Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 55 of 332
Found at i:16144313 original size:20 final size:20
Alignment explanation
Indices: 16144277--16144314 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16144267 CTGCTCAAGG
*
16144277 GAAGCCGATTGATCCATTTA
1 GAAGCCGATTCATCCATTTA
16144297 GAAGCCCGATTCA-CCATT
1 GAAG-CCGATTCATCCATT
16144315 AAGACTGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (20 bp):
GAAGCCGATTCATCCATTTA
Found at i:16145989 original size:42 final size:41
Alignment explanation
Indices: 16145939--16146084 Score: 107
Period size: 42 Copynumber: 3.4 Consensus size: 41
16145929 TCGAGGCCTG
16145939 TGTCCTAGACTGGGTCTTACACAAAATCAGATACGATGCCAA
1 TGTCCTAGACT-GGTCTTACACAAAATCAGATACGATGCCAA
* * **
16145981 TGTCCTAGACATGGTCTTATACATCAATATCA-AT-CGAGGCCTG
1 TGTCCTAGAC-TGGTC-T-TACA-CAAAATCAGATACGATGCCAA
* ** ** *
16146024 TGTCCCAGACACAGTCTTACATGAAATCAGATACGATGCCGA
1 TGTCCTAGAC-TGGTCTTACACAAAATCAGATACGATGCCAA
* *
16146066 TGTCCCAAACATGGTCTTA
1 TGTCCTAGAC-TGGTCTTA
16146085 TACGATGTCT
Statistics
Matches: 82, Mismatches: 16, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
40 5 0.06
41 6 0.07
42 37 0.45
43 21 0.26
44 6 0.07
45 7 0.09
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (41 bp):
TGTCCTAGACTGGTCTTACACAAAATCAGATACGATGCCAA
Found at i:16146051 original size:85 final size:85
Alignment explanation
Indices: 16145928--16146087 Score: 239
Period size: 85 Copynumber: 1.9 Consensus size: 85
16145918 GTAACTTAAT
* *** * *
16145928 ATCGAGGCCTGTGTCCTAGACTGGGTCTTACACAAAATCAGATACGATGCCAATGTCCTAGACAT
1 ATCGAGGCCTGTGTCCCAGACACAGTCTTACACAAAATCAGATACGATGCCAATGTCCCAAACAT
16145993 GGTCTTATACATCAATATCA
66 GGTCTTATACATCAATATCA
** *
16146013 ATCGAGGCCTGTGTCCCAGACACAGTCTTACATGAAATCAGATACGATGCCGATGTCCCAAACAT
1 ATCGAGGCCTGTGTCCCAGACACAGTCTTACACAAAATCAGATACGATGCCAATGTCCCAAACAT
16146078 GGTCTTATAC
66 GGTCTTATAC
16146088 GATGTCTCAG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 66 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (85 bp):
ATCGAGGCCTGTGTCCCAGACACAGTCTTACACAAAATCAGATACGATGCCAATGTCCCAAACAT
GGTCTTATACATCAATATCA
Found at i:16152010 original size:42 final size:42
Alignment explanation
Indices: 16151825--16152012 Score: 114
Period size: 42 Copynumber: 4.4 Consensus size: 42
16151815 CAACTCTGAC
* * * * **
16151825 GTCCCAAACGTGGTCTTACATGTAACTCAATATCGATGCCTCT
1 GTCCCAAACATGGTCTTACACGCAAATCAATA-CGATGCCGAT
* * * *
16151868 GTCCTAGACAGGGTCTTACACG-AAATCAGATACGATGCTGAT
1 GTCCCAAACATGGTCTTACACGCAAATCA-ATACGATGCCGAT
* * * * * *
16151910 GTTCCATACATGGTCATATACGCAAATCTCAAT-CAAGGCCTG-T
1 GTCCCAAACATGGTCTTACACGCAAA--TCAATACGATGCC-GAT
* * * *
16151953 GTCCTAGACACGGTCTTACATG-AAATCAGATACGATGCCGAT
1 GTCCCAAACATGGTCTTACACGCAAATCA-ATACGATGCCGAT
16151995 GTCCCAAACATGGTCTTA
1 GTCCCAAACATGGTCTTA
16152013 TACGATGTCT
Statistics
Matches: 107, Mismatches: 30, Indels: 17
0.69 0.19 0.11
Matches are distributed among these distances:
40 3 0.03
41 3 0.03
42 52 0.49
43 43 0.40
44 3 0.03
45 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (42 bp):
GTCCCAAACATGGTCTTACACGCAAATCAATACGATGCCGAT
Found at i:16158112 original size:28 final size:28
Alignment explanation
Indices: 16158072--16158128 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
16158062 TTGTACTTGG
16158072 ATCCAAAGTGGTAACCCATGGTGAAGGC
1 ATCCAAAGTGGTAACCCATGGTGAAGGC
16158100 ATCCAAAGTGGTAACCCATGGTGAAGGC
1 ATCCAAAGTGGTAACCCATGGTGAAGGC
16158128 A
1 A
16158129 CCTTCTCAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.28, T:0.18
Consensus pattern (28 bp):
ATCCAAAGTGGTAACCCATGGTGAAGGC
Found at i:16163332 original size:34 final size:34
Alignment explanation
Indices: 16163288--16163365 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
16163278 TCTGTACTGT
* *
16163288 TACTGTTACTGAAATAGGCTAAG-GCCTACACTAA
1 TACTGATACTGAAATAGGCTAAGACCCTA-ACTAA
* *
16163322 TACTGATACTGTAATGGGCTAAGACCCTAACTAA
1 TACTGATACTGAAATAGGCTAAGACCCTAACTAA
*
16163356 AACTGA-ACTG
1 TACTGATACTG
16163366 TTATTGATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
33 4 0.11
34 30 0.79
35 4 0.11
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (34 bp):
TACTGATACTGAAATAGGCTAAGACCCTAACTAA
Found at i:16169172 original size:39 final size:40
Alignment explanation
Indices: 16169055--16169239 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
16169045 GCTACTCGTT
*
16169055 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
16169095 CAATTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
16169135 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
16169174 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
* *
16169215 CAAA-GCCTTTGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16169240 CATCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 75 0.62
41 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:16175297 original size:27 final size:27
Alignment explanation
Indices: 16175217--16175304 Score: 140
Period size: 27 Copynumber: 3.3 Consensus size: 27
16175207 CTAGACTCCT
* *
16175217 TTATGTGATAAAATGACTATTTTGCCT
1 TTATGTGGTAAAATGACTATTTTGCCC
16175244 TTATGTGGTAAAATGACTATTTTGCCC
1 TTATGTGGTAAAATGACTATTTTGCCC
*
16175271 TTATGTGGTAAAATGACTGTTTTGCCC
1 TTATGTGGTAAAATGACTATTTTGCCC
*
16175298 CTATGTG
1 TTATGTG
16175305 TTATATGTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (27 bp):
TTATGTGGTAAAATGACTATTTTGCCC
Found at i:16176817 original size:34 final size:34
Alignment explanation
Indices: 16176745--16176817 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
16176735 CTATACTGTT
* * * *
16176745 ACTGTTACTGAAATGGGCTAAGGCCCACATTGAT
1 ACTGATACTGAAATGGGCTAAGGCCCACACTAAA
*
16176779 ACTGATACTGTAATGGGCTAAGGCCCTA-ACTAAA
1 ACTGATACTGAAATGGGCTAAGGCCC-ACACTAAA
16176813 ACTGA
1 ACTGA
16176818 ATTGTTACTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 32 0.97
35 1 0.03
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (34 bp):
ACTGATACTGAAATGGGCTAAGGCCCACACTAAA
Found at i:16185823 original size:20 final size:20
Alignment explanation
Indices: 16185798--16185837 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
16185788 ACTTACCCTT
16185798 AGGTCTTAAGTTTGAAACCC
1 AGGTCTTAAGTTTGAAACCC
16185818 AGGTCTTAAGTTTGAAACCC
1 AGGTCTTAAGTTTGAAACCC
16185838 TTGTGCACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
AGGTCTTAAGTTTGAAACCC
Found at i:16187100 original size:21 final size:21
Alignment explanation
Indices: 16187076--16187151 Score: 100
Period size: 21 Copynumber: 3.6 Consensus size: 21
16187066 AAAATAGGGC
16187076 ACACGCCAGTGTGGAAGGGTA
1 ACACGCCAGTGTGGAAGGGTA
* *
16187097 ACACACCCGTGTGGAAGGGTA
1 ACACGCCAGTGTGGAAGGGTA
*
16187118 ACACACCCA-TGTGGAAGGGTA
1 ACAC-GCCAGTGTGGAAGGGTA
*
16187139 ACACGCCCGTGTG
1 ACACGCCAGTGTG
16187152 ATCATTTTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 2 0.04
21 43 0.91
22 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.33, T:0.14
Consensus pattern (21 bp):
ACACGCCAGTGTGGAAGGGTA
Found at i:16188334 original size:47 final size:48
Alignment explanation
Indices: 16188264--16188488 Score: 157
Period size: 47 Copynumber: 4.8 Consensus size: 48
16188254 TAAGGTGCCA
* *
16188264 ATGCCATATCCCAGATATAGTCTTACACTGGCTCAT-ATCTC-AAGTCG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTCGAAGTCG
* * * * *
16188311 ATGCCATGTCCCAGACATGGTCTTATATTGACT-ATCATGTCGTAG-CTG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTCGAAGTC-G
* ** * *
16188359 ATG-CATGTCCCAGACATGTCTTACACTGGCTTA-CGGCTCGAGGCCG
1 ATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCGAAGTCG
* * * * *
16188405 ATG-CATGTCCTAGACATGTCTCACAATAGAC-C-TCGTCTC-AATGTCG
1 ATGCCATGTCCCAGACATGTCTTACACT-GGCTCATCATCTCGAA-GTCG
*
16188451 ATGCCATGTCCCACACATGGTCTTACACTGGCTC-TCAT
1 ATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATCAT
16188489 AATATGGCCG
Statistics
Matches: 137, Mismatches: 30, Indels: 21
0.73 0.16 0.11
Matches are distributed among these distances:
45 1 0.01
46 54 0.39
47 64 0.47
48 18 0.13
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCGAAGTCG
Found at i:16188410 original size:46 final size:45
Alignment explanation
Indices: 16188358--16188521 Score: 134
Period size: 46 Copynumber: 3.5 Consensus size: 45
16188348 TGTCGTAGCT
*
16188358 GATGCATGTCCCAGACATGTCTTACACTGGCTTACGGCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-CGGCTCAAGGCC
* * * * * * * *
16188404 GATGCATGTCCTAGACATGTCTCACAATAGACCTCGTCTCAATGTC
1 GATGCATGTCCCAGACATGTCTTACACT-GGCTTCGGCTCAAGGCC
* * *
16188450 GATGCCATGTCCCACACATGGTCTTACACTGGCTCTC--ATAATATGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGGCTCA-A-GGCC
*
16188498 GGTGCATGTCCCAGACATGTCTTA
1 GATGCATGTCCCAGACATGTCTTA
16188522 AACTAGCTCA
Statistics
Matches: 91, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
46 45 0.49
47 31 0.34
48 15 0.16
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTCGGCTCAAGGCC
Found at i:16197322 original size:12 final size:12
Alignment explanation
Indices: 16197305--16197330 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16197295 TGAATAGCTA
16197305 AAATCATCTCAG
1 AAATCATCTCAG
16197317 AAATCATCTCAG
1 AAATCATCTCAG
16197329 AA
1 AA
16197331 TTTCTTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (12 bp):
AAATCATCTCAG
Found at i:16199916 original size:43 final size:42
Alignment explanation
Indices: 16199800--16199948 Score: 124
Period size: 43 Copynumber: 3.5 Consensus size: 42
16199790 TGTACAATGC
* *
16199800 CAATGTCCCAGACGTGGTCTTACATGT-AATCAAATATCAATG
1 CAATGTCCCAGACATGGTCTTACATGTAAATCAAATAT-GATG
* * * * * **
16199842 CCACTATTCCAAACAGGGTCTTACA-CAAAATCAAATATGATG
1 -CAATGTCCCAGACATGGTCTTACATGTAAATCAAATATGATG
* *
16199884 TCGATGTCCCAGACATGGTCTTACATGTAAATCTCAAAT-CGATG
1 -CAATGTCCCAGACATGGTCTTACATGTAAA--TCAAATATGATG
*
16199928 CAACGTCCCAGACATGGTCTT
1 CAATGTCCCAGACATGGTCTT
16199949 TCACGAAATC
Statistics
Matches: 81, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
42 21 0.26
43 50 0.62
44 4 0.05
45 6 0.07
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (42 bp):
CAATGTCCCAGACATGGTCTTACATGTAAATCAAATATGATG
Found at i:16205899 original size:19 final size:19
Alignment explanation
Indices: 16205875--16205959 Score: 115
Period size: 19 Copynumber: 4.7 Consensus size: 19
16205865 AATCTTTAAA
16205875 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
16205894 GATATGCAATCATAGATAT
1 GATATGCAATCTTAGATAT
* *
16205913 GATA--CATTTTTAGATAT
1 GATATGCAATCTTAGATAT
16205930 -ATATGCAATCTT-GATAT
1 GATATGCAATCTTAGATAT
16205947 GATATGCAATCTT
1 GATATGCAATCTT
16205960 GAAGATTGAT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
16 3 0.05
17 15 0.26
18 17 0.30
19 22 0.39
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:16211156 original size:20 final size:18
Alignment explanation
Indices: 16211131--16211182 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
16211121 CTTCTATTTC
*
16211131 AAAAAAACAAAAAAGAGAG
1 AAAAAAA-AAAAAAAAGAG
*
16211150 AAAAAAAATAAAAAAGAG
1 AAAAAAAAAAAAAAAGAG
