Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 55 of 168
Found at i:15567188 original size:28 final size:27
Alignment explanation
Indices: 15567125--15567188 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
15567115 TAATAGAAAT
* *
15567125 AGTACAGTGTGGGCCTTAGCCCCATAA
1 AGTACAGTGTCGGCCTAAGCCCCATAA
* * *
15567152 AGAAACAGTGTCGGCCTAAGCCCGATAC
1 AG-TACAGTGTCGGCCTAAGCCCCATAA
15567180 AGTATCAGT
1 AGTA-CAGT
15567189 ATGGTGCAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
27 3 0.10
28 26 0.90
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (27 bp):
AGTACAGTGTCGGCCTAAGCCCCATAA
Found at i:15567441 original size:32 final size:32
Alignment explanation
Indices: 15567373--15567572 Score: 224
Period size: 32 Copynumber: 6.3 Consensus size: 32
15567363 GAATGGCTAC
* * * *
15567373 AAGCCATAAGT-ACTGTAATATGATTGGCATA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * *
15567404 AAGCCA-CTAGTAGCAGTGATATGATCGGCACA
1 AAGCCATC-AGTAACGGTAATATGATCGGCACA
* * **
15567436 CAGCCATCAGTAACGATAATATGATCGATACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * *
15567468 CAGCCATCAGTAATGGTAATATAATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
*
15567500 AAGGCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* *
15567532 AAGCCATTAGTAACGGTAATATGATCGGCTCA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
15567564 AAGCCATCA
1 AAGCCATCA
15567573 ATAGCATCGT
Statistics
Matches: 140, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
31 9 0.06
32 130 0.93
33 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTAATATGATCGGCACA
Found at i:15567819 original size:23 final size:23
Alignment explanation
Indices: 15567789--15567832 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
15567779 TACCAAACAT
*
15567789 AGACAAATCAGTCATTTAACCCC
1 AGACAAATCAATCATTTAACCCC
15567812 AGACAAATCAATCATTTAACC
1 AGACAAATCAATCATTTAACC
15567833 TCGAGGGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.07, T:0.23
Consensus pattern (23 bp):
AGACAAATCAATCATTTAACCCC
Found at i:15567896 original size:27 final size:27
Alignment explanation
Indices: 15567848--15568411 Score: 527
Period size: 27 Copynumber: 21.1 Consensus size: 27
15567838 GGGCAAACTA
*
15567848 GTCA-TTTACCCT-CTAGGAGTATTACG
1 GTCATTTTACCCTAC-AGGGGTATTACG
*
15567874 GTCATTTTA-CCTAACAGGGGTATTACT
1 GTCATTTTACCCT-ACAGGGGTATTACG
* * * *
15567901 GTCATTTTACTCTATAAGGGTATTACT
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
15567928 GTCATTTTACCCTATA-CGGTATAACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
15567954 ATCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * ** *
15567981 GTTATTTTACCCAATGGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
*
15568008 GTCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
15568035 GTCATTTTACTCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
**
15568062 GTCATTTTACCCTATGGGGGTATTA--
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
15568087 GCCATTTTACCCTACATGGGCATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
15568114 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
15568141 GTCTTTTTACTCTATAGGGGTTTTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
15568168 GTCGTTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
15568195 GTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
15568222 GTCATTTTACCCTACAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGTATTACG
** *
15568249 GT-ATTTTACCCTATGGGGGTATCT-CA
1 GTCATTTTACCCTACAGGGGTAT-TACG
* * *
15568275 GTCATTTTACCCTACGGGGGTATTTCA
1 GTCATTTTACCCTACAGGGGTATTACG
* * * *
15568302 GTTATTTTACCCTTCTGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
15568329 GT-ATTCTACCCTA-AGGGGGTATTTCG
1 GTCATTTTACCCTACA-GGGGTATTACG
* ** * *
15568355 GTCATTTTACCTTATGGGGGTATTTCA
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
15568382 GTCATTTTACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGTATTACG
15568409 GTC
1 GTC
15568412 CAGATATCAA
Statistics
Matches: 451, Mismatches: 74, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
25 20 0.04
26 72 0.16
27 356 0.79
28 3 0.01
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:15568289 original size:80 final size:80
Alignment explanation
Indices: 15567848--15568411 Score: 466
Period size: 80 Copynumber: 7.0 Consensus size: 80
15567838 GGGCAAACTA
* * * *
15567848 GTCA-TTTACCCTCTAGGAGTATTACGGTCATTTTA-CCTAACAGGGGTATTACTGTCATTTTAC
1 GTCATTTTACCCTATGGGGGTATT-CGGTCATTTTACCCT-ACAGGGGTATTACGGTCATTTTAC
* * * *
15567911 TCTATAAGGGTATTACT
64 CCTATAGGGGTATTTCG
** * * *
15567928 GTCATTTTACCCTAT-ACGGTATAACGATCATTTTACCCTACAGGGGTATTACGGTTATTTTACC
1 GTCATTTTACCCTATGGGGGTAT-TCGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
* *
15567992 CAATGGGGGTATTAT-G
65 CTATAGGGGTATT-TCG
*** * *
15568008 GTCATTTTACCCTACAAGGGTATTACGGTCATTTTACTCTACAGGGGCATTACGGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTATT-CGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
* *
15568073 CTATGGGGGTA-TT-A
65 CTATAGGGGTATTTCG
* *** * * * * * *
15568087 GCCATTTTACCCTACATGGGCATTATGGTCATTTTACCCTATAGGGGCATTACGGTCTTTTTACT
1 GTCATTTTACCCTATGGGGGTATT-CGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
15568152 CTATAGGGGT-TTTACG
65 CTATAGGGGTATTT-CG
* ** * * *
15568168 GTCGTTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAAGGGCATTACGGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTATT-CGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
*
15568233 CTACAGGGGTATTTCG
65 CTATAGGGGTATTTCG
* * * * *
15568249 GT-ATTTTACCCTATGGGGGTATCTCAGTCATTTTACCCTACGGGGGTATTTCAGTTATTTTACC
1 GTCATTTTACCCTATGGGGGTAT-TCGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
*
15568313 CT-TCTGGGGTATTTCG
65 CTAT-AGGGGTATTTCG
* * * ** * *
15568329 GT-ATTCTACCCTAAGGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTTCAGTCATTTTACC
1 GTCATTTTACCCTATGGGGGTA-TTCGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACC
*
15568393 CT-TCGGGGGTATTTCG
65 CTAT-AGGGGTATTTCG
15568409 GTC
1 GTC
15568412 CAGATATCAA
Statistics
Matches: 408, Mismatches: 62, Indels: 27
0.82 0.12 0.05
Matches are distributed among these distances:
79 69 0.17
80 200 0.49
81 136 0.33
82 3 0.01
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (80 bp):
GTCATTTTACCCTATGGGGGTATTCGGTCATTTTACCCTACAGGGGTATTACGGTCATTTTACCC
TATAGGGGTATTTCG
Found at i:15571634 original size:14 final size:14
Alignment explanation
Indices: 15571612--15571644 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
15571602 GCCGAACAAT
*
15571612 TTCTGGCATTTTAG
1 TTCTAGCATTTTAG
15571626 TTCTAGCATTTTAG
1 TTCTAGCATTTTAG
15571640 TTCTA
1 TTCTA
15571645 AAATTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (14 bp):
TTCTAGCATTTTAG
Found at i:15574180 original size:13 final size:13
Alignment explanation
Indices: 15574159--15574209 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
15574149 ACACTTAAGT
15574159 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
15574172 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
*
15574185 TTTTCCACAA-CAC
1 TTTT-CAAAAGCAC
15574198 TTTTCAAAAGCA
1 TTTTCAAAAGCA
15574210 AAGAAGAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 4 0.12
13 24 0.75
14 4 0.12
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.29
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:15583186 original size:138 final size:138
Alignment explanation
Indices: 15582953--15584460 Score: 1944
Period size: 138 Copynumber: 11.0 Consensus size: 138
15582943 AAAAAAAGAT
* * * *
15582953 TTATATTCTTTTCAAAAGAATATTAATTT-CATGTCTTTTATACTTTGATCGAAATTAATTAAGA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * * * * *
15583017 AAACTATTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTATATGAATTAAATTCA
66 TAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
15583082 TATATTAA
131 TATATTAA
* * *
15583090 TTATATTCTTTCCAAAGGACA-ATTAATTTCCATGTCTTTTATAGTTTGATCGAAATTAATTAAT
1 TTATATTCTTTCCAAAAGA-ATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAAT
* *
15583154 ATAATTGCTTATATTAAGT-AATTCGGTCAAATATATACAATTAATATTTTGTATGAATCAAATT
65 ATAATTGTTTATATTAA-TAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* *
15583218 CATTTGTTAA
129 CATATATTAA
* * ** *
15583228 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTAATATTTTGATAGAAAATAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * * *
15583293 TAATTGTTTATATTAACT-AATTCAGTAAAATATATATAATTAATATTTTGTATGAATCAATTTG
66 TAATTGTTTATATTAA-TAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
*
15583357 ATAAATTAA
130 ATATATTAA
* * * * * *
15583366 TTATATTGTTTCCAAGAGAATATTAATTTCAATATCTTTTATATTTTGGCCAAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* *
15583431 TAATTG----T-TTAATAAATTCGGTAAAACATATACAATTAATATTTTATATGAATCAAATTCA
66 TAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
15583491 TATATTAA
131 TATATTAA
* *
15583499 TTATATTCTTTCC-AAAG-A-A-T--TTTCCATCTCTTTTATA-TTTGACCGAAATTAGTTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * * * *
15583557 TAACTT-TTTATATTAATAAAATCGGTAAAATGTATATAATTAATATTTTGTATGAGTTAAATTC
66 TAA-TTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
15583621 ATATATTAA
130 ATATATTAA
* * * * *
15583630 TTATATTCTTTCGAAAGGAAGATTAATTTTCATGTCTTTTATATTTTGACCAAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * * *
15583695 TAATTGTTTACATTAATAAATTTGGT---ATATATACAATGAATATTTTGTATAAATCAAATTCA
66 TAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
15583757 TATATTAA
131 TATATTAA
** *
15583765 TTATATTCTTTTGAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATA
*
15583830 TAATTGTTTATATTAATAAATTCGGTAATATATATATACAATTAATATTTTGTGTGAATCAAATT
66 TAATTGTTTATATTAATAAATTCGGTAA-A-ATATATACAATTAATATTTTGTATGAATCAAATT
*
15583895 TATATATTAA
129 CATATATTAA
* * * * * * * * *
15583905 TTATATTCTTTCGAGAGGAATATTAATTTTCATATCTTTTTTATTTTCACTGCAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * * *
15583970 TAGTTGTTTATATTATTAAATTTGGTAAAATATATACAATTAATATTTTGTAGGAATCAAATTCA
66 TAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
15584035 TATATTAA
131 TATATTAA
*** * *
15584043 TTATATTCTTT-TGGAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAGTTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATA
** * * *
15584107 TAACAGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTAGGAATCAAGTTCA
66 TAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
15584172 TATATTAA
131 TATATTAA
* *
15584180 TTATATTC-TTCCAAAAGAATATTAATGTCCATGTCTTTTATATTTTGACCGAAATTAGTTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATA
** * *
15584244 TAACAGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAATTTCA
66 TAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
15584309 TATATTAA
131 TATATTAA
* * * *
15584317 TTATATTATTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGAACGAAATTAATTAATG
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATA
* * * * * * *
15584382 TAACTATTTATATTAACAAATTCAGTAAAATATATACATTTAATATTTTGTATGAATGAATTTCA
66 TAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
15584447 TATATTAA
131 TATATTAA
15584455 TTATAT
1 TTATAT
15584461 CTATGTTCTT
Statistics
Matches: 1208, Mismatches: 137, Indels: 51
0.87 0.10 0.04
Matches are distributed among these distances:
126 21 0.02
127 17 0.01
129 1 0.00
130 2 0.00
131 67 0.06
132 7 0.01
133 65 0.05
134 2 0.00
135 122 0.10
136 2 0.00
137 287 0.24
138 491 0.41
139 2 0.00
140 122 0.10
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (138 bp):
TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATA
TAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
TATATTAA
Found at i:15583935 original size:275 final size:274
Alignment explanation
Indices: 15582953--15584460 Score: 1930
Period size: 275 Copynumber: 5.5 Consensus size: 274
15582943 AAAAAAAGAT
* *
15582953 TTATATTCTTTTCAAAAGAATATTAATTT-CATGTCTTTTATACTTTGA-TCGAAATTAATTAAG
1 TTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACT-GAAATTAATTAAT
* * * *
15583016 AAAACTATTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTATATGAATTAAATTC
65 ATAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
* * *
15583081 ATATATTAATTATATTCTTTCCAAAGGACA-ATTAATTTCCATGTCTTTTATAGTTTGATCGAAA
130 ATATATTAATTATATTCTTTCCAAAGGA-ATATTAATTTTCATGTCTTTTATATTTTGACCGAAA
*
15583145 TTAATTAATATAATTGCTTATATTAAGT-AATTCGGTCAAATATATACAATTAATATTTTGTATG
194 TTAATTAATATAATTGTTTATATTAA-TAAATTCGGT--AATATATACAATTAATATTTTGTATG
* *
15583209 AATCAAATTCATTTGTTAA
256 AATCAAATTCATATATTAA
