Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 173 of 186
Found at i:57568387 original size:46 final size:48
Alignment explanation
Indices: 57568329--57568504 Score: 172
Period size: 47 Copynumber: 3.8 Consensus size: 48
57568319 TCGCTTGTGT
57568329 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCACATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGA
*
57568375 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG---ACATTGAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATT---ATGA
* ** * * * *
57568423 GTGCTAGTGTCGGA-CATGTCTAGGACAT-GCATCGACCTCGA-GACGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC-ATTATG-A
57568470 -AGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
57568505 GTATAGATAT
Statistics
Matches: 105, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
45 5 0.05
46 31 0.30
47 41 0.39
48 26 0.25
49 1 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGA
Found at i:57568492 original size:94 final size:94
Alignment explanation
Indices: 57568331--57568504 Score: 253
Period size: 94 Copynumber: 1.9 Consensus size: 94
57568321 GCTTGTGTGA
* * *
57568331 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGACCACATGACGAGAGCCAGTGTAAGACCATGTC
57568396 TGGGACATGGCATCGACATTGAGATGAGT
66 TGGGACATGGCATCGACATTGAGATGAGT
** * *
57568425 GCTAGTGTCGGACATGTCTAGGACATGCATCGACCTCGA-GACGTA-AGCTAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGACCAC-ATGACG-AGAGCCAGTGTAAGACCATG
57568488 TCTGGGACATGGCATCG
64 TCTGGGACATGGCATCG
57568505 GTATAGATAT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
94 69 0.97
95 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGACCACATGACGAGAGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGACATTGAGATGAGT
Found at i:57573962 original size:50 final size:50
Alignment explanation
Indices: 57572851--57573943 Score: 1966
Period size: 50 Copynumber: 21.9 Consensus size: 50
57572841 TTGATGTATA
*
57572851 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
57572901 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
* * *
57572949 AGATATGTATATGTGGTAAAGCTGAATGGCTAATGCGAAATATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATATG
*
57573001 AGATATGTATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATATG
*
57573053 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
57573103 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
57573153 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
57573203 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
57573253 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
57573303 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
57573353 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
57573403 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
57573453 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
57573503 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
57573553 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
57573603 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
57573653 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
57573703 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
57573753 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
57573803 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
* *
57573851 AGATATGCATATGTGGTAAAGCCGAATGG-TCAAT-TCGAAATATATATATG
1 AGATTTGTATATGTGGTAAAGCCGAATGGCT-AATGT-GAAATATATATATG
* *
57573901 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
57573944 GTAGGCGATG
Statistics
Matches: 1016, Mismatches: 15, Indels: 24
0.96 0.01 0.02
Matches are distributed among these distances:
47 2 0.00
48 81 0.08
49 6 0.01
50 829 0.82
51 6 0.01
52 91 0.09
53 1 0.00
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (50 bp):
AGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