16211168 AAAAAATAAAAAAAA
1 AAAAAA-AAAAAAAA
16211183 TGGAGAGGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.85, C:0.02, G:0.10, T:0.04
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAGAG
Found at i:16212166 original size:40 final size:41
Alignment explanation
Indices: 16212122--16212204 Score: 114
Period size: 44 Copynumber: 2.0 Consensus size: 41
16212112 ACACTGAAGC
*
16212122 AGATCCAAGAT-GATTTGGCGTCTCTGTATTGTCAGGGAGT
1 AGATCCAAGATAGATTTGGCGTCTCTGTATTGGCAGGGAGT
*
16212162 AGATCGAAGATACCAGATTTGGCGTCTCTGTATTGGCAGGGAG
1 AGATCCAAGAT---AGATTTGGCGTCTCTGTATTGGCAGGGAG
16212205 CAAATCGAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
40 10 0.27
44 27 0.73
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (41 bp):
AGATCCAAGATAGATTTGGCGTCTCTGTATTGGCAGGGAGT
Found at i:16212257 original size:47 final size:47
Alignment explanation
Indices: 16212203--16212349 Score: 123
Period size: 47 Copynumber: 3.3 Consensus size: 47
16212193 ATTGGCAGGG
*
16212203 AGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAAATCGAAGACATAGCTGATTTAGCTTTCACGTGTTTACGTTGA
* * * * **
16212250 AGCAAATCTAAG----A--TGATTTAG-TGTCTC-TGTATT-GGCAGA
1 AGCAAATCGAAGACATAGCTGATTTAGCTTTCACGTGT-TTACGTTGA
* *
16212289 GAGCAGATCGAAGACATAGCTGATTTAGCTTTCATGTGTTTACGTTGA
1 -AGCAAATCGAAGACATAGCTGATTTAGCTTTCACGTGTTTACGTTGA
*
16212337 AGCAAATCTAAGA
1 AGCAAATCGAAGA
16212350 TGATTTGGCA
Statistics
Matches: 72, Mismatches: 17, Indels: 22
0.65 0.15 0.20
Matches are distributed among these distances:
39 6 0.08
40 16 0.22
41 7 0.10
43 1 0.01
44 1 0.01
46 8 0.11
47 27 0.38
48 6 0.08
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (47 bp):
AGCAAATCGAAGACATAGCTGATTTAGCTTTCACGTGTTTACGTTGA
Found at i:16212279 original size:87 final size:87
Alignment explanation
Indices: 16212177--16212741 Score: 405
Period size: 87 Copynumber: 6.4 Consensus size: 87
16212167 GAAGATACCA
* * * *
16212177 GATTTGGCGTCTCTGTATTGGCAGGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
1 GATTTAGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTGATTTAGCTTTCACGTGTT
16212242 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* *
16212264 GATTTAGTGTCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTGATTTAGCTTTCATGTGTT
1 GATTTAGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTGATTTAGCTTTCACGTGTT
16212329 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* * * * * * *
16212351 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATC-AA-AGATAACAGATTT-G-TCATCTC-TGT
1 GATTTAGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTGATTTAGCT-TTCACGTGT
* ** * * *
16212411 ATT-GGCAGAGAGTAGATCAAAGATAAT
65 -TTACGTTGA-AGCAAATCTAAG---AT
* * * * * * * * *
16212438 AGATTTGGCATCTCTGTATTCGACGGAGAGTAGATTGAAGACATAGCTAATTTGGCTTCCACGTG
1 -GATTTAGCGTCTCTGTATT-GGCAGAGAGCAGATCGAAGACATAGCTGATTTAGCTTTCACGTG
* * *
16212503 TTTATGTTGAAGCAAGTCTTAGAT
64 TTTACGTTGAAGCAAATCTAAGAT
* * * * * *
16212527 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAG--ATAGCAGATTTGGC-ATCTC-TGTA
1 GATTTAGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTGATTTAGCTTTCACGTGT-
* * * * *
16212588 TT-GGTAGAGAGTAGATCAAAGAT
65 TTACGTTGA-AGCAAATCTAAGAT
* * * ** * * * * *
16212611 GAAAGATTTGGCATATCTGTATTCAACGGAGAGCAGATTGAAGACATAGCTAATTTGGCTTCCAC
1 ----GATTTAGCGTCTCTGTATT-GGCAGAGAGCAGATCGAAGACATAGCTGATTTAGCTTTCAC
* *
16212676 GTGTTTACGTTGAAGCAAGTCGAAGAT
61 GTGTTTACGTTGAAGCAAATCTAAGAT
* * *
16212703 GATTTGGCATCTCCGTATTGGCAGAGAGCAGATCGAAGA
1 GATTTAGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
16212742 TAATAGATTT
Statistics
Matches: 374, Mismatches: 78, Indels: 52
0.74 0.15 0.10
Matches are distributed among these distances:
83 14 0.04
84 27 0.07
85 22 0.06
86 2 0.01
87 145 0.39
88 73 0.20
89 28 0.07
90 2 0.01
91 21 0.06
92 26 0.07
93 14 0.04
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (87 bp):
GATTTAGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGACATAGCTGATTTAGCTTTCACGTGTT
TACGTTGAAGCAAATCTAAGAT
Found at i:16212406 original size:44 final size:43
Alignment explanation
Indices: 16212351--16212829 Score: 289
Period size: 44 Copynumber: 10.9 Consensus size: 43
16212341 AATCTAAGAT
16212351 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAA-A
* *
16212395 GATTTGTCATCTCTGTATTGGCAGAGAGTAGATCAAAGATAATA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAA-A
* * * ** * *
16212439 GATTTGGCATCTCTGTATTCGACGGAGAGTAGATTGAAGACATA
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCAAAGATAAA
* * * ** **
16212483 GCTAATTTGGCTTCCACGTGT-TTATGTTGA-AGCA-AGTCTTAGAT---
1 G---ATTTGGCAT-CTC-TGTATT-GGCAGAGAGCAGA-TCAAAGATAAA
* *
16212527 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATA-AA
* *
16212571 GATTTGGCATCTCTGTATTGGTAGAGAGTAGATCAAAGATGAAA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT-AAA
* ** * ** * *
16212615 GATTTGGCATATCTGTATTCAACGGAGAGCAGATTGAAGACATA
1 GATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCAAAGATAAA
* * * ** *
16212659 GCTAATTTGGCTTCCACGTGT-TTACGTTGA-AGCA-AGTCGAAGAT---
1 G---ATTTGGCAT-CTC-TGTATT-GGCAGAGAGCAGA-TCAAAGATAAA
* *
16212703 GATTTGGCATCTCCGTATTGGCAGAGAGCAGATCGAAGATAATA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAA-A
* * * *
16212747 GATTTGGCGTCTCTGTATTAGCAGAGAGCAGATCGAAGGTAGAA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATA-AA
* * *
16212791 GATTTGGCATCTCTGTATTGTCAGAGAGCATATCGAAGA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGA
16212830 GAAGAACAAC
Statistics
Matches: 337, Mismatches: 68, Indels: 60
0.72 0.15 0.13
Matches are distributed among these distances:
39 11 0.03
40 30 0.09
41 18 0.05
44 194 0.58
45 32 0.09
46 2 0.01
47 33 0.10
48 11 0.03
49 6 0.02
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (43 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAAA
Found at i:16212514 original size:176 final size:175
Alignment explanation
Indices: 16212273--16212809 Score: 815
Period size: 176 Copynumber: 3.1 Consensus size: 175
16212263 TGATTTAGTG
* * * * * * *
16212273 TCTCTGTATT-GGCAGAGAGCAGATCGAAGACATAGCTGATTTAGCTTTCATGTGTTTACGTTGA
1 TCTCTGTATTCGACGGAGAGCAGATTGAAGACATAGCTAATTTGGCTTCCACGTGTTTACGTTGA
* * *
16212337 AGCAAATCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATAACAGATTTGT
66 AGCAAGTCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGG
16212402 CATCTCTGTATTGGCAGAGAGTAGATCAAAGATAATAGATTTGGCA
131 CATCTCTGTATTGGCAGAGAGTAGATCAAAGATAA-AGATTTGGCA
* *
16212448 TCTCTGTATTCGACGGAGAGTAGATTGAAGACATAGCTAATTTGGCTTCCACGTGTTTATGTTGA
1 TCTCTGTATTCGACGGAGAGCAGATTGAAGACATAGCTAATTTGGCTTCCACGTGTTTACGTTGA
* *
16212513 AGCAAGTCTTAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGG
66 AGCAAGTCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGG
*
16212578 CATCTCTGTATTGGTAGAGAGTAGATCAAAGATGAAAGATTTGGCA
131 CATCTCTGTATTGGCAGAGAGTAGATCAAAGAT-AAAGATTTGGCA
* *
16212624 TATCTGTATTCAACGGAGAGCAGATTGAAGACATAGCTAATTTGGCTTCCACGTGTTTACGTTGA
1 TCTCTGTATTCGACGGAGAGCAGATTGAAGACATAGCTAATTTGGCTTCCACGTGTTTACGTTGA
* * *
16212689 AGCAAGTCGAAGATGATTTGGCATCTCCGTATTGGCAGAGAGCAGATCGAAGATAATAGATTTGG
66 AGCAAGTCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGG
* * * * *
16212754 CGTCTCTGTATTAGCAGAGAGCAGATCGAAGGTAGAAGATTTGGCA
131 CATCTCTGTATTGGCAGAGAGTAGATCAAAGATA-AAGATTTGGCA
16212800 TCTCTGTATT
1 TCTCTGTATT
16212810 GTCAGAGAGC
Statistics
Matches: 328, Mismatches: 31, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
175 11 0.03
176 315 0.96
177 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (175 bp):
TCTCTGTATTCGACGGAGAGCAGATTGAAGACATAGCTAATTTGGCTTCCACGTGTTTACGTTGA
AGCAAGTCTAAGATGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGG
CATCTCTGTATTGGCAGAGAGTAGATCAAAGATAAAGATTTGGCA
Found at i:16213026 original size:44 final size:44
Alignment explanation
Indices: 16212976--16213160 Score: 187
Period size: 44 Copynumber: 4.2 Consensus size: 44
16212966 GATTTTAACA
* *
16212976 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAACAGATT
1 TGGCATCCCTGTGTTTACAGGGAACAAGTTGAAGATAGCAGATT
* *
16213020 TGGCATCCCTGTGTTTACAGGGAAC-AGATCGAAGACATAGCAGATC
1 TGGCATCCCTGTGTTTACAGGGAACAAG-TTGAAG--ATAGCAGATT
* * * * * **
16213066 TGACATTCCTGTGCTTACAGCGAAGCAAATTGAAGATTTCAGCA--
1 TGGCATCCCTGTGTTTACAGGGAA-CAAGTTGAAGATAGCAG-ATT
* *
16213110 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGTAGATT
1 TGGCATCCCTGTGTTTACAGGGAACAAGTTGAAGATAGCAGATT
16213154 TGGCATC
1 TGGCATC
16213161 TCCATATTCG
Statistics
Matches: 112, Mismatches: 21, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
42 1 0.01
43 15 0.13
44 55 0.49
45 5 0.04
46 29 0.26
47 6 0.05
48 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (44 bp):
TGGCATCCCTGTGTTTACAGGGAACAAGTTGAAGATAGCAGATT
Found at i:16213045 original size:134 final size:134
Alignment explanation
Indices: 16212882--16213237 Score: 480
Period size: 134 Copynumber: 2.6 Consensus size: 134
16212872 GATCCAAGAT
* *
16212882 GATTTGGCATTCCTGTGTTTACAGGGAACAGATTGAAGACATAGCAGATCTGACATTCCTATGCT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATTGAAGACATAGCAGATCTGACATTCCTGTGCT
*
16212947 TACAACGAAGCAGATCAAAGATTTTAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAACGAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
16213012 AACA
131 AACA
*
16213016 GATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAGATCTGACATTCCTGTGCT
1 GATTTGGCATCCCTGTGTTTACAGGGAACAGATTGAAGACATAGCAGATCTGACATTCCTGTGCT
* * ** *
16213081 TACAGCGAAGCAAATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAACGAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
**
16213146 AGTA
131 AACA
* ** * ** * * * *
16213150 GATTTGGCATCTCCATAT-TCGACGGGGAGGAGATTAAAGACATAGTAGATCTGACCTTCATGTG
1 GATTTGGCATC-CC-TGTGTTTACAGGGAACAGATTGAAGACATAGCAGATCTGACATTCCTGTG
* *
16213214 TTTACAACGAAGCAGATCCAAGAT
64 CTTACAACGAAGCAGATCAAAGAT
16213238 GATAGATTTG
Statistics
Matches: 193, Mismatches: 27, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
134 134 0.69
135 57 0.30
136 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (134 bp):
GATTTGGCATCCCTGTGTTTACAGGGAACAGATTGAAGACATAGCAGATCTGACATTCCTGTGCT
TACAACGAAGCAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
AACA
Found at i:16213350 original size:44 final size:45
Alignment explanation
Indices: 16213243--16213372 Score: 181
Period size: 44 Copynumber: 2.9 Consensus size: 45
16213233 AAGATGATAG
* *
16213243 ATTTGGCATCTTTGTATTAGACGGGGAGCAAATCGGAGATAACAA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAA
* * *
16213288 ATTTGGCATCTCTATATTAGACGGGGAGCAAATTGAAGA-AGCAA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAA
* * *
16213332 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATA
1 ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATA
16213373 GCAGATATCG
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
44 38 0.51
45 36 0.49
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (45 bp):
ATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAA
Found at i:16213754 original size:19 final size:19
