Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 168 of 276
Found at i:55012194 original size:447 final size:446
Alignment explanation
Indices: 55011222--55012451 Score: 1307
Period size: 447 Copynumber: 2.8 Consensus size: 446
55011212 TTGATCCTAT
* *
55011222 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCACTAACTGTGTT-AGAGGTTGTAGTTTTA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCACTAATTGTGTTGA-AGGATGTAGTTTTA
* * * * *
55011286 ATCCTGCGAGCCTTAATAAGATAGTTGGGAGTTTGTAGCTCTCACTAACTGTGTTAGAGGCTT-C
65 ATCCTGCGAGCCTTAATATGATAGTTGGAAGTTTGTAACTCTCGCTAACTGTGTTGGAGG-TTGC
* * * * *
55011350 AATTTTAATCCTACGAGCCTTAATGTGATAGCTAGGAGTTTGCAACTCTT-GCTAATTATGTTGG
129 GATTTTGATCCTATGAGCCTTAATGTGACAGCTAGGAGTTTGCAACT-TTCGCTAACTATGTTGG
* * * * * * *
55011414 AGGCTGCTGTTTTGATCCTACGAACCTTAATATAACAACTAGGAGC--TTGCAACTCTCACTAAC
193 AGGCTGCAGTTTTGATCCTATGAGCCTTAATGTGACAA-TTGG-GCATTTGCAACTCTCGCTAAC
* * * * * * *
55011477 TATGTTAGAAGATGC-GGCTTTAATCTTGCGAGCCTTAATATGACAACTAGGAGTTTGTAATTCT
256 TATGTTAGAGGCT-CTGGTTTTAATCCTGCGAGCCTTAATATGACAGCTGGGAGTTTGTAACTCT
* * * *
55011541 CGCTAACTGTGTTGGAGGTTACAGTTTTAATCCCGCGAGCCTTAACATGACAGTTGAGAGTTTGT
320 CGCTAACTGTGTTAGAGCTTACAGTTTTAATACCACGAGCCTTAACATGACAGTTGAGAGTTTGT
* * * * * * *
55011606 AACTCTGGCTAACTGTGTTAGAGGCTGCAGTTTTGATCCTTCAAACCTTAATATGACAGCTG
385 AACTCTCGCTAACTATGTTAGAGGCTGCAGTTTTAATACTGCAAACCTCAATATGACAACTG
* * *
55011668 GAAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCACTAATTGTGTTGGAGGCTGCAGTTTTA
1 G-AGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCACTAATTGTGTTGAAGGATGTAGTTTTA
** * * * *
55011733 ATCCTGTAAGCCTTAATATGACAGCTGGAATTTTGTAACTCTCGCTAACTGTGTTGGAGGTTGTG
65 ATCCTGCGAGCCTTAATATGATAGTTGGAAGTTTGTAACTCTCGCTAACTGTGTTGGAGGTTGCG
* * * *
55011798 GTTTTGATCCTGTGAGCCTTAATGTGACAGCTAGGAATTTGCAACTTTCGCTAACTGTGTTGGAG
130 ATTTTGATCCTATGAGCCTTAATGTGACAGCTAGGAGTTTGCAACTTTCGCTAACTATGTTGGAG
* * * * * ** * * *
55011863 GCTGCGGTTTTGATCGTGTGAGCCTTAATGTGACAGTTGGGCATTTACAACAATCGTTACCTGTG
195 GCTGCAGTTTTGATCCTATGAGCCTTAATGTGACAATTGGGCATTTGCAACTCTCGCTAACTATG
* *
55011928 TTAGAGGCTCTGATTTTGATCCTGCGAGCCTTAATATGACAGCTGGGAGTTTGTAACTCTCGCTA
260 TTAGAGGCTCTGGTTTTAATCCTGCGAGCCTTAATATGACAGCTGGGAGTTTGTAACTCTCGCTA
* * * * *
55011993 A-TGTGTTAGAGACTGTA-A-TTTTAATACTAC-AGGTCTTAATATGATAGTTGGGAGTTTGTAA
325 ACTGTGTTAGAG-CT-TACAGTTTTAATACCACGA-GCCTTAACATGACAGTTGAGAGTTTGTAA
** * * * *
55012054 CTCTCTTTAATTATGTTAGAGGTTGCAGTTTTAATACTGCAAGCCTCAATATGACAATTAG
387 CTCTCGCTAACTATGTTAGAGGCTGCAGTTTTAATACTGCAAACCTCAATATGACAACT-G
* * * * *
55012115 GAGCCTTAATACGAAAGCTGGGAGTTTGTAACTCTCGCTAATTGTGTTGAAGGATGTGGTTTTAA
1 GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCACTAATTGTGTTGAAGGATGTAGTTTTAA
* * * * *
55012180 TTCTTGCGAGCCTTAATGTGATAGTTGAAAGTTTGTCACTCTCGCTAACTGTGTTGGA-GTCAGC
66 -TCCTGCGAGCCTTAATATGATAGTTGGAAGTTTGTAACTCTCGCTAACTGTGTTGGAGGT-TGC
* * * * * *
55012244 GATTTTGATCATATGAGCCTAAATGTGACAGTTGGGAGTTTGCAACTCTCACTAACTATGTTGGA
129 GATTTTGATCCTATGAGCCTTAATGTGACAGCTAGGAGTTTGCAACTTTCGCTAACTATGTTGGA
* * * * * * * * * *
55012309 GCCTGCAATTATGGTCCTACT-AGCCTTAATGTGACAACT-AGAAGTTTGTAACTCTAGCTAATT
194 GGCTGCAGTTTTGATCCTA-TGAGCCTTAATGTGACAATTGGGCA-TTTGCAACTCTCGCTAACT
* * * *
55012372 ATGTTAGAGGCTGTGGTTTTAATCCTACGAGCCTTAATATGACAGTTGGGAGTTTGTAACTCTTG
257 ATGTTAGAGGCTCTGGTTTTAATCCTGCGAGCCTTAATATGACAGCTGGGAGTTTGTAACTCTCG
55012437 CTAACTGTGTTAGAG
322 CTAACTGTGTTAGAG
55012452 GCTGCGGTAC
Statistics
Matches: 642, Mismatches: 126, Indels: 30
0.80 0.16 0.04
Matches are distributed among these distances:
445 3 0.00
446 158 0.25
447 468 0.73
448 13 0.02
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (446 bp):
GAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCACTAATTGTGTTGAAGGATGTAGTTTTAA
TCCTGCGAGCCTTAATATGATAGTTGGAAGTTTGTAACTCTCGCTAACTGTGTTGGAGGTTGCGA
TTTTGATCCTATGAGCCTTAATGTGACAGCTAGGAGTTTGCAACTTTCGCTAACTATGTTGGAGG
CTGCAGTTTTGATCCTATGAGCCTTAATGTGACAATTGGGCATTTGCAACTCTCGCTAACTATGT
TAGAGGCTCTGGTTTTAATCCTGCGAGCCTTAATATGACAGCTGGGAGTTTGTAACTCTCGCTAA
CTGTGTTAGAGCTTACAGTTTTAATACCACGAGCCTTAACATGACAGTTGAGAGTTTGTAACTCT
CGCTAACTATGTTAGAGGCTGCAGTTTTAATACTGCAAACCTCAATATGACAACTG
Found at i:55012474 original size:71 final size:70
Alignment explanation
Indices: 55012115--55012477 Score: 251
Period size: 71 Copynumber: 5.1 Consensus size: 70
55012105 TGACAATTAG
** * * * * * *
55012115 GAGCCTTAATACGAAAGCTGGGAGTTTGTAACTCTCGCTAATTGTGTT-GAAGGATGTGGTTTTA
1 GAGCCTTAATGTGACAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTAG-AGGCTGCGGTTTGA
* *
55012179 ATTCTTGC
65 A--CCTAC
* ** * * * * *
55012187 GAGCCTTAATGTGATAGTTGAAAGTTTGTCACTCTCGCTAACTGTGTTGGAGTCAGCGATTTTGA
1 GAGCCTTAATGTGACAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCG-GTTTGA
* * *
55012252 TCATAT
65 ACCTAC
* * * * * * ** *
55012258 GAGCCTAAATGTGACAGTTGGGAGTTTGCAACTCTCACTAACTATGTTGGAGCCTGCAATTATGG
1 GAGCCTTAATGTGACAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCGGTT-TGA
*
55012323 TCCTAC
65 ACCTAC
* ** * * * * * * *
55012329 TAGCCTTAATGTGACAACTAGAAGTTTGTAACTCTAGCTAATTATGTTAGAGGCTGTGGTTTTAA
1 GAGCCTTAATGTGACAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCGGTTTGAA
55012394 TCCTAC
66 -CCTAC
* * *
55012400 GAGCCTTAATATGACAGTTGGGAGTTTGTAACTCTTGCTAACTGTGTTAGAGGCTGCGGTACTGA
1 GAGCCTTAATGTGACAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCGGT-TTGA
*
55012465 ACCTGC
65 ACCTAC
55012471 GAGCCTT
1 GAGCCTT
55012478 TGTAATATTA
Statistics
Matches: 222, Mismatches: 64, Indels: 11
0.75 0.22 0.04
Matches are distributed among these distances:
70 3 0.01
71 167 0.75
72 47 0.21
73 5 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (70 bp):
GAGCCTTAATGTGACAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTAGAGGCTGCGGTTTGAA
CCTAC
Found at i:55012476 original size:142 final size:140
Alignment explanation
Indices: 55012115--55012477 Score: 314
Period size: 142 Copynumber: 2.5 Consensus size: 140
55012105 TGACAATTAG
* * * * * * * *
55012115 GAGCCTTAATACGAAAGCTGGGAGTTTGTAACTCTCGCTAATTGTGTTGAAGGATGTGGTTTTAA
1 GAGCCTTAATATGACAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTG-AGGCTGCGGTATGAA
* * * * * * * * *
55012180 TTCTTGCGAGCCTTAATGTGATAGTTGAAAGTTTGTCACTCTCGCTAACTGTGTTGGAGTCAGCG
65 --CCTGCGAGCCTTAATGTGAAACTAGAAAGTTTGTAACTCTAGCTAACTATGTTAGAGGCAGCG
* *
55012245 ATTTTGATCATAT
128 ATTTTAATCATAC
* * * * * * ** *
55012258 GAGCCTAAATGTGACAGTTGGGAGTTTGCAACTCTCACTAACTATGTTGGAGCCTGCAATTATGG
1 GAGCCTTAATATGACAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTT-GAGGCTGC-GGTATGA
* * * * * *
55012323 TCCTACTAGCCTTAATGTGACAACTAG-AAGTTTGTAACTCTAGCTAATTATGTTAGAGGCTGTG
64 ACCTGCGAGCCTTAATGTGA-AACTAGAAAGTTTGTAACTCTAGCTAACTATGTTAGAGGCAGCG
* *
55012387 GTTTTAATCCTAC
128 ATTTTAATCATAC
*
55012400 GAGCCTTAATATGACAGTTGGGAGTTTGTAACTCTTGCTAACTGTGTTAGAGGCTGCGGTACTGA
1 GAGCCTTAATATGACAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTT-GAGGCTGCGGTA-TGA
55012465 ACCTGCGAGCCTT
64 ACCTGCGAGCCTT
55012478 TGTAATATTA
Statistics
Matches: 166, Mismatches: 50, Indels: 9
0.74 0.22 0.04
Matches are distributed among these distances:
141 2 0.01
142 115 0.69
143 46 0.28
144 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (140 bp):
GAGCCTTAATATGACAGTTGGGAGTTTGTAACTCTCGCTAACTGTGTTGAGGCTGCGGTATGAAC
CTGCGAGCCTTAATGTGAAACTAGAAAGTTTGTAACTCTAGCTAACTATGTTAGAGGCAGCGATT
TTAATCATAC
Found at i:55014374 original size:16 final size:16
Alignment explanation
Indices: 55014353--55014391 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
55014343 TAAAAAATTG
55014353 AAAAAAATTC-AAGGT
1 AAAAAAATTCGAAGGT
*
55014368 AAAAAAATTCGAAGTT
1 AAAAAAATTCGAAGGT
55014384 AAAAAAAT
1 AAAAAAAT
55014392 AATTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (16 bp):
AAAAAAATTCGAAGGT
Found at i:55014395 original size:19 final size:18
Alignment explanation
Indices: 55014368--55014411 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
55014358 AATTCAAGGT
*
55014368 AAAAA-AATTCGAAGTTAA
1 AAAAATAATT-GAAATTAA
*
55014386 AAAAATAATTTAAATTAA
1 AAAAATAATTGAAATTAA
55014404 AAAAATAA
1 AAAAATAA
55014412 AAAAATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (18 bp):
AAAAATAATTGAAATTAA
Found at i:55015300 original size:21 final size:21
Alignment explanation
Indices: 55015276--55015320 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
55015266 TGTTGATGAG
*
55015276 AGAGAATGAAAGAAAAATAAA
1 AGAGAATGAAAGAAAAAGAAA
** *
55015297 AGAGTTTGAGAGAAAAAGAAA
1 AGAGAATGAAAGAAAAAGAAA
55015318 AGA
1 AGA
55015321 AATTGAAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.11
Consensus pattern (21 bp):
AGAGAATGAAAGAAAAAGAAA
Found at i:55015326 original size:21 final size:20
Alignment explanation
Indices: 55015285--55015330 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
55015275 GAGAGAATGA
* **
55015285 AAGAAAAATAAAAGAGTTTG
1 AAGAAAAAGAAAAGAAATTG
55015305 AGAGAAAAAGAAAAGAAATTG
1 A-AGAAAAAGAAAAGAAATTG
55015326 AAGAA
1 AAGAA
55015331 GAGAAAATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.65, C:0.00, G:0.22, T:0.13
Consensus pattern (20 bp):
AAGAAAAAGAAAAGAAATTG
Found at i:55015959 original size:13 final size:13
Alignment explanation
Indices: 55015941--55015965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55015931 GTAAGTGATT
55015941 TTGATGATTTTTC
1 TTGATGATTTTTC
55015954 TTGATGATTTTT
1 TTGATGATTTTT
55015966 GCACTTTTAG
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:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:55016735 original size:47 final size:47
Alignment explanation
Indices: 55016670--55016980 Score: 240
Period size: 47 Copynumber: 6.6 Consensus size: 47
55016660 TATGTGTGCT
*
55016670 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGACACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACATTATGAGAGCC
**
55016716 AGTGTAAGACCATGTCTGGGACATGGCATCGG--CATTGAGATGAGAGAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATT---ATGAGAGCC
* **
55016764 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-C-TCGTGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATTATGA-G--AGCC
* * *
55016810 AGTATAAGA-CATGTCTGGGACAT-GCATCGGCTA-A--ATGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACATTATGA-GAGCC
* * * * *
55016854 AGTGTAAGACCATGTCTAGGACATGGCATTGACACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--AT-TATGAGAGCC