Found at i:57574203 original size:37 final size:37
Alignment explanation
Indices: 57574097--57574203 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
57574087 ATATATATTT
*
57574097 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
57574134 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* * *
57574171 CGGGTAAGACCCAATAACTTCGTGTGGAGATTT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTT
57574204 CATCTGAGCT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
Found at i:57579579 original size:53 final size:54
Alignment explanation
Indices: 57579457--57579700 Score: 218
Period size: 55 Copynumber: 4.6 Consensus size: 54
57579447 TTATCATTGC
* * * * * *
57579457 CATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAACTTACCATTGC
1 CATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAACTCACCAATGT
* * *
57579506 CATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AACTCACCAATGT
1 CATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAACTCACCAATGT
* * *
57579559 CATGCCTTGGTATGGTCTTACATGGGA-CCTTTGCCTTATAGAAAC-CTATCAATGT
1 CATGCCTTGGCATGGTCTTACATGGTATCC-TTGCCTTAT-GAAACTC-ACCAATGT
* * * * *
57579614 CATGTCTTGACATGGTCTTACATCGTATCCTTGCCTTA-GAAACCTTACCAATTT
1 CATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAA-CTCACCAATGT
*
57579668 CCATGCCTTGGCATGGTTTTACATGGTATCCTT
1 -CATGCCTTGGCATGGTCTTACATGGTATCCTT
57579701 AAACCCTAAT
Statistics
Matches: 157, Mismatches: 25, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
49 26 0.17
50 1 0.01
52 2 0.01
53 47 0.30
54 11 0.07
55 68 0.43
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (54 bp):
CATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAACTCACCAATGT
Found at i:57587215 original size:55 final size:54
Alignment explanation
Indices: 57587093--57587272 Score: 163
Period size: 55 Copynumber: 3.3 Consensus size: 54
57587083 ACCATGTCTC
* * * * *
57587093 GACATGGTCTTACATGGTATCCTTGTCTTAT-G-AACTCACCAATGCCATGCCTT
1 GACATGGTCTTACATGG-AACCTTGCCTTATAGAAAATTACCAATGTCATGCCTT
* * * * *
57587146 GGCATAGTCTTACATGGGACCTTTGCCTTATAGAAAATTATCAATGTCATGTCTT
1 GACATGGTCTTACATGGAACC-TTGCCTTATAGAAAATTACCAATGTCATGCCTT
*
57587201 GACATGGTCTTACATGATAACCTTGCC-T-TA-AAAATCTCACCAATTGTCATGCCTT
1 GACATGGTCTTACATG-GAACCTTGCCTTATAGAAAAT-T-ACCAA-TGTCATGCCTT
*
57587256 GGCATGGTCTTACATGG
1 GACATGGTCTTACATGG
57587273 TATCCTTAAA
Statistics
Matches: 102, Mismatches: 18, Indels: 13
0.77 0.14 0.10
Matches are distributed among these distances:
52 7 0.07
53 26 0.25
54 6 0.06
55 60 0.59
56 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (54 bp):
GACATGGTCTTACATGGAACCTTGCCTTATAGAAAATTACCAATGTCATGCCTT
Found at i:57590802 original size:45 final size:44
Alignment explanation
Indices: 57590592--57590811 Score: 175
Period size: 46 Copynumber: 4.8 Consensus size: 44
57590582 TCACTTGTGT
* *
57590592 TAGCTAGTGTAAGACATGTCTGGGACATGCATCAG-TC-ACATCATG
1 TAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGA-C--G
* * * *
57590637 AAAGCCAGTG-AAGACCATGCCTGGGACATGGCAT-GGCATTGAGACAAG
1 -TAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TCGAGAC--G
* *
57590685 T-GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTTGAGACG
1 TAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGACG
*
57590729 TAAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATG
1 T-AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGACG
57590775 T-G-TAAGTGTAAGATCATGTCTGGGACATGGCATCGGC
1 TAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
57590812 ACAGATATAC
Statistics
Matches: 146, Mismatches: 14, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
43 1 0.01
44 12 0.08
45 24 0.16
46 94 0.64
47 9 0.06
48 4 0.03
49 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (44 bp):
TAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGACG
Found at i:57591054 original size:26 final size:26
Alignment explanation