Alignment explanation
Indices: 16213730--16213827 Score: 137
Period size: 19 Copynumber: 5.2 Consensus size: 19
16213720 AATATTTAAG
16213730 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
16213749 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
* *
16213768 GATA--CATTTTTAGATAT
1 GATATGCAATCTTAGATAT
16213785 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
16213804 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
16213825 GAT
1 GAT
16213828 CTTGTAATCC
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
17 14 0.20
19 46 0.67
21 9 0.13
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:16224843 original size:16 final size:16
Alignment explanation
Indices: 16224822--16224857 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
16224812 TTTGGTTCGC
16224822 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
16224838 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
16224854 TGTA
1 TGTA
16224858 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:16225110 original size:16 final size:16
Alignment explanation
Indices: 16225086--16225127 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
16225076 AACATAATTA
16225086 TTATT-AAATA-TATT
1 TTATTAAAATATTATT
16225100 TTAATTAAAATATTTATT
1 TT-ATTAAAATA-TTATT
16225118 TTATTAAAAT
1 TTATTAAAAT
16225128 TCTTAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 3 0.12
16 5 0.21
17 8 0.33
18 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATTAAAATATTATT
Found at i:16225289 original size:120 final size:120
Alignment explanation
Indices: 16225076--16225458 Score: 721
Period size: 120 Copynumber: 3.2 Consensus size: 120
16225066 ATCATATTTA
* * * *
16225076 AACATAATTATTATTAAATATATTTTAATTAAAATATTTATTTTATTAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
16225141 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
16225196 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
16225261 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
16225316 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
16225381 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
16225436 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
16225459 AACTTGAAAA
Statistics
Matches: 258, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 258 1.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:16242909 original size:6 final size:6
Alignment explanation
Indices: 16242877--16242907 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
16242867 ACTCAGTGTA
*
16242877 ATTCTG ATTCTG ATTCTG ATTCTG AATCTG A
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A
16242908 ATTCCGAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.45
Consensus pattern (6 bp):
ATTCTG
Found at i:16252639 original size:16 final size:15
Alignment explanation
Indices: 16252610--16252656 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
16252600 AAAATAATAA
16252610 ATTATATCAA-TAAACT
1 ATTATAT-AATTAAA-T
*
16252626 ATTATATGATTAAAT
1 ATTATATAATTAAAT
16252641 A-TATATAATTAAAT
1 ATTATATAATTAAAT
16252655 AT
1 AT
16252657 GTATGTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 13 0.48
15 3 0.11
16 11 0.41
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTATATAATTAAAT
Found at i:16257342 original size:18 final size:18
Alignment explanation
Indices: 16257319--16257360 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
16257309 GACAGGTGTT
*
16257319 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
16257337 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
16257355 TTTCCT
1 TATCCT
16257361 TTTCCCAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:16257655 original size:22 final size:21
Alignment explanation
Indices: 16257612--16257652 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16257602 ATAACCAGAA
* *
16257612 CAACCATAACCCCCGTCGAAG
1 CAACCACAACCCCCGCCGAAG
16257633 CAACCACAACCCCCGCCGAA
1 CAACCACAACCCCCGCCGAA
16257653 AGCTGAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.49, G:0.12, T:0.05
Consensus pattern (21 bp):
CAACCACAACCCCCGCCGAAG
Found at i:16260706 original size:55 final size:54
Alignment explanation
Indices: 16260647--16260765 Score: 136
Period size: 55 Copynumber: 2.2 Consensus size: 54
16260637 CGTGTGTGAC
* * *
16260647 ACTGACTTTAGGGCACGGCCATGACACACGCCTC-TGTGGTCTACCCGTAGG-CAAT
1 ACTGACTTTA-GACACGGCCATGACACACGCC-CGTGTGGCCTAACCGT-GGACAAT
* *
16260702 ACTGACTTATAGACACGGCTATGGCACACGCCCGTGTGGCCTAACCGTGGACAAT
1 ACTGACTT-TAGACACGGCCATGACACACGCCCGTGTGGCCTAACCGTGGACAAT
16260757 ACTGA-TTTA
1 ACTGACTTTA
16260766 AAAATTTAAG
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
53 2 0.04
54 5 0.09
55 47 0.84
56 2 0.04
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (54 bp):
ACTGACTTTAGACACGGCCATGACACACGCCCGTGTGGCCTAACCGTGGACAAT
Found at i:16261688 original size:47 final size:47
Alignment explanation
Indices: 16261628--16261847 Score: 175
Period size: 47 Copynumber: 4.7 Consensus size: 47
16261618 TATACATACT
16261628 GATGCATGTCCCAGACATGTCTTACACTGGCTAACATCATCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTAACATCATCGAGGCC
* * *
16261675 GATGCATGTCCCAGACATGTCTTACAGTGGC--AC-TCACCTCTACGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTAACATCA--TCGAGGCC
* * * * *
16261721 GATGCCATGT-CCTGACATGGTCTTACA-TAGGCTATCATGAT-GCGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACT-GGCTAACATCATCGAGGCC
* * *** * *
16261768 GATGCATGTCCCAGACACGTCTTACACTAGCCCTCATC-TCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTAACATCATCGAGGCC
* *
16261814 GATGTCATGTCCCAGACTTGGTCTTATACTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT
16261848 CTCACATAAC
Statistics
Matches: 135, Mismatches: 25, Indels: 25
0.73 0.14 0.14
Matches are distributed among these distances:
44 3 0.02
45 3 0.02
46 43 0.32
47 71 0.53
48 12 0.09
49 1 0.01
50 2 0.01
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTAACATCATCGAGGCC
Found at i:16261776 original size:93 final size:94
Alignment explanation
Indices: 16261534--16261847 Score: 264
Period size: 93 Copynumber: 3.3 Consensus size: 94
16261524 TTGTCGCTGC
* * * * * * *
16261534 CATGTCCCGGACATGGTCTTACGCTGGCTATC-CCTATCGAGGCCAATGCCATGTCCCATACATG
1 CATGTCCCAGACATGGTCTTACACTGGCTAACATC-ATCGAGGCCGATG-CATGTCCCAGACA-C
* * * *
16261598 GTCTTACACTAG--CTCTCCTGTATACATACTGATG
63 GTCTTACACTAGCACTCACCT-CA-AC--GCCGATG
*
16261632 CATGTCCCAGACAT-GTCTTACACTGGCTAACATCATCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGGTCTTACACTGGCTAACATCATCGAGGCCGATGCATGTCCCAGACACGTC
* * *
16261696 TTACAGTGGCACTCACCTCTACGCCGATG
66 TTACACTAGCACTCACCTCAACGCCGATG
* * * * *
16261725 CCATGT-CCTGACATGGTCTTACA-TAGGCTATCATGAT-GCGGCTGATGCATGTCCCAGACACG
1 -CATGTCCCAGACATGGTCTTACACT-GGCTAACATCATCGAGGCCGATGCATGTCCCAGACACG
* * *
16261787 TCTTACACTAGCCCTCATCTCAATGCCGATG
64 TCTTACACTAGCACTCACCTCAACGCCGATG
* *
16261818 TCATGTCCCAGACTTGGTCTTATACTGGCT
1 -CATGTCCCAGACATGGTCTTACACTGGCT
16261848 CTCACATAAC
Statistics
Matches: 178, Mismatches: 30, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
93 65 0.37
94 41 0.23
95 13 0.07
96 12 0.07
97 33 0.19
98 14 0.08
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (94 bp):
CATGTCCCAGACATGGTCTTACACTGGCTAACATCATCGAGGCCGATGCATGTCCCAGACACGTC
TTACACTAGCACTCACCTCAACGCCGATG
Found at i:16266223 original size:46 final size:46
Alignment explanation
Indices: 16266171--16266346 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
16266161 TGGTTGAGCA
16266171 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
16266217 TTCGAACTCGTTGAGTTGAGTCTGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
16266262 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
16266310 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16266347 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 6 0.06
43 5 0.05
45 2 0.02
46 58 0.55
47 23 0.22
48 2 0.02
50 5 0.05
51 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:16266327 original size:93 final size:93
Alignment explanation
Indices: 16266168--16266337 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
16266158 GGATGGTTGA
* ** *
16266168 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGCCCGAACTCATTGAGT
*
16266233 TGAGTCTGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
* *
16266261 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGCCCGAACTCATTGAGT
16266326 TGAGTCCGAGTT
66 TGAGTCCGAGTT
16266338 CACTTATGGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:16271527 original size:21 final size:21
Alignment explanation
Indices: 16271497--16271544 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
16271487 CTTTAGGGCA
*
16271497 TGGCCATGACACACGTCCCTG
1 TGGCCTTGACACACGTCCCTG
16271518 TGGCCTTGACACACGTCCCTG
1 TGGCCTTGACACACGTCCCTG
16271539 TGGCCT
1 TGGCCT
16271545 ACTCGTAGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.15, C:0.38, G:0.25, T:0.23
Consensus pattern (21 bp):
TGGCCTTGACACACGTCCCTG
Found at i:16272628 original size:47 final size:47
Alignment explanation
Indices: 16272389--16272751 Score: 164
Period size: 47 Copynumber: 7.7 Consensus size: 47
16272379 TGCCGTTGCT
* * *
16272389 ATGTCCCAGACATGGTCTTACGCTGGCTATCTC-CATCGA-GGCCGATGCC
1 ATGTCCCAGACATGGTCTTACACTGGC-A-CTCACCTCTACGG-CGATG-C
* * * * *** *
16272438 ATGTCCCAGACACGGTCTTACATTAGCTCTCGTGTATACGTGCTGATGC
1 ATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTACG-GC-GATGC
* * ** * *
16272487 ATGTCCGAGACAT-GTCTTACACTAGCACGAAACT-TA-GCCGATGC
1 ATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTACGGCGATGC
* **
16272531 ATGTCCCAAACA-CATCTTACACTGGCTAACATCA--T-TGA-GGCCGATGC
1 ATGTCCCAGACATGGTCTTACACTGGC--AC-TCACCTCT-ACGG-CGATGC
*
16272578 ATGTACCAGACAT-GTCTTACACTGGCACTCACCTCTACGGCGATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTACGGCGATG-C
* * *
16272625 ATGTCCCAGACGTGGTCTTACAC-GAGCTA-TCA--TGATGCGGCTGATGC
1 ATGTCCCAGACATGGTCTTACACTG-GC-ACTCACCT-CTACGGC-GATGC
* * * * * * *
16272672 ATGTCCCAGACA-CGTCTTACACTAGCCCTCATCTCAATGCCGATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTACGGCGATG-C
* *
16272719 ATGTCCCAGACATGGTCTTATACTGGCTCTCAC
1 ATGTCCCAGACATGGTCTTACACTGGCACTCAC
16272752 ATAACCCGAT
Statistics
Matches: 240, Mismatches: 47, Indels: 55
0.70 0.14 0.16
Matches are distributed among these distances:
44 29 0.12
45 5 0.02
46 31 0.13
47 82 0.34
48 50 0.21
49 38 0.16
50 5 0.02
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (47 bp):
ATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTACGGCGATGC
Found at i:16272673 original size:94 final size:92
Alignment explanation
Indices: 16272429--16272738 Score: 304
Period size: 94 Copynumber: 3.3 Consensus size: 92
16272419 CTCCATCGAG
* ** * * *
16272429 GCCGATGCCATGTCCCAGACACGGTCTTACATTAGCTCTCGTGTATACGTGCTGATGCATGTCCG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACGAGCTATCATG-ATGCG-GCTGATGCATGTCC-
**
16272494 AGACATGTCTTACACTAGCACGAAACT-TA
63 AGACATGTCTTACACTAGCACTCAACTCTA
* ** * * * *
16272523 GCCGATG-CATGTCCCAAACA-CATCTTACACTG-GCTAACATCATTGAGGCCGATGCATGTACC