* * * *
15583228 TTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTAATATTTTGA-TAGAAAATAATTAAT
1 TTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACT-GAAATTAATTAAT
* * *
15583292 ATAATTGTTTATATTAACT-AATTCAGTAAAATATATATAATTAATATTTTGTATGAATCAATTT
65 ATAACTGTTTATATTAA-TAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
* * * * * *
15583356 GATAAATTAATTATATTGTTTCC-AAGAGAATATTAA-TTTCAATATCTTTTATATTTTGGCCAA
129 CATATATTAATTATATTCTTTCCAAAG-GAATATTAATTTTC-ATGTCTTTTATATTTTGACCGA
* *
15583419 AATTAATTAATATAATTG----T-TTAATAAATTCGGTAAAACATATACAATTAATATTTTATAT
192 AATTAATTAATATAATTGTTTATATTAATAAATTCGGT--AATATATACAATTAATATTTTGTAT
15583479 GAATCAAATTCATATATTAA
255 GAATCAAATTCATATATTAA
* * * *
15583499 TTATATTC-TTTCCAAAG-A-A-T--TTTCCATCTCTTTTATA-TTTGACCGAAATTAGTTAATA
1 TTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAATA
* * * * * * *
15583557 TAACTTTTTATATTAATAAAATCGGTAAAATGTATATAATTAATATTTTGTATGAGTTAAATTCA
66 TAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
* * *
15583622 TATATTAATTATATTCTTTCGAAAGGAAGATTAATTTTCATGTCTTTTATATTTTGACCAAAATT
131 TATATTAATTATATTCTTTCCAAAGGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATT
* * * *
15583687 AATTAATATAATTGTTTACATTAATAAATTTGGT-ATATATACAATGAATATTTTGTATAAATCA
196 AATTAATATAATTGTTTATATTAATAAATTCGGTAATATATACAATTAATATTTTGTATGAATCA
15583751 AATTCATATATTAA
261 AATTCATATATTAA
*
15583765 TTATATTCTTTTGAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAATA
1 TTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAATA
* * *
15583830 TAATTGTTTATATTAATAAATTCGGTAATATATATATACAATTAATATTTTGTGTGAATCAAATT
66 TAACTGTTTATATTAATAAATTCAGTAA-A-ATATATACAATTAATATTTTGTATGAATCAAATT
* * * * * * * *
15583895 TATATATTAATTATATTCTTTCGAGAGGAATATTAATTTTCATATCTTTTTTATTTTCACTGCAA
129 CATATATTAATTATATTCTTTCCAAAGGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAA
* * * *
15583960 TTAATTAATATAGTTGTTTATATTATTAAATTTGGTAAAATATATACAATTAATATTTTGTAGGA
194 TTAATTAATATAATTGTTTATATTAATAAATTCGGT--AATATATACAATTAATATTTTGTATGA
15584025 ATCAAATTCATATATTAA
257 ATCAAATTCATATATTAA
** *
15584043 TTATATTCTTTT-GGAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAGTTAATA
1 TTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAATA
* * *
15584107 TAACAGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTAGGAATCAAGTTCA
66 TAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
* * *
15584172 TATATTAATTATATTC-TTCCAAAAGAATATTAATGTCCATGTCTTTTATATTTTGACCGAAATT
131 TATATTAATTATATTCTTTCCAAAGGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATT
* ** *
15584236 AGTTAATATAACAGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAAT
196 AATTAATATAATTGTTTATATTAATAAATTCGGT--AATATATACAATTAATATTTTGTATGAAT
*
15584301 CAATTTCATATATTAA
259 CAAATTCATATATTAA
* * *
15584317 TTATATTATTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGAAC-GAAATTAATTAAT
1 TTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTG-ACTGAAATTAATTAAT
* * * * * *
15584381 GTAACTATTTATATTAACAAATTCAGTAAAATATATACATTTAATATTTTGTATGAATGAATTTC
65 ATAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
15584446 ATATATTAATTATAT
130 ATATATTAATTATAT
15584461 CTATGTTCTT
Statistics
Matches: 1077, Mismatches: 127, Indels: 58
0.85 0.10 0.05
Matches are distributed among these distances:
263 1 0.00
264 135 0.13
265 21 0.02
266 48 0.04
267 8 0.01
268 2 0.00
269 15 0.01
270 9 0.01
271 62 0.06
272 17 0.02
273 44 0.04
274 121 0.11
275 317 0.29
276 149 0.14
277 75 0.07
278 53 0.05
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (274 bp):
TTATATTCTTTTCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTAATA
TAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
TATATTAATTATATTCTTTCCAAAGGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATT
AATTAATATAATTGTTTATATTAATAAATTCGGTAATATATACAATTAATATTTTGTATGAATCA
AATTCATATATTAA
Found at i:15584175 original size:67 final size:67
Alignment explanation
Indices: 15584099--15584312 Score: 152
Period size: 67 Copynumber: 3.1 Consensus size: 67
15584089 GACTGAAATT
15584099 AGTTAATATAACAGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTAGGAAT
1 AGTTAATATAACAGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTAGGAAT
15584164 CA
66 CA
* ** * * * * ** * * *
15584166 AGTTCATATATTAATTATATTCTTCCAA-AAGAAT-ATTAATGTCCATGT-C-TTTTATATTTTG
1 AGTTAATATAACAGTT-TA-TATT--AATAA-ATTCAGTAAAAT--ATATACAATTAATATTTTG
* *
15584227 -ACCGAAAT-T
59 TA--GGAATCA
*
15584236 AGTTAATATAACAGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAAT
1 AGTTAATATAACAGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTAGGAAT
15584301 CA
66 CA
* *
15584303 ATTTCATATA
1 AGTTAATATA
15584313 TTAATTATAT
Statistics
Matches: 101, Mismatches: 31, Indels: 30
0.62 0.19 0.19
Matches are distributed among these distances:
65 3 0.03
66 8 0.08
67 37 0.37
68 6 0.06
69 6 0.06
70 29 0.29
71 9 0.09
72 3 0.03
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (67 bp):
AGTTAATATAACAGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTAGGAAT
CA
Found at i:15589425 original size:26 final size:27
Alignment explanation
Indices: 15589389--15589650 Score: 271
Period size: 26 Copynumber: 10.1 Consensus size: 27
15589379 CGTTATGGGT
15589389 CTCAATGGGTAAATTA-CAGAAATACC
1 CTCAATGGGTAAATTATCAGAAATACC
*
15589415 CTCAATGGGTAAATTA-CAGAAATATC
1 CTCAATGGGTAAATTATCAGAAATACC
* *
15589441 CTCAATGGGTAAATTA-CTGAAATAAC
1 CTCAATGGGTAAATTATCAGAAATACC
*
15589467 CTCAATGGGTAAATTACCA-AAATACC
1 CTCAATGGGTAAATTATCAGAAATACC
* *
15589493 CTCAATGGGTAAATTA-CTGAAATACT
1 CTCAATGGGTAAATTATCAGAAATACC
*
15589519 CTCGATGGGTAAATTATCA-AAATACC
1 CTCAATGGGTAAATTATCAGAAATACC
** *
15589545 CTTGATAGGTAAATTATC-GAAATACC
1 CTCAATGGGTAAATTATCAGAAATACC
*
15589571 CTCGAA--GGTAAATTACCA-AAATACC
1 CTC-AATGGGTAAATTATCAGAAATACC
* *
15589596 CTCAATGGGGAAACTATC-GAAATACCC
1 CTCAATGGGTAAATTATCAGAAATA-CC
* *
15589623 CTGAA-GGGTAGAATTA-CTGAAATACC
1 CTCAATGGGTA-AATTATCAGAAATACC
15589649 CT
1 CT
15589651 TGAAGGGTAG
Statistics
Matches: 203, Mismatches: 21, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
24 2 0.01
25 21 0.10
26 161 0.79
27 19 0.09
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (27 bp):
CTCAATGGGTAAATTATCAGAAATACC
Found at i:15590465 original size:17 final size:18
Alignment explanation
Indices: 15590443--15590483 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
15590433 CTTAACGAAC
15590443 ACAAATA-AGTTTTCACA
1 ACAAATACAGTTTTCACA
*
15590460 ACAAATACTATTTTTCACA
1 ACAAATAC-AGTTTTCACA
15590479 ACAAA
1 ACAAA
15590484 CACGTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
19 14 0.67
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (18 bp):
ACAAATACAGTTTTCACA
Found at i:15590474 original size:19 final size:20
Alignment explanation
Indices: 15590452--15590493 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
15590442 CACAAATAAG
*
15590452 TTTTCACAACAAATAC-TAT
1 TTTTCACAACAAACACGTAT
15590471 TTTTCACAACAAACACGTAT
1 TTTTCACAACAAACACGTAT
15590491 TTT
1 TTT
15590494 CAATTTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.38
Consensus pattern (20 bp):
TTTTCACAACAAACACGTAT
Found at i:15601567 original size:18 final size:18
Alignment explanation
Indices: 15601544--15601579 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15601534 CAATCGGTAA
15601544 GTGATCAAAGGCTACTCC
1 GTGATCAAAGGCTACTCC
15601562 GTGATCAAAGGCTACTCC
1 GTGATCAAAGGCTACTCC
15601580 CAGCTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (18 bp):
GTGATCAAAGGCTACTCC
Found at i:15602259 original size:26 final size:26
Alignment explanation
Indices: 15602220--15602407 Score: 202
Period size: 26 Copynumber: 7.2 Consensus size: 26
15602210 TATGCGTCTT
*
15602220 AATGGGTAAATTACCGAAATACACTC
1 AATGGGTAAATTACCGAAATACCCTC
*
15602246 AACGGGTAAATTACCGAAATACCCTC
1 AATGGGTAAATTACCGAAATACCCTC
* * ** *
15602272 AATAGGTACATTATTGAAATACCTTC
1 AATGGGTAAATTACCGAAATACCCTC
*
15602298 AATGGGTAAAGTACCGAAATACCCTC
1 AATGGGTAAATTACCGAAATACCCTC
* * *
15602324 GATAGGTAAATTACTGAAATACCCT-
1 AATGGGTAAATTACCGAAATACCCTC
* *
15602349 ATATGGTTAAATTATCGAAATACCCTC
1 A-ATGGGTAAATTACCGAAATACCCTC
*
15602376 GAA-GGGTAAATTA-CTAGAATACCCTC
1 -AATGGGTAAATTACCGA-AATACCCTC
15602402 AATGGG
1 AATGGG
15602408 AAAACTATCG
Statistics
Matches: 132, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
25 4 0.03
26 126 0.95
27 1 0.01
28 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (26 bp):
AATGGGTAAATTACCGAAATACCCTC
Found at i:15602417 original size:52 final size:53
Alignment explanation
Indices: 15602223--15602452 Score: 217
Period size: 52 Copynumber: 4.4 Consensus size: 53
15602213 GCGTCTTAAT
* * *
15602223 GGGTAAATTAC-CGAAATACACTCAACGGGTAAATTACCGAAATACCCTC-AA
1 GGGTAAATTACTAGAAATACCCTCAATGGGTAAATTACCGAAATACCCTCGAA
* * * * *
15602274 TAGGTACATTA-TTGAAATACCTTCAATGGGTAAAGTACCGAAATACCCTCGATA
1 -GGGTAAATTACTAGAAATACCCTCAATGGGTAAATTACCGAAATACCCTCGA-A
* *
15602328 -GGTAAATTACT-GAAATACCCT-ATATGGTTAAATTATCGAAATACCCTCGAA
1 GGGTAAATTACTAGAAATACCCTCA-ATGGGTAAATTACCGAAATACCCTCGAA
* * * **
15602379 GGGTAAATTACTAG-AATACCCTCAATGGGAAAACTATCG-AATTTCCTCTGAA
1 GGGTAAATTACTAGAAATACCCTCAATGGGTAAATTACCGAAATACCCTC-GAA
15602431 GGGTAAAATTACTA-AAATACCC
1 GGGT-AAATTACTAGAAATACCC
15602453 CTAAAGGGTA
Statistics
Matches: 150, Mismatches: 17, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
51 9 0.06
52 120 0.80
53 20 0.13
54 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.26
Consensus pattern (53 bp):
GGGTAAATTACTAGAAATACCCTCAATGGGTAAATTACCGAAATACCCTCGAA
Found at i:15602689 original size:27 final size:27
Alignment explanation
Indices: 15602632--15602683 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
15602622 ATGGAGGAAG
*
15602632 TACTGCTACTGGTGACTATGCCAGAAT
1 TACTGCTACTGGTGACTATGCCACAAT
* * *
15602659 TACTGTTACTGGTGGCTTTGCCACA
1 TACTGCTACTGGTGACTATGCCACA
15602684 TATACTATAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
TACTGCTACTGGTGACTATGCCACAAT
Found at i:15609962 original size:14 final size:12
Alignment explanation
Indices: 15609918--15609961 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
15609908 ACGAGATTGT
*
15609918 AAAAAAAAGTCG
1 AAAAAAAATTCG
15609930 -AAAAAAATTCG
1 AAAAAAAATTCG
15609941 AAAAAAAATTCG
1 AAAAAAAATTCG
15609953 AATAAAAAA
1 AA-AAAAAA
15609962 AGTTTGTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 10 0.34
12 13 0.45
13 6 0.21
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.14
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:15610999 original size:24 final size:23
Alignment explanation
Indices: 15610974--15611018 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
15610964 TTGAGCGAGA
15610974 AAAGAACA-AAGAAAATGAAAATG
1 AAAGAA-AGAAGAAAATGAAAATG
15610997 AAAGAAATGAAGAAAATGAAAA
1 AAAGAAA-GAAGAAAATGAAAA
15611019 AGATGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 1 0.05
23 6 0.30
24 13 0.65
ACGTcount: A:0.71, C:0.02, G:0.18, T:0.09
Consensus pattern (23 bp):
AAAGAAAGAAGAAAATGAAAATG
Found at i:15611111 original size:16 final size:18
Alignment explanation
Indices: 15611090--15611128 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
15611080 TTTCAGATTG
*
15611090 AGAAAAA-A-ATTGACAA
1 AGAAAAAGATATTGAAAA
15611106 AGAAAAAGATATTGAAAA
1 AGAAAAAGATATTGAAAA
15611124 AGAAA
1 AGAAA
15611129 CGAGAGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 1 0.05
18 12 0.60
ACGTcount: A:0.69, C:0.03, G:0.15, T:0.13
Consensus pattern (18 bp):
AGAAAAAGATATTGAAAA
Found at i:15616257 original size:26 final size:26
Alignment explanation
Indices: 15616209--15616470 Score: 213
Period size: 26 Copynumber: 10.0 Consensus size: 26
15616199 CGTTATGAGT
* ** *
15616209 CTCAATGGGTAAATTACCAAAATACA
1 CTCAACGGGTAAATTACTGAAATACC
* *
15616235 CTGAACAGGTAAATTACTGAAATACC
1 CTCAACGGGTAAATTACTGAAATACC
* * * *
15616261 CTAAATGGGTAAATTACTAAAATGCC
1 CTCAACGGGTAAATTACTGAAATACC
*
15616287 TTCAACGGGTAAATTACTGAAATACC
1 CTCAACGGGTAAATTACTGAAATACC
* * *
15616313 CTTAATGGGTAAATTA-TCGAAATGCC
1 CTCAACGGGTAAATTACT-GAAATACC
* *
15616339 TTCAACAGGTAAATTACTGAAATACC
1 CTCAACGGGTAAATTACTGAAATACC
* * *
15616365 CTCAATGGGTAAATTACCGAAATACT
1 CTCAACGGGTAAATTACTGAAATACC
* * * * **
15616391 ATCGACAGGTAAATTGCCAAAATACC
1 CTCAACGGGTAAATTACTGAAATACC
* * * *
15616417 CTCAATGGGAAAACTATTGAAATACC
1 CTCAACGGGTAAATTACTGAAATACC
*
15616443 TCTGAA-GGGTAGAATTACTGAAATACC
1 -CTCAACGGGTA-AATTACTGAAATACC
15616470 C
1 C
15616471 CTAAATACCC
Statistics
Matches: 181, Mismatches: 51, Indels: 8