Indices: 57591024--57591074 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
57591014 ATATGAGGTA
57591024 TAATGAATATTGATGAGTAAGTTTTG
1 TAATGAATATTGATGAGTAAGTTTTG
57591050 TAATGAATATTGATGAGTAAGTTTT
1 TAATGAATATTGATGAGTAAGTTTT
57591075 ACTTATGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (26 bp):
TAATGAATATTGATGAGTAAGTTTTG
Found at i:57593590 original size:128 final size:128
Alignment explanation
Indices: 57593357--57593591 Score: 407
Period size: 128 Copynumber: 1.8 Consensus size: 128
57593347 TTATTTGGTT
* *
57593357 CAAGTAATTTTTTGCACACTACATCAACTCGTTAGAATTCATTAGGCTTGAATTGGCCTAATTGG
1 CAAGTAATTTATTGCACACTACATCAACTCGTTAGAATTCATTAGACTTGAATTGGCCTAATTGG
*
57593422 TCAAGAAACATCATAAAAAGACTAATTTTATTCAATTATAGACTTATTTTATCCATTAGTGTG
66 TCAAGAAACATCATAAAAAGACTAATTTTATTCAACTATAGACTTATTTTATCCATTAGTGTG
* * *
57593485 CAAGTAATTTATTGCACGCTACCTCAACTCGTTAGAATTCATTAGATTTGAATTGGCCTAATTGG
1 CAAGTAATTTATTGCACACTACATCAACTCGTTAGAATTCATTAGACTTGAATTGGCCTAATTGG
*
57593550 TCAAGAAACATCATAAAAAGACTCATTTTATTCAACTATAGA
66 TCAAGAAACATCATAAAAAGACTAATTTTATTCAACTATAGA
57593592 TAACTAACAT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
128 100 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (128 bp):
CAAGTAATTTATTGCACACTACATCAACTCGTTAGAATTCATTAGACTTGAATTGGCCTAATTGG
TCAAGAAACATCATAAAAAGACTAATTTTATTCAACTATAGACTTATTTTATCCATTAGTGTG
Found at i:57598511 original size:46 final size:45
Alignment explanation
Indices: 57598359--57598627 Score: 182
Period size: 47 Copynumber: 5.8 Consensus size: 45
57598349 TTACTTGCGT
* * * *
57598359 GAGCTAGTGTAAGACAT-TCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-GACGA
* * * *
57598404 GAGCCAGTGTAAGCCCATGTCCGGGACATGGCATCGGCATTAAGACGA
1 GAGCCAGTGTAAG-ACATGTCTGGGACAT-GCATCGGC-CTCAGACGA
* * * *
57598452 GTGCTAGTATAAGACATGTCTGGGACATGCATCGACCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AGACG-A
* * *
57598499 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CTCAGACGA
* * * * ** * * * *
57598544 TAGTCACTGTAAGAGCATGTTTGGGACATGGCATCAACTTAAGATGT
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAGACGA
* *
57598591 GAGCTAGTGTAAGACCGTGTCTGGGACATGGCATCGG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
57598628 TACCTTACCC
Statistics
Matches: 174, Mismatches: 40, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
45 14 0.08
46 61 0.35
47 71 0.41
48 27 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAGACGA
Found at i:57598526 original size:93 final size:88
Alignment explanation
Indices: 57598361--57598627 Score: 234
Period size: 93 Copynumber: 2.9 Consensus size: 88
57598351 ACTTGCGTGA
* * * * *
57598361 GCTAGTGTAAGACAT-TCTGGGACATGCATCGGCCACATTATG-AGAGCCAGTGTAAGCCCATGT
1 GCTAGTATAAGACATGTCTGGGACATGCATCGACCTCA-GATGTA-AGCCAGTGTAAG-ACATGT
*
57598424 CCGGGACATGGCATCGGCATTAAGACGAGT
63 CTGGGACATGGCATCGGC--TAAGA-GA-T
*
57598454 GCTAGTATAAGACATGTCTGGGACATGCATCGACCTCGAGACGTAAGCCAGTGTAAGACATGTCT
1 GCTAGTATAAGACATGTCTGGGACATGCATCGACCTC-AGATGTAAGCCAGTGTAAGACATGTCT
*
57598519 GGGACAT-GCATCGGCTATGAGAT
65 GGGACATGGCATCGGCTAAGAGAT
* * * * * * *
57598542 GATAGTCACTGTAAGAGCATGTTTGGGACATGGCATCAACTTAAGATGTGAGCTAGTGTAAGACC
1 GCTAGT-A---TAAGA-CATGTCTGGGACAT-GCATCGACCTCAGATGTAAGCCAGTGTAAGA-C
*
57598607 GTGTCTGGGACATGGCATCGG
59 ATGTCTGGGACATGGCATCGG
57598628 TACCTTACCC
Statistics
Matches: 146, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
88 6 0.04
89 3 0.02
90 4 0.03
92 13 0.09
93 57 0.39
94 54 0.37
95 9 0.06
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (88 bp):
GCTAGTATAAGACATGTCTGGGACATGCATCGACCTCAGATGTAAGCCAGTGTAAGACATGTCTG
GGACATGGCATCGGCTAAGAGAT
Found at i:57598615 original size:140 final size:140
Alignment explanation
Indices: 57598364--57598626 Score: 325
Period size: 140 Copynumber: 1.9 Consensus size: 140
57598354 TGCGTGAGCT
* * *