1 GCCGATGCCATGTCCCAGACATGGTCTTACAC-GAGCTATCATGA-TGCGGCTGATGCATGT-CC
* *
16272585 AGACATGTCTTACACTGGCACTCACCTCTA
63 AGACATGTCTTACACTAGCACTCAACTCTA
* *
16272615 CGGCGATGCCATGTCCCAGACGTGGTCTTACACGAGCTATCATGATGCGGCTGATGCATGTCCCA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACGAGCTATCATGATGCGGCTGATGCATGT-CCA
* * * *
16272680 GACACGTCTTACACTAGCCCTCATCTCAA
64 GACATGTCTTACACTAGCACTCAACTCTA
16272709 TGCCGATGCCATGTCCCAGACATGGTCTTA
1 -GCCGATGCCATGTCCCAGACATGGTCTTA
16272739 TACTGGCTCT
Statistics
Matches: 174, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
91 35 0.20
92 18 0.10
93 18 0.10
94 87 0.50
95 16 0.09
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (92 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACGAGCTATCATGATGCGGCTGATGCATGTCCAGA
CATGTCTTACACTAGCACTCAACTCTA
Found at i:16274612 original size:14 final size:14
Alignment explanation
Indices: 16274574--16274612 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
16274564 TTTTTGACAC
16274574 TATTTTTTCAAAAT
1 TATTTTTTCAAAAT
* * *
16274588 TGTCTTCTCAAAAT
1 TATTTTTTCAAAAT
16274602 TATTTTTTCAA
1 TATTTTTTCAA
16274613 GAACTACTGT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.03, T:0.54
Consensus pattern (14 bp):
TATTTTTTCAAAAT
Found at i:16274883 original size:127 final size:126
Alignment explanation
Indices: 16274487--16274882 Score: 510
Period size: 126 Copynumber: 3.1 Consensus size: 126
16274477 GGTCAAACAC
* * * * * * ** *
16274487 AAACTACTATAGAAAAATAG-GCTCCACATGGAAGCTTTTTTTAGTAATTTTGCCGGCAGTGCGT
1 AAACTACTGTAGAAAAAGAGCG-TCCACTTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCAT
* * ** *
16274551 CCTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAATTGTCTTCTCAAAATTATTTTTTC-A
65 CCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCTG
* *
16274612 AGAACTACTGTAGAAAATGAGCGTCCA-TGTGGGAGCTTTTTTCAGTAATTTTGTTGATAGTGCA
1 A-AACTACTGTAGAAAAAGAGCGTCCACT-TGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCA
* * *
16274676 TCCTGCTTGAAGCATTTTTGAAAGTATTTTTTTTAGAACCGTCTTCTCAAAATTATTTTTTCTG
64 TCCTGCTTGAAGCATTTTTGACACTA-TTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCTG
* *
16274740 AAACTACTGTAGAAAAAGAGCGTCCACTTGGGAGCTTCTTTCAGTAATTTTGCTAATAGTGCATC
1 AAACTACTGTAGAAAAAGAGCGTCCACTTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATC
* * * *
16274805 CTGCTTGAACCATTTTTGACATTATCTTTTCAGAACCGTCTTCTCAAAATTAATTTTTCTG
66 CTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCTG
16274866 AAACTACTGTAGAAAAA
1 AAACTACTGTAGAAAAA
16274883 AATAAAATCC
Statistics
Matches: 236, Mismatches: 29, Indels: 11
0.86 0.11 0.04
Matches are distributed among these distances:
125 1 0.00
126 122 0.52
127 111 0.47
128 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
AAACTACTGTAGAAAAAGAGCGTCCACTTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATC
CTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCTG
Found at i:16275016 original size:32 final size:32
Alignment explanation
Indices: 16274937--16275025 Score: 101
Period size: 34 Copynumber: 2.8 Consensus size: 32
16274927 CTAAATACAA
*
16274937 AATT-ATTTTAAAAAA-ACTAAACCCTAATTT
1 AATTAATTTTAAAAAACTCTAAACCCTAATTT
* * *
16274967 AATTAATTTTCTTAAAAACTCTAAATCCTAGTTT
1 AATTAA-TTT-TAAAAAACTCTAAACCCTAATTT
*
16275001 AATTAATTTGAAAAAACTCTAAACC
1 AATTAATTTTAAAAAACTCTAAACC
16275026 TTGATTTATT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
30 4 0.08
31 1 0.02
32 16 0.33
33 9 0.19
34 18 0.38
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (32 bp):
AATTAATTTTAAAAAACTCTAAACCCTAATTT
Found at i:16275836 original size:11 final size:11
Alignment explanation
Indices: 16275815--16275848 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
16275805 TTTTTAACAG
16275815 TATTAAATATTT
1 TATT-AATATTT
16275827 TATTAATATTT
1 TATTAATATTT
16275838 TATATAATATT
1 TAT-TAATATT
16275849 CGTGTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTAATATTT
Found at i:16278248 original size:18 final size:18
Alignment explanation
Indices: 16278222--16278271 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
16278212 TAACAGAACT
16278222 CATAAAATAAGCAGTGCA
1 CATAAAATAAGCAGTGCA
* * *
16278240 CATATAATAAGCAATTCA
1 CATAAAATAAGCAGTGCA
*
16278258 CATAAAATAGGCAG
1 CATAAAATAAGCAG
16278272 ATCGCATAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (18 bp):
CATAAAATAAGCAGTGCA
Found at i:16278343 original size:17 final size:18
Alignment explanation
Indices: 16278303--16278347 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
16278293 CATCAAATGT
16278303 CAGTTCATA-TGAGATAA
1 CAGTTCATACTGAGATAA
* *
16278320 CAATTCATACTGA-ATAG
1 CAGTTCATACTGAGATAA
16278337 CAGTTCATACT
1 CAGTTCATACT
16278348 ACATAATAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 21 0.88
18 3 0.12
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (18 bp):
CAGTTCATACTGAGATAA
Found at i:16280142 original size:40 final size:40
Alignment explanation
Indices: 16279877--16280142 Score: 385
Period size: 40 Copynumber: 6.7 Consensus size: 40
16279867 GCTCCTCGTT
* *
16279877 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
16279917 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
16279957 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
16279997 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
16280037 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
16280077 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
16280118 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
16280143 CACCATTCAA
Statistics
Matches: 211, Mismatches: 11, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
39 3 0.01
40 195 0.92
41 13 0.06
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16282599 original size:40 final size:40
Alignment explanation
Indices: 16282373--16282584 Score: 345
Period size: 40 Copynumber: 5.3 Consensus size: 40
16282363 GCTCCTCGTT
* *
16282373 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
16282413 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
16282453 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
16282493 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
16282533 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
16282573 CAAATGCCTTCG
1 CAAATGCCTTCG
16282585 AATCTTAGTC
Statistics
Matches: 161, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 159 0.99
41 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16282626 original size:80 final size:81
Alignment explanation
Indices: 16282373--16282638 Score: 335
Period size: 80 Copynumber: 3.3 Consensus size: 81
16282363 GCTCCTCGTT
* * *
16282373 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
16282437 GATTTAGTAAC-TCGCA
65 GATTTAGTAACTTAGCA
* *
16282453 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACAAATGCCATCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
16282518 ATTTAGTAACTCA-CA
66 ATTTAGTAACTTAGCA
* * **
16282533 CAAATGCCATCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTC-GAATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* * *
16282597 GATATGGTCACTTAGCA
65 GATTTAGTAACTTAGCA
* *
16282614 TAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
16282639 CACCATTCAA
Statistics
Matches: 162, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.01
80 153 0.94
81 7 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTTAGCA
Found at i:16282626 original size:120 final size:121
Alignment explanation
Indices: 16282373--16282638 Score: 369
Period size: 120 Copynumber: 2.2 Consensus size: 121
16282363 GCTCCTCGTT
* * *
16282373 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCACACAAATGCCATCGGGACTTAACCCA
* *
16282437 GATTTAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
66 GATTTAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGATATAGTAACTAGCA
* * *
16282493 CAAATGCCATCGGGACTTAACCCGGATT-TAGTAACTCACACAAATGCCATCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCACACAAATGCCATCGGGACTTAACCCA
** * *
16282557 GATTTAGTAACTCGCACAAATGCCTTCGA-ATCTTAGTCCGGATATGGTCACTTAGCA
66 GATTTAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGGATATAGTAAC-TAGCA
*
16282614 TAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16282639 CACCATTCAA
Statistics
Matches: 128, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
119 1 0.01
120 118 0.92
121 9 0.07
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCACACAAATGCCATCGGGACTTAACCCA
GATTTAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGATATAGTAACTAGCA
Found at i:16287543 original size:6 final size:6
Alignment explanation
Indices: 16287539--16287592 Score: 72
Period size: 6 Copynumber: 9.0 Consensus size: 6
16287529 AATTGAAATG
* * * *
16287539 AAAATA AAAATA AAAAGA AAAAGA AAAAGA AAAAGA AAAATA AAAATA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
16287587 AAAAGA
1 AAAAGA
16287593 TAGGAGGATT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.07
Consensus pattern (6 bp):
AAAAGA
Found at i:16287560 original size:18 final size:18
Alignment explanation
Indices: 16287539--16287592 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
16287529 AATTGAAATG
16287539 AAAATAAAAATAAAAAGA
1 AAAATAAAAATAAAAAGA
* *
16287557 AAAAGAAAAAGAAAAAGA
1 AAAATAAAAATAAAAAGA
16287575 AAAATAAAAATAAAAAGA
1 AAAATAAAAATAAAAAGA
16287593 TAGGAGGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.07
Consensus pattern (18 bp):
AAAATAAAAATAAAAAGA
Found at i:16296638 original size:10 final size:10
Alignment explanation
Indices: 16296606--16296639 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
16296596 CGTTTTGTCC
16296606 CTTTTTGGCT
1 CTTTTTGGCT
16296616 CGTTTTTGGCT
1 C-TTTTTGGCT
*
16296627 CTTTTTGACT
1 CTTTTTGGCT
16296637 CTT
1 CTT
16296640 GGTGCTCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.03, C:0.21, G:0.18, T:0.59
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:16297892 original size:52 final size:51
Alignment explanation
Indices: 16297770--16297892 Score: 165
Period size: 52 Copynumber: 2.4 Consensus size: 51
16297760 AATTGGCCTT
* ** * *
16297770 TGCCCCTGTGGCCCACATAACTTGGCCCAAAATCTACACCTCCATGTGACA
1 TGCCCGTGTGGCCCACACGACCTGGCCCAAAATCCACACCTCCATGTGACA
* *
16297821 TGCCCGTGCAGGCCCACACGACCTGGCCCAAAATCCACACGTCCATGTGACA
1 TGCCCGTG-TGGCCCACACGACCTGGCCCAAAATCCACACCTCCATGTGACA
16297873 TGCCCGTGTGGGCCCACACG
1 TGCCCGTGT-GGCCCACACG
16297893 CCCAACTTGG
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
51 7 0.11
52 55 0.89
ACGTcount: A:0.23, C:0.39, G:0.21, T:0.17
Consensus pattern (51 bp):
TGCCCGTGTGGCCCACACGACCTGGCCCAAAATCCACACCTCCATGTGACA
Found at i:16299269 original size:22 final size:22
Alignment explanation
Indices: 16299244--16299298 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
16299234 AGAGCTCACA
16299244 CATTATTACACAATA-CACAATT
1 CATTATT-CACAATATCACAATT
* *
16299266 CATTGTTCATAATATCACAATT
1 CATTATTCACAATATCACAATT
**
16299288 CACAATTCACA
1 CATTATTCACA
16299299 TATAAAGCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.42, C:0.24, G:0.02, T:0.33