0.75 0.21 0.03
Matches are distributed among these distances:
25 1 0.01
26 162 0.90
27 18 0.10
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (26 bp):
CTCAACGGGTAAATTACTGAAATACC
Found at i:15616298 original size:52 final size:52
Alignment explanation
Indices: 15616212--15616476 Score: 268
Period size: 52 Copynumber: 5.1 Consensus size: 52
15616202 TATGAGTCTC
** *
15616212 AATGGGTAAATTACCAAAATACAC-TGAACAGGTAAATTACTGAAATACCCTA
1 AATGGGTAAATTACTGAAATAC-CTTCAACAGGTAAATTACTGAAATACCCTA
* * * *
15616264 AATGGGTAAATTACTAAAATGCCTTCAACGGGTAAATTACTGAAATACCCTT
1 AATGGGTAAATTACTGAAATACCTTCAACAGGTAAATTACTGAAATACCCTA
* *
15616316 AATGGGTAAATTA-TCGAAATGCCTTCAACAGGTAAATTACTGAAATACCCTC
1 AATGGGTAAATTACT-GAAATACCTTCAACAGGTAAATTACTGAAATACCCTA
* * * ** *
15616368 AATGGGTAAATTACCGAAATA-CTATCGACAGGTAAATTGCCAAAATACCCTC
1 AATGGGTAAATTACTGAAATACCT-TCAACAGGTAAATTACTGAAATACCCTA
* * * * *
15616420 AATGGGAAAACTATTGAAATACCTCTGAA-GGGTAGAATTACTGAAATACCCCTA
1 AATGGGTAAATTACTGAAATACCT-TCAACAGGTA-AATTACTGAAATA-CCCTA
15616474 AAT
1 AAT
15616477 ACCCCTGAAG
Statistics
Matches: 180, Mismatches: 26, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
51 4 0.02
52 155 0.86
53 14 0.08
54 7 0.04
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.25
Consensus pattern (52 bp):
AATGGGTAAATTACTGAAATACCTTCAACAGGTAAATTACTGAAATACCCTA
Found at i:15620764 original size:25 final size:24
Alignment explanation
Indices: 15620730--15620812 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 24
15620720 TTATTTACAC
15620730 GTATGCTCATACGAGCTATGCATCG
1 GTATGCTCATACGAGCTATG-ATCG
** * * *
15620755 GTATGCTCATTTGAGTTGTAGATTG
1 GTATGCTCATACGAGCTAT-GATCG
*
15620780 GTATGCTC-TCACGAGCTATAAATCG
1 GTATGCTCAT-ACGAGCTAT-GATCG
15620805 GTATGCTC
1 GTATGCTC
15620813 TCATGAGCTG
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 1 0.02
25 43 0.96
26 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (24 bp):
GTATGCTCATACGAGCTATGATCG
Found at i:15634488 original size:50 final size:50
Alignment explanation
Indices: 15634360--15634646 Score: 344
Period size: 50 Copynumber: 5.8 Consensus size: 50
15634350 GATAATAACA
* * * ** * * *
15634360 TGCCAAAGCCTTGTCCCCGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * ** *
15634409 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
15634459 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
15634509 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTTATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
15634559 TGCCAATACCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
15634609 TGCCAACGCTATGTCCCAGACATGGTCTTACATGGGAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAC
15634647 GTCTTTACCC
Statistics
Matches: 206, Mismatches: 30, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
48 1 0.00
49 36 0.17
50 169 0.82
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:15637297 original size:32 final size:32
Alignment explanation
Indices: 15637256--15637385 Score: 251
Period size: 32 Copynumber: 4.1 Consensus size: 32
15637246 ATCTGAGGTC
15637256 AAAAAATTTATTTTATTATTATTTTATTGCCT
1 AAAAAATTTATTTTATTATTATTTTATTGCCT
*
15637288 AAAAAATTTATTTTATTATTATTCTATTGCCT
1 AAAAAATTTATTTTATTATTATTTTATTGCCT
15637320 AAAAAATTTATTTTATTATTATTTTATTGCCT
1 AAAAAATTTATTTTATTATTATTTTATTGCCT
15637352 AAAAAATTTATTTTATTATTATTTTATTGCCT
1 AAAAAATTTATTTTATTATTATTTTATTGCCT
15637384 AA
1 AA
15637386 GTATGATAGA
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 96 1.00
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (32 bp):
AAAAAATTTATTTTATTATTATTTTATTGCCT
Found at i:15639429 original size:33 final size:33
Alignment explanation
Indices: 15639386--15639660 Score: 180
Period size: 33 Copynumber: 8.1 Consensus size: 33
15639376 GGTGTATTCC
15639386 GCACTTAGCAACCACCAATGAATCGGGGAATCA
1 GCACTTAGCAACCACCAATGAATCGGGGAATCA
** *
15639419 GCACACAGCAACC-CC--T---TGGGGGAATCA
1 GCACTTAGCAACCACCAATGAATCGGGGAATCA
* * *
15639446 GCACTTAGCAACCCCCTTCACATTTCAGATGTGGTGGAATCA
1 GCACTTAGCAA-CCAC--CA-A--TGA-AT-CGG-GGAATCA
15639488 GCACTTAGCAACCACCAATGAATCGGGGAATCA
1 GCACTTAGCAACCACCAATGAATCGGGGAATCA
**
15639521 GCACACAGCAACC-CC------TCGGGGGAATCA
1 GCACTTAGCAACCACCAATGAATC-GGGGAATCA
* *
15639548 GCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCA
1 GCACTTAGCAA-CCAC---CA-A--T-GAAT-CGG-GGAATCA
*
15639591 GCAGTTAGCAACCACCAATGAATCGGGGAATCA
1 GCACTTAGCAACCACCAATGAATCGGGGAATCA
15639624 GCACTTAGCAACCACCAATGAATCGGGGAATCA
1 GCACTTAGCAACCACCAATGAATCGGGGAATCA
15639657 GCAC
1 GCAC
15639661 ACAACAACCC
Statistics
Matches: 192, Mismatches: 17, Indels: 66
0.70 0.06 0.24
Matches are distributed among these distances:
26 2 0.01
27 37 0.19
28 4 0.02
29 2 0.01
30 1 0.01
31 1 0.01
32 5 0.03
33 72 0.38
34 5 0.03
35 5 0.03
36 4 0.02
38 2 0.01
39 4 0.02
40 1 0.01
41 5 0.03
42 24 0.12
43 18 0.09
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (33 bp):
GCACTTAGCAACCACCAATGAATCGGGGAATCA
Found at i:15639562 original size:102 final size:103
Alignment explanation
Indices: 15639386--15639636 Score: 423
Period size: 102 Copynumber: 2.4 Consensus size: 103
15639376 GGTGTATTCC
*
15639386 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
* * **
15639451 TAGCAACCCCC-TTCACATTTCAGATGTGGTGGAATCA
66 TAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCA
15639488 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
15639553 TAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCA
66 TAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCA
* **
15639591 GCAGTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACC
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACC
15639637 ACCAATGAAT
Statistics
Matches: 140, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
102 75 0.54
103 65 0.46
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
TAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCA
Found at i:15639669 original size:33 final size:33
Alignment explanation
Indices: 15639599--15639669 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
15639589 CAGCAGTTAG
** *
15639599 CAACCACCAATGAATCGGGGAATCAGCACTTAG
1 CAACCACCAATGAATCGGGGAATCAGCACACAA
15639632 CAACCACCAATGAATCGGGGAATCAGCACACAA
1 CAACCACCAATGAATCGGGGAATCAGCACACAA
15639665 CAACC
1 CAACC
15639670 CCTTTATATG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.39, C:0.31, G:0.18, T:0.11
Consensus pattern (33 bp):
CAACCACCAATGAATCGGGGAATCAGCACACAA
Found at i:15645171 original size:35 final size:35
Alignment explanation
Indices: 15645125--15645194 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
15645115 GGTATGCCGA
15645125 ATCCTTCAATAAAGACACATCACATTTCAAACATT
1 ATCCTTCAATAAAGACACATCACATTTCAAACATT
*
15645160 ATCCTTTAATAAAGACACATCACATTTCAAACATT
1 ATCCTTCAATAAAGACACATCACATTTCAAACATT
15645195 CCTCAGGAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.43, C:0.24, G:0.03, T:0.30
Consensus pattern (35 bp):
ATCCTTCAATAAAGACACATCACATTTCAAACATT
Found at i:15646964 original size:103 final size:102
Alignment explanation
Indices: 15646713--15647080 Score: 574
Period size: 102 Copynumber: 3.6 Consensus size: 102
15646703 TAACCGTTAT
* *
15646713 CGGTGGATTCCGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
* *
15646778 GAATCAGCAGTTAGCAACCCCCTTCACATTTCAGATG
66 GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATA
* * ** * *
15646815 TGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTACCAACCCCTCGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
* * *
15646880 GAATCAGCACTTAGCAACCCCCTTTCACACTTAAAATA
66 GAATCAGCACTTAGCAACCCCC-TTCACATTTCAGATA
* *
15646918 CGGTGGAATTAGCAGTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
* *
15646983 GATTTAGCACTTAGCAACCCCCTTCACATTTCAGATA
66 GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATA
15647020 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
15647081 TATATGCAAT
Statistics
Matches: 237, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
102 149 0.63
103 88 0.37
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (102 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATA
Found at i:15649788 original size:17 final size:15
Alignment explanation
Indices: 15649753--15649788 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
15649743 GCCGTGTGTG
*
15649753 ACACACGGCCATGTA
1 ACACACGGCCAAGTA
*
15649768 ACACACGGCCAAGTG
1 ACACACGGCCAAGTA
15649783 ACACAC
1 ACACAC
15649789 TCGTGTGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.36, G:0.19, T:0.08
Consensus pattern (15 bp):
ACACACGGCCAAGTA
Found at i:15656541 original size:25 final size:25
Alignment explanation
Indices: 15656513--15656569 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
15656503 ATTCTCATTT
* *
15656513 GAGCTGTAGATTGGTATGCTCTCAC
1 GAGCTGTAAATTGGTATGCTCCCAC
** *
15656538 GAGCTAAAAATTGGTGTGCTCCCAC
1 GAGCTGTAAATTGGTATGCTCCCAC
15656563 GAGCTGT
1 GAGCTGT
15656570 GGACTATCCA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (25 bp):
GAGCTGTAAATTGGTATGCTCCCAC
Found at i:15658628 original size:27 final size:27
Alignment explanation
Indices: 15658583--15658638 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
15658573 TCAATATCTG
15658583 GACTGAAATACACCAGAAGGGTAAAAT
1 GACTGAAATACACCAGAAGGGTAAAAT
*
15658610 GACTGAAATACCATC-GAAGGGTAAAAT
1 GACTGAAATA-CACCAGAAGGGTAAAAT
15658637 GA
1 GA
15658639 TCGAAATGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.46, C:0.14, G:0.23, T:0.16
Consensus pattern (27 bp):
GACTGAAATACACCAGAAGGGTAAAAT
Found at i:15658657 original size:27 final size:27
Alignment explanation
Indices: 15658627--15658988 Score: 478
Period size: 27 Copynumber: 13.5 Consensus size: 27
15658617 ATACCATCGA
* * *
15658627 AGGGTAAAATGATCGAAATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
15658654 AGGGTAAAATGACCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
15658681 TGGGTAAAATAACCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * *
15658708 AAGGTAAAATGATCGTAATGCCCGTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * *
15658735 AAGGTAAAATGACCATAATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
*
15658762 AGGGTAAAATGACCGTAATGCCCTTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
15658789 AGGTTAAAATGATCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
15658816 AGGGTAAAATGACCGTAATGCCCATCT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
15658843 AGGGTTAAATGATCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * *
15658870 AGGGTAAAATAACTGTAATGCCCTTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
*
15658897 AGGGTAAAATGATCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
*
15658924 AGGGTAAAATAACCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
*
15658951 AGGGTAAAATAACCGTAATG-CCCTGGT
1 AGGGTAAAATGACCGTAATGCCCCT-GT
15658978 -GGGT-AAATGAC
1 AGGGTAAAATGAC
15658989 TATTTTTTCC
Statistics
Matches: 293, Mismatches: 41, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
25 6 0.02
26 8 0.03
27 279 0.95
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATGCCCCTGT
Found at i:15659190 original size:27 final size:26
Alignment explanation
Indices: 15659131--15659190 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
15659121 GTGGAGGAAG
*
15659131 TATTG-TACTGGTGGCTCTGCCACAA
1 TATTGTTACTAGTGGCTCTGCCACAA
*
15659156 TCACTGTTACTAGTGGCT-TGGCCACATA
1 T-ATTGTTACTAGTGGCTCT-GCCACA-A
15659184 TATTGTT
1 TATTGTT
15659191 GTTGGCAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 1 0.04
26 4 0.14
27 21 0.75
28 2 0.07
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
TATTGTTACTAGTGGCTCTGCCACAA
Found at i:15659355 original size:32 final size:32
Alignment explanation
Indices: 15659239--15659472 Score: 186
Period size: 32 Copynumber: 7.3 Consensus size: 32
15659229 GCTGCAATGC
* * * *
15659239 TACTGATGCCTTTGTGCCGATCATAGTACCGT
1 TACTGATGGCTGTGTGCCGATCATATTACTGT
* * * *
15659271 TACTGATTGCTTTGTGCCGATCATAGTACCGT
1 TACTGATGGCTGTGTGCCGATCATATTACTGT
** *
15659303 TACTGATGATTTTGTGCCGATCATATTACTGT
1 TACTGATGGCTGTGTGCCGATCATATTACTGT
* *
15659335 TA-TCGATGGCTGTGTACCGATTAT-TTCACTGT
1 TACT-GATGGCTGTGTGCCGATCATATT-ACTGT
* * * * * *
15659367 TACTAATGGTTTTGTGTCGATCATATCACTGC
1 TACTGATGGCTGTGTGCCGATCATATTACTGT
* * *
15659399 TACTGATGGCTGTGTGTCGATCATATCACTGC
1 TACTGATGGCTGTGTGCCGATCATATTACTGT
* * * *
15659431 TATTGATGGCTTTGTGCCAATCACATTACTG-
1 TACTGATGGCTGTGTGCCGATCATATTACTGT
*
15659462 TACTTATGGCT
1 TACTGATGGCT
15659473 TGTAGCCATT
Statistics