57598364 AGTGTAAGACATTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGCCCATGTCCGGG
1 AGTGTAAGACATTCTGGGACATGCATCGGCCACATGATGAGAGCCACTGTAAGACCATGTCCGGG
** *
57598429 ACATGGCATCGGCATTAAGACGAGTGCTAGTATAAGACATGTCTGGGACAT-GCATCGACCTCGA
66 ACATGGCATCAACATTAAGACGAGAGCTAGTATAAGACATGTCTGGGACATGGCATCGACCTCGA
57598493 GACGTAAGCC
131 GACGTAAGCC
* * * * * **
57598503 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGA-GATGATAGTCACTGTAAGAGCATGTTTG
1 AGTGTAAGACAT-TCTGGGACATGCATCGGCCA-CATGATGAGAGCCACTGTAAGACCATGTCCG
* * * *
57598567 GGACATGGCATCAAC-TTAAGATGTGAGCTAGTGTAAGACCGTGTCTGGGACATGGCATCG
64 GGACATGGCATCAACATTAAGACGAGAGCTAGTATAAGA-CATGTCTGGGACATGGCATCG
57598627 GTACCTTACC
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
139 31 0.30
140 65 0.63
141 7 0.07
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATTCTGGGACATGCATCGGCCACATGATGAGAGCCACTGTAAGACCATGTCCGGG
ACATGGCATCAACATTAAGACGAGAGCTAGTATAAGACATGTCTGGGACATGGCATCGACCTCGA
GACGTAAGCC
Found at i:57600773 original size:17 final size:18
Alignment explanation
Indices: 57600751--57600787 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
57600741 TATAATGTCT
*
57600751 AGAAAATT-TGTTAATTG
1 AGAAAATTATCTTAATTG
57600768 AGAAAATTATCTTAATTG
1 AGAAAATTATCTTAATTG
57600786 AG
1 AG
57600788 GGGTTAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (18 bp):
AGAAAATTATCTTAATTG
Found at i:57601882 original size:50 final size:51
Alignment explanation
Indices: 57601807--57601931 Score: 191
Period size: 50 Copynumber: 2.5 Consensus size: 51
57601797 GTTGGACCAT
57601807 GTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA-AA
1 GTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGACAA
57601857 GTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATGACAA
1 GTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATGACAA
* * * *
57601908 CTGAAAAGTGGTAGCTTCAGCTAC
1 GTGATAAGTGATAGCTTCGGCTAC
57601932 CTGATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
50 45 0.65
51 24 0.35
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (51 bp):
GTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGGCAAATGACAA
Found at i:57602086 original size:31 final size:31
Alignment explanation
Indices: 57601909--57602079 Score: 261
Period size: 31 Copynumber: 5.5 Consensus size: 31
57601899 AAATGACAAC
57601909 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
57601940 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
57601971 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* * *
57602002 TGAAAAGTGGTAGCTCCGGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
57602033 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
57602064 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
57602080 TGGCTACAAG
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 127 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:57602179 original size:47 final size:48
Alignment explanation
Indices: 57602110--57602235 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 48
57602100 CAAGTGATTT
*
57602110 CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * * *
57602157 CTGTATAAGACCATATCTGGGATATGACATTAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
57602205 C-GTGTAAGACCATAGCTGGGCTATGGCATCA
1 CTGTATAAGACCATATCTGGGATATGGCATCA
57602236 TTATGTAAAG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 65 0.96
48 3 0.04
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
Found at i:57609476 original size:93 final size:93
Alignment explanation
Indices: 57609361--57609993 Score: 831
Period size: 93 Copynumber: 6.8 Consensus size: 93
57609351 ACGAGTGCTT
* * * *
57609361 GTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGATGTAAGCCAGTGTAAGACATGTATAA
1 GTGTAAGACCATGTCTGGGACATGGCATCGA-CTTGAGACGTAAGCCAGTGTAAGACATGTCTAG
57609424 GACATGCATCGGCTACGAAATGATAGTCA
65 GACATGCATCGGCTACGAAATGATAGTCA
