9 Consensus size: 43
12980006 TCATATAACG
* * *
12980016 ATGCCAATATCCCAGACACGGTCTTACACGTAATTACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACA
* *
12980059 ATGCCAATGTCTCAGACATGGTCTTACATGTAATCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACA
* *
12980102 ATGCCAATGTCCCAGACATGGTCTTACATGTATTCACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
12980140 TCTCGATAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACA
Found at i:12986926 original size:40 final size:40
Alignment explanation
Indices: 12986848--12987071 Score: 290
Period size: 40 Copynumber: 5.5 Consensus size: 40
12986838 ACCCAAGTAT
* * * * *
12986848 CTTCGAGATTTAG-CCGGATGTAGTAACTGGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * **
12986887 CTTCAGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
12986927 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
12986967 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
12987010 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
12987050 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
12987072 CATCCGAATA
Statistics
Matches: 162, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
39 10 0.06
40 116 0.72
43 36 0.22
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:12987033 original size:83 final size:80
Alignment explanation
Indices: 12986848--12987071 Score: 299
Period size: 83 Copynumber: 2.8 Consensus size: 80
12986838 ACCCAAGTAT
* * * * * *
12986848 CTTCGAGATTTAG-CCGGATGTAGTAACTGGCACAAATGCCTTCAGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
12986912 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
12986927 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
12986991 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
12987010 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
12987072 CATCCGAATA
Statistics
Matches: 127, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
79 12 0.09
80 48 0.38
83 67 0.53
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:12994818 original size:29 final size:29
Alignment explanation
Indices: 12994755--12994822 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
12994745 TAATCAACCA
12994755 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
12994784 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
12994813 CGCACACTTA
1 CGCACACTTA
12994823 CCTTTTTCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:13009918 original size:38 final size:38
Alignment explanation
Indices: 13009870--13009942 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
13009860 AAGACCATTC
*
13009870 CTGGGATATGGCATC-ATTATGAGACTTCATGTAAGTAT
1 CTGGGATATGGCATCGA-TATAAGACTTCATGTAAGTAT
* *
13009908 CTGGGATATGGCGTCGATATAAGATTTCATGTAAG
1 CTGGGATATGGCATCGATATAAGACTTCATGTAAG
13009943 ACCATAACTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
38 30 0.97
39 1 0.03
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (38 bp):
CTGGGATATGGCATCGATATAAGACTTCATGTAAGTAT
Found at i:13014357 original size:28 final size:28
Alignment explanation
Indices: 13014284--13014360 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
13014274 TATATATGTA
* *
13014284 TATGGCACTTAGTGTGCAAAATATTAAG
1 TATGGCACTTAGTGTGCGAGATATTAAG
* * * *
13014312 AATGGCGCTTGGTGTGCGAGATATTGAG
1 TATGGCACTTAGTGTGCGAGATATTAAG
*
13014340 TATGGAACTTAGTGTGCGAGA
1 TATGGCACTTAGTGTGCGAGA
13014361 CATCAAAGAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.30
Consensus pattern (28 bp):
TATGGCACTTAGTGTGCGAGATATTAAG
Found at i:13016452 original size:81 final size:81
Alignment explanation
Indices: 13016346--13016495 Score: 219
Period size: 81 Copynumber: 1.9 Consensus size: 81
13016336 AATACCCCTG
* * * *
13016346 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATAACCGTAATACCCCTGTAGGGTAAAAT
1 TAGGGAAAAATGACCGTAATACCCCTGTAAGGTAAAATAACCGTAATACCCCTGCAGGGCAAAAT
13016411 GACTGTAATACCCTCA
66 GACTGTAATACCCTCA
* * * * *
13016427 TAGGGAAAAATGACCGTAATGCCCCTGTAAGGTAAAATGACCGTGATACCCTTGCATGGCAAAAT
1 TAGGGAAAAATGACCGTAATACCCCTGTAAGGTAAAATAACCGTAATACCCCTGCAGGGCAAAAT
13016492 GACT
66 GACT
13016496 AGCCCTTAGG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (81 bp):
TAGGGAAAAATGACCGTAATACCCCTGTAAGGTAAAATAACCGTAATACCCCTGCAGGGCAAAAT
GACTGTAATACCCTCA
Found at i:13016494 original size:27 final size:27
Alignment explanation
Indices: 13016323--13016477 Score: 215
Period size: 27 Copynumber: 5.8 Consensus size: 27
13016313 CCCCAGAATA
*
13016323 GGTAAAATAACC-TAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
13016349 GGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
13016376 GGTAAAATAACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
13016403 GGTAAAATGACTGTAATA-CCCTCATAG
1 GGTAAAATGACCGTAATACCCCT-GTAG
* * *
13016430 GGAAAAATGACCGTAATGCCCCTGTAA
1 GGTAAAATGACCGTAATACCCCTGTAG
*
13016457 GGTAAAATGACCGTGATACCC
1 GGTAAAATGACCGTAATACCC
13016478 TTGCATGGCA
Statistics
Matches: 113, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
26 15 0.13
27 94 0.83
28 4 0.04
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:13016690 original size:27 final size:28
Alignment explanation
Indices: 13016633--13016705 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 28
13016623 GGAAGTATTG
* * *
13016633 TACTGGTGACTATGCCA-TATTCACTGT
1 TACTGGTGGCTATGCCACAATTCACTGA
*