55016904 AGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-TTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATT-AT-GA-GAGCC
*
55016951 AGTGTAAGACCATGTCTGGGACGTGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
55016981 AACATTATAC
Statistics
Matches: 214, Mismatches: 28, Indels: 45
0.75 0.10 0.16
Matches are distributed among these distances:
43 3 0.01
44 12 0.06
45 20 0.09
46 59 0.28
47 62 0.29
48 25 0.12
50 30 0.14
51 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATTATGAGAGCC
Found at i:55016901 original size:140 final size:141
Alignment explanation
Indices: 55016674--55016933 Score: 350
Period size: 140 Copynumber: 1.8 Consensus size: 141
55016664 TGTGCTAGTG
* *
55016674 TAAGACATGTCTGGGACATGCATTGGACACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACA
1 TAAGACATGTCTGGGACATGCATCGGACACA-TATGAGAGCCAGTGTAAGACCATGTCTAGGACA
* **
55016739 TGGCATCGGCATTGAGATGAGAGATAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGTGA
65 TGGCATCGACACGGAGATGAGAGATAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGTGA
55016802 CGTAAGCCAGTA
130 CGTAAGCCAGTA
* *
55016814 TAAGACATGTCTGGGACATGCATCGG-CTA-A-ATGATGTGTCAGTGTAAGACCATGTCTAGGAC
1 TAAGACATGTCTGGGACATGCATCGGAC-ACATATGA-GAGCCAGTGTAAGACCATGTCTAGGAC
* * *
55016876 ATGGCATTGACACGGATATGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
64 ATGGCATCGACACGGAGA--TGAGAGATAGTGTAAGACCATGTCTGGGACATGGCATC
55016934 GACTTGATGG
Statistics
Matches: 104, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
137 4 0.04
138 37 0.36
139 2 0.02
140 42 0.40
141 14 0.13
142 5 0.05
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (141 bp):
TAAGACATGTCTGGGACATGCATCGGACACATATGAGAGCCAGTGTAAGACCATGTCTAGGACAT
GGCATCGACACGGAGATGAGAGATAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGTGAC
GTAAGCCAGTA
Found at i:55021413 original size:50 final size:49
Alignment explanation
Indices: 55021356--55021485 Score: 179
Period size: 50 Copynumber: 2.6 Consensus size: 49
55021346 AAAACTGTGA
* **
55021356 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT-GG
*
55021406 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGG
* * * *
55021455 TCGCATGTGTAGTACTATGTGCAGACTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
55021486 TGCATACCAG
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 29 0.40
50 43 0.60
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGG
Found at i:55027331 original size:75 final size:75
Alignment explanation
Indices: 55027226--55027366 Score: 194
Period size: 75 Copynumber: 1.9 Consensus size: 75
55027216 TTTTGTGGGA
* * * *
55027226 TAAATGCATCTTTGATTAATGTCTTGCATTAATACATTTGCAT-CTTTAGAAACTTGCATTAAGT
1 TAAATACATCATTGATTAATGTCTTGCATTAATACACTAGCATCCTTTA-AAACTTGCATTAAGT
55027290 GTCTTGTTTAT
65 GTCTTGTTTAT
* * * *
55027301 TAAATACATCATTGTTTAATGTTTTGCATTAATACACTAGCATCCTTTAATACTTGCATTATGTG
1 TAAATACATCATTGATTAATGTCTTGCATTAATACACTAGCATCCTTTAAAACTTGCATTAAGTG
55027366 T
66 T
55027367 TCTTCATATT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
75 52 0.91
76 5 0.09
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (75 bp):
TAAATACATCATTGATTAATGTCTTGCATTAATACACTAGCATCCTTTAAAACTTGCATTAAGTG
TCTTGTTTAT
Found at i:55032977 original size:40 final size:40
Alignment explanation
Indices: 55032937--55033011 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
55032927 ATTTGTTTGA
* *
55032937 AAATCATTTTGA--TGTGTTAAAATGATTTTAACTTGGTTG
1 AAATCATTTTGACTTG-GTTAAAATCAATTTAACTTGGTTG
*
55032976 AAGTCATTTTGACTTGGTTAAAATCAATTTAACTTG
1 AAATCATTTTGACTTGGTTAAAATCAATTTAACTTG
55033012 ATTTTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 11 0.35
40 18 0.58
41 2 0.06
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (40 bp):
AAATCATTTTGACTTGGTTAAAATCAATTTAACTTGGTTG
Found at i:55033010 original size:20 final size:20
Alignment explanation
Indices: 55032952--55033011 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
55032942 ATTTTGATGT
*
55032952 GTTAAAATGATTTTAACTTG
1 GTTAAAATCATTTTAACTTG
* * *
55032972 GTTGAAGTCATTTTGACTTG
1 GTTAAAATCATTTTAACTTG
*
55032992 GTTAAAATCAATTTAACTTG
1 GTTAAAATCATTTTAACTTG
55033012 ATTTTAAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (20 bp):
GTTAAAATCATTTTAACTTG
Found at i:55033101 original size:28 final size:28
Alignment explanation
Indices: 55033070--55033126 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
55033060 AAATTTTATC
55033070 TCTTATACTTCAAATTTAAAAATCATTT
1 TCTTATACTTCAAATTTAAAAATCATTT
55033098 TCTTATACTTCAAATTTAAAAATCATTT
1 TCTTATACTTCAAATTTAAAAATCATTT
55033126 T
1 T
55033127 GTCAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (28 bp):
TCTTATACTTCAAATTTAAAAATCATTT
Found at i:55034697 original size:33 final size:33
Alignment explanation
Indices: 55034660--55034726 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 33
55034650 AATCAAGGAG
55034660 GAGATAATGGAGGATTTTTA-GGAAGAGATTTAA
1 GAGATAATGGAGGATTTTTATGG-AGAGATTTAA
55034693 GAGATAATGGAGGATTTTTATGGAGAGATTTAA
1 GAGATAATGGAGGATTTTTATGGAGAGATTTAA
55034726 G
1 G
55034727 GGAGGAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.31, T:0.31
Consensus pattern (33 bp):
GAGATAATGGAGGATTTTTATGGAGAGATTTAA
Found at i:55038276 original size:20 final size:20
Alignment explanation
Indices: 55038234--55038288 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
55038224 AACCCTAGTG
* **
55038234 GTATCGATATTTTTCCACGA
1 GTATCGATATTTTTACAAAA
*
55038254 GTATCGATATTTTTATAAAA
1 GTATCGATATTTTTACAAAA
*
55038274 GTATCAATATTTTTA
1 GTATCGATATTTTTA
55038289 AATTGGTATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (20 bp):
GTATCGATATTTTTACAAAA
Found at i:55051208 original size:27 final size:26
Alignment explanation
Indices: 55051191--55051260 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
55051181 ATATTAAGTC
55051191 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
55051218 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
55051246 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
55051261 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:55051254 original size:28 final size:28
Alignment explanation
Indices: 55051191--55051288 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
55051181 ATATTAAGTC
*
55051191 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
55051218 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
55051246 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
55051275 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55051289 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55051746 original size:2 final size:2
Alignment explanation
Indices: 55051739--55051768 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
55051729 CATACTTGTG
55051739 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55051769 CTTCGGAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:55059272 original size:153 final size:153
Alignment explanation
Indices: 55058994--55059301 Score: 589
Period size: 153 Copynumber: 2.0 Consensus size: 153
55058984 TTTCCAAAAT
55058994 GAAGCTCAATTACAATAAAATACACTTGAGCAAAAGAATAAAAATAAAGATCACAAGTGTATATA
1 GAAGCTCAATTACAATAAAATACACTTGAGCAAAAGAATAAAAATAAAGATCACAAGTGTATATA
*
55059059 AGAAGAATATGAATGTATTAAGCTCTAAGGTTGCTTGATTGATAATTTTTGCTTGAAAGTGCTTT
66 AGAAGAATATGAATGTATTAAGCTCTAAGGTTGCTTGATTGATAATTTTTCCTTGAAAGTGCTTT
*
55059124 CTTATCGCTATAGATCTTTGGAG
131 CTTATCACTATAGATCTTTGGAG
55059147 GAAGCTCAATTACAATAAAATACACTTGAGCAAAAGAATAAAAATAAAGATCACAAGTGTATATA
1 GAAGCTCAATTACAATAAAATACACTTGAGCAAAAGAATAAAAATAAAGATCACAAGTGTATATA
55059212 AGAAGAATATGAATGTATTAAGCTCTAAGGTTGCTTGATTGATAATTTTTCCTTGAAAGTGCTTT
66 AGAAGAATATGAATGTATTAAGCTCTAAGGTTGCTTGATTGATAATTTTTCCTTGAAAGTGCTTT
*
55059277 CTTATCACTATAGGTCTTTGGAG
131 CTTATCACTATAGATCTTTGGAG
55059300 GA
1 GA
55059302 TGGTATTTAT
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
153 152 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (153 bp):
GAAGCTCAATTACAATAAAATACACTTGAGCAAAAGAATAAAAATAAAGATCACAAGTGTATATA
AGAAGAATATGAATGTATTAAGCTCTAAGGTTGCTTGATTGATAATTTTTCCTTGAAAGTGCTTT
CTTATCACTATAGATCTTTGGAG
Found at i:55065110 original size:19 final size:20
Alignment explanation
Indices: 55065067--55065151 Score: 100
Period size: 20 Copynumber: 4.2 Consensus size: 20
55065057 GCCTAGAGAA
* *
55065067 ATTTTGACTTGTTTGAAAATC
1 ATTTTGATTTGGTT-AAAATC
* *
55065088 ATTTTGATAT-GTTAAAATG
1 ATTTTGATTTGGTTAAAATC
* *
55065107 ATTTTAATTTGGTTGAAATC
1 ATTTTGATTTGGTTAAAATC
55065127 ATTTTGATTTGGTTAAAATC
1 ATTTTGATTTGGTTAAAATC
55065147 ATTTT
1 ATTTT
55065152 AACTTGATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 13 0.25
20 32 0.60
21 8 0.15
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.51
Consensus pattern (20 bp):
ATTTTGATTTGGTTAAAATC
Found at i:55065111 original size:40 final size:41
Alignment explanation
Indices: 55065067--55065172 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
55065057 GCCTAGAGAA
* *
55065067 ATTTTGACTTGTTTGAAAATCATTTTGATAT-GTTAAAATG
1 ATTTTAACTTGTTTGAAAATCATTTTGATATGGTTAAAATC
* * *
55065107 ATTTTAATTTGGTTG-AAATCATTTTGATTTGGTTAAAATC
1 ATTTTAACTTGTTTGAAAATCATTTTGATATGGTTAAAATC
* *
55065147 ATTTTAACTTGATTTTAAAATTATTT
1 ATTTTAACTTG-TTTGAAAATCATTT
55065173 GAAAATTTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
39 14 0.26
40 30 0.56
41 2 0.04
42 8 0.15
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (41 bp):
ATTTTAACTTGTTTGAAAATCATTTTGATATGGTTAAAATC
Found at i:55069461 original size:15 final size:15
Alignment explanation
Indices: 55069423--55069464 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
55069413 ATGGTAGCAT
*
55069423 AACAAAACAGAACAA
1 AACAAAATAGAACAA
*
55069438 AACCAAAATAGAATAA
1 AA-CAAAATAGAACAA
55069454 AACAAAATAGA
1 AACAAAATAGA
55069465 GTAGAATAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.71, C:0.14, G:0.07, T:0.07
Consensus pattern (15 bp):
AACAAAATAGAACAA
Found at i:55070738 original size:13 final size:14
Alignment explanation
Indices: 55070697--55070738 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
55070687 AATCCAAGTC
* *
55070697 AAATAAAACAATTA
1 AAATAAAATAACTA
55070711 AAAT-AAATAACTA
1 AAATAAAATAACTA
55070724 AAATAAAATAA-TA
1 AAATAAAATAACTA
55070737 AA
1 AA