Consensus pattern (22 bp):
CATTATTCACAATATCACAATT
Found at i:16303561 original size:91 final size:90
Alignment explanation
Indices: 16303406--16303610 Score: 288
Period size: 91 Copynumber: 2.3 Consensus size: 90
16303396 AGTTTTTTTG
*
16303406 CAAACACTGGTGATTTATCCTCAAATTTACTAGCAGCTTTTATCTGCAAACACGTTGTGTATTCA
1 CAAACACTGGTGATTTATCCACAAATTTACTAGCAGCTTTTATCTGCAAACACGTTGTGTATTCA
*
16303471 CGACCTACTAGA-AGCGTATTAACCTA
66 C-ACCTACTA-ACAACGTATTAACCTA
* * * * *
16303497 CAAACAGTGGTGATTTATCCACAAATTTATTGGCGGCTTTTATCTGCAAACCCGTTGTGTATTCA
1 CAAACACTGGTGATTTATCCACAAATTTACTAGCAGCTTTTATCTGCAAACACGTTGTGTATTCA
*
16303562 CAGCTACTAACAACGTATTAACCTA
66 CACCTACTAACAACGTATTAACCTA
* *
16303587 -AAACACTGGTGGTTTAACCACAAA
1 CAAACACTGGTGATTTATCCACAAA
16303611 CTGGAGTGTC
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
89 22 0.22
90 20 0.20
91 60 0.59
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (90 bp):
CAAACACTGGTGATTTATCCACAAATTTACTAGCAGCTTTTATCTGCAAACACGTTGTGTATTCA
CACCTACTAACAACGTATTAACCTA
Found at i:16304290 original size:17 final size:17
Alignment explanation
Indices: 16304268--16304302 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
16304258 ATTTTTGATG
16304268 GCTCATGAGTTTCCTTA
1 GCTCATGAGTTTCCTTA
16304285 GCTCATGAGTTTCCTTA
1 GCTCATGAGTTTCCTTA
16304302 G
1 G
16304303 AATAGACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (17 bp):
GCTCATGAGTTTCCTTA
Found at i:16308680 original size:40 final size:40
Alignment explanation
Indices: 16308636--16308859 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
16308626 GCTCCTCGTT
* * *
16308636 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
16308676 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
16308716 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* *
16308755 CAAATGCCTTC-GGATCTTAGTCCGGAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* * * *
16308794 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
16308835 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16308860 CATCATTCAA
Statistics
Matches: 161, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 70 0.43
40 78 0.48
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:16308738 original size:79 final size:77
Alignment explanation
Indices: 16308636--16308859 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 77
16308626 GCTCCTCGTT
* *
16308636 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
16308701 ATTTAGTAACTCACA
64 A-TTAGTAACTCACA
* * * *
16308716 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTTGCACAAATGCCTTCGGGA-CTTAGCCCGG
* *
16308780 ATTAGTATCTCGCA
64 ATTAGTAACTCACA
* * * *
16308794 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAACTT-GCACAAATGCCTTCGGGACTTAGCCCG
16308858 GA
63 GA
16308860 CATCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
78 28 0.23
79 69 0.57
80 25 0.20
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGAT
TAGTAACTCACA
Found at i:16316647 original size:40 final size:40
Alignment explanation
Indices: 16316617--16316841 Score: 181
Period size: 40 Copynumber: 5.7 Consensus size: 40
16316607 GCTCCTCGTT
* *
16316617 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATATAGTAACTCGCA
* *
16316657 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATATAGTAACTCGCA
* * * *
16316697 CAAATGCCTTCGGG-CTTAGCCCAGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATA-TAGTAACTCGCA
* ** * * *
16316736 CAAATGCCTTC-GGATCTTAGTCCGGATTTCGTATCTCGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATATAGTAACTCGCA
* ** * * *
16316776 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATATAGTAAC-TCGCA
* *
16316817 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
16316842 CATCATTCAA
Statistics
Matches: 161, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 117 0.73
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATATAGTAACTCGCA
Found at i:16316728 original size:79 final size:79
Alignment explanation
Indices: 16316617--16316841 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 79
16316607 GCTCCTCGTT
* * *
16316617 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
16316682 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* * *
16316697 CAAATGCCTTCGGGCTTAGCCCAGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCG
* *
16316760 GATTTCGTATCTCGCA
64 GATTTAGTAACTCGCA
* * * * *
16316776 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
16316840 GA
64 GA
16316842 CATCATTCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.03
79 64 0.52
80 43 0.35
81 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:16316802 original size:119 final size:120
Alignment explanation
Indices: 16316617--16316838 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
16316607 GCTCCTCGTT
16316617 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
16316682 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCA
* * * * **
16316736 CAAATGCCTTC-GGATCTTAGTCCGGATT-TCGTATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* *
16316798 CGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCC
63 CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCC
16316839 GGACATCATT
Statistics
Matches: 88, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
118 6 0.07
119 64 0.73
120 18 0.20
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCA
Found at i:16335533 original size:46 final size:46
Alignment explanation
Indices: 16335430--16335555 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
16335420 TTAGGCATTT
* *
16335430 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATAC
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACAC
* * ** *
16335476 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGATGCCC
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACAC
* * * *
16335522 GAGCTCATTGAGTTGAGTCTGAATTCGCTTATGG
1 GAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
16335556 GCAGGTTACA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
GAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACAC
Found at i:16340457 original size:94 final size:94
Alignment explanation
Indices: 16340296--16340483 Score: 304
Period size: 94 Copynumber: 2.0 Consensus size: 94
16340286 CCTCCAGCAC
* * * *
16340296 TACGCTACATCCATGCTATCTTGGCTCATACCTTGACTGGGAGGAGAGAGAGCACCGGCATCGTT
1 TACGCTACATCCATGCTATCTTGACTCATACCTTGACTGGGAGAAGAGAGAACACCGGCATCATT
*
16340361 AGCACCATCGATGCTTACTTCTTATGGAG
66 AGCACCACCGATGCTTACTTCTTATGGAG
* **
16340390 TACGCTACATCCATGCTATCTTGACTCATACCTTGACTGGGAGAAGAGAGAACACTGGTGTCATT
1 TACGCTACATCCATGCTATCTTGACTCATACCTTGACTGGGAGAAGAGAGAACACCGGCATCATT
16340455 AGCACCACCGATGCTTACTTCTTATGGAG
66 AGCACCACCGATGCTTACTTCTTATGGAG
16340484 CATGGCGACT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 86 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (94 bp):
TACGCTACATCCATGCTATCTTGACTCATACCTTGACTGGGAGAAGAGAGAACACCGGCATCATT
AGCACCACCGATGCTTACTTCTTATGGAG
Found at i:16346975 original size:40 final size:40
Alignment explanation
Indices: 16346920--16347147 Score: 332
Period size: 40 Copynumber: 5.7 Consensus size: 40
16346910 TAATTGAGGA
* * *
16346920 TTATATCCGGGTTAAGTCCCGAAGGCTTTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTACTGGTTG
* * *
16346960 TTATATCCGGGTTAAGTCCCAAAGGCATTTGTACTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTACTGGTTG
* *
16347000 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTACTGGTTG
*
16347040 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTACTGGTTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTACTGGTTG
* * *
16347080 TTATATCCGGGCCAAGTTCCGAAGGCACTCGTACTGG-TG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTACTGGTTG
*
16347119 TTATATCTGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
16347148 TGTGTTTGGA
Statistics
Matches: 170, Mismatches: 18, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 27 0.16
40 143 0.84
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.32
Consensus pattern (40 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTACTGGTTG
Found at i:16351248 original size:30 final size:30
Alignment explanation
Indices: 16351208--16351267 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
16351198 TTCCCGAGCC
*
16351208 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGACAAAATG-GTAATTATGCAAAAGTT
* *
16351238 TAGGGACAAAATGGTAATTTTGCCAAAGTT
1 TAGGGACAAAATGGTAATTATGCAAAAGTT
16351268 CGTATTAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGACAAAATGGTAATTATGCAAAAGTT
Found at i:16351812 original size:46 final size:47
Alignment explanation
Indices: 16351690--16351818 Score: 179
Period size: 47 Copynumber: 2.8 Consensus size: 47
16351680 GGTTGAACAT
* ** * *
16351690 CCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAACGC
*
16351737 CGGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACG-AACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAACGC
* *
16351783 CCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16351819 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
46 36 0.49
47 37 0.51
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (47 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAACGC
Found at i:16355222 original size:71 final size:71
Alignment explanation
Indices: 16355106--16355246 Score: 282
Period size: 71 Copynumber: 2.0 Consensus size: 71
16355096 TAGGGAAGTA
16355106 GAATTTGGTATTGATTTGATACCAGGAACAGTTCCGATCTCGATTGCTCTATATCGAATGGCACC
1 GAATTTGGTATTGATTTGATACCAGGAACAGTTCCGATCTCGATTGCTCTATATCGAATGGCACC
16355171 AGCAGT
66 AGCAGT
16355177 GAATTTGGTATTGATTTGATACCAGGAACAGTTCCGATCTCGATTGCTCTATATCGAATGGCACC
1 GAATTTGGTATTGATTTGATACCAGGAACAGTTCCGATCTCGATTGCTCTATATCGAATGGCACC
16355242 AGCAG
66 AGCAG
16355247 AGTTGAAAGA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (71 bp):
GAATTTGGTATTGATTTGATACCAGGAACAGTTCCGATCTCGATTGCTCTATATCGAATGGCACC
AGCAGT
Found at i:16358846 original size:30 final size:30
Alignment explanation
Indices: 16358810--16358869 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
16358800 TTCCCAAGCC
16358810 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
16358840 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
16358870 CGTATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:16359343 original size:46 final size:47
Alignment explanation
Indices: 16359293--16359466 Score: 207
Period size: 46 Copynumber: 3.7 Consensus size: 47
16359283 GTTGAACATC
*
16359293 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG-T
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGCT
* * *
16359339 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--ACGC-T
* *
16359385 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACGCC
1 -CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGCT
*
16359432 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16359467 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 2 0.02
45 2 0.02
46 62 0.56
47 27 0.25