Matches: 167, Mismatches: 31, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
31 12 0.07
32 153 0.92
33 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (32 bp):
TACTGATGGCTGTGTGCCGATCATATTACTGT
Found at i:15659462 original size:96 final size:95
Alignment explanation
Indices: 15659236--15659473 Score: 219
Period size: 96 Copynumber: 2.5 Consensus size: 95
15659226 TTTGCTGCAA
* * * * * *
15659236 TGCTACTGATGCCTTTGTGCCGATCATAGTACCGTTACTGATTGCTTTGTGCCGATCATAGTACC
1 TGCTATTGATGGCTTTGTGCCGATCA-ATTACTGTTACTAATGGCTTTGTGCCGATCATAGTACC
* * * *
15659301 GTTACTGATGATTTTGTGCCGATCATATTAC
65 GCTACTGATGACTGTGTGCCGATCATATCAC
* * * * * * * *
15659332 TGTTATCGATGGCTGTGTACCGATTATTTCACTGTTACTAATGGTTTTGTGTCGATCATA-TCAC
1 TGCTATTGATGGCTTTGTGCCGATCAATT-ACTGTTACTAATGGCTTTGTGCCGATCATAGT-AC
* * *
15659396 TGCTACTGATGGCTGTGTGTCGATCATATCAC
64 CGCTACTGATGACTGTGTGCCGATCATATCAC
* *
15659428 TGCTATTGATGGCTTTGTGCCAATCACATTACTG-TACTTATGGCTT
1 TGCTATTGATGGCTTTGTGCCGATCA-ATTACTGTTACTAATGGCTT
15659474 GTAGCCATTC
Statistics
Matches: 109, Mismatches: 30, Indels: 7
0.75 0.21 0.05
Matches are distributed among these distances:
95 12 0.11
96 95 0.87
97 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (95 bp):
TGCTATTGATGGCTTTGTGCCGATCAATTACTGTTACTAATGGCTTTGTGCCGATCATAGTACCG
CTACTGATGACTGTGTGCCGATCATATCAC
Found at i:15659490 original size:22 final size:21
Alignment explanation
Indices: 15659465--15659529 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
15659455 ATTACTGTAC
15659465 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* *
15659487 TTATAGCTTATAGCTA-TCATGT
1 TTATGGCTT-TAGCCATTC-TGT
15659509 TTATGGCTCTTAGCCATTCTG
1 TTATGGCT-TTAGCCATTCTG
15659530 ACTACTGGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 2 0.06
22 30 0.86
23 3 0.09
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:15659552 original size:26 final size:26
Alignment explanation
Indices: 15659523--15659574 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
15659513 GGCTCTTAGC
* *
15659523 CATTCTGACTACTGGCAGCTCTCCTG
1 CATTATGACTACTGGCAGCTATCCTG
*
15659549 CATTATTACTACTGGCAGCTATCCTG
1 CATTATGACTACTGGCAGCTATCCTG
15659575 GGATATTGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (26 bp):
CATTATGACTACTGGCAGCTATCCTG
Found at i:15661817 original size:28 final size:29
Alignment explanation
Indices: 15661779--15661850 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 29
15661769 ACTCTAACAC
* *
15661779 CATTAAGTTATTTTAGACTACTT-AATTAT
1 CATTAGGTTATTTTAGACTAATTAAATT-T
* *
15661808 -GTTAGGTTATTTTAGGCTAATTAAATTT
1 CATTAGGTTATTTTAGACTAATTAAATTT
15661836 CATTAGGTTATTTTA
1 CATTAGGTTATTTTA
15661851 AGTTAATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 19 0.53
29 17 0.47
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (29 bp):
CATTAGGTTATTTTAGACTAATTAAATTT
Found at i:15661844 original size:29 final size:30
Alignment explanation
Indices: 15661779--15661859 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 30
15661769 ACTCTAACAC
* * *
15661779 CATTAAGTTATTTTAGACTACTT-AATTAT
1 CATTAGGTTATTTTAGGCTAATTAAATTAT
*
15661808 -GTTAGGTTATTTTAGGCTAATTAAATT-T
1 CATTAGGTTATTTTAGGCTAATTAAATTAT
* *
15661836 CATTAGGTTATTTTAAGTTAATTA
1 CATTAGGTTATTTTAGGCTAATTA
15661860 TTTTCACTAG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 19 0.44
29 24 0.56
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.49
Consensus pattern (30 bp):
CATTAGGTTATTTTAGGCTAATTAAATTAT
Found at i:15664303 original size:29 final size:28
Alignment explanation
Indices: 15664271--15664326 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
15664261 ATTTAGATAT
*
15664271 GTTATTTTATGTTAATTAAATTTCATTAA
1 GTTATTTTAGGTTAATT-AATTTCATTAA
*
15664300 GTTATTTTAGGTTAATTAATTTTATTA
1 GTTATTTTAGGTTAATTAATTTCATTA
15664327 TTTTAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (28 bp):
GTTATTTTAGGTTAATTAATTTCATTAA
Found at i:15664347 original size:18 final size:18
Alignment explanation
Indices: 15664311--15664348 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
15664301 TTATTTTAGG
*
15664311 TTAATTAATTTTATTATT
1 TTAATTAATTTTATAATT
15664329 TTAATTAATATTT-TAATT
1 TTAATTAAT-TTTATAATT
15664347 TT
1 TT
15664349 GCATCAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTAATTAATTTTATAATT
Found at i:15666157 original size:21 final size:21
Alignment explanation
Indices: 15666108--15666157 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
15666098 TGTTACTACT
*
15666108 TAGGTAATTTGAAGTTTGGTC
1 TAGGTAATTTCAAGTTTGGTC
**
15666129 T-GAAAATTTCAATGTTTGG-C
1 TAGGTAATTTCAA-GTTTGGTC
15666149 TAGGTAATT
1 TAGGTAATT
15666158 AAGGAAAAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (21 bp):
TAGGTAATTTCAAGTTTGGTC
Found at i:15667371 original size:20 final size:20
Alignment explanation
Indices: 15667346--15667386 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
15667336 GCTTGTACGG
*
15667346 GATTGCAC-TTTGATGCCTCT
1 GATTGCACATTCG-TGCCTCT
15667366 GATTGCACATTCGTGCCTCT
1 GATTGCACATTCGTGCCTCT
15667386 G
1 G
15667387 TTTAGCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.37
Consensus pattern (20 bp):
GATTGCACATTCGTGCCTCT
Found at i:15680085 original size:51 final size:50
Alignment explanation
Indices: 15680010--15680183 Score: 151
Period size: 51 Copynumber: 3.5 Consensus size: 50
15680000 TAACTTTAAC
* *
15680010 GCCAGGGAGATAAGATTCGCTGCCTACAACTTTAATTTGCTCCGCTGCAAT
1 GCCAGGGAAATAAGATTCGCTGCCTTCAACTTTAA-TTGCTCCGCTGCAAT
* * * * **
15680061 GCCACGGAAATAAGATTTGATGCCTTGAACTTTAA-T-CT--ATTGCAAT
1 GCCAGGGAAATAAGATTCGCTGCCTTCAACTTTAATTGCTCCGCTGCAAT
* * *
15680107 GCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATCTG-TCCGACTACAAT
1 GCCAGGGAAATAAGATTCGCTGCCTTCAACTTTAAT-TGCTCCG-CTGCAAT
* ** *
15680158 GCCAAGGAAATGGGATTTGCTGCCTT
1 GCCAGGGAAATAAGATTCGCTGCCTT
15680184 TACCTTTCAT
Statistics
Matches: 96, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
46 36 0.38
48 4 0.04
49 1 0.01
51 55 0.57
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (50 bp):
GCCAGGGAAATAAGATTCGCTGCCTTCAACTTTAATTGCTCCGCTGCAAT
Found at i:15680122 original size:46 final size:46
Alignment explanation
Indices: 15680055--15680144 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
15680045 TTTGCTCCGC
* *
15680055 TGCAATGCCACGGAAATAAGATTTGATGCCTTGAACTTTAATCTAT
1 TGCAATGCCACGGAAATAAGATTCGATGCCTTCAACTTTAATCTAT
* * *
15680101 TGCAATGCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATCT
1 TGCAATGCCACGGAAATAAGATTCGATGCCTTCAACTTTAATCT
15680145 GTCCGACTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (46 bp):
TGCAATGCCACGGAAATAAGATTCGATGCCTTCAACTTTAATCTAT
Found at i:15680176 original size:97 final size:98
Alignment explanation
Indices: 15680010--15680253 Score: 305
Period size: 97 Copynumber: 2.5 Consensus size: 98
15680000 TAACTTTAAC
* * * * * * *
15680010 GCCAGGGAGATAAGATTCGCTGCCTACAACTTTAATTTGCTCCG-CTGCAATGCCACGGAAATAA
1 GCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGATCCGACTACAATGCCAAGGAAATAA
15680074 GATTTGATGCCTTGAACTTTAATCTATTGCAAT
66 GATTTGATGCCTTGAACTTTAATCTATTGCAAT
* **
15680107 GCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATCTG-TCCGACTACAATGCCAAGGAAATGG
1 GCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGATCCGACTACAATGCCAAGGAAATAA
* * * *
15680171 GATTTGCTGCCTTTACCTTTCATCTATTGCAAT
66 GATTTGATGCCTTGAACTTTAATCTATTGCAAT
* * * *
15680204 TCTAGGGAAACAAGATTCGCCGCCTTCAGCTTTAATCTGATCC-ACTACAA
1 GCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGATCCGACTACAA
15680254 CTTTAGCGGT
Statistics
Matches: 127, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
96 4 0.03
97 120 0.94
98 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (98 bp):
GCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGATCCGACTACAATGCCAAGGAAATAA
GATTTGATGCCTTGAACTTTAATCTATTGCAAT
Found at i:15697613 original size:7 final size:7
Alignment explanation
Indices: 15697586--15697647 Score: 74
Period size: 7 Copynumber: 9.0 Consensus size: 7
15697576 AAGTTCCAAA
15697586 AAAAATG
1 AAAAATG
15697593 AAAAAATG
1 -AAAAATG
*
15697601 -AGAATG
1 AAAAATG
15697607 AAAAATG
1 AAAAATG
15697614 AAAAATG
1 AAAAATG
15697621 AAAAATG
1 AAAAATG
15697628 -AAAATG
1 AAAAATG
**
15697634 GGAAATG
1 AAAAATG
15697641 AAAAATG
1 AAAAATG
15697648 GAGAGGCTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
6 11 0.23
7 29 0.62
8 7 0.15
ACGTcount: A:0.66, C:0.00, G:0.19, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:15697632 original size:20 final size:21
Alignment explanation
Indices: 15697586--15697647 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 21
15697576 AAGTTCCAAA
*
15697586 AAAAATGAAAAAATG-AGAATG
1 AAAAATG-AAAAATGAAAAATG
15697607 AAAAATGAAAAATGAAAAATG
1 AAAAATGAAAAATGAAAAATG
**
15697628 -AAAATGGGAAATGAAAAATG
1 AAAAATGAAAAATGAAAAATG
15697648 GAGAGGCTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 25 0.68
21 12 0.32
ACGTcount: A:0.66, C:0.00, G:0.19, T:0.15
Consensus pattern (21 bp):
AAAAATGAAAAATGAAAAATG
Found at i:15697639 original size:13 final size:13
Alignment explanation
Indices: 15697587--15697644 Score: 71
Period size: 13 Copynumber: 4.3 Consensus size: 13
15697577 AGTTCCAAAA
15697587 AAAATGAAAAAATG
1 AAAATG-AAAAATG
*
15697601 AGAATGAAAAATG
1 AAAATGAAAAATG
15697614 AAAAATGAAAAATG
1 -AAAATGAAAAATG
**
15697628 AAAATGGGAAATG
1 AAAATGAAAAATG
15697641 AAAA
1 AAAA
15697645 ATGGAGAGGC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
13 22 0.56
14 17 0.44
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.14
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:15698976 original size:43 final size:43
Alignment explanation
Indices: 15698927--15699063 Score: 102
Period size: 42 Copynumber: 3.2 Consensus size: 43
15698917 GATAGCAGAT
15698927 CTTGCCTTCCTGCATTAATAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCATTAATAGCGAAGCAGATCGAAAACAAAGC
* * * * * * * * *
15698970 CTTGCC-TCCAT-CGGTT-GTAGTGGAGCTGGTTGAAGATAGCAGA-T
1 CTTGCCTTCC-TGC-ATTAATAGCGAAGCAGATCGAA-A-A-CAAAGC
* *
15699014 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAGC
1 CTTGCCTTCCTGCATTAATAGCGAAGCAGATCGAAAACAAAGC
15699057 CTTGCCT
1 CTTGCCT
15699064 CTATCAGTTG
Statistics
Matches: 65, Mismatches: 20, Indels: 18
0.63 0.19 0.17
Matches are distributed among these distances:
42 19 0.29
43 18 0.28
44 11 0.17
45 17 0.26
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (43 bp):
CTTGCCTTCCTGCATTAATAGCGAAGCAGATCGAAAACAAAGC
Found at i:15699013 original size:87 final size:87
Alignment explanation
Indices: 15698867--15699378 Score: 754
Period size: 87 Copynumber: 5.9 Consensus size: 87
15698857 AGATCTGTGA
* * * *
15698867 AGATCCAACACAAAGCCTTGCCTCCATCGATTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
*
15698932 CTTCCTGCATTAATAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* *
15698954 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
15699019 CTTCCTGCATTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * *
15699041 AGATCAAAAACAAAGCCTTGCCTCTATCAGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
* *
15699106 CATCCTGCGTTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * *
15699128 AGATCAAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAAATCTTTC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
* * *
15699193 CTTCCTACGTTAACAGCGAAGT
66 CTTCCTGCATTAACAGCGAAGC
* * * * * *
15699215 AGATCGAAAACAAAGCCTTGCCTCCATCGGGTGCAGGGGAGCTAGTTGAAAATACCAGATCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
*
15699280 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * * *
15699302 AGATCAAAAATAAAGCCTTGCCTCCATCGGGTGCAGTGGAGCTGGTTAAAGATAGCAGGTCTTGC
1 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
*
15699367 CTTCTTGCATTA
66 CTTCCTGCATTA
15699379 GCACTGAAGT
Statistics
Matches: 386, Mismatches: 39, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 386 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (87 bp):
AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
CTTCCTGCATTAACAGCGAAGC
Found at i:15699731 original size:51 final size:51
Alignment explanation
Indices: 15699592--15699737 Score: 143
Period size: 50 Copynumber: 2.9 Consensus size: 51
15699582 AGAATTATAG
* * * * *
15699592 ATCTTA-TCTCCCAAGCGGTGTAGTGGAACAGATTAAAGCCACAACGGTGA
1 ATCTTACTTTCCCAGGCGGTGCAGTGGAAAAGATTAAAGCCACAACGGCGA
* * * ** **
15699642 ATCTTGC-TTCCCCGACATTGCAGTTAAAAAGATTAAAGCCACAACGGCGA
1 ATCTTACTTTCCCAGGCGGTGCAGTGGAAAAGATTAAAGCCACAACGGCGA
* * *
15699692 ATCTTACTTTCCCAGGCGGTGCAATGGAATAGATTAAAGCTACAAC