55070739 TCAAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAAATAACTA
Found at i:55073155 original size:185 final size:185
Alignment explanation
Indices: 55072876--55073216 Score: 540
Period size: 185 Copynumber: 1.8 Consensus size: 185
55072866 GTTCCTGGGG
** *
55072876 AGTTTAATTAACCAACAAAAATAAACTACCACACAAAGCAATTCAAAATAAAATGTTTCTCTAGT
1 AGTTTAATTAACCAACAAAAATAAACTACCACACAAAGCAATTCAAAATAAAACATTTCCCTAGT
* * * *
55072941 GCTTTCATAGGGATTCAAATACCAAACCAAAGAGTACAGAGAAGCTTAATCATTGAACCACTAGG
66 ACTTTCATAAGAATTCAAACACCAAACCAAAGAGTACAGAGAAGCTTAATCATTGAACCACTAGG
55073006 CTCATTGTTGTCATTAATTGATTGAATATAAAATAAATATAGGAGGTTACTAGAA
131 CTCATTGTTGTCATTAATTGATTGAATATAAAATAAATATAGGAGGTTACTAGAA
* * *
55073061 AGTTTAATTAACCAACAAAAATAAACTACCACACAAAGTAGTTCAAAATAAAACATTTCCCTATT
1 AGTTTAATTAACCAACAAAAATAAACTACCACACAAAGCAATTCAAAATAAAACATTTCCCTAGT
* * *
55073126 ACTTAT-ATAAGAATTCGAACACCAAACCAAAGAGTACATAGAAGCTTAATCATTGAACTACTAG
66 ACTT-TCATAAGAATTCAAACACCAAACCAAAGAGTACAGAGAAGCTTAATCATTGAACCACTAG
*
55073190 GCTCATTGTTGTTATTAATTGATTGAA
130 GCTCATTGTTGTCATTAATTGATTGAA
55073217 ATTAACTTAT
Statistics
Matches: 141, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
185 140 0.99
186 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.28
Consensus pattern (185 bp):
AGTTTAATTAACCAACAAAAATAAACTACCACACAAAGCAATTCAAAATAAAACATTTCCCTAGT
ACTTTCATAAGAATTCAAACACCAAACCAAAGAGTACAGAGAAGCTTAATCATTGAACCACTAGG
CTCATTGTTGTCATTAATTGATTGAATATAAAATAAATATAGGAGGTTACTAGAA
Found at i:55073816 original size:123 final size:124
Alignment explanation
Indices: 55073590--55073839 Score: 339
Period size: 123 Copynumber: 2.0 Consensus size: 124
55073580 TATATTGTAA
* * **
55073590 CAAAAAGTAATTAATTCAACATTATTTTAAATATTATTTTTTTATTCTTAACTTATATTGGTGAT
1 CAAAAAATAATTAATTCAACATTATTTTAAAGATTATTTTTTTATTCTTAACTTATATTAATGAT
* * * *
55073655 AATATAAGGTATAAATATTTTTAAAATTAAATATTTATATTATTTTATTTTTACTTTCT
66 AACATAAGGTATAAAGATTTGTAAAATTAAATATTTATATTATTTTATTTTCACTTTCT
55073714 CAAAAAATAATTAATTCAA-ATTTATTTTAAAGATTA-TTTTTTATTCTTAACTTATATTAATGA
1 CAAAAAATAATTAATTCAACA-TTATTTTAAAGATTATTTTTTTATTCTTAACTTATATTAATGA
* *
55073777 TAACACT-AGGTATAAAGA-TTGTAAAATTTTAAA-ATTTATATTATTTTGTTTTCACTTTTT
65 TAACA-TAAGGTATAAAGATTTGTAAAA--TTAAATATTTATATTATTTTATTTTCACTTTCT
55073837 CAA
1 CAA
55073840 TCATAGTATT
Statistics
Matches: 112, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
122 7 0.06
123 67 0.60
124 38 0.34
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (124 bp):
CAAAAAATAATTAATTCAACATTATTTTAAAGATTATTTTTTTATTCTTAACTTATATTAATGAT
AACATAAGGTATAAAGATTTGTAAAATTAAATATTTATATTATTTTATTTTCACTTTCT
Found at i:55086565 original size:50 final size:50
Alignment explanation
Indices: 55086433--55086565 Score: 187
Period size: 50 Copynumber: 2.7 Consensus size: 50
55086423 CTGGTACGCA
* ** *
55086433 TAGTAGCCCGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACG
* * * *
55086482 TAGTAGCCTGAACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACG
55086532 TAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCT
55086566 CACAATAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 29 0.40
50 43 0.60
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGATACACG
Found at i:55096442 original size:25 final size:25
Alignment explanation
Indices: 55096398--55096446 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
55096388 TTATAATATG
* * *
55096398 AAAAATGACTATTTTGCCCCTAGGT
1 AAAAATGACCATTATACCCCTAGGT
55096423 AAAAATGACCATTATACCCCTAGG
1 AAAAATGACCATTATACCCCTAGG
55096447 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (25 bp):
AAAAATGACCATTATACCCCTAGGT
Found at i:55096510 original size:21 final size:20
Alignment explanation
Indices: 55096486--55096562 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 20
55096476 TTGTTATTAT
*
55096486 ACATTATATGACATGATATGC
1 ACATGATATG-CATGATATGC
**
55096507 ACATGATATGTTTTGATATGC
1 ACATGATATG-CATGATATGC
*
55096528 ACATGATATGCCATGATATAC
1 ACATGATATG-CATGATATGC
* *
55096549 TCATTATATGCATG
1 ACATGATATGCATG
55096563 GGTTGGGTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
20 4 0.09
21 42 0.91
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:55096512 original size:11 final size:11
Alignment explanation
Indices: 55096486--55096560 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
55096476 TTGTTATTAT
*
55096486 ACATTATATG-
1 ACATGATATGC
55096496 ACATGATATGC
1 ACATGATATGC
55096507 ACATGATATG-
1 ACATGATATGC
***
55096517 TTTTGATATGC
1 ACATGATATGC
55096528 ACATGATATGC
1 ACATGATATGC
*
55096539 -CATGATATAC
1 ACATGATATGC
* *
55096549 TCATTATATGC
1 ACATGATATGC
55096560 A
1 A
55096561 TGGGTTGGGT
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
10 25 0.49
11 26 0.51
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (11 bp):
ACATGATATGC
Found at i:55096542 original size:10 final size:10
Alignment explanation
Indices: 55096491--55096546 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 10
55096481 ATTATACATT
*
55096491 ATATGACATG
1 ATATGCCATG
55096501 ATATGCACATG
1 ATATGC-CATG
***
55096512 ATATGTTTTG
1 ATATGCCATG
55096522 ATATGCACATG
1 ATATGC-CATG
55096533 ATATGCCATG
1 ATATGCCATG
55096543 ATAT
1 ATAT
55096547 ACTCATTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
10 20 0.54
11 17 0.46
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (10 bp):
ATATGCCATG
Found at i:55096668 original size:25 final size:25
Alignment explanation
Indices: 55096593--55096661 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
55096583 AGGAAGTGCT
* ***
55096593 AAAGGGCTTTGCCCTAGTTTACCGA
1 AAAGGGCTTTGCCCCAGTTTATTAA
*
55096618 AAAGGGCTTTGTCCCAGTTTATTAA
1 AAAGGGCTTTGCCCCAGTTTATTAA
55096643 AAAGGGCTTTGCCCCAGTT
1 AAAGGGCTTTGCCCCAGTT
55096662 ATTTAAAGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTATTAA
Found at i:55096674 original size:24 final size:25
Alignment explanation
Indices: 55096618--55096690 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
55096608 AGTTTACCGA
*
55096618 AAAG-GGCTTTGTCCCAGTT-TATT
1 AAAGAGGCTTTGCCCCAGTTATATT
*
55096641 AAAAAGGGCTTTGCCCCAGTTAT-TT
1 AAAGA-GGCTTTGCCCCAGTTATATT
**
55096666 AAAGAGGCTAGGCCTCCAGTTATAT
1 AAAGAGGCTTTGCC-CCAGTTATAT
55096691 GGTAAAGCAG
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
23 3 0.08
24 7 0.17
25 28 0.70
26 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (25 bp):
AAAGAGGCTTTGCCCCAGTTATATT
Found at i:55097742 original size:26 final size:26
Alignment explanation
Indices: 55097708--55097760 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
55097698 GCAAATATTC
55097708 TTTTATTCTTTCCATACAAGTAATTA
1 TTTTATTCTTTCCATACAAGTAATTA
* *
55097734 TTTTATTCTTTCCGTATAAGTAATTA
1 TTTTATTCTTTCCATACAAGTAATTA
55097760 T
1 T
55097761 CTTGGTGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.13, G:0.06, T:0.53
Consensus pattern (26 bp):
TTTTATTCTTTCCATACAAGTAATTA
Found at i:55105649 original size:44 final size:44
Alignment explanation
Indices: 55105586--55105700 Score: 194
Period size: 44 Copynumber: 2.6 Consensus size: 44
55105576 TGACATAGGG
55105586 TTCTGATATGTGTTTACGAGTAAGACCATGGCATCGATATATGA
1 TTCTGATATGTGTTTACGAGTAAGACCATGGCATCGATATATGA
* * *
55105630 TTCTGACATGTGTTTACGAGTAAGACCATGGCATCGTTATGTGA
1 TTCTGATATGTGTTTACGAGTAAGACCATGGCATCGATATATGA
*
55105674 TTCCGATATGTGTTTACGAGTAAGACC
1 TTCTGATATGTGTTTACGAGTAAGACC
55105701 TTGTCTGGGA
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (44 bp):
TTCTGATATGTGTTTACGAGTAAGACCATGGCATCGATATATGA
Found at i:55105728 original size:56 final size:56
Alignment explanation
Indices: 55105658--55105784 Score: 193
Period size: 56 Copynumber: 2.3 Consensus size: 56
55105648 AGTAAGACCA
*
55105658 TGGCATCGTTATGTGATTCCGATATGTGTTTACGAGTAAGAC-CTTGTCTGGGACAG
1 TGGCATCGATATGTGATTCCGATATGTGTTTACGAGTAAGACTC-TGTCTGGGACAG
* * *
55105714 TGGTATCGATATGTGATTCCGATATGTGTTTACGAGTAAGACTCTGTTTGGGATAG
1 TGGCATCGATATGTGATTCCGATATGTGTTTACGAGTAAGACTCTGTCTGGGACAG
*
55105770 TGGCATCTATATGTG
1 TGGCATCGATATGTG
55105785 GTTACATGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
56 63 0.98
57 1 0.02
ACGTcount: A:0.22, C:0.13, G:0.28, T:0.36
Consensus pattern (56 bp):
TGGCATCGATATGTGATTCCGATATGTGTTTACGAGTAAGACTCTGTCTGGGACAG
Found at i:55108868 original size:40 final size:41
Alignment explanation
Indices: 55108824--55109049 Score: 268
Period size: 40 Copynumber: 5.6 Consensus size: 41
55108814 GCTCCTCGTT
* * * *
55108824 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTATAATAACTCGCA
55108864 CAAATGCCTTCGGGACTTAACCCGGATT-TAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTATAATAACTCGCA
*
55108904 CGAATGCCTTCGGGACTTAACCCGGATT-TAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTATAATAACTCGCA
* *
55108944 CGAATGCCTTCGGGACTTAACCCGGAAT-TAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTATAATAACTCGCA
** * * *
55108984 CAAATGCCTTC-GGATCTTAGTCCGGA-TATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTATAATAAC-TCGCA
*
55109025 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
55109050 CAGCATTCAA
Statistics
Matches: 168, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 4 0.02
40 151 0.90
41 13 0.08
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAACCCGGATTATAATAACTCGCA
Found at i:55109058 original size:41 final size:41
Alignment explanation
Indices: 55108981--55109058 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
55108971 TTAATAACTC
* * *
55108981 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
55109022 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
55109059 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:55129978 original size:45 final size:45
Alignment explanation
Indices: 55129882--55130084 Score: 235
Period size: 45 Copynumber: 4.6 Consensus size: 45
55129872 TAGCCACCAG
* *
55129882 CCTTATCTCCTTGAAGTTGCAGTGGAGCAG---G-A-A-TACAAG
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATTACAAA
* * * * *
55129921 TCTTACCTCCCTGAAGTTGCAGTTGAGTAGACTGAAGATCACAAA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATTACAAA
55129966 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATTACAAA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATTACAAA
*
55130011 CCTTATCTCCCTGAAGTTGCAGTGGAGCACG-TTGAA-ATTACCAAA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCA-GACTGAAGATTA-CAAA