48 5 0.05
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (47 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACGCT
Found at i:16359448 original size:93 final size:93
Alignment explanation
Indices: 16359289--16359458 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
16359279 GATGGTTGAA
* * *
16359289 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATGTCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAACGCCGAACTCGTTGAGTT
16359354 GAGTCCGAGTTCGTGAGATGTAACTAGG
66 GAGTCCGAGTTCGTGAGATGTAACTAGG
*
16359382 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACGCCCGAGCTCGTTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAACG-CCGAACTCGTTGAGT
16359446 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
16359459 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAACGCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAGG
Found at i:16365410 original size:14 final size:14
Alignment explanation
Indices: 16365391--16365421 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16365381 AGCAGAAAGT
*
16365391 AAAAGTAATCCGTG
1 AAAAGTAATCCATG
16365405 AAAAGTAATCCATG
1 AAAAGTAATCCATG
16365419 AAA
1 AAA
16365422 GTTTGAAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (14 bp):
AAAAGTAATCCATG
Found at i:16368101 original size:40 final size:40
Alignment explanation
Indices: 16368046--16368313 Score: 376
Period size: 40 Copynumber: 6.7 Consensus size: 40
16368036 TAATTGAGGA
* * *
16368046 TTATATCCGGGTTAAGTCCCGAAGGCTTTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
* *
16368086 TTATATCCGGGTTAAGTTCTGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
* *
16368126 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
* *
16368166 TTATATCCGGGCTAAGTCCTGAAGGAATTCATGCTGGTTG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
* *
16368206 TTATATCTGGGCCAAGTCCTGAAGGCATTCGTGCTGGTTG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
* * * * *
16368246 TTATATCAGGGCAAAGTTCTGAAGGTATTCGTACTGG-TG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
*
16368285 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCTGAAGGCATT
16368314 TGTGTTTGGA
Statistics
Matches: 205, Mismatches: 23, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
39 26 0.13
40 179 0.87
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (40 bp):
TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTTG
Found at i:16388829 original size:2 final size:2
Alignment explanation
Indices: 16388822--16388846 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16388812 ACTAAGCTAA
16388822 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
16388847 CTCCTCAACA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:16391279 original size:8 final size:8
Alignment explanation
Indices: 16391266--16391291 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
16391256 GGCTATTATT
16391266 TGGACTAA
1 TGGACTAA
16391274 TGGACTAA
1 TGGACTAA
16391282 TGGACTAA
1 TGGACTAA
16391290 TG
1 TG
16391292 ACACTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.27
Consensus pattern (8 bp):
TGGACTAA
Found at i:16391926 original size:68 final size:68
Alignment explanation
Indices: 16391820--16392490 Score: 898
Period size: 68 Copynumber: 9.9 Consensus size: 68
16391810 ATCACTTTTC
* * * * *
16391820 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAATTTCAGTAGATTTCTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTCTT
16391885 -TT
66 CTT
* * *
16391887 CCCTGAAATGGCGTTGGAGCAGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATTTCT
1 -CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTCT
16391952 T-TT
65 TCTT
* * *
16391955 CCCTGAAATGGCGTTGGAGCGGCTAAAAGCCATAGCAGATCTCCTTGAAGTTTCAGTGGATTTCT
1 -CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTCT
16392020 TCTT
65 TCTT
* * * * *
16392024 CCTGAAATGGCATGGGAGCGGCTAAAAGCCACAGCAGATCTCCTTAAAGTTTCAGCGAACCTCTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTCTT
16392089 CTT
66 CTT
* * * *
16392092 CCTGAAATGGCATGGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGGATTTCTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTCTT
16392157 CTT
66 CTT
* * * * * *
16392160 CCTGAAATGGCGTTGGAGCGGTTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAGCGAACCTCTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTCTT
16392225 CTT
66 CTT
* * * *
16392228 CCTGAAATGGCATGGGAGCGGCTAAAAGTCACAACAGATCTTCTTGAAGTTTCAGTGGATCTCTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTCTT
16392293 -TT
66 CTT
* * *** *
16392295 CCCTGAAATGGCATTAGAGCGGTTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCAAACCTCT
1 -CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTCT
16392360 TCTT
65 TCTT
* * * * * * *
16392364 CCTAAAATGGCATTGGAGCGACTAAAATCCACAGTAGATCTCCTTGAAGTTTCAGCGAACCTCTT
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTCTT
16392429 CTT
66 CTT
*
16392432 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAGTGGA
1 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGA
16392491 AGAAGATCAG
Statistics
Matches: 541, Mismatches: 59, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
67 2 0.00
68 535 0.99
69 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (68 bp):
CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATCTCTT
CTT
Found at i:16398158 original size:19 final size:20
Alignment explanation
Indices: 16398131--16398173 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
16398121 TCTTTTTGCA
* *
16398131 TTCATTCATTTGCATTACAT
1 TTCATTCATGTGCATTAAAT
16398151 TTCA-TCATGTGCATTAAAT
1 TTCATTCATGTGCATTAAAT
16398170 TTCA
1 TTCA
16398174 CAAAAAGACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTCATGTGCATTAAAT
Found at i:16406406 original size:68 final size:68
Alignment explanation
Indices: 16406302--16406970 Score: 952
Period size: 68 Copynumber: 9.8 Consensus size: 68
16406292 ATCACTTTTC
* * * *
16406302 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCATAGCAGATCTCCTTGAAATTTCAGTGAATTTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGAATCTCTT
16406367 -TT
66 CTT
* * * *
16406369 CCCTGAAATGGCGTTGGAGCAGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGATTTCT
1 -CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGAATCTCT
16406434 T-TT
65 TCTT
* * * *
16406437 CCCTGAAATGGCGTTGGAGCGGCTAAAAGCCATAGCAGATCTCCTTGAAGTTTCAGTGGATTTCT
1 -CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGAATCTCT
16406502 TCTT
65 TCTT
* *
16406506 CCTGAAATGGCATGGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGAATCTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGAATCTCTT
16406571 CTT
66 CTT
* *
16406574 CCTGAAA-GG-GTATGGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGGATCTC
1 CCTGAAATGGCGT-T-GGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGAATCTC
16406637 TTCTT
64 TTCTT
* * * *
16406642 CCTGAAATGGCATTGGAGCGGTTAAAAGCCACAGCAAATCTCCTTGAAGTTTCAGCGAACCTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGAATCTCTT
16406707 CTT
66 CTT
* * * * *
16406710 CCTGAAATGGCATGGGAGCGGCTAAAAGTCACAACAGATCTCCTTGAAGTTTCAGCGGATCTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGAATCTCTT
16406775 -TT
66 CTT
* * * * * *
16406777 CCCTGAAATGGCATTAGAGCGGTTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCAAACCTCT
1 -CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGAATCTCT
16406842 TCTT
65 TCTT
* *
16406846 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAGCGAACCTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGAATCTCTT
16406911 CTT
66 CTT
*
16406914 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGTAGATCTCCTTGAAGTTTCAGCG
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCG
16406971 GAAGAAGATC
Statistics
Matches: 552, Mismatches: 42, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
66 1 0.00
67 4 0.01
68 539 0.98
69 7 0.01
70 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (68 bp):
CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCGAATCTCTT
CTT
Found at i:16411172 original size:22 final size:23
Alignment explanation
Indices: 16411142--16411191 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
16411132 GTGCCTTTTG
* *
16411142 AGGGCTTAT-GTATATGTGGAAA
1 AGGGATTATAGTACATGTGGAAA
*
16411164 AGGGATTATAGGTACATGTTGAAA
1 AGGGATTATA-GTACATGTGGAAA
16411188 AGGG
1 AGGG
16411192 TGAGAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.35
24 15 0.65
ACGTcount: A:0.34, C:0.04, G:0.34, T:0.28
Consensus pattern (23 bp):
AGGGATTATAGTACATGTGGAAA
Found at i:16412681 original size:47 final size:47
Alignment explanation
Indices: 16412610--16412742 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 47
16412600 TAAGGTGCCA
* **
16412610 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTC-AAGTTG
1 ATGCCATGTCCCAGACAT-GTCTTACACTGACT-ATCATCTCGAAGCCG
* *
16412657 ATGCCATGTCCCAGACATGATCTTACAGTGACTATCATCTCGTAGCCG
1 ATGCCATGTCCCAGACATG-TCTTACACTGACTATCATCTCGAAGCCG
16412705 ATG-CATGTCCCAGACATGTCTTACACTGACTATCATCT
1 ATGCCATGTCCCAGACATGTCTTACACTGACTATCATCT
16412743 GTCCCAGACA
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
46 22 0.29
47 49 0.64
48 6 0.08
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAAGCCG
Found at i:16412833 original size:126 final size:126
Alignment explanation
Indices: 16412616--16412857 Score: 303
Period size: 126 Copynumber: 1.9 Consensus size: 126
16412606 GCCAATGCCA
* *
16412616 TGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTTGATGCCATGTCCCAGACATGATCTT
1 TGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGATCTT
*
16412681 ACAGTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATC
66 ACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATC
* * * * *
16412742 TGTCCCAGACAT-GTCTTACACTAGCTC-TCTTCTCAATGTCGATGTCATGTGCCATACATGTTC
1 TGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-GTCGATGCCATGTCCCAGACATGATC
* * * * *
16412805 TTACACTGGCTCTCA-CAAT-GTGGTCGATGCTTGTCCCAGACATGTCTTACACT
64 TTACACTGACTATCATC--TCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
16412858 AGCTCACACT
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
124 1 0.01
125 21 0.21
126 76 0.77
127 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (126 bp):
TGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGATCTT
ACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATC
Found at i:16414436 original size:20 final size:20
Alignment explanation
Indices: 16414404--16414441 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
16414394 TTGTAGTTTT
*
16414404 TAAATTTTCATAT-TTTCCC
1 TAAAATTTCATATGTTTCCC
16414423 TAAAATTTCTATATGTTTC
1 TAAAATTTC-ATATGTTTC
16414442 TAATTTAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.50
20 4 0.25
21 4 0.25
ACGTcount: A:0.29, C:0.16, G:0.03, T:0.53
Consensus pattern (20 bp):
TAAAATTTCATATGTTTCCC
Found at i:16419610 original size:13 final size:13
Alignment explanation
Indices: 16419592--16419616 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16419582 GGAGCAATCG
16419592 CACACGGGCGTGA
1 CACACGGGCGTGA