13016660 TACTGGTGGCTATGCCACAATT-AGTGA
1 TACTGGTGGCTATGCCACAATTCACTGA
*
13016687 TACTGGTGGCTTTGCCACA
1 TACTGGTGGCTATGCCACA
13016706 TTTACTGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 37 0.93
28 3 0.08
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (28 bp):
TACTGGTGGCTATGCCACAATTCACTGA
Found at i:13019158 original size:25 final size:25
Alignment explanation
Indices: 13019129--13019246 Score: 125
Period size: 26 Copynumber: 4.7 Consensus size: 25
13019119 AGCTCTATTA
* *
13019129 AGCTTTCCGATTATGGCTCTTTGTG
1 AGCTTCCCGATTATGGCTCTCTGTG
*
13019154 AGCTTCCCGATTAAAGGCTCTCTGTG
1 AGCTTCCCGATT-ATGGCTCTCTGTG
* *
13019180 AGCTTCCTGATTAATGGCTCTCCG-G
1 AGCTTCCCGATT-ATGGCTCTCTGTG
*
13019205 AGCTTCCCGA-TATGGCTCGCT-TG
1 AGCTTCCCGATTATGGCTCTCTGTG
*
13019228 AACTTCCCGATATATGGCT
1 AGCTTCCCGAT-TATGGCT
13019247 ATTTGGAGCT
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
23 18 0.23
24 1 0.01
25 28 0.35
26 32 0.41
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (25 bp):
AGCTTCCCGATTATGGCTCTCTGTG
Found at i:13019255 original size:48 final size:50
Alignment explanation
Indices: 13019135--13019273 Score: 135
Period size: 48 Copynumber: 2.8 Consensus size: 50
13019125 ATTAAGCTTT
* *
13019135 CCGATTATGGCTCTTTGTGAGCTTCCCGATTAAAGGCTCTCTGTGAGCTTC
1 CCGATTATGGCTCTTTG-GAGCTTCCCGATTAAAGGCTCGCTGTGAACTTC
* ** *
13019186 CTGATTAATGGCTCTCCGGAGCTTCCCGA-T-ATGGCTCGCT-TGAACTTC
1 CCGATT-ATGGCTCTTTGGAGCTTCCCGATTAAAGGCTCGCTGTGAACTTC
* *
13019234 CCGATATATGGCTATTTGGAGCTACCCG-TTATAA-GCTCGC
1 CCGAT-TATGGCTCTTTGGAGCTTCCCGATTA-AAGGCTCGC
13019274 ACAAGTTTCC
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
48 29 0.41
49 15 0.21
50 2 0.03
51 16 0.23
52 9 0.13
ACGTcount: A:0.18, C:0.27, G:0.23, T:0.32
Consensus pattern (50 bp):
CCGATTATGGCTCTTTGGAGCTTCCCGATTAAAGGCTCGCTGTGAACTTC
Found at i:13021929 original size:9 final size:9
Alignment explanation
Indices: 13021915--13021939 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13021905 AACCATTCAA
13021915 TCATTCATT
1 TCATTCATT
13021924 TCATTCATT
1 TCATTCATT
13021933 TCATTCA
1 TCATTCA
13021940 AAATAATCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (9 bp):
TCATTCATT
Found at i:13025594 original size:39 final size:39
Alignment explanation
Indices: 13025548--13025645 Score: 169
Period size: 39 Copynumber: 2.5 Consensus size: 39
13025538 GCTTAAAGAC
* *
13025548 CCGCAGGCTATATGCTGGAATTATACCCGGACTTAAGGT
1 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
13025587 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
*
13025626 CCGCAGGCTACGTGCTGGAA
1 CCGCAGGCTATGTGCTGGAA
13025646 ATATGTCCGG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.23
Consensus pattern (39 bp):
CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
Found at i:13029297 original size:54 final size:55
Alignment explanation
Indices: 13029090--13029297 Score: 170
Period size: 53 Copynumber: 3.8 Consensus size: 55
13029080 TTTCTTTTTT
* * ** * * *
13029090 AAACTTACCATTGCCATATCTTGACATGGTCTTACGTGGTATCCCTGCCTTAT-G
1 AAACTTAACAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
* * ** * *
13029144 -AACTCACCGTTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AAACTTAACAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
* ** * ** * * *
13029198 TAGTTTATCAATGCCATGTTTTGACATGGTCTTACATGGTTTCCTTGCCTTGT-G
1 AAACTTAACAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
13029252 AAACTTAACAATGTCATGCCTTGGCATTGTCTTACTTGGTATCCTT
1 AAACTTAACAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
13029298 AAACCCTAAT
Statistics
Matches: 119, Mismatches: 33, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
53 43 0.36
54 37 0.31
55 39 0.33
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (55 bp):
AAACTTAACAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:13043114 original size:40 final size:40
Alignment explanation
Indices: 13043044--13043221 Score: 297
Period size: 40 Copynumber: 4.5 Consensus size: 40
13043034 AAACCAAGTA
* * * *
13043044 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
13043083 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13043123 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13043163 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
13043203 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
13043222 TTATCATCCG
Statistics
Matches: 133, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 14 0.11
40 119 0.89
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:13056052 original size:40 final size:40
Alignment explanation
Indices: 13055976--13056054 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
13055966 AAAACACACC
* * ***
13055976 AATTTGGCACCCAGTGCCTCATCGGATAATTTGAAGTAAT
1 AATTTGACACCCAATGCCTCATCGGATAAACCGAAGTAAT
* *
13056016 AATTTGACACCCAATGTCTCATCGGTTAAACCGAAGTAA
1 AATTTGACACCCAATGCCTCATCGGATAAACCGAAGTAA
13056055 ATTGGCACCC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.28
Consensus pattern (40 bp):
AATTTGACACCCAATGCCTCATCGGATAAACCGAAGTAAT
Found at i:13056237 original size:17 final size:16
Alignment explanation
Indices: 13056199--13056256 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
13056189 TATTCATTTC
13056199 AATTCAA-ATAATCAATA
1 AATTCAATATAAT--ATA
* *
13056216 TATTCAATATATATATC
1 AATTCAATATA-ATATA
13056233 AATTCAAT-TAATATA
1 AATTCAATATAATATA