55130056 TCC-TATCTCCCTGAAGTTGCAGTTGGAGC
1 -CCTTATCTCCCTGAAGTTGCAG-TGGAGC
55130085 GGATTAAAAT
Statistics
Matches: 141, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
39 25 0.18
42 1 0.01
43 1 0.01
44 5 0.04
45 100 0.71
46 9 0.06
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (45 bp):
CCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATTACAAA
Found at i:55131629 original size:13 final size:13
Alignment explanation
Indices: 55131613--55131638 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55131603 TTTAATTCAG
55131613 TTTTTATTTTATT
1 TTTTTATTTTATT
55131626 TTTTTATTTTATT
1 TTTTTATTTTATT
55131639 CATTTTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:55140405 original size:16 final size:16
Alignment explanation
Indices: 55140380--55140414 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
55140370 CTCAACGATT
*
55140380 TTATATATAATATAGA
1 TTATAAATAATATAGA
*
55140396 TTATAAATAATATATA
1 TTATAAATAATATAGA
55140412 TTA
1 TTA
55140415 ATGAGTTGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
TTATAAATAATATAGA
Found at i:55141086 original size:14 final size:15
Alignment explanation
Indices: 55141067--55141100 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
55141057 AAAAATTACA
55141067 AAAAATTTGAATA-T
1 AAAAATTTGAATATT
*
55141081 AAAAATTTTAATATT
1 AAAAATTTGAATATT
55141096 AAAAA
1 AAAAA
55141101 AATTATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
AAAAATTTGAATATT
Found at i:55158618 original size:22 final size:22
Alignment explanation
Indices: 55158566--55158618 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
55158556 GTGGTGAGAA
*
55158566 AAATTATTACTAATAAGAAATT
1 AAATAATTACTAATAAGAAATT
* * *
55158588 AAATTATTACTAATAATATATT
1 AAATAATTACTAATAAGAAATT
*
55158610 CAATAATTA
1 AAATAATTA
55158619 AGTAATTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATAATTACTAATAAGAAATT
Found at i:55164031 original size:19 final size:18
Alignment explanation
Indices: 55164009--55164047 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
55163999 TTCCTCTCTC
*
55164009 AAAATGAACTAAAAATAAA
1 AAAATAAACTAAAAA-AAA
*
55164028 AAAATAAAGTAAAAAAAA
1 AAAATAAACTAAAAAAAA
55164046 AA
1 AA
55164048 CAAATCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (18 bp):
AAAATAAACTAAAAAAAA
Found at i:55165569 original size:28 final size:27
Alignment explanation
Indices: 55165535--55165661 Score: 141
Period size: 28 Copynumber: 4.6 Consensus size: 27
55165525 ATTTGATACC
55165535 GAGCACTAAGTGTGCGAAATCGGTCATT
1 GAGCACTAAGTGTGCGAAATCGGT-ATT
* * *
55165563 GAGCACTAAGTGTGC-AAGTTGGTTTT
1 GAGCACTAAGTGTGCGAAATCGGTATT
* * *
55165589 AAGCACTAAGTGTGC-AAATTGGATTTT
1 GAGCACTAAGTGTGCGAAATCGG-TATT
*
55165616 CGAGCACTAAGTGTCCGAAATCGGTTATT
1 -GAGCACTAAGTGTGCGAAATCGG-TATT
55165645 GAGCACTAAGTGTGCGA
1 GAGCACTAAGTGTGCGA
55165662 GAAAATTTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
26 22 0.26
27 10 0.12
28 44 0.52
29 9 0.11
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
GAGCACTAAGTGTGCGAAATCGGTATT
Found at i:55165598 original size:54 final size:57
Alignment explanation
Indices: 55165536--55165661 Score: 154
Period size: 54 Copynumber: 2.3 Consensus size: 57
55165526 TTTGATACCG
* * *
55165536 AGCACTAAGTGTGCGAAATCGG-TCATT-GAGCACTAAGTGTGC-AAGTTGGTT-TTA
1 AGCACTAAGTGTGCGAAATCGGAT-ATTCGAGCACTAAGTGTCCGAAATCGGTTATTA
* * *
55165590 AGCACTAAGTGTGC-AAATTGGATTTTCGAGCACTAAGTGTCCGAAATCGGTTATTG
1 AGCACTAAGTGTGCGAAATCGGATATTCGAGCACTAAGTGTCCGAAATCGGTTATTA
55165646 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
55165662 GAAAATTTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
53 8 0.13
54 29 0.48
55 7 0.11
56 16 0.26
57 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (57 bp):
AGCACTAAGTGTGCGAAATCGGATATTCGAGCACTAAGTGTCCGAAATCGGTTATTA
Found at i:55168164 original size:19 final size:20
Alignment explanation
Indices: 55168129--55168177 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
55168119 AATTGAACTT
* *
55168129 GAAAATTGGA-TCTGAGATC
1 GAAAATTAGACTCTGAGATA
55168148 GAAAATTAGACTC-GAGATA
1 GAAAATTAGACTCTGAGATA
*
55168167 AAAAATTAGAC
1 GAAAATTAGAC
55168178 CCAAGAACCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 24 0.92
20 2 0.08
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.22
Consensus pattern (20 bp):
GAAAATTAGACTCTGAGATA
Found at i:55170577 original size:35 final size:35
Alignment explanation
Indices: 55170531--55170600 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
55170521 TATTCGAGCT
*
55170531 TACTAAGCATGTAAATGCTTACCCCTCTCTCTTTC
1 TACTAAGCATGTAAATGCTTACCCCTATCTCTTTC
* *
55170566 TACTAAGCATGTAAATGCTTGCCCCTATCTTTTTC
1 TACTAAGCATGTAAATGCTTACCCCTATCTCTTTC
55170601 CCTGTCTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.23, C:0.29, G:0.10, T:0.39
Consensus pattern (35 bp):
TACTAAGCATGTAAATGCTTACCCCTATCTCTTTC
Found at i:55174731 original size:40 final size:40
Alignment explanation
Indices: 55174674--55174806 Score: 205
Period size: 40 Copynumber: 3.3 Consensus size: 40
55174664 TGGTCACTAG
*
55174674 CTTCGGGACTTATCCCGG-ATGTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGAAT-TAGTAACTCGCACAAATGC
55174714 CTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGC
* * * *
55174754 CTTCGGGACTTAACCCGGAATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGC
55174794 CTTCGGGACTTAA
1 CTTCGGGACTTAA
55174807 ATGCACATAT
Statistics
Matches: 87, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 85 0.98
41 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGAATTAGTAACTCGCACAAATGC
Found at i:55187879 original size:20 final size:20
Alignment explanation
Indices: 55187851--55187890 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
55187841 GAGAAAGAAA
*
55187851 GAACCGATGGGGAAGGGAAC
1 GAACCGATGGAGAAGGGAAC
* *
55187871 GAACTGATGGAGAAGTGAAC
1 GAACCGATGGAGAAGGGAAC
55187891 CAGTGGTGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.40, T:0.10
Consensus pattern (20 bp):
GAACCGATGGAGAAGGGAAC
Found at i:55194249 original size:39 final size:39
Alignment explanation
Indices: 55194223--55194380 Score: 255
Period size: 39 Copynumber: 4.1 Consensus size: 39
55194213 GTCCAGCACG
55194223 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
* *
55194262 TAGCCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
*
55194301 TAGCCTGCGGACCTGAAA-TCCGGATATAATTCTCGCTTA
1 TAGCCTGCGGACCT-AAAGTCCGGATATAATTCTCGCATA
* *
55194340 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCGTA
1 TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
55194379 TA
1 TA
55194381 TATATTCACA
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
38 2 0.02
39 106 0.96
40 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (39 bp):
TAGCCTGCGGACCTAAAGTCCGGATATAATTCTCGCATA
Found at i:55198589 original size:27 final size:27
Alignment explanation
Indices: 55198559--55198737 Score: 216
Period size: 27 Copynumber: 6.6 Consensus size: 27
55198549 TATATTGAGT
* * * *
55198559 TCGCACACTCAGTGCTATATAATCAAC
1 TCGCACACTTAGTGCTACATAGTCAAA
* *
55198586 TCGCACACTTAGTGCTACGTAATCAAA
1 TCGCACACTTAGTGCTACATAGTCAAA
55198613 TCGCACACTTAGTGCTACATAGTCAAA
1 TCGCACACTTAGTGCTACATAGTCAAA
* * *
55198640 CTCGCACACTTAGTGCCACATGGTCAAT
1 -TCGCACACTTAGTGCTACATAGTCAAA
* **
55198668 TCGCACACTTAGTGC-ATCATATTCATT
1 TCGCACACTTAGTGCTA-CATAGTCAAA
*
55198695 TCGCACACTTAGTGCAACATAGTCAAA
1 TCGCACACTTAGTGCTACATAGTCAAA
55198722 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
55198738 GTACAATTTA
Statistics
Matches: 133, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 107 0.80
28 25 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
TCGCACACTTAGTGCTACATAGTCAAA
Found at i:55198699 original size:82 final size:81
Alignment explanation
Indices: 55198581--55198736 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55198571 TGCTATATAA
* *
55198581 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
55198646 CACTTAGTGCCACATGG
65 CACTTAGTGCCACATGG
* * **
55198663 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
55198727 CACTTAGTGC
65 CACTTAGTGC
55198737 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCACATGG
Found at i:55212972 original size:46 final size:46
Alignment explanation
Indices: 55212919--55213092 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
55212909 TGATTGAGCA
55212919 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
* * *
55212965 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-A-ATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAA-T--G
* *
55213010 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
* * *
55213058 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCATTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
55213093 GGGCGGGTTA
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATG
Found at i:55213075 original size:93 final size:93
Alignment explanation
Indices: 55212916--55213086 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
55212906 GGATGATTGA
* *
55212916 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
55212981 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
55213009 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
55213074 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55213087 ATTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:55222090 original size:39 final size:38
Alignment explanation
Indices: 55222059--55222138 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 38
55222049 TATATGTCCA
*
55222059 GCACGTAGCCTGCGGACCTAAAGTCCGGATATAATTCTC
1 GCACATAGCCTGCGGACCTAAAGTCCGGATAT-ATTCTC
* *
55222098 GCATATAGCCTGCGGACCTGAAGTCCGGATATAATTCTC
1 GCACATAGCCTGCGGACCTAAAGTCCGGATAT-ATTCTC
55222137 GC
1 GC
55222139 GTATATATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (38 bp):
GCACATAGCCTGCGGACCTAAAGTCCGGATATATTCTC
Found at i:55227605 original size:38 final size:38
Alignment explanation
Indices: 55227563--55227640 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
55227553 AATGATTCAA
55227563 TTACATAGAAACTGACATTCTTTAGATCTTATGCATGT
1 TTACATAGAAACTGACATTCTTTAGATCTTATGCATGT
55227601 TTACATAGAAACTGACATTCTTTAGATCTTATGCATGT
1 TTACATAGAAACTGACATTCTTTAGATCTTATGCATGT
55227639 TT
1 TT
55227641 TAAGTTATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (38 bp):