1 ATCTTACTTTCCCAGGCGGTGCAGTGGAAAAGATTAAAGCCACAAC
15699738 AACAAATCTC
Statistics
Matches: 72, Mismatches: 22, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
50 43 0.60
51 29 0.40
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (51 bp):
ATCTTACTTTCCCAGGCGGTGCAGTGGAAAAGATTAAAGCCACAACGGCGA
Found at i:15700387 original size:14 final size:13
Alignment explanation
Indices: 15700363--15700398 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
15700353 AAATAGCAAC
*
15700363 AAAAAAGAAAACG
1 AAAAAAGAAAAAG
15700376 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
15700389 AAAAATAGAA
1 AAAAA-AGAA
15700399 TAGGGTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.03
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:15709801 original size:394 final size:394
Alignment explanation
Indices: 15709045--15709835 Score: 1162
Period size: 394 Copynumber: 2.0 Consensus size: 394
15709035 GCTAGCTAGA
* *
15709045 TTAAAGCCCAACAATCTCGAAAACATATAAATCATTAAAAACAAATAAAAAATAACTATTAAAAT
1 TTAAAGCCCAACAATCCCAAAAACATATAAATCATTAAAAACAAATAAAAAATAACTATTAAAAT
* * *
15709110 TTTTTTATACGGTACTACTATCATGTTGTAGGATATAAAATAATAAAAAAATAAAATTTTTGGCT
66 ATTTTTATACGGTACTACTATCATGCTGAAGGATATAAAATAATAAAAAAATAAAATTTTTGGCT
* * * * *
15709175 TTAGATTTGTGGTCTCAAAACCACTATTCTGATTTCATTAAAATCGGATTGTTACAAAGACAATG
131 TTAGATTTGTGGTCTCAAAACCACTATTCCGATTTCACTAAAAACGGACTATTACAAAGACAATG
* *
15709240 TCTAATTTGAGGGCTTTGTTCGCTAGCTTGAGTCTTTTTGATGATGGGGGTATCTTTGCTAAATT
196 TCTAATTTGAGGGCTATGTTCGCTAGCTTGAGTCTTTTTGATGATGGGGGTATCTTGGCTAAATT
* * *
15709305 GCAAGTAAAGCCTGCATAGGTTCAGGAAATCAAGGATAAACAGTGTTTGGATGAAACTTTAACAC
261 GCAAGTAAAGCCTGCATAGGTTCAGGAAATCAAGGATAAACAGAGTTTAGATGAAACTCTAACAC
*
15709370 CTCATTTTAAATAGGTTGAGGATGGTTCAACTGAAGACTTTGGGATTAATATTGATGGAATTTTG
326 CTCATTTTAAATAGGTTGAGGATGGTTCAACTGAAGACTTTGGGATTAATACTGATGGAATTTTG
*
15709435 TGGT
391 TGCT
* * **
15709439 TTAAAGTCCAACGATCCCAAAAACATATAAATCATTAAAAATGAAT-AAAAATCAACTATTAACG
1 TTAAAGCCCAACAATCCCAAAAACATATAAATCATTAAAAACAAATAAAAAAT-AACTATTAA--
* *
15709503 AA-ATTTTTATACGGTATTACTATCATGCTGAAGGATATAAAATAAT-AATAAATAAAATTTTTG
63 AATATTTTTATACGGTACTACTATCATGCTGAAGGATATAAAATAATAAAAAAATAAAATTTTTG
* * *
15709566 TCTTCTA-ATTTGTGGTC-CTGAAACCACTATTCCGATTTCACTAAAAACGGGCTATTACAAA-A
128 GCTT-TAGATTTGTGGTCTC-AAAACCACTATTCCGATTTCACTAAAAACGGACTATTACAAAGA
* * *
15709628 GCAATGTCTAATTTGAGGGCTATGTTTGCTCGCTTGGGTCTTTTTGATGATGGGGGTATCTTGGC
191 -CAATGTCTAATTTGAGGGCTATGTTCGCTAGCTTGAGTCTTTTTGATGATGGGGGTATCTTGGC
* *
15709693 TAAATTGCAAGTAAAGCCTGCGTGGGTTCAGGAAATCAAGGATAAACAGAGTTTAGATGAAACTC
255 TAAATTGCAAGTAAAGCCTGCATAGGTTCAGGAAATCAAGGATAAACAGAGTTTAGATGAAACTC
* * ** *
15709758 TAGCACCTCGTTTTAAATAGGTTGAGGATGGTTTGATTGAAGACTTTGGGATTAATACTGATGGA
320 TAACACCTCATTTTAAATAGGTTGAGGATGGTTCAACTGAAGACTTTGGGATTAATACTGATGGA
15709823 ATTTTGTGCT
385 ATTTTGTGCT
15709833 TTA
1 TTA
15709836 GAGGGAGATA
Statistics
Matches: 355, Mismatches: 36, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
393 8 0.02
394 303 0.85
395 42 0.12
396 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (394 bp):
TTAAAGCCCAACAATCCCAAAAACATATAAATCATTAAAAACAAATAAAAAATAACTATTAAAAT
ATTTTTATACGGTACTACTATCATGCTGAAGGATATAAAATAATAAAAAAATAAAATTTTTGGCT
TTAGATTTGTGGTCTCAAAACCACTATTCCGATTTCACTAAAAACGGACTATTACAAAGACAATG
TCTAATTTGAGGGCTATGTTCGCTAGCTTGAGTCTTTTTGATGATGGGGGTATCTTGGCTAAATT
GCAAGTAAAGCCTGCATAGGTTCAGGAAATCAAGGATAAACAGAGTTTAGATGAAACTCTAACAC
CTCATTTTAAATAGGTTGAGGATGGTTCAACTGAAGACTTTGGGATTAATACTGATGGAATTTTG
TGCT
Found at i:15712299 original size:13 final size:13
Alignment explanation
Indices: 15712281--15712305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15712271 AAAATATGCA
15712281 AAACAAAACAAGT
1 AAACAAAACAAGT
15712294 AAACAAAACAAG
1 AAACAAAACAAG
15712306 AATGCCACGG
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:0.72, C:0.16, G:0.08, T:0.04
Consensus pattern (13 bp):
AAACAAAACAAGT
Found at i:15714743 original size:13 final size:15
Alignment explanation
Indices: 15714727--15714763 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
15714717 AACTATAATA
15714727 ATTTATTTTTAT-T-
1 ATTTATTTTTATGTG
*
15714740 ATTTATTTTTTTGTG
1 ATTTATTTTTATGTG
15714755 ATTTATTTT
1 ATTTATTTT
15714764 CAGGTGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.52
14 1 0.05
15 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (15 bp):
ATTTATTTTTATGTG
Found at i:15722695 original size:25 final size:25
Alignment explanation
Indices: 15722656--15722705 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
15722646 TAAAGGGGGC
15722656 TAAGGCATTCCGCATGAATTTTTAA
1 TAAGGCATTCCGCATGAATTTTTAA
**
15722681 TAAGGCATTTTGCATGAATTTTTAA
1 TAAGGCATTCCGCATGAATTTTTAA
15722706 AGTATGTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (25 bp):
TAAGGCATTCCGCATGAATTTTTAA
Found at i:15723788 original size:15 final size:16
Alignment explanation
Indices: 15723768--15723798 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15723758 TAAAAAGGTA
15723768 TTTTTGA-GCATGATT
1 TTTTTGATGCATGATT
15723783 TTTTTGATGCATGATT
1 TTTTTGATGCATGATT
15723799 ATGTGCGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.55
Consensus pattern (16 bp):
TTTTTGATGCATGATT
Found at i:15726788 original size:29 final size:30
Alignment explanation
Indices: 15726708--15726789 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 30
15726698 AAAGTCATGC
*
15726708 ATTATGTAACTTTCATGTTAGTTAAGTTTGC
1 ATTATGTAACTTTCATGTTAGTT-AGTTTGA
* * * *
15726739 ATCAT-T-ACATT-AAGTCAAGTTAGTTT-A
1 ATTATGTAACTTTCATGT-TAGTTAGTTTGA
15726766 ATTATGTAACTTTCATGTTAGTTA
1 ATTATGTAACTTTCATGTTAGTTA
15726790 AATTTGCATT
Statistics
Matches: 38, Mismatches: 9, Indels: 10
0.67 0.16 0.18
Matches are distributed among these distances:
27 4 0.11
28 9 0.24
29 17 0.45
30 4 0.11
31 4 0.11
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.46
Consensus pattern (30 bp):
ATTATGTAACTTTCATGTTAGTTAGTTTGA
Found at i:15728123 original size:14 final size:13
Alignment explanation
Indices: 15728104--15728151 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
15728094 TAGTTTCTCG
15728104 AAAAAAAATTGAA
1 AAAAAAAATTGAA
* *
15728117 AAAAAAATTTCAA
1 AAAAAAAATTGAA
*
15728130 AAACAAAATTCGAA
1 AAAAAAAATT-GAA
15728144 AAAAAAAA
1 AAAAAAAA
15728152 CTAGTTTCCA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 19 0.68
14 9 0.32
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.15
Consensus pattern (13 bp):
AAAAAAAATTGAA
Found at i:15728211 original size:14 final size:13
Alignment explanation
Indices: 15728192--15728242 Score: 77
Period size: 12 Copynumber: 3.8 Consensus size: 13
15728182 TATCAAGTTG
15728192 TGAAAAAAAAATTT
1 TGAAAAAAAAA-TT
15728206 TGAAAAAAAAAATT
1 TG-AAAAAAAAATT
15728220 TGAAAAAAAAA-T
1 TGAAAAAAAAATT
15728232 TGAAAAAAAAA
1 TGAAAAAAAAA
15728243 GAGAGAGCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.33
13 9 0.25
14 6 0.17
15 9 0.25
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.20
Consensus pattern (13 bp):
TGAAAAAAAAATT
Found at i:15728242 original size:13 final size:13
Alignment explanation
Indices: 15728192--15728242 Score: 68
Period size: 13 Copynumber: 3.8 Consensus size: 13
15728182 TATCAAGTTG
*
15728192 TGAAAAAAAAATTT
1 TGAAAAAAAAA-AT
15728206 TGAAAAAAAAAATT
1 TGAAAAAAAAAA-T
15728220 TG-AAAAAAAAAT
1 TGAAAAAAAAAAT
15728232 TGAAAAAAAAA
1 TGAAAAAAAAA
15728243 GAGAGAGCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
12 3 0.09
13 17 0.50
14 14 0.41
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.20
Consensus pattern (13 bp):
TGAAAAAAAAAAT
Found at i:15739093 original size:39 final size:39
Alignment explanation
Indices: 15739036--15739126 Score: 146
Period size: 39 Copynumber: 2.3 Consensus size: 39
15739026 ATATATCACA
* *
15739036 CACATTACACATATAATCACATAACATATAAGCATATAT
1 CACAATACTCATATAATCACATAACATATAAGCATATAT
* *
15739075 CACAATACTCATATAATCACATAAGATTTAAGCATATAT
1 CACAATACTCATATAATCACATAACATATAAGCATATAT
15739114 CACAATACTCATA
1 CACAATACTCATA
15739127 AACATGTTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (39 bp):
CACAATACTCATATAATCACATAACATATAAGCATATAT
Found at i:15742954 original size:49 final size:50
Alignment explanation
Indices: 15742788--15743028 Score: 211
Period size: 49 Copynumber: 4.7 Consensus size: 50
15742778 GGGAATGAGA
* ** **
15742788 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA---TATGAGAAC
* * **
15742844 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGATG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAAC
* *
15742894 TCCC-TCATAAGACCATGTCTGGGACATGGC-TGGGCACCGATATGAGAAC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAAC
* * * * * *
15742943 TCCCATGTAAGACCGTATCTGGGATATGGCATTGGCAGC-ACAGGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAAC
* *
15742991 ATCCCATGTAACACCATGTCTGGGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
15743029 TGTTATTATC
Statistics
Matches: 157, Mismatches: 24, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
48 3 0.02
49 76 0.48
50 41 0.26
53 3 0.02
56 34 0.22
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAAC
Found at i:15763642 original size:103 final size:103
Alignment explanation
Indices: 15763458--15763826 Score: 614
Period size: 103 Copynumber: 3.6 Consensus size: 103
15763448 TAACCGTTAT
* *
15763458 CGGTGGATTCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGG
*
15763523 GAATCAGCACTAAGCAACCCCCTCTCACATTTAAAATA
66 GAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATA
* **
15763561 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAACACTTAGCAACCCCTCGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGG
15763626 GAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATA
66 GAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATA
**
15763664 CGGTGGAATCAGCACTTAGCAACCACCAAT-AATTAGGGGAATCAGCACTTAGCAACCCCTCGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAA-TAGGGGAATCAGCACACAGCAACCCCTCGGG
*
15763728 GGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
65 GGAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATA
* * *
15763767 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATTAGCACACAGCAACCCCT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCT
15763827 TTATATGCAA
Statistics
Matches: 251, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
102 2 0.01
103 247 0.98
104 2 0.01
ACGTcount: A:0.33, C:0.30, G:0.20, T:0.18
Consensus pattern (103 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACACAGCAACCCCTCGGGG
GAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATA
Found at i:15768470 original size:77 final size:74
Alignment explanation
Indices: 15768296--15768508 Score: 282
Period size: 77 Copynumber: 2.8 Consensus size: 74
15768286 TGATTCCCCC
* * * * *
15768296 AAGGGGTTGCTAAGTGCTGATTTCCCGAATCATTGATGGTTGCTAAGTGTTGATCCCAGCGTATC
1 AAGGGGTTGCTAAGTGCTGA-TTCCCCAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
15768361 TTAAATGTGA
65 TTAAATGTGA
*
15768371 AAGGGGTTGCTAAGTGCTGATTCCCCAATTCATTGGTGGTTGCAAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCAA-TCATTGGTGGTTGCTAAGTGCTGATTCCACCGTA-T
* *
15768436 TTTGAATGTGAA
64 CTTAAATGTG-A
* * *
15768448 AAGGGGTTGTTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAACTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCC-AATCATTGGTGGTTGCTAAGTGCTGATTCCACCG
15768509 ATAACGGATA
Statistics
Matches: 122, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
74 7 0.06
75 49 0.40
76 9 0.07
77 55 0.45
78 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (74 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCT
TAAATGTGA
Found at i:15769450 original size:23 final size:23
Alignment explanation
Indices: 15769424--15769476 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
15769414 ATAAATGCCA
15769424 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
15769447 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
15769470 CACTGAT
1 CACTGAT
15769477 CAATAACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:15776284 original size:46 final size:46
Alignment explanation
Indices: 15776157--15776289 Score: 158
Period size: 46 Copynumber: 2.9 Consensus size: 46
15776147 TTAATATTAT
* * * **
15776157 GTATTCTCCTATCCGCAATATATGAAGGAGTTGAAAACCTAAATCC
1 GTATTCTCCAACCCGCAACATATGAAGGAGTTGGGAACCTAAATCC
* * * *
15776203 GTATTCTCCAATCCACAACATATGAAGAAGTTGGGAACCTAAATTC
1 GTATTCTCCAACCCGCAACATATGAAGGAGTTGGGAACCTAAATCC
* * *
15776249 GTATTCTCCAGCCCGCAACATATGCAGGAGCTGGGAACCTA