13056248 AATTCAATA
1 AATTCAATA
13056257 AATTCATCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
15 12 0.35
16 2 0.06
17 15 0.44
18 3 0.09
19 2 0.06
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTCAATATAATATA
Found at i:13056246 original size:15 final size:17
Alignment explanation
Indices: 13056217--13056256 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
13056207 TAATCAATAT
*
13056217 ATTCAATATATATATCA
1 ATTCAATATATATATAA
13056234 ATTCAAT-TA-ATATAA
1 ATTCAATATATATATAA
13056249 ATTCAATA
1 ATTCAATA
13056257 AATTCATCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTCAATATATATATAA
Found at i:13057057 original size:16 final size:15
Alignment explanation
Indices: 13057032--13057066 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
13057022 TTCTTTCTTT
13057032 TATTATTATATAATA
1 TATTATTATATAATA
13057047 TATTATATATATAATA
1 TATTAT-TATATAATA
13057063 TATT
1 TATT
13057067 TACTTAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTATTATATAATA
Found at i:13058413 original size:17 final size:17
Alignment explanation
Indices: 13058368--13058418 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
13058358 ATTATAATAT
** *
13058368 TTTATTAATTTTAAATA
1 TTTATTAATAATAAAAA
*
13058385 TTT-TTAAAAATAAAAA
1 TTTATTAATAATAAAAA
13058401 TTTATTAATAATATAAAA
1 TTTATTAATAATA-AAAA
13058419 AATTGAGCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 12 0.44
17 11 0.41
18 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTATTAATAATAAAAA
Found at i:13061776 original size:28 final size:29
Alignment explanation
Indices: 13061723--13061806 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 29
13061713 CACTTTGTGC
*
13061723 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGAAGGATTATAT
*
13061752 TATTCTGGTTTG-TTTGGAAGGATTATAT
1 TATTCTGGTGTGTTTTGGAAGGATTATAT
* *
13061780 GATACTGGTGTGTTTTGG-AGGATTATA
1 TATTCTGGTGTGTTTTGGAAGGATTATA
13061807 CTGGTGTGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
28 33 0.67
29 16 0.33
ACGTcount: A:0.20, C:0.04, G:0.29, T:0.48
Consensus pattern (29 bp):
TATTCTGGTGTGTTTTGGAAGGATTATAT
Found at i:13062060 original size:21 final size:22
Alignment explanation
Indices: 13062036--13062096 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
13062026 GTCGTATTTT
13062036 AGGCACCTTGTGTGTCGTAT-C
1 AGGCACCTTGTGTGTCGTATCC
* *
13062057 AGGCACCTCGTGTATCGT-TCC
1 AGGCACCTTGTGTGTCGTATCC
*
13062078 AGGCA-CTTATGTGTCGTAT
1 AGGCACCTTGTGTGTCGTAT
13062097 ACTGATCAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 10 0.30
21 23 0.70
ACGTcount: A:0.16, C:0.25, G:0.26, T:0.33
Consensus pattern (22 bp):
AGGCACCTTGTGTGTCGTATCC
Found at i:13063336 original size:46 final size:48
Alignment explanation
Indices: 13063178--13063346 Score: 152
Period size: 46 Copynumber: 3.5 Consensus size: 48
13063168 TGGTTGGACC
*
13063178 ATGGCATCA-A-TATGATATGTGA-TCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTC-GTGTAAGACCATAGCTGGGCT
* * * * *
13063224 ATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATCAGAG---TGTGA-TATGTGATT-CGTGTAAGACCATAGCTGGGCT
*
13063277 ATGGCATC--AGTGTGATATGTGATTCGTGTAAGACCATGGCTGGGCT
1 ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
* *
13063323 ATGGC-TACGGTGTGTGATATGTGA
1 ATGGCAT-CAGAGTGTGATATGTGA
13063347 CTATGTACAA
Statistics
Matches: 99, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
45 1 0.01
46 33 0.33
47 8 0.08
48 18 0.18
51 6 0.06
52 5 0.05
53 27 0.27
54 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (48 bp):
ATGGCATCAGAGTGTGATATGTGATTCGTGTAAGACCATAGCTGGGCT
Found at i:13102817 original size:14 final size:15
Alignment explanation
Indices: 13102800--13102832 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
13102790 CAATGAGAAC
*
13102800 AACAAAGACAAAA-A
1 AACAAACACAAAAGA
13102814 AACAAACACAAAAGA
1 AACAAACACAAAAGA
13102829 AACA
1 AACA
13102833 TTTTTAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.76, C:0.18, G:0.06, T:0.00
Consensus pattern (15 bp):
AACAAACACAAAAGA
Found at i:13103278 original size:17 final size:17
Alignment explanation
Indices: 13103256--13103288 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13103246 AAGCTTATTG
13103256 TTTTTTTAGTTTTTTAA
1 TTTTTTTAGTTTTTTAA
*
13103273 TTTTTTTATTTTTTTA
1 TTTTTTTAGTTTTTTA
13103289 CTTAGTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTTTAGTTTTTTAA
Found at i:13105763 original size:13 final size:12
Alignment explanation
Indices: 13105747--13105789 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
13105737 ATAATATATT
*
13105747 ATTTTATAATTTT
1 ATTTT-TAATTTA
*
13105760 ATTTTTTATTTA
1 ATTTTTAATTTA
13105772 ATATTTTAATTTA
1 AT-TTTTAATTTA
13105785 ATTTT
1 ATTTT
13105790 AATAATGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTTTAATTTA
Found at i:13106928 original size:3 final size:3
Alignment explanation
Indices: 13106920--13106951 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13106910 AAGAGGTCTC
13106920 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13106952 ATATGTGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:13111434 original size:32 final size:32
Alignment explanation
Indices: 13111393--13111457 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
13111383 AAGAAGCAAA
13111393 ACCTACTACGAACACTGAGAATGCGGTAAAGG
1 ACCTACTACGAACACTGAGAATGCGGTAAAGG