TTACATAGAAACTGACATTCTTTAGATCTTATGCATGT
Found at i:55227624 original size:21 final size:21
Alignment explanation
Indices: 55227563--55227624 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
55227553 AATGATTCAA
55227563 TTACATAGAAACTGACATTCT
1 TTACATAGAAACTGACATTCT
* *** *
55227584 TTAGAT-CTTA-TG-CA-TGT
1 TTACATAGAAACTGACATTCT
55227601 TTACATAGAAACTGACATTCT
1 TTACATAGAAACTGACATTCT
55227622 TTA
1 TTA
55227625 GATCTTATGC
Statistics
Matches: 27, Mismatches: 10, Indels: 8
0.60 0.22 0.18
Matches are distributed among these distances:
17 7 0.26
18 3 0.11
19 4 0.15
20 3 0.11
21 10 0.37
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (21 bp):
TTACATAGAAACTGACATTCT
Found at i:55232643 original size:37 final size:37
Alignment explanation
Indices: 55232589--55232684 Score: 156
Period size: 37 Copynumber: 2.6 Consensus size: 37
55232579 CATGTGAAAC
** *
55232589 AGGTTTAGCCCAAATGAGTAACTTGGTGTCGTTTTAT
1 AGGTTTAGCCCGGATGAGTAACTTGGTGTCATTTTAT
55232626 AGGTTTAGCCCGGATGAGTAACTTGGTGTCATTTTAT
1 AGGTTTAGCCCGGATGAGTAACTTGGTGTCATTTTAT
*
55232663 AGGTTTAGCCCGGATGGGTAAC
1 AGGTTTAGCCCGGATGAGTAAC
55232685 CTTACATGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (37 bp):
AGGTTTAGCCCGGATGAGTAACTTGGTGTCATTTTAT
Found at i:55236068 original size:100 final size:100
Alignment explanation
Indices: 55235895--55236083 Score: 326
Period size: 100 Copynumber: 1.9 Consensus size: 100
55235885 GTGAGGTCAC
* *
55235895 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTGCAGGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTCCAGGATAATTGGTCGCATGTGTAGTACTAAGT
* *
55235960 GCAGGCTACTATGCGTACCCGATAACTTTGATCAT
66 GCAGGCTACTATGCATACCAGATAACTTTGATCAT
55235995 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-GATAATTGGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGT-CCAGGATAATTGGTCGCATGTGTAGTACTAAG
55236059 TGCAGGCTACTATGCATACCAGATA
65 TGCAGGCTACTATGCATACCAGATA
55236084 GCCTTGTCTA
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
100 82 0.98
101 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (100 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTCCAGGATAATTGGTCGCATGTGTAGTACTAAGT
GCAGGCTACTATGCATACCAGATAACTTTGATCAT
Found at i:55236079 original size:49 final size:49
Alignment explanation
Indices: 55235896--55236083 Score: 234
Period size: 49 Copynumber: 3.8 Consensus size: 49
55235886 TGAGGTCACG
* * *
55235896 TGTGTAGTACTAAGTGTAGGCTACTACGTGT-GCAGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCA-GATAATTGGTCGCA
* * * ***
55235945 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTTGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA--TTGGTCGCA
*
55235996 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
* *
55236045 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
55236084 GCCTTGTCTA
Statistics
Matches: 117, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
49 74 0.63
50 1 0.01
51 42 0.36
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
Found at i:55236113 original size:100 final size:100
Alignment explanation
Indices: 55235895--55236116 Score: 279
Period size: 100 Copynumber: 2.2 Consensus size: 100
55235885 GTGAGGTCAC
* * * *
55235895 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTGCAGGATAATTGGTCGCATGTGTAGTACTAAGT
1 GTGTGTAGAAATAAGTGCAGGCTACTACGTGTCCAGGATAATTGGTCGCATGTGTAGTACTAAGT
* * * *
55235960 GCAGGCTACTATGCGTACCCGATAACTTTGATCAT
66 GCAGGCTACTATGCATACCAGATAACCTTGATCAA
* *
55235995 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-GATAATTGGTCGCATGTGTAGTACTAAG
1 GTGTGTAGAAATAAGTGCAGGCTACTACGTGT-CCAGGATAATTGGTCGCATGTGTAGTACTAAG
* *
55236059 TGCAGGCTACTATGCATACCAGATAGCCTTGTCTACAA
65 TGCAGGCTACTATGCATACCAGATAACCTTG-AT-CAA
*
55236097 GTGTG-A-AAATATGTGCAGGC
1 GTGTGTAGAAATAAGTGCAGGC
55236117 AACTGAGTAT
Statistics
Matches: 108, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
100 97 0.90
101 4 0.04
102 7 0.06
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (100 bp):
GTGTGTAGAAATAAGTGCAGGCTACTACGTGTCCAGGATAATTGGTCGCATGTGTAGTACTAAGT
GCAGGCTACTATGCATACCAGATAACCTTGATCAA
Found at i:55236990 original size:35 final size:35
Alignment explanation
Indices: 55236951--55237020 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
55236941 GGACTTACTA
55236951 AGCGTAAAGCTTACCCATCCTCTCCATTTCTTTAG
1 AGCGTAAAGCTTACCCATCCTCTCCATTTCTTTAG
55236986 AGCGTAAAGCTTACCCATCCTCTCCATTTCTTTAG
1 AGCGTAAAGCTTACCCATCCTCTCCATTTCTTTAG
55237021 TATTGGAAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.34
Consensus pattern (35 bp):
AGCGTAAAGCTTACCCATCCTCTCCATTTCTTTAG
Found at i:55240041 original size:27 final size:27
Alignment explanation
Indices: 55240011--55240188 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55240001 ATATTGAGTC
* * * *
55240011 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
55240038 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55240065 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
55240093 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
55240120 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
55240147 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55240174 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55240189 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:55240150 original size:82 final size:81
Alignment explanation
Indices: 55240032--55240187 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55240022 TGCTATATAA
* *
55240032 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
55240097 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55240114 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
55240178 CACTTAGTGC
65 CACTTAGTGC
55240188 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55254858 original size:54 final size:54
Alignment explanation
Indices: 55254689--55254885 Score: 220
Period size: 55 Copynumber: 3.6 Consensus size: 54
55254679 AACTTACCAT
* *
55254689 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCA-CTAA
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATC-AA
** * ** * * * *
55254742 TGCCATACCTTGGCATGGTCTTACATGGGACCCTTTCCATAGAGTAACTCATCAA
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAG-AACTCATCAA
* * *
55254797 TGCCATGTCTTGACATGGTCTTACATAATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
55254851 TGCCATGTCTTGGA-ATGGTCTTACATGATATCCTT
1 TGCCATGTCTT-GACATGGTCTTACATGATATCCTT
55254886 ATCTTACCAA
Statistics
Matches: 117, Mismatches: 23, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
53 33 0.28
54 40 0.34
55 43 0.37
56 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
Found at i:55254918 original size:47 final size:47
Alignment explanation
Indices: 55254865--55254985 Score: 197
Period size: 47 Copynumber: 2.6 Consensus size: 47
55254855 ATGTCTTGGA
* * * *
55254865 ATGGTCTTACATGATATCCTTATCTTACCAAATGTCAAGTTCCTAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAAGTTCCAAAC
*
55254912 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAAGTTCCAAAC
55254959 ATGGTCTTACATGGTATCCTTGTCTTA
1 ATGGTCTTACATGGTATCCTTGTCTTA
55254986 GTGCCAATGC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (47 bp):
ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAAGTTCCAAAC
Found at i:55255173 original size:44 final size:44
Alignment explanation
Indices: 55255122--55255208 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
55255112 GTATCCTTAA
* *
55255122 CCGTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTT
* *
55255166 CCGTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
55255209 GAGATATCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 2 0.05
44 36 0.95
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTT
Found at i:55265582 original size:46 final size:46
Alignment explanation
Indices: 55265529--55265719 Score: 258
Period size: 46 Copynumber: 4.2 Consensus size: 46
55265519 AATATGATTT
* *
55265529 CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
1 CATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATAC
* * *
55265575 CATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGAAAGATAC
1 CATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATAC
* * *
55265621 CATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATAC
1 CATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATAC
* * *
55265667 CATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACAC
1 CATGGCAACCTGACATG-AAATGAGTAAGACCATGGTTGAAAGATAC
*
55265713 TATGGCA
1 CATGGCA
55265720 TCACGTCAAA
Statistics
Matches: 131, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 130 0.99
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (46 bp):
CATGGCAACCTGACATGAAATGAGTAAGACCATGGTTGAAAGATAC
Found at i:55271634 original size:14 final size:15
Alignment explanation
Indices: 55271607--55271635 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55271597 TTTACCAGTC
55271607 AACCAACACATCACA
1 AACCAACACATCACA
55271622 AACCAAC-CATCACA
1 AACCAACACATCACA
55271636 CTAATCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.41, G:0.00, T:0.07
Consensus pattern (15 bp):
AACCAACACATCACA
Found at i:55273025 original size:69 final size:69
Alignment explanation
Indices: 55272914--55273052 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
55272904 AATCGTGGTG
55272914 AGCAATCAAGCATAATTCATAGCATTTACTTTGATATGTTGGCACAATATGATTATGAAGCATAT
1 AGCAATCAAGCATAATTCATAGCATTTACTTTGATATGTTGGCACAATATGATTATGAAGCATAT
55272979 ATAT
66 ATAT
55272983 AGCAATCAAGCATAATTCATAGCATTTACTTTGATATGTTGGCACAATATGATTATGAAGCATAT
1 AGCAATCAAGCATAATTCATAGCATTTACTTTGATATGTTGGCACAATATGATTATGAAGCATAT
55273048 ATAT
66 ATAT
55273052 A
1 A
55273053 ACATATTACA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (69 bp):
AGCAATCAAGCATAATTCATAGCATTTACTTTGATATGTTGGCACAATATGATTATGAAGCATAT
ATAT
Found at i:55273174 original size:22 final size:22
Alignment explanation
Indices: 55273146--55273193 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
55273136 TATACTCTCT
* *
55273146 AACACAACCATTATAGCCACTA
1 AACACAACCAATATACCCACTA
* *
55273168 AACACAACTAATATACCCTCTA
1 AACACAACCAATATACCCACTA
55273190 AACA
1 AACA
55273194 TATCCACTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (22 bp):
AACACAACCAATATACCCACTA