1 GTATTCTCCAACCCGCAACATATGAAGGAGTTGGGAACCTA
15776290 GGCAAGAACA
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (46 bp):
GTATTCTCCAACCCGCAACATATGAAGGAGTTGGGAACCTAAATCC
Found at i:15778557 original size:21 final size:21
Alignment explanation
Indices: 15778533--15778572 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
15778523 TTTGTTAGAC
15778533 AAATGAAGTTAGACAAATGAT
1 AAATGAAGTTAGACAAATGAT
15778554 AAATGAAGTTAGACAAATG
1 AAATGAAGTTAGACAAATG
15778573 TATGTATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.20, T:0.23
Consensus pattern (21 bp):
AAATGAAGTTAGACAAATGAT
Found at i:15778571 original size:14 final size:14
Alignment explanation
Indices: 15778526--15778552 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15778516 GTTTTGGTTT
15778526 GTTAGACAAATGAA
1 GTTAGACAAATGAA
15778540 GTTAGACAAATGA
1 GTTAGACAAATGA
15778553 TAAATGAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.22
Consensus pattern (14 bp):
GTTAGACAAATGAA
Found at i:15785326 original size:31 final size:32
Alignment explanation
Indices: 15785267--15785331 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
15785257 GGCAAATTAC
15785267 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
15785299 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
15785330 AA
1 AA
15785332 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:15787675 original size:25 final size:25
Alignment explanation
Indices: 15787613--15787675 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 25
15787603 TACTTAAATG
15787613 AAAATTTTATATAATTATTAAATATT
1 AAAATTTTA-ATAATTATTAAATATT
*
15787639 -AAA-TTTAA-AATAATATAAATATTT
1 AAAATTTTAATAATTAT-TAAATA-TT
15787663 AAAAATTTTAATA
1 -AAAATTTTAATA
15787676 TATGGTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
22 5 0.17
23 7 0.23
24 6 0.20
25 3 0.10
26 3 0.10
27 5 0.17
28 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AAAATTTTAATAATTATTAAATATT
Found at i:15787842 original size:64 final size:64
Alignment explanation
Indices: 15787764--15787892 Score: 213
Period size: 64 Copynumber: 2.0 Consensus size: 64
15787754 TAACTTTAAA
* * *
15787764 TAAACATAAAACATTAACTCAATTTAAATCTGATTCAATTCAATTGATAAATATTTTCTTTTTG
1 TAAACATAAAACATTAACTCAATTTAAATCCGATTCAATTCAATTGACAAACATTTTCTTTTTG
* *
15787828 TAAACATAAAACATTAACTCAATTTATATCCGATTCAATTCAGTTGACAAACATTTTCTTTTTG
1 TAAACATAAAACATTAACTCAATTTAAATCCGATTCAATTCAATTGACAAACATTTTCTTTTTG
15787892 T
1 T
15787893 TAACTTATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (64 bp):
TAAACATAAAACATTAACTCAATTTAAATCCGATTCAATTCAATTGACAAACATTTTCTTTTTG
Found at i:15788859 original size:126 final size:125
Alignment explanation
Indices: 15788721--15789136 Score: 670
Period size: 126 Copynumber: 3.3 Consensus size: 125
15788711 TAATTTAAAA
* * * *
15788721 AAGCTCCCACGTGGATGCTCTTTTGCTACAGTAGCTCCTAAAAAAATAATTTTGAGAAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCT-AAAAAATAATTTCGAGTAGACGTTT
15788786 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTTAGCAAAAGTACTGAAAG
65 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTTAGCAAAAGTACTGAAAG
15788847 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCT-AAAAAATAATTTCGAGTAGACGTTT
* * *
15788912 CTAAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAAAAGTACTGAATG
65 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTTAGCAAAAGTACTGAAAG
* * * *
15788973 AAGCTCCCACATGGACACGCTTTTGCTACAGTAGCTCCTGAAAAATAATTTCGAGTAGATGTTTC
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAATAATTTCGAGTAGACGTTTC
* * *
15789038 TGAGCAAATAGTGTCAAAAACACTTTAAGCAGGATGCTTTGATAGTAAAAGTACTGAAAG
66 TGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTTAGCAAAAGTACTGAAAG
* *
15789098 AAGCTCCCACGTGGATGCGCTTTTGCTACAGTGGCTCCT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCT
15789137 GTTTGGCCTA
Statistics
Matches: 268, Mismatches: 22, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
125 113 0.42
126 155 0.58
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (125 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTAAAAAATAATTTCGAGTAGACGTTTC
TGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTTAGCAAAAGTACTGAAAG
Found at i:15792236 original size:116 final size:116
Alignment explanation
Indices: 15792032--15792241 Score: 305
Period size: 116 Copynumber: 1.8 Consensus size: 116
15792022 AACTTTGTAT
* *
15792032 TATTTATATTTTTTAAATCAAATAATATGGAAATATTCAGAATATTGACTTACTTAAAAGAAAAT
1 TATTTATATTTTTTAAATCAAATAATATAGAAATATTCAAAATATTGACTTACTTAAAAGAAAAT
* *
15792097 CTATTTTATTAAAAATATTAAAGTAAATTATAATTACTTTATTCAAAAAAA
66 CTATTATATTAAAAATATAAAAGTAAATTATAATTACTTTATTCAAAAAAA
* ** * **
15792148 TATTT-TATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGTGTTATTTAAAAGAATT
1 TATTTATATTTT-TTAAATCAAATAATATAGAAATATTCAAAATATTGACTTACTTAAAAGAAAA
*
15792212 TCTATTATATTAAAAATGTAAAAGTAAATT
65 TCTATTATATTAAAAATATAAAAGTAAATT
15792242 TCAATTTTAT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
115 6 0.07
116 76 0.93
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (116 bp):
TATTTATATTTTTTAAATCAAATAATATAGAAATATTCAAAATATTGACTTACTTAAAAGAAAAT
CTATTATATTAAAAATATAAAAGTAAATTATAATTACTTTATTCAAAAAAA
Found at i:15792479 original size:21 final size:21
Alignment explanation
Indices: 15792436--15792482 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
15792426 GCGGGGGTTG
* ** *
15792436 TGGTTGCTCCGATGGGGATTC
1 TGGTTCCTCCGATAAGGAATC
15792457 TGGTTCCTCCGATAAGGAATC
1 TGGTTCCTCCGATAAGGAATC
15792478 TGGTT
1 TGGTT
15792483 GTCGGTGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.19, G:0.32, T:0.34
Consensus pattern (21 bp):
TGGTTCCTCCGATAAGGAATC
Found at i:15792871 original size:30 final size:30
Alignment explanation
Indices: 15792821--15792886 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
15792811 TGAAGTGTTG
*
15792821 GGCCTGGTGACTGTGTGGGTG-TTGTTGCTA
1 GGCCTGGTGACTGTGTGGGTGATT-TTGATA
15792851 GGCCTGGTGA-TCG-GTCGGGTGATTTTGATA
1 GGCCTGGTGACT-GTGT-GGGTGATTTTGATA
15792881 GGCCTG
1 GGCCTG
15792887 CGTCGTCTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 3 0.09
30 27 0.84
31 2 0.06
ACGTcount: A:0.09, C:0.15, G:0.42, T:0.33
Consensus pattern (30 bp):
GGCCTGGTGACTGTGTGGGTGATTTTGATA
Found at i:15793396 original size:7 final size:7
Alignment explanation
Indices: 15793386--15793411 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15793376 CATAATACAT
15793386 AATACTA
1 AATACTA
15793393 AATACTA
1 AATACTA
15793400 AATACTA
1 AATACTA
15793407 AATAC
1 AATAC
15793412 CAATCGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:15794564 original size:10 final size:10
Alignment explanation
Indices: 15794549--15794573 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15794539 TTTTTATGAT
15794549 TTAAAAAAAA
1 TTAAAAAAAA
15794559 TTAAAAAAAA
1 TTAAAAAAAA
15794569 TTAAA
1 TTAAA
15794574 GCTTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
TTAAAAAAAA
Found at i:15794596 original size:30 final size:30
Alignment explanation
Indices: 15794552--15794613 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
15794542 TTATGATTTA
15794552 AAAAAAATTAAAAAAAATTAAAGCTTTTTTT
1 AAAAAAATTAAAAAAAATTAAAG-TTTTTTT
*
15794583 AAAATAATT-AAAAAAATTAAAGTTTTTTT
1 AAAAAAATTAAAAAAAATTAAAGTTTTTTT
15794612 AA
1 AA
15794614 GAGGAATTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 9 0.30
30 13 0.43
31 8 0.27
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAAAAATTAAAAAAAATTAAAGTTTTTTT
Found at i:15794627 original size:11 final size:11
Alignment explanation
Indices: 15794613--15794638 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15794603 AGTTTTTTTA
15794613 AGAGGAATTTG
1 AGAGGAATTTG
15794624 AGAGGAATTTG
1 AGAGGAATTTG
15794635 AGAG
1 AGAG
15794639 AATATTGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (11 bp):
AGAGGAATTTG
Found at i:15803360 original size:24 final size:24
Alignment explanation
Indices: 15803333--15803381 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
15803323 ACAATCAACT
15803333 CGAATAACTTAACAAAATTTCTAA
1 CGAATAACTTAACAAAATTTCTAA
15803357 CGAATAACTTAACAAAATTTCTAA
1 CGAATAACTTAACAAAATTTCTAA
15803381 C
1 C
15803382 CTGACTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.29
Consensus pattern (24 bp):
CGAATAACTTAACAAAATTTCTAA
Found at i:15803982 original size:19 final size:19
Alignment explanation
Indices: 15803958--15803995 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15803948 GGGCTTGACC
15803958 CCATCTAGCTTCAGCTCAT
1 CCATCTAGCTTCAGCTCAT
15803977 CCATCTAGCTTCAGCTCAT
1 CCATCTAGCTTCAGCTCAT
15803996 ACTCCTACGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.37, G:0.11, T:0.32
Consensus pattern (19 bp):
CCATCTAGCTTCAGCTCAT
Found at i:15804525 original size:68 final size:68
Alignment explanation
Indices: 15804451--15804625 Score: 242
Period size: 68 Copynumber: 2.6 Consensus size: 68
15804441 ATAGCCCAGT
* * * *
15804451 TATGGTCTTACACATTATGATGCCATGTTTACTATCTTGTCGGACTGCATATGTTGTCATAGACC
1 TATGGTCTTACACATTATGATGTCATGTTTACTATCCTGACGGACTGCATATGTTGCCATAGACC
15804516 AAC
66 AAC
* * *
15804519 TATGGTCTTACACATTATGATGTCATGTTTACTGTCCTGACGGACTTCATATGTTGCCATAGCCC
1 TATGGTCTTACACATTATGATGTCATGTTTACTATCCTGACGGACTGCATATGTTGCCATAGACC
**
15804584 GGC
66 AAC
** *
15804587 TACAGTCTTACACATTATGATGTCATTTTTACTATCCTG
1 TATGGTCTTACACATTATGATGTCATGTTTACTATCCTG
15804626 GAGGACTTCT
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 94 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (68 bp):
TATGGTCTTACACATTATGATGTCATGTTTACTATCCTGACGGACTGCATATGTTGCCATAGACC
AAC
Found at i:15805149 original size:29 final size:29
Alignment explanation
Indices: 15805069--15805509 Score: 412
Period size: 29 Copynumber: 15.4 Consensus size: 29
15805059 ACACCAATGA
* *
15805069 ATAGCCAC-AAGACATTCCTTTAACATA-
1 ATAGCCACAAAGGCATTCCTTTAACAGAG
*
15805096 ATTTGCCAC--AGGACATTCCTTTAACAGAG
1 A-TAGCCACAAAGG-CATTCCTTTAACAGAG
*
15805125 ATAACCACAAAGGCATTCCTTTAACAGA-
1 ATAGCCACAAAGGCATTCCTTTAACAGAG
* * *
15805153 ATTGCCAC-TAGGCATTCCTTTAATAGAG
1 ATAGCCACAAAGGCATTCCTTTAACAGAG
* * * *
15805181 ATAGCCAGAAA-GAAATCCTTTTAACTGAG
1 ATAGCCACAAAGGCATTCC-TTTAACAGAG
* *
15805210 ATAGCCATAAAGACATTCCTTTAACAGAG
1 ATAGCCACAAAGGCATTCCTTTAACAGAG
*
15805239 ATAGCCACAAAGGTATTCCTTTAACAGAG
1 ATAGCCACAAAGGCATTCCTTTAACAGAG
* * *
15805268 ATAACCACAAAGACATTCCTTTAACAAAG
1 ATAGCCACAAAGGCATTCCTTTAACAGAG
* *
15805297 ATAGCCACAAAGGCATTCTTTTAACAAAG
1 ATAGCCACAAAGGCATTCCTTTAACAGAG
* *
15805326 ATAGCCACAAAGGTA-TCCTTTTAACAAAG
1 ATAGCCACAAAGGCATTCC-TTTAACAGAG
*
15805355 ATAGACACAAA-G-ATATCCTTTTAACAGAG
1 ATAGCCACAAAGGCAT-TCC-TTTAACAGAG
* *
15805384 ATAGCCACAAAGGC-TTTCTTATAATAGAG
1 ATAGCCACAAAGGCATTCCTT-TAACAGAG
15805413 ATAGCCACAAAGGC-TTCCATTTAACAGAG
1 ATAGCCACAAAGGCATTCC-TTTAACAGAG
* *
15805442 ATCGCCACAAAGGC-TTCCATTTAACAAAG
1 ATAGCCACAAAGGCATTCC-TTTAACAGAG
** *
15805471 ATCA-CTGCAAAGGC-TTCCTTT--TAGAG
1 AT-AGCCACAAAGGCATTCCTTTAACAGAG
15805497 ATAGCCACAAAGG
1 ATAGCCACAAAGG
15805510 GTCACTTATA
Statistics
Matches: 347, Mismatches: 49, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.00
26 12 0.03
27 21 0.06
28 50 0.14
29 252 0.73
30 11 0.03
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (29 bp):
ATAGCCACAAAGGCATTCCTTTAACAGAG
Found at i:15808363 original size:41 final size:42
Alignment explanation
Indices: 15808306--15808413 Score: 173
Period size: 41 Copynumber: 2.6 Consensus size: 42
15808296 CTTTGAATGT
15808306 AAGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAA-A
1 AAGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAAGA
* * *
15808347 AAGGGGCTGCTAAGTGCAGATTCCCCGAATCATTGATCAAGA
1 AAGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAAGA
*
15808389 AAGGGGTTGCTAAGTGCTGATTCCC
1 AAGGGGTTGCTAAGTGCAGATTCCC
15808414 TGAATTATTA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
41 37 0.61
42 24 0.39
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (42 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAAGA
Found at i:15808405 original size:42 final size:40
Alignment explanation
Indices: 15808306--15808538 Score: 207
Period size: 42 Copynumber: 5.6 Consensus size: 40
15808296 CTTTGAATGT
* * *
15808306 AAGGGGTTGCTAAGTGCAGATTCCCCAAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGAT-AAA
* *
15808347 AAGGGGCTGCTAAGTGCAGATTCCCCGAATCATTGATCAAGA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGAT-AA-A
* * * *
15808389 AAGGGGTTGCTAAGTGCTGATTCCCTGAATTATTAATTATA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGA-TAAA