13111425 ACCTACTACGAACACTGAGAATGCGGTAAAGG
1 ACCTACTACGAACACTGAGAATGCGGTAAAGG
13111457 A
1 A
13111458 AGAAACAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.15
Consensus pattern (32 bp):
ACCTACTACGAACACTGAGAATGCGGTAAAGG
Found at i:13113516 original size:19 final size:20
Alignment explanation
Indices: 13113476--13113519 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
13113466 GTTAATATTT
*
13113476 TTAAAATTTTTATTTTGTAA
1 TTAAAATTTTTATTTTGAAA
*
13113496 TTAAAATTTTTGTTTT-AAA
1 TTAAAATTTTTATTTTGAAA
13113515 TTAAA
1 TTAAA
13113520 TTGTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TTAAAATTTTTATTTTGAAA
Found at i:13115362 original size:15 final size:15
Alignment explanation
Indices: 13115342--13115398 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
13115332 ATTCAATATT
13115342 AATATTTTAATAATA
1 AATATTTTAATAATA
*
13115357 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
13115376 AATATATTAATAATA
1 AATATTTTAATAATA
13115391 AATATTTT
1 AATATTTT
13115399 GTAATATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 18 0.53
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:13120629 original size:16 final size:16
Alignment explanation
Indices: 13120593--13120632 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
13120583 GAATTACATT
*
13120593 TTAATTATATTATTATA
1 TTAATT-TATAATTATA
*
13120610 TTAATTTATAATTTTA
1 TTAATTTATAATTATA
13120626 TTAATTT
1 TTAATTT
13120633 CAAAAAGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATTTATAATTATA
Found at i:13126721 original size:4 final size:4
Alignment explanation
Indices: 13126707--13126749 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
13126697 TCTACTTCGT
* * *
13126707 TTTA CTTA TTTA TTTA TTTA TTTTG TTTA ATTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TT
13126750 ATTAATTCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:13127218 original size:8 final size:7
Alignment explanation
Indices: 13127205--13127258 Score: 51
Period size: 8 Copynumber: 7.7 Consensus size: 7
13127195 TATATGTGTT
13127205 TTATTTA
1 TTATTTA
13127212 CTTATTTA
1 -TTATTTA
13127220 TTATTTTA
1 TTA-TTTA
13127228 TT-TTTA
1 TTATTTA
*
13127234 TGATATTA
1 TTAT-TTA
13127242 TTA-TTA
1 TTATTTA
13127248 TTA-TTA
1 TTATTTA
13127254 TTATT
1 TTATT
13127259 ATCATCATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 17 0.43
7 5 0.12
8 18 0.45
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (7 bp):
TTATTTA
Found at i:13127243 original size:3 final size:3
Alignment explanation
Indices: 13127217--13127260 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
13127207 ATTTACTTAT
* *
13127217 TTA TTA TT- TTA TTT TTA TGA -TA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13127261 CATCATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 3 0.09
3 32 0.91
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13128017 original size:136 final size:137
Alignment explanation
Indices: 13127773--13128022 Score: 312
Period size: 136 Copynumber: 1.8 Consensus size: 137
13127763 GAAAATCGGT
* * * *
13127773 AATATTTCGCATTTAGGAAATTCGAGAAATCGTACTCTAACTTATGGGGTCTCGATTTTCTCGTT
1 AATATTCCGCATTTAGGAAACTCGAGAAATCGTACCCTAACTTACGGGGTCTCGATTTTCTCGTT
*** *
13127838 AAACCTAAATAGTCGAATATCCCTTCAAATTTCAAAATACATGA-ATTTTAATTTTAAACAAAAA
66 AAACCTAAATAAAAGAATATCCCTTCAAATTTCAAAACACATGAGATTTTAATTTTAAACAAAAA
13127902 TAAATGC
131 TAAATGC
* *
13127909 AATATTCCGTATTTA-GAAACTCGAGAAAGTCGTGCCCTAACTTACGGGGTCTCGATTCTTTCTC
1 AATATTCCGCATTTAGGAAACTCGAGAAA-TCGTACCCTAACTTACGGGGTCTCGA-T-TTTCTC
** *
13127973 GTTGGATCTAAATAAAAGAATAT-CCTTCTAAA-TT-AAAACACATGAGATTT
63 GTTAAACCTAAATAAAAGAATATCCCTTC-AAATTTCAAAACACATGAGATTT
13128023 CAAAAATAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
135 12 0.12
136 46 0.48
137 12 0.12
138 26 0.27
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (137 bp):
AATATTCCGCATTTAGGAAACTCGAGAAATCGTACCCTAACTTACGGGGTCTCGATTTTCTCGTT
AAACCTAAATAAAAGAATATCCCTTCAAATTTCAAAACACATGAGATTTTAATTTTAAACAAAAA
TAAATGC
Found at i:13132669 original size:1 final size:1
Alignment explanation
Indices: 13132663--13132725 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
13132653 TTCACTTCCT
* * * * * * * *
13132663 AAAAAAAACAAAAAAAACAAAAAAAAACAAAAAAACAAAAGAAAAACAAAAAAGAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13132726 GAACAAAGAA
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.87, C:0.08, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:13132687 original size:19 final size:19
Alignment explanation
Indices: 13132663--13132738 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 19
13132653 TTCACTTCCT
13132663 AAAAAAAACAAAAAAAACA
1 AAAAAAAACAAAAAAAACA
13132682 AAAAAAAAC-AAAAAAACA
1 AAAAAAAACAAAAAAAACA
13132700 AAAGAAAAACAAAAAAGAA-A
1 AAA-AAAAACAAAAAA-AACA
*
13132720 AGAAAAGAACAAAGAAAAA
1 A-AAAAAAACAAA-AAAAA
13132739 GAAGAGAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
18 12 0.24
19 15 0.29
20 17 0.33
21 7 0.14
ACGTcount: A:0.86, C:0.08, G:0.07, T:0.00
Consensus pattern (19 bp):
AAAAAAAACAAAAAAAACA
Found at i:13132720 original size:23 final size:22
Alignment explanation
Indices: 13132663--13132738 Score: 70
Period size: 18 Copynumber: 3.5 Consensus size: 22
13132653 TTCACTTCCT
*
13132663 AAAAAAAACAAAAAAAACAAAA-
1 AAAAACAA-AAAAAAAACAAAAG
13132685 AAAAAC---AAAAAAACAAAAG