Found at i:55274790 original size:11 final size:11
Alignment explanation
Indices: 55274754--55274794 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
55274744 TATTAGTTTA
*
55274754 TTATTATTATT
1 TTATTTTTATT
* *
55274765 TTAATTATATT
1 TTATTTTTATT
55274776 TTATTTTTATT
1 TTATTTTTATT
55274787 TTATTTTT
1 TTATTTTT
55274795 TCATGCTCTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:55275675 original size:21 final size:21
Alignment explanation
Indices: 55275618--55275679 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
55275608 TCCATATGAC
* *
55275618 CGTGTGTCTCCTTTCACACGGG
1 CGTGTGCCTCC-TTCACATGGG
* * **
55275640 CATGTGCATTTTTCACATGGG
1 CGTGTGCCTCCTTCACATGGG
55275661 CGTGTGCCTCCTTCACATG
1 CGTGTGCCTCCTTCACATG
55275680 ATCGTGTAGA
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
21 24 0.80
22 6 0.20
ACGTcount: A:0.13, C:0.29, G:0.24, T:0.34
Consensus pattern (21 bp):
CGTGTGCCTCCTTCACATGGG
Found at i:55288550 original size:47 final size:48
Alignment explanation
Indices: 55288482--55288606 Score: 154
Period size: 47 Copynumber: 2.7 Consensus size: 48
55288472 ATTGTGTGCT
*
55288482 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCACATT-AT-GA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG--AC-TTAATGGATGAGCC
*
55288528 AGTGTAAAACCATGTCTGGGACATGGCATC-GACTTAATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGACTTAATGGATGAGCC
*
55288575 AGTGTAAGACCATGTCTGGAACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
55288607 TATTCTACCC
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
44 2 0.03
45 4 0.06
46 10 0.14
47 47 0.68
48 6 0.09
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGACTTAATGGATGAGCC
Found at i:55299492 original size:41 final size:41
Alignment explanation
Indices: 55299435--55299517 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
55299425 TTTAAACATC
* **
55299435 TTAAATGTGTGTCTTAAATACTGTACTTTAATTATGTGTCT
1 TTAAATGCGTGTCTTAAATACTACACTTTAATTATGTGTCT
*
55299476 TTAAATGCGTGTCTTAAATACTACACTTTAATTATGTTTCT
1 TTAAATGCGTGTCTTAAATACTACACTTTAATTATGTGTCT
55299517 T
1 T
55299518 AGTTTTTACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (41 bp):
TTAAATGCGTGTCTTAAATACTACACTTTAATTATGTGTCT
Found at i:55300490 original size:33 final size:33
Alignment explanation
Indices: 55300453--55300518 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
55300443 CCCTTCCTTC
55300453 TTCCTTTATTATCCATCAAACCACTTTTTCAAA
1 TTCCTTTATTATCCATCAAACCACTTTTTCAAA
55300486 TTCCTTTATTATCCATCAAACCACTTTTTCAAA
1 TTCCTTTATTATCCATCAAACCACTTTTTCAAA
55300519 GCCTCTCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (33 bp):
TTCCTTTATTATCCATCAAACCACTTTTTCAAA
Found at i:55302840 original size:46 final size:46
Alignment explanation
Indices: 55302739--55302826 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
55302729 TGTAACCCGC
* * * *
55302739 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
55302785 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
55302827 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:55310705 original size:23 final size:23
Alignment explanation
Indices: 55310678--55310722 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
55310668 TTTTAAAATT
55310678 ATAAA-TTAATAATTATTATTATC
1 ATAAATTTAATAA-TATTATTATC
*
55310701 ATAAATTTATTAATATTATTAT
1 ATAAATTTAATAATATTATTAT
55310723 TATTTCTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
ATAAATTTAATAATATTATTATC
Found at i:55312156 original size:19 final size:19
Alignment explanation
Indices: 55312111--55312162 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
55312101 TAATAAATCA
* *
55312111 TATAAAAAAT-AAAATTAT
1 TATAAAATATAAAAATAAT
*
55312129 TAATTAAATATAAAAATAAT
1 T-ATAAAATATAAAAATAAT
*
55312149 TATAAAATTTAAAA
1 TATAAAATATAAAA
55312163 TGATTATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 1 0.04
19 18 0.67
20 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TATAAAATATAAAAATAAT
Found at i:55312952 original size:3 final size:3
Alignment explanation
Indices: 55312944--55312976 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
55312934 GTTAGCTAGC
55312944 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
55312977 AAGAATCTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:55314382 original size:28 final size:29
Alignment explanation
Indices: 55314336--55314411 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 29
55314326 ATTAATTAAT
*
55314336 TTTTTTAAAATTTAAAAATATTTTTA-AAC
1 TTTTTTAAAATTT-AAAATATTTTTATAAA
55314365 TTTTTTAATAATTT-AAATATTTTTATAAA
1 TTTTTTAA-AATTTAAAATATTTTTATAAA
55314394 TTTTTTAAAATTTTAAAA
1 TTTTTTAAAA-TTTAAAA
55314412 ATTAATTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
28 13 0.31
29 21 0.50
30 8 0.19
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (29 bp):
TTTTTTAAAATTTAAAATATTTTTATAAA
Found at i:55315069 original size:28 final size:28
Alignment explanation
Indices: 55315033--55315100 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
55315023 ATCTTTATCT
*
55315033 TCAACATTTTATTTTTATTTATATAAAA
1 TCAATATTTTATTTTTATTTATATAAAA
*
55315061 TCAATATTTTACTTTTATTTATATAAAA
1 TCAATATTTTATTTTTATTTATATAAAA
55315089 TCAAT-TTTTATT
1 TCAATATTTTATT
55315101 ACATATTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 6 0.16
28 31 0.84
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (28 bp):
TCAATATTTTATTTTTATTTATATAAAA
Found at i:55320372 original size:18 final size:18
Alignment explanation
Indices: 55320332--55320365 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
55320322 CATGTTGTCA
55320332 GCCCATGTGGGCCCACAC
1 GCCCATGTGGGCCCACAC
*
55320350 ACCCATGT-GGCCCACA
1 GCCCATGTGGGCCCACA
55320366 TGGCCCAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.44, G:0.24, T:0.12
Consensus pattern (18 bp):
GCCCATGTGGGCCCACAC
Found at i:55324150 original size:17 final size:17
Alignment explanation
Indices: 55324128--55324160 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
55324118 TTAGAGCCTC
55324128 GGCCAAATATCGCCTAG
1 GGCCAAATATCGCCTAG
55324145 GGCCAAATATCGCCTA
1 GGCCAAATATCGCCTA
55324161 AGATGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.18
Consensus pattern (17 bp):
GGCCAAATATCGCCTAG
Found at i:55332259 original size:46 final size:46
Alignment explanation
Indices: 55332209--55332384 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
55332199 TGGTTGAGCA
55332209 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55332255 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55332300 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55332348 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55332385 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55332365 original size:93 final size:93
Alignment explanation
Indices: 55332206--55332377 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55332196 GGATGGTTGA
* *
55332206 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55332271 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55332299 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55332364 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
55332378 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55339292 original size:15 final size:15
Alignment explanation
Indices: 55339272--55339304 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
55339262 GTGATTTTTG
55339272 ATGAATTTGCTTATT
1 ATGAATTTGCTTATT
55339287 ATGAATTTGCTTATT
1 ATGAATTTGCTTATT
55339302 ATG
1 ATG
55339305 GACTAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (15 bp):
ATGAATTTGCTTATT
Found at i:55340938 original size:26 final size:26
Alignment explanation
Indices: 55340909--55340990 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
55340899 TGATACAAAT
55340909 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
55340935 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
55340961 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
55340987 TGAT
1 TGAT
55340991 TGAAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:55349634 original size:26 final size:28
Alignment explanation
Indices: 55349599--55349658 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
55349589 CCAGATGGGC
* *
55349599 CCAGATACAGATAT-TGTGACTAGGCCA
1 CCAGATACAGATATATGTGACGAAGCCA
*
55349626 CCAGA-ACAGATATATGTGGCGAAGCCA
1 CCAGATACAGATATATGTGACGAAGCCA
55349653 CCAGAT
1 CCAGAT
55349659 TGCAGCGAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGACGAAGCCA
Found at i:55349930 original size:27 final size:27
Alignment explanation
Indices: 55349902--55350085 Score: 228
Period size: 27 Copynumber: 6.9 Consensus size: 27
55349892 TAAAATGGTA
* *
55349902 ATTT-TACCCTATAAGGGTATCTCGAT
1 ATTTCTACCCTACAAGGGTATTTCGAT
* * *
55349928 AATTCTACCCTACAGGGGTATTT-TAGT
1 ATTTCTACCCTACAAGGGTATTTCGA-T
* * *
55349955 AATTCTACCCTATAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGAT
*
55349982 ATTTCTACCCTACAGGGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCGAT
*
55350009 ATTTCTACCCTACAAAGGTATTTCGAT
1 ATTTCTACCCTACAAGGGTATTTCGAT
* *
55350036 ATTTCTACCCTACAAAGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGAT
*
55350063 ATTTCTACCCTACAATGGTATTT
1 ATTTCTACCCTACAAGGGTATTT
55350086 TGGTAATTTT
Statistics
Matches: 138, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
26 4 0.03
27 134 0.97
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (27 bp):
ATTTCTACCCTACAAGGGTATTTCGAT
Found at i:55350109 original size:27 final size:27
Alignment explanation
Indices: 55350079--55350472 Score: 251
Period size: 27 Copynumber: 14.6 Consensus size: 27
55350069 ACCCTACAAT
**
55350079 GGTATTTTGGTAATTTTGTAAATCGAG
1 GGTATTTTGGTAATTTTACAAATCGAG
**** * * **
55350106 GGTAAAACGATAATTCTGTAAATC-AG
1 GGTATTTTGGTAATTTTACAAATCGAG
**
55350132 GGGTATTTTGGTAATTTTACATGTCGAG
1 -GGTATTTTGGTAATTTTACAAATCGAG
*** **
55350160 GGTATTTCAATAATTTTACAGGTCGAG
1 GGTATTTTGGTAATTTTACAAATCGAG
** * *
55350187 GGTATTTCAGTAATTTCACAAA-CCAGG
1 GGTATTTTGGTAATTTTACAAATCGA-G
**
55350214 GGTATTTTGGTAATTTTACATGTCGAG
1 GGTATTTTGGTAATTTTACAAATCGAG
*** **
55350241 GGTATTTCAATAATTTTACAGGTCGAG
1 GGTATTTTGGTAATTTTACAAATCGAG
** * *
55350268 GGTATTTCAGTAATTTCACAAA-CCAGG
1 GGTATTTTGGTAATTTTACAAATCGA-G
* *
55350295 GGTATTTTGGTAATTTTACAAACCAAG
1 GGTATTTTGGTAATTTTACAAATCGAG
* *