* **
15808430 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGAATCATTGA-T-AAA
* ** * * *
15808474 AACGGGTTGCTATTTGCTGATTCCCCGTATCACTGA-ATAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGATA-AA
15808514 AAGGTGGTTGCTAAGTGCTGATTCC
1 AAGG-GGTTGCTAAGTGCTGATTCC
15808539 ACCGTGTAAC
Statistics
Matches: 160, Mismatches: 25, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
40 3 0.02
41 60 0.38
42 64 0.40
43 29 0.18
44 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (40 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGATAAA
Found at i:15808492 original size:85 final size:85
Alignment explanation
Indices: 15808309--15808543 Score: 273
Period size: 84 Copynumber: 2.8 Consensus size: 85
15808299 TGAATGTAAG
* * * * *
15808309 GGGTTGCTAAGTGCAGATTCCCCAAATCACTG-ATCAAAAAGG-GGCTGCTAAGTGCAGATTCC-
1 GGGTTGCTAAGTGCTGATTCCCCGAATCACTGAAT-ATAAAGGTGGTTGCTAAGTGCTGATTCCA
* *
15808371 CCGAATCATTGATCAAGAAAG
65 CCGTATCATTGATCAAGAAAC
* * *
15808392 GGGTTGCTAAGTGCTGATTCCCTGAATTA-TTAATTATAAAGGTGGTTGCTAAGTGCTGATTCCA
1 GGGTTGCTAAGTGCTGATTCCCCGAATCACTGAA-TATAAAGGTGGTTGCTAAGTGCTGATTCCA
***
15808456 CCGTATCATTGATTGTGAAAC
65 CCGTATCATTGATCAAGAAAC
** *
15808477 GGGTTGCTATTTGCTGATTCCCCGTATCACTGAATAT-AAGGTGGTTGCTAAGTGCTGATTCCAC
1 GGGTTGCTAAGTGCTGATTCCCCGAATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCAC
15808541 CGT
66 CGT
15808544 GTAACGGTTG
Statistics
Matches: 128, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
82 1 0.01
83 32 0.25
84 49 0.38
85 43 0.34
86 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.30
Consensus pattern (85 bp):
GGGTTGCTAAGTGCTGATTCCCCGAATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCAC
CGTATCATTGATCAAGAAAC
Found at i:15811229 original size:15 final size:15
Alignment explanation
Indices: 15811209--15811238 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15811199 ATCATTACCA
*
15811209 TTCATACCAAGATTT
1 TTCATACCAAAATTT
15811224 TTCATACCAAAATTT
1 TTCATACCAAAATTT
15811239 GCTCATACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.40
Consensus pattern (15 bp):
TTCATACCAAAATTT
Found at i:15826708 original size:50 final size:50
Alignment explanation
Indices: 15826618--15826748 Score: 136
Period size: 50 Copynumber: 2.6 Consensus size: 50
15826608 TTATGAGAGG
* * *** * **
15826618 TCCCATGTAAGACCATGACTGGGACATGGCGTTGGCACCGAGATAAGAGT
1 TCCCACGTAAGACCATGTCTGGGACATGGCACGGGAACCGAGATAAGAAC
* * *
15826668 TCCCCCGTAAGACCATGTCTGGGACATGGCACGGGAACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCACGGGAACCGAGATAAGAAC
* * *
15826718 TCCCACGTAAGACCATATATGGGATATGGCA
1 TCCCACGTAAGACCATGTCTGGGACATGGCA
15826749 TTGGCAGTAC
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 66 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.19
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCACGGGAACCGAGATAAGAAC
Found at i:15832952 original size:56 final size:50
Alignment explanation
Indices: 15832863--15833093 Score: 196
Period size: 50 Copynumber: 4.5 Consensus size: 50
15832853 TAAAGAGATA
* * *
15832863 CCATGTAAGACCATGTCTGGGGCATGTCATTGGCATCATTGAGGTTATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATGAGAGGTC
* *
15832919 CCATGTAAGACCATGACTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
** * * **
15832969 CCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
* * * * * * * **
15833019 CCATGTAATACCATATCTGGGATATGGCATT-G-ACAGTACAAGAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTC
*
15833068 TCATGTAAGACCATGTCTGGGACATG
1 CCATGTAAGACCATGTCTGGGACATG
15833094 ACTTTGACAT
Statistics
Matches: 145, Mismatches: 29, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
48 3 0.02
49 30 0.21
50 77 0.53
52 1 0.01
53 2 0.01
55 1 0.01
56 31 0.21
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTC
Found at i:15837443 original size:19 final size:19
Alignment explanation
Indices: 15837419--15837456 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15837409 TGAGCCTTGT
15837419 TGGGCCGAAATGGG-TCGTG
1 TGGGCC-AAATGGGCTCGTG
*
15837438 TGGGCCCAATGGGCTCGTG
1 TGGGCCAAATGGGCTCGTG
15837457 GGCTCCATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.13, C:0.21, G:0.45, T:0.21
Consensus pattern (19 bp):
TGGGCCAAATGGGCTCGTG
Found at i:15837721 original size:26 final size:27
Alignment explanation
Indices: 15837678--15837927 Score: 138
Period size: 27 Copynumber: 9.3 Consensus size: 27
15837668 AACTATACCG
* * *
15837678 AAATACCCCCGAATGGTAAACTGACTA
1 AAATACCCCCGAATGGTAAAATAACCA
*
15837705 AAATACCCCTGAA-GGTAAAATAACCA
1 AAATACCCCCGAATGGTAAAATAACCA
** *
15837731 AAATACCCCCGAGGGGTAAAATTACC-
1 AAATACCCCCGAATGGTAAAATAACCA
* * *
15837757 GAATACCCTCG-ATGGGTAAAATTA-CA
1 AAATACCCCCGAAT-GGTAAAATAACCA
* **
15837783 GAAATACCCCCG-ATAGGTAAAATTACTG
1 -AAATACCCCCGAAT-GGTAAAATAACCA
* * * **
15837811 AAATA-CCCCTAATGGGTAGAATTACTG
1 AAATACCCCCGAAT-GGTAAAATAACCA
* * * * *
15837838 AAATACCCCTG-ATGCGTAAGATTATCG
1 AAATACCCCCGAATG-GTAAAATAACCA
* *
15837865 AAATACCCTCG-ATGGGTAAAATTACCA
1 AAATACCCCCGAAT-GGTAAAATAACCA
* * *
15837892 AAATACCCTCGAAGGGTAAAATGACCA
1 AAATACCCCCGAATGGTAAAATAACCA
15837919 AAATACCCC
1 AAATACCCC
15837928 TATAGGATAA
Statistics
Matches: 180, Mismatches: 33, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.01
26 45 0.25
27 129 0.72
28 5 0.03
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.20
Consensus pattern (27 bp):
AAATACCCCCGAATGGTAAAATAACCA
Found at i:15837841 original size:54 final size:54
Alignment explanation
Indices: 15837673--15837928 Score: 220
Period size: 54 Copynumber: 4.8 Consensus size: 54
15837663 TCGTTAACTA
* * * *
15837673 TACCGAAATACCCCCGAATGGTAAACTGACTAAAATACCCCTGAA--GGTAAAAT
1 TACCGAAATACCCCCGAA-GGTAAAATTACTGAAATACCCCTCAATGGGTAAAAT
* * * * *
15837726 AACCAAAATACCCCCGAGGGGTAAAATTACCG-AATA-CCCTCGATGGGTAAAAT
1 TACCGAAATACCCCCGA-AGGTAAAATTACTGAAATACCCCTCAATGGGTAAAAT
* *
15837779 TACAGAAATACCCCCGATAGGTAAAATTACTGAAATACCCCT-AATGGGTAGAAT
1 TACCGAAATACCCCCGA-AGGTAAAATTACTGAAATACCCCTCAATGGGTAAAAT
* * * * *
15837833 TACTGAAATACCCCTGATGCGTAAGATTA-TCGAAATA-CCCTCGATGGGTAAAAT
1 TACCGAAATACCCCCGAAG-GTAAAATTACT-GAAATACCCCTCAATGGGTAAAAT
* * * **
15837887 TACCAAAATACCCTCGAAGGGTAAAATGACCAAAATACCCCT
1 TACCGAAATACCCCCGAA-GGTAAAATTACTGAAATACCCCT
15837929 ATAGGATAAA
Statistics
Matches: 160, Mismatches: 32, Indels: 20
0.75 0.15 0.09
Matches are distributed among these distances:
51 5 0.03
52 4 0.03
53 64 0.40
54 78 0.49
55 9 0.06
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.20
Consensus pattern (54 bp):
TACCGAAATACCCCCGAAGGTAAAATTACTGAAATACCCCTCAATGGGTAAAAT
Found at i:15837923 original size:81 final size:80
Alignment explanation
Indices: 15837705--15837928 Score: 240
Period size: 81 Copynumber: 2.8 Consensus size: 80
15837695 AAACTGACTA
* * * *
15837705 AAATACCCCTGA-AGGTAAAATAACCAAAATACCCCCGAGGGGTAAAATTACCGAATA-CCCTCG
1 AAATACCCCCGATAGGTAAAATTACCAAAATA-CCCCGAAGGGTAAAATTACCAAATACCCCTCG
*
15837768 ATGGGTAAAATTACAG
65 ATGCGTAAAATTACAG
** * * *
15837784 AAATACCCCCGATAGGTAAAATTACTGAAATACCCCTAATGGGTAGAATTACTGAAATACCCCT-
1 AAATACCCCCGATAGGTAAAATTACCAAAATACCCCGAA-GGGTAAAATTAC-CAAATACCCCTC
*
15837848 GATGCGTAAGATTATC-G
64 GATGCGTAAAATTA-CAG
* * *
15837865 AAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGAAGGGTAAAATGACCAAAATACCCCT
1 AAATACCCCCGATAGGTAAAATTACCAAAATACCC-CGAAGGGTAAAATTACC-AAATACCCCT
15837929 ATAGGATAAA
Statistics
Matches: 119, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
79 16 0.13
80 27 0.23
81 68 0.57
82 8 0.07
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.21
Consensus pattern (80 bp):
AAATACCCCCGATAGGTAAAATTACCAAAATACCCCGAAGGGTAAAATTACCAAATACCCCTCGA
TGCGTAAAATTACAG
Found at i:15846701 original size:6 final size:6
Alignment explanation
Indices: 15846690--15846718 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
15846680 TGGGTAAAAT
15846690 CATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTT
15846719 TTGAAACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.52
Consensus pattern (6 bp):
CATTTC
Found at i:15848201 original size:21 final size:21
Alignment explanation
Indices: 15848177--15848219 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
15848167 CGAACAGTGT
15848177 TAGTTAAGGTAAGGCAATTTA
1 TAGTTAAGGTAAGGCAATTTA
15848198 TAGTTAAGGTAAGGCAATTTA
1 TAGTTAAGGTAAGGCAATTTA
15848219 T
1 T
15848220 TCTCCCCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (21 bp):
TAGTTAAGGTAAGGCAATTTA
Found at i:15857730 original size:24 final size:24
Alignment explanation
Indices: 15857681--15857789 Score: 116
Period size: 24 Copynumber: 4.6 Consensus size: 24
15857671 CGTTATTGGG
* *
15857681 AAAGGATGAATTGA-TAGAAATGT
1 AAAGGATGAATTGACAAAAAATGT
15857704 AAAGGATGAATTGACAAAAAATGT
1 AAAGGATGAATTGACAAAAAATGT
* * *
15857728 AAAGAAGGAACTGACGAAAAAAT-T
1 AAAGGATGAATTGAC-AAAAAATGT
***
15857752 AAAGGATGAATTGAC-GGTAATGT
1 AAAGGATGAATTGACAAAAAATGT
15857775 AAAGGATGAATTGAC
1 AAAGGATGAATTGAC
15857790 GGCAAATTGT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
22 3 0.04
23 30 0.42
24 32 0.44
25 7 0.10
ACGTcount: A:0.50, C:0.05, G:0.25, T:0.21
Consensus pattern (24 bp):
AAAGGATGAATTGACAAAAAATGT
Found at i:15865473 original size:24 final size:23
Alignment explanation
Indices: 15865422--15865483 Score: 88
Period size: 24 Copynumber: 2.7 Consensus size: 23
15865412 CGTTATTAGG
* *
15865422 AAAGGATGAATTGACAGATATGT
1 AAAGGATGAATTGACAAAAATGT
*
15865445 AAAGGATGAATTGATGAAAAATGT
1 AAAGGATGAATTGA-CAAAAATGT
15865469 AAAGGATGAATTGAC
1 AAAGGATGAATTGAC
15865484 GGCAAATTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 14 0.41
24 20 0.59
ACGTcount: A:0.47, C:0.03, G:0.26, T:0.24
Consensus pattern (23 bp):
AAAGGATGAATTGACAAAAATGT
Found at i:15865490 original size:24 final size:23
Alignment explanation
Indices: 15865422--15865490 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 23
15865412 CGTTATTAGG
* *
15865422 AAAGGATGAATTGACAGATATGT
1 AAAGGATGAATTGACGGAAATGT
* *
15865445 AAAGGATGAATTGATGAAAAATGT
1 AAAGGATGAATTGACG-GAAATGT
15865469 AAAGGATGAATTGACGGCAAAT
1 AAAGGATGAATTGACGG-AAAT
15865491 TGTCTAGGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
23 14 0.37
24 24 0.63
ACGTcount: A:0.46, C:0.04, G:0.26, T:0.23
Consensus pattern (23 bp):
AAAGGATGAATTGACGGAAATGT
Found at i:15869552 original size:20 final size:20
Alignment explanation
Indices: 15869527--15869568 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
15869517 ATATTAGAGA
*
15869527 AAAATAAAAATAACTAAAAT
1 AAAATAAAAATAACCAAAAT
15869547 AAAATAAAAATAACCAAAAT
1 AAAATAAAAATAACCAAAAT
15869567 AA
1 AA
15869569 CAAAACTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAATAAAAATAACCAAAAT
Found at i:15870359 original size:44 final size:44
Alignment explanation
Indices: 15870311--15870757 Score: 216
Period size: 44 Copynumber: 10.2 Consensus size: 44
15870301 ACCATATTCG
*
15870311 ATCTACCCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCA
* * ** * * *
15870355 ATCTATTCCGCTGTTGCCCAGGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAAT--CTTCA
* * * * * * ** *
15870398 ATGTACTCCACT-GTAACCTCAGCGAGGTAAAATCTGCCATCTTCG
1 ATCTACTCCACTACT-GCCT-AGGGAGATAAGATCTGTAATCTTCA
* *
15870443 ATCTACTCCACTACTGCATAGGGAGATAAGATCTGTAATCTTCG
1 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCA
* * * * * * *
15870487 ATCTATTCCACTGCTACCCAGAGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAAT--CTTCA
* * * * * * * ** *
15870530 ATGTACTCCACT-GTAACCTCAGAGAGGTAAAATCCGCCATCTTCG
1 ATCTACTCCACTACT-GCCT-AGGGAGATAAGATCTGTAATCTTCA
15870575 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCA
* * * * *
15870619 ATCTATTCCACTGCTGCCCAGGGAGATAAAATTACTG---GCTTCA
1 ATCTACTCCACTACTGCCTAGGGAGATAAGA-T-CTGTAATCTTCA
* * * * * * * ** *
15870662 ATGTACTCCACT-GTAACCTCAAGGAGGTAAAATCCGCCATCTTCG
1 ATCTACTCCACTACT-GCCT-AGGGAGATAAGATCTGTAATCTTCA
* * *
15870707 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCG
1 ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCA
15870751 ATCTACT
1 ATCTACT
15870758 TCACGCCAAT
Statistics
Matches: 290, Mismatches: 89, Indels: 48
0.68 0.21 0.11
Matches are distributed among these distances:
41 6 0.02
42 7 0.02
43 57 0.20
44 155 0.53
45 56 0.19
46 7 0.02
47 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCA
Found at i:15870377 original size:132 final size:132
Alignment explanation
Indices: 15870271--15870755 Score: 781
Period size: 132 Copynumber: 3.7 Consensus size: 132
15870261 CTTCTGTTTG