16419605 CACACGGGCGTG
1 CACACGGGCGTG
16419617 TCCCTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.32, G:0.40, T:0.08
Consensus pattern (13 bp):
CACACGGGCGTGA
Found at i:16422337 original size:55 final size:55
Alignment explanation
Indices: 16422272--16422432 Score: 198
Period size: 55 Copynumber: 2.9 Consensus size: 55
16422262 GTCGTAGGAA
*
16422272 ACACTGACTTATCAACACGGTCATGGCACACACCCGTGCTGCCTACACGTGGACG
1 ACACTGACTTATCAACACGGTCATGGCACACACCCGTGCTGCCTACACATGGACG
* * * *
16422327 ACACTGACTTATCAACACGGTCACGGCACACACCCGTGCTGCTTGCCCATGGACG
1 ACACTGACTTATCAACACGGTCATGGCACACACCCGTGCTGCCTACACATGGACG
* * * ** * *
16422382 ACACTGGCTTTTTAACACGACCATGGCGCACACCCGTG-TAGCCTACCCATG
1 ACACTGACTTATCAACACGGTCATGGCACACACCCGTGCT-GCCTACACATG
16422433 TACAACTTTG
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 1 0.01
55 90 0.99
ACGTcount: A:0.24, C:0.35, G:0.21, T:0.19
Consensus pattern (55 bp):
ACACTGACTTATCAACACGGTCATGGCACACACCCGTGCTGCCTACACATGGACG
Found at i:16427940 original size:4 final size:4
Alignment explanation
Indices: 16427931--16427956 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
16427921 AAAAATTATA
16427931 ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC AT
16427957 TTATAATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:16433295 original size:9 final size:9
Alignment explanation
Indices: 16433269--16433303 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
16433259 TAGCCATGTG
16433269 TTCTTTCTC
1 TTCTTTCTC
16433278 TTCTCTTCTC
1 TTCT-TTCTC
*
16433288 TTCTTTCTT
1 TTCTTTCTC
16433297 TTCTTTC
1 TTCTTTC
16433304 CTTTTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (9 bp):
TTCTTTCTC
Found at i:16433429 original size:34 final size:34
Alignment explanation
Indices: 16433370--16433437 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
16433360 ATTTATGTTT
* *
16433370 CATTTTATTTATTTATTATTATATAATATATATA
1 CATTTCATTTATTTATTATTATATAACATATATA
16433404 CATTTCATGTTATTTA-T-TTATTATAACATATATA
1 CATTTCAT-TTATTTATTATTA-TATAACATATATA
16433438 TATTAAGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 3 0.10
34 20 0.67
35 7 0.23
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (34 bp):
CATTTCATTTATTTATTATTATATAACATATATA
Found at i:16433435 original size:36 final size:39
Alignment explanation
Indices: 16433367--16433440 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
16433357 TTCATTTATG
*
16433367 TTTCATTTTATTTATTTATTATTATATAATATATATACA
1 TTTCATGTTATTTATTTATTATTATATAATATATATACA
* *
16433406 TTTCATGTTATTTATTTATTATAACAT-ATATATAT
1 TTTCATGTTATTTATTTATTATTATATAATATATAT
16433441 TAAGTTATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 8 0.25
39 24 0.75
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.58
Consensus pattern (39 bp):
TTTCATGTTATTTATTTATTATTATATAATATATATACA
Found at i:16435831 original size:129 final size:129
Alignment explanation
Indices: 16435593--16435853 Score: 432
Period size: 129 Copynumber: 2.0 Consensus size: 129
16435583 CCTAGGGCAA
* *
16435593 AAGATGTGGATAGAATTGTTAAAGGATTATGATTGTGTAACTGAATATCACTCCGGAAAAGCCAA
1 AAGAGGTGGATAGAATTGTTAAAGGATTATGATTGTGTAACTGAATATCACTCCAGAAAAGCCAA
* *
16435658 TGTCATGGCAGATGCTCTAAGTAAAAAAACAAATGGTCGATCTAAGAGCAATGTTTTTTAGGTT
66 TGTCATAGCAGATGCTCTAAGTAAAAAAACAAATGATCGATCTAAGAGCAATGTTTTTTAGGTT
* * *
16435722 AAGAGGTGGATAGAATTGTTACAGGATTATGATTGTGTAACTGAATATCACTCTAGAAAAGCTAA
1 AAGAGGTGGATAGAATTGTTAAAGGATTATGATTGTGTAACTGAATATCACTCCAGAAAAGCCAA
* * *
16435787 TGTCATAGCAGATGCTCTAAGTAAAAAAACAAATGATTGGTCTAAGAGTAATGTTTTTTAGGTT
66 TGTCATAGCAGATGCTCTAAGTAAAAAAACAAATGATCGATCTAAGAGCAATGTTTTTTAGGTT
16435851 AAG
1 AAG
16435854 TCTAGTGGAT
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 122 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.30
Consensus pattern (129 bp):
AAGAGGTGGATAGAATTGTTAAAGGATTATGATTGTGTAACTGAATATCACTCCAGAAAAGCCAA
TGTCATAGCAGATGCTCTAAGTAAAAAAACAAATGATCGATCTAAGAGCAATGTTTTTTAGGTT
Found at i:16442520 original size:47 final size:46
Alignment explanation
Indices: 16442424--16442591 Score: 133
Period size: 47 Copynumber: 3.6 Consensus size: 46
16442414 AGCTGATGCG
* * ** * *
16442424 TGTCCCAGACACGTCTTACATTGGCTA-TCATCGTTGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGC-ACTCAT-AATGTGGCCGATCCA
** * *
16442471 TGTCCCAGACATGTCTTACACTGGCACTTGT-CTCTGTGCCGATACCA
1 TGTCCCAGACATGTCTTACACTGGCACTCATAATGTG-GCCGAT-CCA
* * * *
16442518 TGTTCCAAACATGGTCTTATACTGGCACTCATAATGTGGCCGATGCA
1 TGTCCCAGACAT-GTCTTACACTGGCACTCATAATGTGGCCGATCCA
* *
16442565 TGTCCCAGACATTTCTTACGCTGGCAC
1 TGTCCCAGACATGTCTTACACTGGCAC
16442592 ACAAGAAATC
Statistics
Matches: 95, Mismatches: 21, Indels: 11
0.75 0.17 0.09
Matches are distributed among these distances:
45 2 0.02
46 19 0.20
47 49 0.52
48 22 0.23
49 3 0.03
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (46 bp):
TGTCCCAGACATGTCTTACACTGGCACTCATAATGTGGCCGATCCA
Found at i:16442953 original size:30 final size:30
Alignment explanation
Indices: 16442912--16442969 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
16442902 AAATTCACAT
* *
16442912 CTTTGGTAAAATGACCATTTTTCCCCTAAA
1 CTTTGGCAAAATGACCATTTTACCCCTAAA
*
16442942 CTTTGGCAAAATGATCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
16442970 TGCTCAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.36
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAAA
Found at i:16449905 original size:47 final size:46
Alignment explanation
Indices: 16449708--16450019 Score: 244
Period size: 47 Copynumber: 6.6 Consensus size: 46
16449698 TTGCCAATGC
*
16449708 CATGTCCTAGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATG
1 CATGTCCCAGACA-GGTCTTACACTGGC-ATCATCATCGAGGCCGATG
* * * * *
16449756 CCATGTCCCAGACATGGTCTTATACTAGCTCTCGTAT-ATAC-ATGCTGATG
1 -CATGTCCCAGACA-GGTCTTACACTGGC-ATC--ATCAT-CGAGGCCGATG
* * * * *
16449806 CATGTCTCAGACATGTCTTACACTAGCA-CAAC-TCTTA-GCCGATG
1 CATGTCCCAGACAGGTCTTACACTGGCATCATCATC-GAGGCCGATG
* *
16449850 CATGTCCCAGACACGTCTTACACTGGCTATCATCGTCGAGGCCGATG
1 CATGTCCCAGACAGGTCTTACACTGGC-ATCATCATCGAGGCCGATG
* * *
16449897 CATGTCCCAGACATGTCTTACACTGGCACTCGTC-TCTG-TGCCGATG
1 CATGTCCCAGACAGGTCTTACACTGGCA-TCATCATC-GAGGCCGATG
* * * *
16449943 CCATGTCCTAGACATGGTCTTATACTGGCACTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACA-GGTCTTACACTGGCA-TCATCATCGAGGCCGATG
*
16449991 CATGTCCCAGACATGTCTTACACTGGCAT
1 CATGTCCCAGACAGGTCTTACACTGGCAT
16450020 GCAAGAAATC
Statistics
Matches: 218, Mismatches: 29, Indels: 36
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.00
44 32 0.15
45 3 0.01
46 28 0.13
47 65 0.30
48 36 0.17
49 41 0.19
50 9 0.04
51 3 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACAGGTCTTACACTGGCATCATCATCGAGGCCGATG
Found at i:16449988 original size:141 final size:140
Alignment explanation
Indices: 16449708--16450017 Score: 369
Period size: 141 Copynumber: 2.2 Consensus size: 140
16449698 TTGCCAATGC
* *
16449708 CATGTCCTAGACATGGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACA-CGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAGACATGG
* * * *
16449773 TCTTATACTAGCTCTCGTATATACATGCTGATGCATGTCTCAGACATGTCTTACACTAGCACAAC
65 TCTTACACTAGCACTCGTATATA-ATGCCGATGCATGTCTCAGACATGTCTTACACTAGCACAAA
*
16449838 TCTTAGCCGATG
129 TCGTAGCCGATG
*
16449850 CATGTCCCAGACACGTCTTACACTGGCTATCATCGTCGAGGCCGATG-CATGTCCCAGACAT-GT
1 CATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAGACATGGT
* * * * * *
16449913 CTTACACTGGCACTCGTCTCT-GTGCCGATGCCATGTC-CTAGACATGGTCTTATACTGGCACTC
66 CTTACACTAGCACTCGTATATAATGCCGATG-CATGTCTC-AGACAT-GTCTTACACTAGCA--C
*
16449976 ATAAT-GTGGCCGATG
126 A-AATCGTAGCCGATG
*
16449991 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACACGTCTTACACTGGC
16450018 ATGCAAGAAA
Statistics
Matches: 146, Mismatches: 16, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
137 8 0.05
138 12 0.08
139 30 0.21
140 14 0.10
141 68 0.47
142 14 0.10
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (140 bp):
CATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCAGACATGGT
CTTACACTAGCACTCGTATATAATGCCGATGCATGTCTCAGACATGTCTTACACTAGCACAAATC
GTAGCCGATG
Found at i:16449993 original size:94 final size:93
Alignment explanation
Indices: 16449708--16450018 Score: 314
Period size: 94 Copynumber: 3.3 Consensus size: 93
16449698 TTGCCAATGC
*
16449708 CATGTCCTAGACATGGTCTTACACTGGCTA-TCATCATC-GAGGCCGATGCCATGTCCCAGACAT
1 CATGTCCCAGACAT-GTCTTACACTGGC-ACTC-TC-TCTGA-GCCGATGCCATGTCCCAGACAT
* * ** *
16449771 GGTCTTATACTAGCTCTCGTATATACAT-GCTGATG
61 GGTCTTATACTGGCACTC--ATA-ATGTGGCCGATG
* * * *
16449806 CATGTCTCAGACATGTCTTACACTAGCACAACTCT-T-AGCCGATG-CATGTCCCAGACA-CGTC
1 CATGTCCCAGACATGTCTTACACTGGCAC-TCTCTCTGAGCCGATGCCATGTCCCAGACATGGTC
* ** *
16449867 TTACACTGGCTA-TCATCGTCGAGGCCGATG
65 TTATACTGGC-ACTCATAAT-GTGGCCGATG
* *
16449897 CATGTCCCAGACATGTCTTACACTGGCACTCGTCTCTGTGCCGATGCCATGTCCTAGACATGGTC
1 CATGTCCCAGACATGTCTTACACTGGCACTC-TCTCTGAGCCGATGCCATGTCCCAGACATGGTC
16449962 TTATACTGGCACTCATAATGTGGCCGATG
65 TTATACTGGCACTCATAATGTGGCCGATG
16449991 CATGTCCCAGACATGTCTTACACTGGCA
1 CATGTCCCAGACATGTCTTACACTGGCA
16450019 TGCAAGAAAT
Statistics
Matches: 177, Mismatches: 24, Indels: 28
0.77 0.10 0.12
Matches are distributed among these distances:
90 3 0.02
91 36 0.20
92 14 0.08
93 20 0.11
94 57 0.32
95 18 0.10
96 2 0.01
97 14 0.08
98 13 0.07
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCTCTCTGAGCCGATGCCATGTCCCAGACATGGTCT
TATACTGGCACTCATAATGTGGCCGATG
Found at i:16457125 original size:47 final size:47
Alignment explanation
Indices: 16457067--16457320 Score: 400
Period size: 47 Copynumber: 5.4 Consensus size: 47
16457057 CAGCCAAGAC
16457067 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
16457114 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
16457161 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
16457208 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
16457255 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
16457302 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
16457321 TCCCTAAGGG
Statistics
Matches: 190, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 190 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:16457495 original size:37 final size:37
Alignment explanation
Indices: 16457439--16457517 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
16457429 CCGAGCTCTA
* *
16457439 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
16457476 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
16457513 AAGAC
1 AAGAC
16457518 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:16459448 original size:43 final size:43
Alignment explanation
Indices: 16459383--16459526 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
16459373 TTGGTTTTCA
16459383 GCACTAAGTGT--GGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
16459424 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
16459467 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
16459510 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