55350322 GGTATTTTAGTAATTTTACAAAT-TAGG
1 GGTATTTTGGTAATTTTACAAATCGA-G
* * *
55350349 GGTATTTTGATAATTTTATAAA-CAAAG
1 GGTATTTTGGTAATTTTACAAATC-GAG
* * * *
55350376 GGTGTTTTAGTAATTTTACAAACCAAG
1 GGTATTTTGGTAATTTTACAAATCGAG
** * *
55350403 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAATCGAG
* *
55350430 GGTATTTTGATAATTTTACAAA-CTAGG
1 GGTATTTTGGTAATTTTACAAATCGA-G
55350457 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
55350473 GGTAAACTAA
Statistics
Matches: 292, Mismatches: 64, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
26 9 0.03
27 275 0.94
28 8 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATCGAG
Found at i:55350186 original size:81 final size:81
Alignment explanation
Indices: 55350129--55350341 Score: 372
Period size: 81 Copynumber: 2.6 Consensus size: 81
55350119 TTCTGTAAAT
55350129 CAGGGGTATTTTGGTAATTTTACATGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACATGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTT
55350194 CAGTAATTTCACAAAC
66 CAGTAATTTCACAAAC
55350210 CAGGGGTATTTTGGTAATTTTACATGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACATGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTT
55350275 CAGTAATTTCACAAAC
66 CAGTAATTTCACAAAC
*** * * *
55350291 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACA
1 CAGGGGTATTTTGGTAATTTTACATGTCGAGGGTATTTCAATAATTTTACA
55350342 AATTAGGGGT
Statistics
Matches: 126, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 126 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.38
Consensus pattern (81 bp):
CAGGGGTATTTTGGTAATTTTACATGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTT
CAGTAATTTCACAAAC
Found at i:55350343 original size:54 final size:54
Alignment explanation
Indices: 55350129--55350472 Score: 316
Period size: 54 Copynumber: 6.4 Consensus size: 54
55350119 TTCTGTAAAT
*** * * * ***
55350129 CAGGGGTATTTTGGTAATTTTACATGTCGAGGGTATTTCAATAATTTTACAGGT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAAC
** * * * ***
55350183 C-GAGGGTATTTCAGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACATGT
1 CAG-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAAC
*** *** * * *
55350237 C-GAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACAAAC
1 CAG-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAAC
*
55350291 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAAC
* * * * *
55350345 TAGGGGTATTTTGATAATTTTATAAACAAAGGGTGTTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAAC
* **
55350399 CAAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTT-GATAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG-TAATTTTACAAAC
*
55350453 TAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
55350473 GGTAAACTAA
Statistics
Matches: 238, Mismatches: 49, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
53 2 0.01
54 235 0.99
55 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAAC
Found at i:55350352 original size:81 final size:81
Alignment explanation
Indices: 55350129--55350472 Score: 338
Period size: 81 Copynumber: 4.2 Consensus size: 81
55350119 TTCTGTAAAT
*** * * *
55350129 CAGGGGTATTTTGGTAATTTTACATGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTACAAGTAGAGGGTATTT
55350194 CAG-TAATTTCACAAAC
66 -AGATAATTTCACAAAC
*** * * *
55350210 CAGGGGTATTTTGGTAATTTTACATGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTACAAGTAGAGGGTATTT
55350275 CAG-TAATTTCACAAAC
66 -AGATAATTTCACAAAC
* * *
55350291 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATTAG-GGGTATT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTAC-AAGTAGAGGGTATT
* * *
55350355 TTGATAATTTTATAAAC
65 TAGATAATTTCACAAAC
* * * * *** **
55350372 AAAGGGTGTTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTA-AACCA-AGGGTAT
1 CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAA-TTT-TACAAGTAGAGGGTAT
* *
55350435 TTTGATAATTTTACAAAC
64 TTAGATAATTTCACAAAC
*
55350453 TAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
55350473 GGTAAACTAA
Statistics
Matches: 234, Mismatches: 24, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
80 1 0.00
81 225 0.96
82 6 0.03
83 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAATAATTTTACAAGTAGAGGGTATTT
AGATAATTTCACAAAC
Found at i:55350481 original size:27 final size:27
Alignment explanation
Indices: 55350132--55350472 Score: 286
Period size: 27 Copynumber: 12.6 Consensus size: 27
55350122 TGTAAATCAG
*** *
55350132 GGGTATTTTGGTAATTTTACATGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
*** *** *
55350159 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
** * *
55350186 GGGTATTTCAGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
*** *
55350213 GGGTATTTTGGTAATTTTACATGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
*** *** *
55350240 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACAAACCAA
** * *
55350267 GGGTATTTCAGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAA
55350294 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* ** *
55350321 GGGTATTTTAGTAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
55350348 GGGTATTTTGATAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
55350375 GGGTGTTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
**
55350402 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* * *
55350429 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
55350456 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
55350473 GGTAAACTAA
Statistics
Matches: 255, Mismatches: 59, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 255 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:55352535 original size:21 final size:23
Alignment explanation
Indices: 55352510--55352551 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
55352500 TAAATAACAT
*
55352510 CACATT-GAATA-ATGAATTTAA
1 CACATTCGAATAGATCAATTTAA
55352531 CACATTCGAATAGATCAATTT
1 CACATTCGAATAGATCAATTT
55352552 TAAGCTCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 5 0.28
23 7 0.39
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.33
Consensus pattern (23 bp):
CACATTCGAATAGATCAATTTAA
Found at i:55355792 original size:8 final size:8
Alignment explanation
Indices: 55355781--55355862 Score: 94
Period size: 8 Copynumber: 9.9 Consensus size: 8
55355771 ATATTAAATA
55355781 TTAAATTT
1 TTAAATTT
*
55355789 TTAAGTTT
1 TTAAATTT
55355797 TT-AATTT
1 TTAAATTT
55355804 TTAAATTT
1 TTAAATTT
55355812 TTAAATTT
1 TTAAATTT
*
55355820 TTAATTTT
1 TTAAATTT
*
55355828 TTAATTTTT
1 TTAA-ATTT
55355837 TTGAAGATTT
1 TT-AA-ATTT
55355847 TTATAATTT
1 TTA-AATTT
55355856 TTAAATT
1 TTAAATT
55355863 AACATATAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
7 6 0.09
8 37 0.57
9 14 0.22
10 8 0.12
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.65
Consensus pattern (8 bp):
TTAAATTT
Found at i:55355792 original size:15 final size:15
Alignment explanation
Indices: 55355774--55355836 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
55355764 AACTAAAATA
*
55355774 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
* *
55355789 TTAAGTTTTTAATTT
1 TTAAATTTTAAATTT
55355804 TTAAATTTTTAAATTT
1 TTAAA-TTTTAAATTT
* *
55355820 TTAATTTTTTAATTT
1 TTAAATTTTAAATTT
55355835 TT
1 TT
55355837 TTGAAGATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
15 27 0.68
16 13 0.32
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:55355800 original size:23 final size:23
Alignment explanation
Indices: 55355774--55355823 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
55355764 AACTAAAATA
*
55355774 TTAAATATTAAATTTTTAAGTTT
1 TTAAATATTAAATTTTTAAATTT
* *
55355797 TTAATTTTTAAATTTTTAAATTT
1 TTAAATATTAAATTTTTAAATTT
55355820 TTAA
1 TTAA
55355824 TTTTTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTAAATATTAAATTTTTAAATTT
Found at i:55355824 original size:23 final size:23
Alignment explanation
Indices: 55355781--55355836 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
55355771 ATATTAAATA
*
55355781 TTAAATTTTTAAGTTTTTAATTT
1 TTAAATTTTTAAATTTTTAATTT
55355804 TTAAATTTTTAAATTTTTAATTT
1 TTAAATTTTTAAATTTTTAATTT
*
55355827 TTTAATTTTT
1 TTAAATTTTT
55355837 TTGAAGATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (23 bp):
TTAAATTTTTAAATTTTTAATTT
Found at i:55356041 original size:28 final size:28
Alignment explanation
Indices: 55356004--55356057 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
55355994 AAATTTATTT
*
55356004 TTATATTTTAGAGTTTATGATTTATGGG
1 TTATAATTTAGAGTTTATGATTTATGGG
* *
55356032 TTATAATTTAGGGTTTGTGATTTATG
1 TTATAATTTAGAGTTTATGATTTATG
55356058 ATCTACAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.54
Consensus pattern (28 bp):
TTATAATTTAGAGTTTATGATTTATGGG
Found at i:55356187 original size:14 final size:14
Alignment explanation
Indices: 55356168--55356202 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
55356158 GATTTAGGGT
55356168 TTAAGGTGTTGGGA
1 TTAAGGTGTTGGGA
55356182 TTAAGGTGTTGGGA
1 TTAAGGTGTTGGGA
55356196 TTAAGGT
1 TTAAGGT
55356203 TTATCGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (14 bp):
TTAAGGTGTTGGGA
Found at i:55356290 original size:66 final size:66
Alignment explanation
Indices: 55356208--55356331 Score: 212
Period size: 66 Copynumber: 1.9 Consensus size: 66
55356198 AAGGTTTATC
* * *
55356208 GTTTATAGTTTTAAGGGTTTATGATTTGAGATTTAAGGTCTAGTGTTTAAAGAGTTATCAATTAG
1 GTTTATAGTTTTAAGGGTTTATGATTAGAGATTTAAGGTCTAGGGGTTAAAGAGTTATCAATTAG
55356273 T
66 T
*
55356274 GTTTATAGTTTTAAGGGTTTATGATTAGAGATTTAAGGTCTAGGGGTTAAAGGGTTAT
1 GTTTATAGTTTTAAGGGTTTATGATTAGAGATTTAAGGTCTAGGGGTTAAAGAGTTAT
55356332 TGATTTAAGA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.44
Consensus pattern (66 bp):
GTTTATAGTTTTAAGGGTTTATGATTAGAGATTTAAGGTCTAGGGGTTAAAGAGTTATCAATTAG
T
Found at i:55357010 original size:24 final size:25
Alignment explanation
Indices: 55356968--55357015 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
55356958 TAAAAGGTTC
* *
55356968 TGCTTAATCTTTTAGCGGCGCTTTT
1 TGCTCAATCTTTTAGCGGCACTTTT
55356993 TGCTCAATC-TTTAGCGGCACTTT
1 TGCTCAATCTTTTAGCGGCACTTT
55357016 CTTAAAGACG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.44
Consensus pattern (25 bp):
TGCTCAATCTTTTAGCGGCACTTTT
Found at i:55357049 original size:41 final size:40
Alignment explanation
Indices: 55356993--55357081 Score: 133