1 AAAAACAAAAAAAAAACAAAAG
*
13132704 AAAAACAAAAAAGAAAAGAAAAG
1 AAAAACAAAAAA-AAAACAAAAG
*
13132727 AACAAAGAAAAA
1 AA-AAACAAAAA
13132739 GAAGAGAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 12 0.27
19 6 0.13
22 8 0.18
23 11 0.24
24 8 0.18
ACGTcount: A:0.86, C:0.08, G:0.07, T:0.00
Consensus pattern (22 bp):
AAAAACAAAAAAAAAACAAAAG
Found at i:13132733 original size:7 final size:6
Alignment explanation
Indices: 13132666--13132751 Score: 52
Period size: 6 Copynumber: 14.2 Consensus size: 6
13132656 ACTTCCTAAA
* * * * * *
13132666 AAAAAC AAAAAA AACAAAA AAAAAC AAAAAA ACAAAAG AAAAAC AAAAA-
1 AAAAAG AAAAAG AA-AAAG AAAAAG AAAAAG A-AAAAG AAAAAG AAAAAG
*
13132715 AGAAAAG -AAAAG AACAAAG AAAAAG -AAGAG AAAAAG A
1 A-AAAAG AAAAAG AA-AAAG AAAAAG AAAAAG AAAAAG A
13132752 GGCCGTCAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
5 10 0.15
6 39 0.59
7 17 0.26
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:13132739 original size:13 final size:12
Alignment explanation
Indices: 13132665--13132749 Score: 62
Period size: 13 Copynumber: 6.4 Consensus size: 12
13132655 CACTTCCTAA
*
13132665 AAAAAACAAAAAA
1 AAAAAA-AAAAAG
*
13132678 AACAAAAAAAAAC
1 AA-AAAAAAAAAG
13132691 AAAAAAACAAAAG
1 AAAAAAA-AAAAG
13132704 AAAAACAAAAAAG
1 AAAAA-AAAAAAG
* *
13132717 AAAAGAAAAGAAC
1 AAAA-AAAAAAAG
13132730 AAAGAAAAAGAAGAG
1 AAA-AAAAA-AA-AG
13132745 AAAAA
1 AAAAA
13132750 GAGGCCGTCA
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
12 5 0.08
13 39 0.66
14 11 0.19
15 4 0.07
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:13132739 original size:18 final size:17
Alignment explanation
Indices: 13132675--13132751 Score: 59
Period size: 18 Copynumber: 4.4 Consensus size: 17
13132665 AAAAAACAAA
* *
13132675 AAAAACAAAAA-AAAAC
1 AAAAAGAAAAAGAAAAG
*
13132691 AAAAAAACAAAAGAAAA-
1 AAAAAGA-AAAAGAAAAG
*
13132708 ACAAAAAAGAAAAGAAAAG
1 A-AAAAGA-AAAAGAAAAG
*
13132727 AACAAAGAAAAAGAAGAG
1 AA-AAAGAAAAAGAAAAG
13132745 AAAAAGA
1 AAAAAGA
13132752 GGCCGTCAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
16 6 0.12
17 10 0.19
18 31 0.60
19 5 0.10
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAGAAAAG
Found at i:13132739 original size:23 final size:23
Alignment explanation
Indices: 13132699--13132748 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
13132689 ACAAAAAAAC
13132699 AAAAGAAAAACAAAAAAGAAAAG
1 AAAAGAAAAACAAAAAAGAAAAG
* *
13132722 AAAAGAACAAA-GAAAAAGAAGAG
1 AAAAGAA-AAACAAAAAAGAAAAG
13132745 AAAA
1 AAAA
13132749 AGAGGCCGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (23 bp):
AAAAGAAAAACAAAAAAGAAAAG
Found at i:13133983 original size:18 final size:18
Alignment explanation
Indices: 13133962--13134002 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
13133952 TGAAGAGAGG
13133962 ATGAGAGAATGTTGTAGA
1 ATGAGAGAATGTTGTAGA
13133980 ATGAGAGAATGTTGTAGA
1 ATGAGAGAATGTTGTAGA
13133998 ATGAG
1 ATGAG
13134003 GGATGTTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.34, T:0.27
Consensus pattern (18 bp):
ATGAGAGAATGTTGTAGA
Found at i:13136104 original size:143 final size:143
Alignment explanation
Indices: 13135846--13136110 Score: 343
Period size: 143 Copynumber: 1.9 Consensus size: 143
13135836 AAGATGGCGG
* * * *
13135846 ATCTTATCTTTCTGAAGTTGCAGTGAAGCAGATTGAGGCCATCAGCCTTATCTCCCTGAAGTTGC
1 ATCTTATCTTTCTAAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
* * * ** *
13135911 AGCGGAGCAGACTGAAGACAGTAAACATTGTTTCCCTGATGCCGCAGTGGAACAGATTAAAGCTA
66 AGCGAAACAGACTAAAGACAGTAAACATCATTTCCCTGAAGCCGCAGTGGAACAGATTAAAGCTA
13135976 CAAATTATAGCGA
131 CAAATTATAGCGA
* *
13135989 ATCTTATCTTTCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCTTAAAGTTGC
1 ATCTTATCTTTCTAAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
* * * * ** *
13136054 TGCGAAATAGACTAAAGATAGTGAATC-TCATTTCCCTGAAGTTGCAGTGGAGCAGAT
66 AGCGAAACAGACTAAAGACAGT-AAACATCATTTCCCTGAAGCCGCAGTGGAACAGAT
13136111 GGAAGCTATG
Statistics
Matches: 102, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
143 99 0.97
144 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (143 bp):
ATCTTATCTTTCTAAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC
AGCGAAACAGACTAAAGACAGTAAACATCATTTCCCTGAAGCCGCAGTGGAACAGATTAAAGCTA
CAAATTATAGCGA
Found at i:13136359 original size:143 final size:143
Alignment explanation
Indices: 13136132--13136508 Score: 540
Period size: 143 Copynumber: 2.6 Consensus size: 143
13136122 GTTACGAACC
* * * * *
13136132 TTATCTCCCTAAAGTTACAGTGGAGGAGACTAAAGATAGTGAATCTTATTTCATTGACGTTGCAA
1 TTATCTCCCTAAAGTTACAGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCTTGACGTTGCAG
* * *
13136197 TGAAATAGATTAAAACTACAAATTATGGCGGATCTTAT-CTTCTTGAAGTTGCAGTGAAGCAGAT
66 TGGAATAGATTAAAGCTACAAATTATGGCAGATCTTATCCTT-TTGAAGTTGCAGTGAAGCAGAT
* *
13136261 TGAAGCCACCAGCT
130 TGAAGCCACCAACA
* * * *
13136275 TTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGATAGTGAATCTTATTTCCTTGACGTTGTAG
1 TTATCTCCCTAAAGTTACAGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCTTGACGTTGCAG
* * *
13136340 TGGAATAGATTAAAGCTACAAATTATGGCAGATTTTATCCTTTTGAAGTTGCAGTGGAGTAGATT
66 TGGAATAGATTAAAGCTACAAATTATGGCAGATCTTATCCTTTTGAAGTTGCAGTGAAGCAGATT
13136405 GAAGCCACCAACA
131 GAAGCCACCAACA
* * **
13136418 TTATCTCCCTAAAGTTACAGCGGAGCAGATTGAAGAGAACGAATCTTATTTCCTTGACGTTGCAG
1 TTATCTCCCTAAAGTTACAGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCTTGACGTTGCAG
*
13136483 TGGAACAGATTAAAGCTACAAATTAT
66 TGGAATAGATTAAAGCTACAAATTAT
13136509 AGAAATCTTA
Statistics
Matches: 207, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
143 204 0.99
144 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (143 bp):
TTATCTCCCTAAAGTTACAGCGGAGCAGACTGAAGATAGTGAATCTTATTTCCTTGACGTTGCAG
TGGAATAGATTAAAGCTACAAATTATGGCAGATCTTATCCTTTTGAAGTTGCAGTGAAGCAGATT
GAAGCCACCAACA
Found at i:13138050 original size:4 final size:4
Alignment explanation
Indices: 13138036--13138082 Score: 58
Period size: 4 Copynumber: 11.5 Consensus size: 4
13138026 TCTACTTCGT
* * *
13138036 TTTA CTTA TTTA TTTA TTTA TTTA TTTTG TTTA GTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TT
13138083 ATTAATTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
4 33 0.92
5 3 0.08
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:13138586 original size:3 final size:3
Alignment explanation
Indices: 13138560--13138629 Score: 63
Period size: 3 Copynumber: 24.0 Consensus size: 3
13138550 ATTTACTTAT
* * *
13138560 TTA TTA TT- TTA TTT TTA TGA -TA TTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
13138606 TTA TAA TTA TAA TTT TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
13138630 AAAAAAACAA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
2 3 0.06
3 48 0.94
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:13139175 original size:17 final size:17
Alignment explanation
Indices: 13139155--13139206 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
13139145 TCGCATTTAG
13139155 AAAATTCGAGAAATCGT
1 AAAATTCGAGAAATCGT
13139172 AAAATTCGAGAAATCGT
1 AAAATTCGAGAAATCGT
**
13139189 AAAATTAAAGAAATCGT
1 AAAATTCGAGAAATCGT
13139206 A
1 A
13139207 CCCTAACTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.52, C:0.10, G:0.15, T:0.23
Consensus pattern (17 bp):
AAAATTCGAGAAATCGT
Found at i:13142743 original size:21 final size:20
Alignment explanation
Indices: 13142686--13142746 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
13142676 TCGGGATTCC
13142686 GTTTAGCACTTGTGTGCTTCA
1 GTTTAGCACTT-TGTGCTTCA
* * *
13142707 GTTT-GC-CTTCGGGCTTCT
1 GTTTAGCACTTTGTGCTTCA
13142725 GTTTAGCACTTATGTGCTTCA
1 GTTTAGCACTT-TGTGCTTCA
13142746 G
1 G
13142747 CTAGACTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
18 10 0.32
19 5 0.16
20 5 0.16
21 11 0.35
ACGTcount: A:0.11, C:0.21, G:0.25, T:0.43
Consensus pattern (20 bp):
GTTTAGCACTTTGTGCTTCA
Found at i:13142759 original size:39 final size:39
Alignment explanation
Indices: 13142662--13142762 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
13142652 GCTCTGATGA
* *
13142662 GCTTCAGTTAGCCTTCGGGATTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
13142701 GCTTCAGTTTGCCTTCGGGCTTCTGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
13142740 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
13142763 AGATCACGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.12, C:0.25, G:0.25, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:13147931 original size:10 final size:10
Alignment explanation
Indices: 13147912--13147971 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
13147902 TGAAATTCTA
13147912 AAAGATAAAT
1 AAAGATAAAT
13147922 ACAA-ATAAAT
1 A-AAGATAAAT
*
13147932 AAAGATAATT
1 AAAGATAAAT
13147942 AAAGATAAAT
1 AAAGATAAAT
13147952 AAAGATAAAT
1 AAAGATAAAT
13147962 GAAA-ATAAAT
1 -AAAGATAAAT
13147972 CCTAGAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:13149479 original size:5 final size:5
Alignment explanation
Indices: 13149461--13149516 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
13149451 ATCAGCATCC
*
13149461 AAAAA AAAAT -AAAT AAAAT --AAT AAATAGT AAAAT -AAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-A-T AAAAT AAAAT AAAAT AAAAT
13149509 -AAAT AAAA
1 AAAAT AAAA
13149517 AATTAGGTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
3 3 0.07
4 12 0.28
5 22 0.51
6 2 0.05
7 4 0.09
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:13149516 original size:9 final size:9
Alignment explanation
Indices: 13149466--13149515 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
13149456 CATCCAAAAA
13149466 AAAATAAAT
1 AAAATAAAT
13149475 AAAAT-AAT
1 AAAATAAAT
*
13149483 -AAAT-AGT
1 AAAATAAAT
13149490 AAAATAAAT
1 AAAATAAAT
13149499 AAAATAAA-
1 AAAATAAAT
13149507 ATAAATAAA
1 A-AAATAAA
13149516 AAATTAGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
7 6 0.17
8 8 0.22
9 22 0.61
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (9 bp):
AAAATAAAT
Found at i:13149517 original size:24 final size:22
Alignment explanation
Indices: 13149465--13149517 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 22
13149455 GCATCCAAAA
13149465 AAAAATAAATAAAATAATAAAT
1 AAAAATAAATAAAATAATAAAT
13149487 AGTAAAATAAATAAAATAAAATAAAT
1 A--AAAATAAATAAAAT--AATAAAT
13149513 AAAAA
1 AAAAA
13149518 ATTAGGTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 1 0.04
24 18 0.67
26 8 0.30
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAAATAAATAAAATAATAAAT
Found at i:13149674 original size:20 final size:20
Alignment explanation
Indices: 13149649--13149690 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
13149639 ACATCCACCA
13149649 TATTTAGGTTTAATCGTCCT
1 TATTTAGGTTTAATCGTCCT
13149669 TATTTAGGTTTAATCGTCCT
1 TATTTAGGTTTAATCGTCCT