16459527 TTGAAATGCA
Statistics
Matches: 101, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
41 11 0.11
43 90 0.89
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:16459543 original size:29 final size:29
Alignment explanation
Indices: 16459508--16459581 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
16459498 GTTGTGAGAT
* *
16459508 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
16459537 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
16459566 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
16459582 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:16460082 original size:39 final size:40
Alignment explanation
Indices: 16459892--16460126 Score: 228
Period size: 40 Copynumber: 5.9 Consensus size: 40
16459882 TCGAATGATG
** *
16459892 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* * ** * * *
16459932 TCCGGACTAAGAT-TCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
* *
16459972 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
16460012 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
16460052 TCCGGGCTAAGT-TCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
16460091 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
16460127 CGTGTATTCG
Statistics
Matches: 164, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
39 35 0.21
40 111 0.68
41 18 0.11
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:16460100 original size:79 final size:80
Alignment explanation
Indices: 16459971--16460126 Score: 233
Period size: 79 Copynumber: 2.0 Consensus size: 80
16459961 GAGTTACTAA
* * *
16459971 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTATCCGGGCTAAGTCCCGAAGAGCAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATATATCCGGGCTAAATCCCGAAGAGCAA
16460036 TCATGCTAGTGATGT
66 TCATGCTAGTGATGT
* * * *
16460051 ATCCGGGCTAAGT-TCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAATCCCGAAGAGCAA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATATATCCGGGCTAAATCCCGAAGAGCAA
*
16460115 TCATGCTGGTGA
66 TCATGCTAGTGA
16460127 CGTGTATTCG
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
79 55 0.81
80 13 0.19
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATATATCCGGGCTAAATCCCGAAGAGCAA
TCATGCTAGTGATGT
Found at i:16463523 original size:47 final size:47
Alignment explanation
Indices: 16463465--16463718 Score: 400
Period size: 47 Copynumber: 5.4 Consensus size: 47
16463455 CAGCCAAGAC
*
16463465 AGTGTATATATGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
16463512 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
16463559 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
16463606 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
16463653 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
16463700 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
16463719 TCCCGAAGGG
Statistics
Matches: 191, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 191 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:16463893 original size:37 final size:37
Alignment explanation
Indices: 16463837--16463915 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
16463827 CCGAGCTCTA
* *
16463837 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
16463874 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
16463911 AAGAC
1 AAGAC
16463916 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:16473991 original size:92 final size:92
Alignment explanation
Indices: 16473830--16474013 Score: 280
Period size: 92 Copynumber: 2.0 Consensus size: 92
16473820 GATTTTCTAG
* * *
16473830 AATGAGAAAATGGTTGGAAGCTCATTTAGAAGTAGAATAGATAAGACAAGTGTGTCAAATTTCAA
1 AATGAGAAAATGATTGGAAGCTCATTTAGAAGTAGAATAGATAAAACAAATGTGTCAAATTTCAA
* *
16473895 AGCAGCTATGTATTACATTGAAGTAAA
66 AGCAGCTATATATTACATTCAAGTAAA
* *
16473922 AATGAGCAAATGATTGTAAG-TCCATTTAGAAGTAGAATAGATAAAACAAATGTGTCAAATTTCA
1 AATGAGAAAATGATTGGAAGCT-CATTTAGAAGTAGAATAGATAAAACAAATGTGTCAAATTTCA
*
16473986 GAGCAGCTATATATTACATTCAAGTAAA
65 AAGCAGCTATATATTACATTCAAGTAAA
16474014 TTACGTGTAA
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 1 0.01
92 82 0.99
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.28
Consensus pattern (92 bp):
AATGAGAAAATGATTGGAAGCTCATTTAGAAGTAGAATAGATAAAACAAATGTGTCAAATTTCAA
AGCAGCTATATATTACATTCAAGTAAA
Found at i:16474491 original size:14 final size:14
Alignment explanation
Indices: 16474472--16474504 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
16474462 CTCGAATGAG
*
16474472 TTTTTTTT-TGCTT
1 TTTTTTTTCTACTT
16474485 TTTTTTTTCTACTT
1 TTTTTTTTCTACTT
16474499 TTTTTT
1 TTTTTT
16474505 GCTATTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.85
Consensus pattern (14 bp):
TTTTTTTTCTACTT
Found at i:16476676 original size:3 final size:3
Alignment explanation
Indices: 16476668--16476709 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
16476658 ATCAAGTACT
* * *
16476668 TAA TAA TAA TAA TAA TAT TAA TAA TAA TAA TGA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16476710 CATGTCATGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:16480363 original size:19 final size:19
Alignment explanation
Indices: 16480301--16480372 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
16480291 AAAAATTACA
*
16480301 AAAAAATCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
16480320 CAAAAATTGAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
*
16480340 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
16480359 AAAAATTCTAAAAT
1 AAAAATTC-AAAAT
16480373 TTGTATTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
18 4 0.09
19 19 0.42
20 22 0.49
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:16480523 original size:3 final size:3
Alignment explanation
Indices: 16480515--16480545 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
16480505 CTAAAATATC
16480515 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
16480546 GCTTTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:16481560 original size:39 final size:37
Alignment explanation
Indices: 16481493--16481585 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
16481483 ACCAGAATGG
* *
16481493 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
16481532 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
16481569 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
16481586 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:16481948 original size:3 final size:3
Alignment explanation
Indices: 16481940--16481980 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
16481930 ATTCCCACTC
* *
16481940 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A TTA ATA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16481981 TTATACTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.03
3 32 0.97
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:16482710 original size:17 final size:16
Alignment explanation
Indices: 16482678--16482711 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
16482668 TTGGCTATTC
*
16482678 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
16482694 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
16482711 T
1 T
16482712 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:16482759 original size:14 final size:14
Alignment explanation
Indices: 16482700--16482750 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
16482690 CTTTTGTTTC
*
16482700 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
16482713 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
16482728 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
16482742 TTTTATTTC
1 TTTTATTTC
16482751 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:16482919 original size:14 final size:17
Alignment explanation
Indices: 16482900--16482936 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
16482890 ATTTATTTCT
16482900 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
16482914 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
16482931 TAATAT
1 TAATAT
16482937 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:16487907 original size:21 final size:21
Alignment explanation
Indices: 16487865--16487907 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
16487855 TTCAGTATAC
*
16487865 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
16487886 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
16487907 A
1 A
16487908 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:16489016 original size:39 final size:37
Alignment explanation
Indices: 16488949--16489041 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
16488939 ACCAGAATGG
* *
16488949 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
16488988 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
16489025 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
16489042 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:16489404 original size:3 final size:3
Alignment explanation
Indices: 16489396--16489433 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
16489386 ATTCCCACTC
* *
16489396 ATA ATA ATA ATA ATA ATA ATA ATA A-A TTA ATA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16489434 TTATACTTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
2 1 0.03
3 29 0.97
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:16490164 original size:17 final size:16
Alignment explanation
Indices: 16490132--16490165 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
16490122 TTGGCTATTC
*
16490132 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
16490148 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
16490165 T
1 T
16490166 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:16490213 original size:14 final size:14
Alignment explanation
Indices: 16490154--16490204 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
16490144 CTTTTGTTTC
*
16490154 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
16490167 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
16490182 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
16490196 TTTTATTTC
1 TTTTATTTC
16490205 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:16490372 original size:14 final size:17
Alignment explanation
Indices: 16490353--16490389 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
16490343 ATTTATTTCT
16490353 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
16490367 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
16490384 TAATAT
1 TAATAT
16490390 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:16490937 original size:22 final size:23
Alignment explanation
Indices: 16490899--16490941 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
16490889 ACCTTATCTA
16490899 AAGTTAAAAAGTCAAAAATTATC
1 AAGTTAAAAAGTCAAAAATTATC
*
16490922 AAGTTAAAAGGT-AAAAATTA
1 AAGTTAAAAAGTCAAAAATTA
16490942 CGTTGTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.58, C:0.05, G:0.12, T:0.26
Consensus pattern (23 bp):
AAGTTAAAAAGTCAAAAATTATC
Done.