Period size: 41 Copynumber: 2.2 Consensus size: 40
55356983 CGGCGCTTTT
* *
55356993 TGCTCAATCTTTAGCGGCACTTTCTTAAAGACGTCGCTAA
1 TGCTCAATCTTTAGCGGCACTTTCTTAAAAACGCCGCTAA
*
55357033 TGCTCAGATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAA
1 TGCTCA-ATCTTTAGCGGCACTTTCTTAAAAACGCCGCTAA
*
55357074 TACTCAAT
1 TGCTCAAT
55357082 ATATTCAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 8 0.18
41 36 0.82
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (40 bp):
TGCTCAATCTTTAGCGGCACTTTCTTAAAAACGCCGCTAA
Found at i:55358099 original size:56 final size:56
Alignment explanation
Indices: 55358013--55358125 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
55358003 TAAAATGTTG
55358013 AATAAGATGCTTTTAATAAAAACTAAGTGTAGACTGCAGATGTCCCCAGAACAATC
1 AATAAGATGCTTTTAATAAAAACTAAGTGTAGACTGCAGATGTCCCCAGAACAATC
55358069 AATAAGATGCTTTTAATAAAAACTAAGTGTAGACTGCAGATGTCCCCAGAACAATC
1 AATAAGATGCTTTTAATAAAAACTAAGTGTAGACTGCAGATGTCCCCAGAACAATC
55358125 A
1 A
55358126 CCCACATCAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.25
Consensus pattern (56 bp):
AATAAGATGCTTTTAATAAAAACTAAGTGTAGACTGCAGATGTCCCCAGAACAATC
Found at i:55360032 original size:14 final size:14
Alignment explanation
Indices: 55360013--55360055 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
55360003 TCAAAGGGAT
55360013 GGAGATTTAGAGAA
1 GGAGATTTAGAGAA
*
55360027 GGAGATTTAGAGAT
1 GGAGATTTAGAGAA
55360041 GGAGATTTAGAGAA
1 GGAGATTTAGAGAA
55360055 G
1 G
55360056 CAGGAAATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (14 bp):
GGAGATTTAGAGAA
Found at i:55360824 original size:8 final size:8
Alignment explanation
Indices: 55360811--55360839 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
55360801 TTTTAAATCT
55360811 AATATTTA
1 AATATTTA
55360819 AATATTTA
1 AATATTTA
55360827 AATATTTA
1 AATATTTA
55360835 AATAT
1 AATAT
55360840 ATCAAATGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AATATTTA
Found at i:55361167 original size:21 final size:21
Alignment explanation
Indices: 55361126--55361196 Score: 115
Period size: 21 Copynumber: 3.3 Consensus size: 21
55361116 GATTTAGGCC
*
55361126 TAAACCCCTAACCTTTTGAACCA
1 TAAACCCC-AACC-CTTGAACCA
55361149 TAAACCCCAACCCTTGAACCA
1 TAAACCCCAACCCTTGAACCA
55361170 TAAACCCCAACCCTTGAACCA
1 TAAACCCCAACCCTTGAACCA
55361191 TAAACC
1 TAAACC
55361197 ATAATCTATA
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 35 0.74
22 4 0.09
23 8 0.17
ACGTcount: A:0.38, C:0.39, G:0.04, T:0.18
Consensus pattern (21 bp):
TAAACCCCAACCCTTGAACCA
Found at i:55361663 original size:80 final size:78
Alignment explanation
Indices: 55361470--55361676 Score: 234
Period size: 80 Copynumber: 2.6 Consensus size: 78
55361460 TTTTGCAGTG
* * * * * * *
55361470 TTTTCTAAAAATCGCAGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGCACCGCTAATGGT
1 TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCAGCGTTTTTTAAAAAGCACCACTAATGAT
55361535 CGACCCATAGCGA
66 CGACCCATAGCGA
* ** * * *
55361548 TGCTTTTTAAAAAGCGCCGCTAATTCTTTAGCTATAGCAGCGTTTTTTAAAAAGCATCACTAGTG
1 T--TTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCAGCGTTTTTTAAAAAGCACCACTAATG
*
55361613 ATCGACCTATAGCGGCA
64 ATCGACCCATAGC-G-A
* *
55361630 TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCAACTTTTTTTA
1 TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCAGCGTTTTTTA
55361677 TCCAAACGCC
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
78 1 0.01
80 101 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (78 bp):
TTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCAGCGTTTTTTAAAAAGCACCACTAATGAT
CGACCCATAGCGA
Found at i:55361676 original size:40 final size:40
Alignment explanation
Indices: 55361469--55361665 Score: 187
Period size: 40 Copynumber: 4.9 Consensus size: 40
55361459 TTTTTGCAGT
* * * *
55361469 GTTTTCTAAAAATCGCAGCTAATGCTCGATCTATAGCGGC
1 GTTTTTTAAAAAGCGCCGCTAATGCTCGACCTATAGCGGC
* * * * **
55361509 GTTTTTCAAAAAGCACCGCTAATGGTCGACCCATAGCGAT
1 GTTTTTTAAAAAGCGCCGCTAATGCTCGACCTATAGCGGC
* * ** * *
55361549 GCTTTTTAAAAAGCGCCGCTAATTCTTTAGCTATAGCAGC
1 GTTTTTTAAAAAGCGCCGCTAATGCTCGACCTATAGCGGC
** * * *
55361589 GTTTTTTAAAAAGCATCACTAGTGATCGACCTATAGCGGC
1 GTTTTTTAAAAAGCGCCGCTAATGCTCGACCTATAGCGGC
* *
55361629 ATTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGC
1 GTTTTTTAAAAAGCGCCGCTAATGCTCGACCTATAGC
55361666 AACTTTTTTT
Statistics
Matches: 117, Mismatches: 40, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
40 117 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (40 bp):
GTTTTTTAAAAAGCGCCGCTAATGCTCGACCTATAGCGGC
Found at i:55362361 original size:66 final size:67
Alignment explanation
Indices: 55362238--55362373 Score: 238
Period size: 66 Copynumber: 2.0 Consensus size: 67
55362228 GTATTAGTTA
*
55362238 AATCTTAAGTAATGAATGACTCAATACTTACTATGTTTATCTTACTTTTTGTGCAAAAACCAAAA
1 AATCTTAAGTAATGAATGACTCAATACTTACTATGTTCATCTTACTTTTTGTGCAAAAACCAAAA
55362303 AG
66 AG
* *
55362305 AATCTTAAGTAATGAATGATTCAATA-TTACTTTGTTCATCTTACTTTTTGTGCAAAAACCAAAA
1 AATCTTAAGTAATGAATGACTCAATACTTACTATGTTCATCTTACTTTTTGTGCAAAAACCAAAA
55362369 AG
66 AG
55362371 AAT
1 AAT
55362374 AATTATACAA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
66 41 0.62
67 25 0.38
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (67 bp):
AATCTTAAGTAATGAATGACTCAATACTTACTATGTTCATCTTACTTTTTGTGCAAAAACCAAAA
AG
Found at i:55367017 original size:33 final size:33
Alignment explanation
Indices: 55366975--55367042 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
55366965 TAGTTAAGTA
*
55366975 TGATTGAGAGGCGTGATGATTGGCTTATTTCAG
1 TGATTGAGAGGCATGATGATTGGCTTATTTCAG
55367008 TGATTGAGAGGCATGATGATTGGCTTATTTCAG
1 TGATTGAGAGGCATGATGATTGGCTTATTTCAG
55367041 TG
1 TG
55367043 GCAGCTGCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.22, C:0.09, G:0.32, T:0.37
Consensus pattern (33 bp):
TGATTGAGAGGCATGATGATTGGCTTATTTCAG
Found at i:55368045 original size:6 final size:6
Alignment explanation
Indices: 55368034--55368064 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
55368024 AAGGTTGCGG
55368034 TGACAC TGACAC TGACAC TGACAC TGACAC T
1 TGACAC TGACAC TGACAC TGACAC TGACAC T
55368065 CTAACCTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.19
Consensus pattern (6 bp):
TGACAC
Found at i:55377829 original size:18 final size:18
Alignment explanation
Indices: 55377789--55377831 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
55377779 GAATATTGTA
*
55377789 ATAATAATAATCATCATT
1 ATAATAATAATCATCAAT
*
55377807 ATAATAATAA-CATTAAT
1 ATAATAATAATCATCAAT
55377824 ATTAATAA
1 A-TAATAA
55377832 CCATATCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAATAATAATCATCAAT
Found at i:55377952 original size:18 final size:17
Alignment explanation
Indices: 55377925--55377966 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
55377915 ACATGAAAAT
55377925 ATAAAAAATAATAAGAA
1 ATAAAAAATAATAAGAA
*
55377942 ATAATAAAATAATGAGAA
1 ATAA-AAAATAATAAGAA
*
55377960 AGAAAAA
1 ATAAAAA
55377967 TAACGATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.17
Consensus pattern (17 bp):
ATAAAAAATAATAAGAA
Found at i:55379988 original size:45 final size:44
Alignment explanation
Indices: 55379882--55380004 Score: 86
Period size: 45 Copynumber: 2.8 Consensus size: 44
55379872 GCTTCAATCC
* * * * ** * *
55379882 ACTCCATTGCCACTTCAAGGAGATAAGATTCGTAGCTTCAATCT
1 ACTCCACTGCAACTTCAGGGAGATAAGATTTGTATTTTTAACCT
* * *
55379926 GCTCCGCTACAACTTCAGGGAGATAAGATTTGTGATTTTTAACCT
1 ACTCCACTGCAACTTCAGGGAGATAAGATTTGT-ATTTTTAACCT
** * *
55379971 GTTTCACTACAACTTCAGGGAGATAA-AGTTTGTA
1 ACTCCACTGCAACTTCAGGGAGATAAGA-TTTGTA
55380005 GCTAAATTTT
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
44 28 0.44
45 35 0.56
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
ACTCCACTGCAACTTCAGGGAGATAAGATTTGTATTTTTAACCT
Found at i:55380087 original size:45 final size:44
Alignment explanation
Indices: 55380012--55380653 Score: 304
Period size: 45 Copynumber: 14.0 Consensus size: 44
55380002 GTAGCTAAAT
* *
55380012 TTTGTAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGA
1 TTTGTATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * * * *
55380056 TTTGCTATCTTCAATCTACTCCATTGCAACTTTAGGGAGATAAAA
1 TTTG-TATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * ** * *
55380101 TTTGTTATTTTTAACCTGTTCCACTACAACTTCA-AGGAGATAAGG
1 TTTG-TATCTTTAATCTACTCCACTGCAACTTCAGA-GAGATAAGA
* * * * ** *
55380146 TTTGTAGCTTTAATATGCTCTACTGCTGCTTCAGAGAGACAAGA
1 TTTGTATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * *
55380190 TTTGCTAT-TTTCAATCTACTCCACTGCAAATTCAGGGAGATAATA
1 TTTG-TATCTTT-AATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * * *
55380235 TTTGTTATTTTTAACCTGCTCCACTGCAACTTCAG-GAAGATAAGG
1 TTTG-TATCTTTAATCTACTCCACTGCAACTTCAGAG-AGATAAGA
** *
55380280 TTTGTGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGA
1 TTTGTATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * * *
55380324 TTTGTAGCCTGTAGCTTTAGTCTATTCCACTGCAACTTCAGGGAGATAAAA
1 TTTGTA-----T--CTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
** * * *
55380375 CTTGCTATGGTAGATTTGATCTGAC-CTACTGCAACTTCAGAG-GTATAGGA
1 --T--T-T-GTATCTTTAATCT-ACTCCACTGCAACTTCAGAGAG-ATAAGA
* * *
55380425 -CT-TATCATTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TTTGTATC-TTT-AATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * * * **
55380469 TTCGCCATTATAACTTCAATC--CGTCCCATTGCAGCTTCAGAG-GTATGGGA
1 TTTG----TAT--CTTTAATCTAC-T-CCACTGCAACTTCAGAGAG-ATAAGA
* * *
55380519 TTTGTA-ATTCAATCTACTCTACTGCAACTTCACG-GAGATAAGA
1 TTTGTATCTTTAATCTACTCCACTGCAACTTCA-GAGAGATAAGA
* * * * * *
55380562 TTTGTTATTTTTTTAACCTGCTCCACTGCAATTTCAGGGAGATAAGG
1 TTTG-TA--TCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * *
55380609 TTTGTGA-CTTCAATCTGCTCCACTGCAACTTTAG-GAGATAAGA
1 TTTGT-ATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
55380652 TT
1 TT
55380654 CGCCATAATG
Statistics
Matches: 448, Mismatches: 102, Indels: 97
0.69 0.16 0.15
Matches are distributed among these distances:
42 2 0.00
43 41 0.09
44 128 0.29
45 136 0.30
46 7 0.02
47 33 0.07
48 1 0.00
49 3 0.01
50 53 0.12
51 37 0.08
52 1 0.00
53 1 0.00
55 1 0.00
56 1 0.00
57 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (44 bp):
TTTGTATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
Done.