* * * ** * *
15870271 CTCCACTGCAACTTCAGGGAGATAAAATCTACCATATTCGATCTACCCCACTACTGCCTAGGGAG
1 CTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAG
* *
15870336 ATAAGATCTGTAATCTTCAATCTATTCCGCTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATG
66 ATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATG
15870401 TA
131 TA
* * *
15870403 CTCCACTGTAACCTCAGCGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCATAGGGAG
1 CTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAG
* * *
15870468 ATAAGATCTGTAATCTTCGATCTATTCCACTGCTACCCAGAGAGATAGAATTACTGGCTTCAATG
66 ATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATG
15870533 TA
131 TA
*
15870535 CTCCACTGTAACCTCAGAGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAG
1 CTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAG
*
15870600 ATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAAAATTACTGGCTTCAATG
66 ATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATG
15870665 TA
131 TA
* * *
15870667 CTCCACTGTAACCTCAAGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAG
1 CTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAG
*
15870732 ATAAGATCTGTAATCTTCGATCTA
66 ATAAGATCTGTAATCTTCAATCTA
15870756 CTTCACGCCA
Statistics
Matches: 328, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 328 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (132 bp):
CTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGAG
ATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATG
TA
Found at i:15870782 original size:44 final size:44
Alignment explanation
Indices: 15870734--15871508 Score: 722
Period size: 44 Copynumber: 17.5 Consensus size: 44
15870724 TTAGGGAGAT
** *
15870734 AAGATCTGTAATCTTCGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
* * * *
15870778 AAGATCTGCTTTCTTCGATCTACTTCATGCCAATATATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
*
15870822 AAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
* * * * *** *
15870866 AAGATCTGTTTTCTTCGATTTGCTTCGCCACCAGTATGGGAAGGC
1 AAGATCTGTTTTCTTCGATCTACTTC-ACGCCAGTACATGAAGAC
* *
15870911 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
** * * * ***
15870955 AAGATCTGTTTTCTTTTATCCACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTC-ACGCCAGTACATGAAGAC
* * *
15871000 AAGATCTATTTTCTTTGATCTACTTCACGCCAGTACATGAAGGC
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
* * ***
15871044 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTC-ACGCCAGTACATGAAGAC
* *
15871089 AAGATCTGTTTTCTTTGATCTACTTCATGCCAGTACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
* * * ***
15871133 AAGATCTATTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTC-ACGCCAGTACATGAAGAC
* * * *
15871178 AAGATCTGTTATCTTTGATCTTCTTCACGCAAGTACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
* * * * * * * ***
15871222 AAAATCCGCTTTATTCGATCTATTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTC-ACGCCAGTACATGAAGAC
* * * *
15871267 AAGATCTGTTATCTTTGATCTACTTCACACCAGTACATAAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
* * * * * ***
15871311 AAGATCTGCTTTCTTCGATCTATTTCGCACCACTATGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
* * * *
15871355 AAGATCTGTTATATTTGATCTACTTCACGCTAGTACATGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
* ** * * ***
15871399 AAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGTTTTCTTCGATCTACTTC-ACGCCAGTACATGAAGAC
** * *
15871444 AAGATCTGTTACCTTTGATCTACTTCACGCCAGTACATGAAAAC
1 AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
* *
15871488 AAGATCCGCTTTCTTCGATCT
1 AAGATCTGTTTTCTTCGATCT
15871509 GTTTCGCCAC
Statistics
Matches: 571, Mismatches: 154, Indels: 12
0.77 0.21 0.02
Matches are distributed among these distances:
44 368 0.64
45 203 0.36
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (44 bp):
AAGATCTGTTTTCTTCGATCTACTTCACGCCAGTACATGAAGAC
Found at i:15870981 original size:89 final size:89
Alignment explanation
Indices: 15870734--15871542 Score: 1185
Period size: 89 Copynumber: 9.1 Consensus size: 89
15870724 TTAGGGAGAT
* * *
15870734 AAGATCTGTAATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCT
**
15870799 ACTTCATGCCA--A-TATATGAAGAC
66 ACTTC--GCCACCAGTATGGGAAGAC
* * * * *
15870822 AAGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATTT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCT
* *
15870887 GCTTCGCCACCAGTATGGGAAGGC
66 ACTTCGCCACCAGTATGGGAAGAC
* ** *
15870911 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTTATCC
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCT
15870976 ACTTCGCCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* * * *
15871000 AAGATCTATTTTCTTTGATCTACTTCACGCCAGTACATGAAGGCAAGATCTGTTTTCTTCGATCT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCT
15871065 ACTTCGCCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* * **
15871089 AAGATCTGTTTTCTTTGATCTACTTCATGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCT
15871154 ACTTCGCCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* * * * *
15871178 AAGATCTGTTATCTTTGATCTTCTTCACGCAAGTACATGAAGACAAAATCCGCTTTATTCGATCT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCT
*
15871243 ATTTCGCCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* *
15871267 AAGATCTGTTATCTTTGATCTACTTCACACCAGTACATAAAGACAAGATCTGCTTTCTTCGATCT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCT
* *
15871332 ATTTCG-CACCACTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* *
15871355 AAGATCTGTTATATTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTTTCTTCGATCT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCT
**
15871420 GTTTCGCCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
* * *
15871444 AAGATCTGTTACCTTTGATCTACTTCACGCCAGTACATGAAAACAAGATCCGCTTTCTTCGATCT
1 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCT
**
15871509 GTTTCGCCACCAGTATGGGAAGAC
66 ACTTCGCCACCAGTATGGGAAGAC
15871533 AAGATCTGTT
1 AAGATCTGTT
15871543 GCTACTCCAC
Statistics
Matches: 661, Mismatches: 56, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
86 4 0.01
88 148 0.22
89 509 0.77
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (89 bp):
AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCT
ACTTCGCCACCAGTATGGGAAGAC
Found at i:15875176 original size:24 final size:24
Alignment explanation
Indices: 15875149--15875194 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
15875139 ATAATCTTTG
* *
15875149 ATGCATATG-ATGTAATGTAATGTA
1 ATGCAAATGCATGAAATG-AATGTA
15875173 ATGCAAATGCATGAAATGAATG
1 ATGCAAATGCATGAAATGAATG
15875195 CGAAAAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (24 bp):
ATGCAAATGCATGAAATGAATGTA
Found at i:15875243 original size:13 final size:13
Alignment explanation
Indices: 15875225--15875250 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15875215 TGTTTAATTT
15875225 TTTACTAGAAAAC
1 TTTACTAGAAAAC
15875238 TTTACTAGAAAAC
1 TTTACTAGAAAAC
15875251 AAATCTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTACTAGAAAAC
Found at i:15878141 original size:20 final size:20
Alignment explanation
Indices: 15878116--15878157 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
15878106 ATATTAGAGA
*
15878116 AAAATAAAAATAACTAAAAT
1 AAAATAAAAATAACCAAAAT
15878136 AAAATAAAAATAACCAAAAT
1 AAAATAAAAATAACCAAAAT
15878156 AA
1 AA
15878158 CAAAACTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAATAAAAATAACCAAAAT
Found at i:15883179 original size:29 final size:28
Alignment explanation
Indices: 15883147--15883212 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
15883137 ACCAATAAAA
15883147 GTCTTTTTTTTCAA-AAATTACCGAAATAG
1 GTCTTTTTTTT-AATAAATTACCGAAAT-G
* * *
15883176 GTCTATTTTTTAATTATTTACCGAAATG
1 GTCTTTTTTTTAATAAATTACCGAAATG
*
15883204 GTCCTTTTT
1 GTCTTTTTT
15883213 CCAGGAAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.48
Consensus pattern (28 bp):
GTCTTTTTTTTAATAAATTACCGAAATG
Found at i:15887590 original size:29 final size:28
Alignment explanation
Indices: 15887525--15887590 Score: 69
Period size: 30 Copynumber: 2.3 Consensus size: 28
15887515 TTAATTTAAC
* * * *
15887525 AAATTATATTTTAAATTTAATATTTATT
1 AAATAATATTTTAAAGTTAATATTAAAT
*
15887553 AATAGAATATTTTAAAAGTTAATATTAAAT
1 AA-ATAATATTTT-AAAGTTAATATTAAAT
15887583 AAATAATA
1 AAATAATA
15887591 AGTTCAAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 2 0.07
29 13 0.43
30 15 0.50
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (28 bp):
AAATAATATTTTAAAGTTAATATTAAAT
Found at i:15888346 original size:26 final size:26
Alignment explanation
Indices: 15888288--15888353 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
15888278 TTTTAGTCCT
15888288 TTTATTATA-TTTAATTTTAAATTTA
1 TTTATTATATTTTAATTTTAAATTTA
* * *
15888313 ATTCTTATATTTTAATTTTTAA-TTA
1 TTTATTATATTTTAATTTTAAATTTA
15888338 TTTAGTTATACTTTTA
1 TTTA-TTATA-TTTTA
15888354 TAATGTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 12 0.36
26 16 0.48
27 5 0.15
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTATTATATTTTAATTTTAAATTTA
Found at i:15891677 original size:48 final size:47
Alignment explanation
Indices: 15891614--15891704 Score: 137
Period size: 48 Copynumber: 1.9 Consensus size: 47
15891604 AACACACCAT
* *
15891614 TTGTTGACAAGCCACCACATAAATGCCGATAAACGACCACATAACACA
1 TTGTGGACAAACCACCACATAAATGCCGAT-AACGACCACATAACACA
**
15891662 TTGTGGACAAACCACCACATATTTGCCGATAACGACCACATAA
1 TTGTGGACAAACCACCACATAAATGCCGATAACGACCACATAA
15891705 TCGCAGATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 13 0.33
48 26 0.67
ACGTcount: A:0.40, C:0.29, G:0.13, T:0.19
Consensus pattern (47 bp):
TTGTGGACAAACCACCACATAAATGCCGATAACGACCACATAACACA
Found at i:15891713 original size:21 final size:21
Alignment explanation
Indices: 15891675--15891714 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15891665 TGGACAAACC
* * *
15891675 ACCACATATTTGCCGATAACG
1 ACCACATAATCGCAGATAACG
15891696 ACCACATAATCGCAGATAA
1 ACCACATAATCGCAGATAA
15891715 ATTGCCACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.20
Consensus pattern (21 bp):
ACCACATAATCGCAGATAACG
Found at i:15891940 original size:15 final size:16
Alignment explanation
Indices: 15891920--15891957 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
15891910 TTTTCACAGA
*
15891920 CACATGTTTAAGTC-T
1 CACATGTTTAAATCAT
*
15891935 CACATGCTTAAATCAT
1 CACATGTTTAAATCAT
15891951 CACATGT
1 CACATGT
15891958 ATCACATAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (16 bp):
CACATGTTTAAATCAT
Found at i:15893965 original size:16 final size:16
Alignment explanation
Indices: 15893944--15893974 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15893934 CTTGTAGAAA
15893944 AATCCAAAATCAAAAC
1 AATCCAAAATCAAAAC
*
15893960 AATCCAAAGTCAAAA
1 AATCCAAAATCAAAA
15893975 AGAAAATCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.23, G:0.03, T:0.13
Consensus pattern (16 bp):
AATCCAAAATCAAAAC
Found at i:15894190 original size:22 final size:22
Alignment explanation
Indices: 15894164--15894208 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
15894154 AGATCAACAC
15894164 AAATAT-AATCACATACATATCA
1 AAATATCAATCACAT-CATATCA
*
15894186 AAATATCAATCTCATCATATCA
1 AAATATCAATCACATCATATCA
15894208 A
1 A
15894209 TCATCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATATCAATCACATCATATCA
Found at i:15897109 original size:26 final size:25
Alignment explanation
Indices: 15897079--15897160 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 25
15897069 ACTCTACAAA
15897079 TTTTCCAGATAACACGCCACAAAGGC
1 TTTTCCAGATAACA-GCCACAAAGGC
*
15897105 TTTTCACAAGAT--TAGCCACAAAGGC
1 TTTTC-C-AGATAACAGCCACAAAGGC
* * *
15897130 TTTTCTAGAGAACTTGCCACAAAGGC
1 TTTTCCAGATAAC-AGCCACAAAGGC
15897156 TTTTC
1 TTTTC
15897161 AAATGATATG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
23 3 0.07
25 16 0.35
26 22 0.48
27 1 0.02
28 4 0.09
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (25 bp):
TTTTCCAGATAACAGCCACAAAGGC
Found at i:15897123 original size:25 final size:25
Alignment explanation
Indices: 15897094--15897163 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
15897084 CAGATAACAC
15897094 GCCACAAAGGCTTTTCACAAG-A-TT
1 GCCACAAAGGCTTTTCA-AAGAACTT
*
15897118 AGCCACAAAGGCTTTTCTAGAGAACTT
1 -GCCACAAAGGCTTTTC-AAAGAACTT
15897145 GCCACAAAGGCTTTTCAAA
1 GCCACAAAGGCTTTTCAAA
15897164 TGATATGCCG
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
25 20 0.50
26 18 0.45
27 2 0.05
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (25 bp):
GCCACAAAGGCTTTTCAAAGAACTT
Done.