13149689 TA
1 TA
13149691 CGCCTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (20 bp):
TATTTAGGTTTAATCGTCCT
Found at i:13153260 original size:20 final size:20
Alignment explanation
Indices: 13153237--13153276 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13153227 TGAAATTCTA
*
13153237 AAAGATAAATACAAATAAAT
1 AAAGATAAATAAAAATAAAT
*
13153257 AAAGATAATTAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
13153277 CCTAGAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:13156398 original size:3 final size:3
Alignment explanation
Indices: 13156390--13156438 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
13156380 ATTATAAATA
* * * *
13156390 TAT TAT TAT TGT TAT TAT TGT TAT TAT TGT TAT TAT TGT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13156437 TA
1 TA
13156439 CAAATTAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:13156406 original size:9 final size:9
Alignment explanation
Indices: 13156392--13156434 Score: 86
Period size: 9 Copynumber: 4.8 Consensus size: 9
13156382 TATAAATATA
13156392 TTATTATTG
1 TTATTATTG
13156401 TTATTATTG
1 TTATTATTG
13156410 TTATTATTG
1 TTATTATTG
13156419 TTATTATTG
1 TTATTATTG
13156428 TTATTAT
1 TTATTAT
13156435 ATTACAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.67
Consensus pattern (9 bp):
TTATTATTG
Found at i:13158041 original size:18 final size:18
Alignment explanation
Indices: 13158020--13158064 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
13158010 ACTGCTACGA
* * *
13158020 AATAATTGACTGTTATTG
1 AATAAATGACTGATACTG
13158038 AATAAATGACTGATACTG
1 AATAAATGACTGATACTG
13158056 AATAAATGA
1 AATAAATGA
13158065 ATATTACTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (18 bp):
AATAAATGACTGATACTG
Found at i:13161248 original size:39 final size:39
Alignment explanation
Indices: 13161190--13161266 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
13161180 TGGGGTTTCA
* * *
13161190 GTTTAGCTCTGATGAGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTGATGAGCTTCAGCTAGACTTCGGGCTTCC
* *
13161229 GTTTAGCACTTATGTGCTTCAGCTAGACTTCGGGCTTC
1 GTTTAGCACTGATGAGCTTCAGCTAGACTTCGGGCTTC
13161267 AGACCACGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.36
Consensus pattern (39 bp):
GTTTAGCACTGATGAGCTTCAGCTAGACTTCGGGCTTCC
Found at i:13168567 original size:1 final size:1
Alignment explanation
Indices: 13168561--13168700 Score: 262
Period size: 1 Copynumber: 140.0 Consensus size: 1
13168551 CGGGTGCTGG
* *
13168561 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTATTGTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13168626 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13168691 TTTTTTTTTT
1 TTTTTTTTTT
13168701 GACCCTAGCC
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
1 135 1.00
ACGTcount: A:0.01, C:0.00, G:0.01, T:0.99
Consensus pattern (1 bp):
T
Found at i:13170586 original size:40 final size:40
Alignment explanation
Indices: 13170531--13170754 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
13170521 TATTCGGATG
13170531 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
13170571 ATATCCGGGCTAAGTCCCGAAGGCATTTTTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
13170614 ATACCCGGGCTAACTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
13170654 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
13170694 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
13170734 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
13170755 ATACTTGGGT
Statistics
Matches: 161, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 112 0.70
41 1 0.01
43 35 0.22
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:13170674 original size:83 final size:80
Alignment explanation
Indices: 13170535--13170754 Score: 293
Period size: 83 Copynumber: 2.7 Consensus size: 80
13170525 CGGATGATAT
* **
13170535 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
13170600 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
* *
13170618 CCGGGCTAACTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
13170683 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
13170698 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
13170755 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
79 16 0.13
80 44 0.35
81 2 0.02
83 63 0.50
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:13173288 original size:20 final size:20
Alignment explanation
Indices: 13173263--13173304 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
13173253 ATATTGCAAT
*
13173263 TATAGAAGCTATAATTGGCA
1 TATAGAAGCTATAATTGACA
13173283 TATAGAAGCTATAATTGACA
1 TATAGAAGCTATAATTGACA
13173303 TA
1 TA
13173305 CTTGCATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.31
Consensus pattern (20 bp):
TATAGAAGCTATAATTGACA
Found at i:13187539 original size:18 final size:18
Alignment explanation
Indices: 13187478--13187540 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
13187468 GCTCTGATGA
*
13187478 GCTTCAGTTAGCCTTCGG
1 GCTTCAGTTAGACTTCGG
* * *
13187496 GCTTCCGTTAGCACTTATGT
1 GCTTCAGTTAG-ACTT-CGG
*
13187516 GCTTCAGCTAGACTTCGG
1 GCTTCAGTTAGACTTCGG
13187534 GCTTCAG
1 GCTTCAG
13187541 ACCACGATGT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
18 18 0.51
19 7 0.20
20 10 0.29
ACGTcount: A:0.14, C:0.27, G:0.25, T:0.33
Consensus pattern (18 bp):
GCTTCAGTTAGACTTCGG
Found at i:13197053 original size:40 final size:40
Alignment explanation
Indices: 13196993--13197216 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
13196983 TATTCTGATG
* *
13196993 ATATTCGGGCTAAGTCCCGAAGGTATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
13197033 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
13197076 ATACCCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
13197116 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
13197156 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
13197196 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
13197217 ATACTTGGGT
Statistics
Matches: 162, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 13 0.08
40 112 0.69
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:13197137 original size:83 final size:80
Alignment explanation
Indices: 13196998--13197216 Score: 298
Period size: 83 Copynumber: 2.7 Consensus size: 80
13196988 TGATGATATT
* * **
13196998 CGGGCTAAGTCCCGAAGGTATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
13197063 GCGAGTAGTTG-CTATACC
66 GC---TAG-TGACTATACC
* * *
13197081 CGGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
1 CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
*
13197146 GCTAGTGACTATATC
66 GCTAGTGACTATACC
* *
13197161 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATATCC-GGCTAAATCCCGAAG
1 CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAG
13197217 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 16 0.13
80 47 0.38
83 61 0.49
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
GCTAGTGACTATACC
Found at i:13199885 original size:39 final size:39
Alignment explanation
Indices: 13199837--13199938 Score: 125
Period size: 39 Copynumber: 2.5 Consensus size: 39
13199827 TCAACTATGG
*
13199837 TCTTACACATCTTCACATAAT-GATGCCATAGCCCAGCTA
1 TCTTACACATATTCACAT-ATCGATGCCATAGCCCAGCTA
*
13199876 TCTTACACATATTCATATATCGATGCCATAGCCCAGCTA
1 TCTTACACATATTCACATATCGATGCCATAGCCCAGCTA
* *
13199915 TGGTCTTACACGTAATCACATATC
1 ---TCTTACACATATTCACATATC
13199939 ACATATCGAT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.04
39 34 0.63
42 18 0.33
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.30
Consensus pattern (39 bp):
TCTTACACATATTCACATATCGATGCCATAGCCCAGCTA
Found at i:13200067 original size:47 final size:46
Alignment explanation
Indices: 13199897--13200064 Score: 210
Period size: 47 Copynumber: 3.6 Consensus size: 46
13199887 TTCATATATC
* * *
13199897 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATAT
1 GATGCCATATCCCAGATATGGTCTTACACGT-ATCACATATCACA-CT
* * * *
13199945 CGATGCCATAACCCAGCTATGGTCTTACACGAATCACATATCTCACT
1 -GATGCCATATCCCAGATATGGTCTTACACGTATCACATATCACACT
* * *
13199992 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACT
1 GATGCCATATCCCAGATATGGTCTTACAC-GTATCACATATCACACT
13200039 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATATCCCAGATATGGTCTTA
13200065 TACGGAAATC
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
46 26 0.24
47 40 0.37
48 12 0.11
49 29 0.27
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (46 bp):
GATGCCATATCCCAGATATGGTCTTACACGTATCACATATCACACT
Found at i:13200121 original size:31 final size:31
Alignment explanation
Indices: 13200086--13200203 Score: 155
Period size: 31 Copynumber: 3.8 Consensus size: 31
13200076 CTTGTCACTT
* * *
13200086 GTAGCTGAAACTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
13200117 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
13200148 GTAGCCGGAGCAACCACTTTTCACTGACCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
13200179 GTAGCAGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
13200204 TGTCATTTAT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:13200278 original size:50 final size:51
Alignment explanation
Indices: 13200186--13200307 Score: 201
Period size: 50 Copynumber: 2.4 Consensus size: 51
13200176 CAGGTAGCAG
* *
13200186 AAGCTACCACTTTTCACTTGTCATTTATCCTTGATCAGATAAGTGTAGCCA
1 AAGCTATCACTTATCACTTGTCATTTATCCTTGATCAGATAAGTGTAGCCA
* *
13200237 AAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCATTTATCCTTGATCAGATAAGTGTAGCCA
13200287 AAGCTATCACTTATCACTTGT
1 AAGCTATCACTTATCACTTGT
13200308 TGCCATGGTC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
50 48 0.73
51 18 0.27
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (51 bp):
AAGCTATCACTTATCACTTGTCATTTATCCTTGATCAGATAAGTGTAGCCA
Found at i:13202513 original size:20 final size:22
Alignment explanation
Indices: 13202467--13202517 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
13202457 AGATATAAAT
*
13202467 GTTTTTAAAATAATAATTGTTA
1 GTTTTTAAAATAAAAATTGTTA
13202489 GTTTTTAAAA-AAAAA-TGTTTA
1 GTTTTTAAAATAAAAATTG-TTA
13202510 -TTTTTAAA
1 GTTTTTAAA
13202518 TATTTTCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 10 0.37
21 7 0.26
22 10 0.37
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (22 bp):
GTTTTTAAAATAAAAATTGTTA
Found at i:13204667 original size:19 final size:19
Alignment explanation
Indices: 13204643--13204681 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
13204633 CTCAGCAGTA
13204643 AGTTTTAATAAAAATGTTT
1 AGTTTTAATAAAAATGTTT
13204662 AGTTTTAATAAAAATGTTT
1 AGTTTTAATAAAAATGTTT
13204681 A
1 A
13204682 CTCTAATCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (19 bp):
AGTTTTAATAAAAATGTTT
Done.