* * *
57609453 GTGTAAGACTATGTCTAGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAGACATGTCTGGG
1 GTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAGACATGTCTAGG
* * * *
57609518 CCATGCATCGGCTATGAGATGATACTCA
66 ACATGCATCGGCTACGAAATGATAGTCA
* * *
57609546 GTGTAAAACCATGTCTGGGACATGGCATTGACTTGAGACGTAAGCCAGTATAAGACATGTCTAGG
1 GTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAGACATGTCTAGG
* * *
57609611 ATATGCATCAGCTACAAAATGATAGTCA
66 ACATGCATCGGCTACGAAATGATAGTCA
* *
57609639 GTGTAAGGCCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAGACATGTCTGGG
1 GTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAGACATGTCTAGG
* * * *
57609704 CCATGCATCGGCTATGAGATGATACTCA
66 ACATGCATCGGCTACGAAATGATAGTCA
* * *
57609732 GTGTAAAACCATGTCTGGGACATGGCATTGACTTGAGACGTAAGCCAGTATAAGACATGTCTAGG
1 GTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAGACATGTCTAGG
* * *
57609797 ATATGCATCAGCTACAAAATGATAGTCA
66 ACATGCATCGGCTACGAAATGATAGTCA
* *
57609825 GTGTAAGGCCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGT-AGCACATGTCTGG
1 GTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAG-ACATGTCTAG
* *
57609889 GACATGCATCGGCTACGAGATTATAGTCA
65 GACATGCATCGGCTACGAAATGATAGTCA
* * * * * * * * *
57609918 GTGTAAGACCATGTTTGGGACATAGTATCAACTTAAGATGTGAGCCAGTGTAAGACCGTGTCTGG
1 GTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAGA-CATGTCTAG
57609983 GACATGGCATC
65 GACAT-GCATC
57609994 AGCACCTTAC
Statistics
Matches: 468, Mismatches: 67, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
92 10 0.02
93 431 0.92
94 22 0.05
95 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (93 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTGTAAGACATGTCTAGG
ACATGCATCGGCTACGAAATGATAGTCA
Found at i:57609591 original size:186 final size:186
Alignment explanation
Indices: 57609361--57609996 Score: 945
Period size: 186 Copynumber: 3.4 Consensus size: 186
57609351 ACGAGTGCTT
* * * * * *
57609361 GTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGATGTAAGCCAGTGTAAGACATGTATAA
1 GTGTAAAACCATGTCTGGGACATGGCATCGA-CTTGAGACGTAAGCCAGTATAAGACATGTCTAG
* * * * * *
57609424 GACATGCATCGGCTACGAAATGATAGTCAGTGTAAGACTATGTCTAGGACATGGCATCGACTTGA
65 GATATGCATCAGCTACAAAATGATAGTCAGTGTAAGGCCATGTCTGGGACATGGCATCGACTTGA
57609489 GACGTAAGCCAGTGTAAGACATGTCTGGGCCATGCATCGGCTATGAGATGATACTCA
130 GACGTAAGCCAGTGTAAGACATGTCTGGGCCATGCATCGGCTATGAGATGATACTCA
*
57609546 GTGTAAAACCATGTCTGGGACATGGCATTGACTTGAGACGTAAGCCAGTATAAGACATGTCTAGG
1 GTGTAAAACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTATAAGACATGTCTAGG
57609611 ATATGCATCAGCTACAAAATGATAGTCAGTGTAAGGCCATGTCTGGGACATGGCATCGACTTGAG
66 ATATGCATCAGCTACAAAATGATAGTCAGTGTAAGGCCATGTCTGGGACATGGCATCGACTTGAG
57609676 ACGTAAGCCAGTGTAAGACATGTCTGGGCCATGCATCGGCTATGAGATGATACTCA
131 ACGTAAGCCAGTGTAAGACATGTCTGGGCCATGCATCGGCTATGAGATGATACTCA
*
57609732 GTGTAAAACCATGTCTGGGACATGGCATTGACTTGAGACGTAAGCCAGTATAAGACATGTCTAGG
1 GTGTAAAACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTATAAGACATGTCTAGG
57609797 ATATGCATCAGCTACAAAATGATAGTCAGTGTAAGGCCATGTCTGGGACATGGCATCGACTTGAG
66 ATATGCATCAGCTACAAAATGATAGTCAGTGTAAGGCCATGTCTGGGACATGGCATCGACTTGAG
* * * *
57609862 ACGTAAGCCAGTGT-AGCACATGTCTGGGACATGCATCGGCTACGAGATTATAGTCA
131 ACGTAAGCCAGTGTAAG-ACATGTCTGGGCCATGCATCGGCTATGAGATGATACTCA
* * * * * * * * * * *
57609918 GTGTAAGACCATGTTTGGGACATAGTATCAACTTAAGATGTGAGCCAGTGTAAGACCGTGTCTGG
1 GTGTAAAACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTATAAGA-CATGTCTAG
*
57609983 GACATGGCATCAGC
65 GATAT-GCATCAGC
57609997 ACCTTACCCA
Statistics
Matches: 416, Mismatches: 30, Indels: 7
0.92 0.07 0.02
Matches are distributed among these distances:
185 9 0.02
186 382 0.92
187 17 0.04
188 8 0.02
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (186 bp):
GTGTAAAACCATGTCTGGGACATGGCATCGACTTGAGACGTAAGCCAGTATAAGACATGTCTAGG
ATATGCATCAGCTACAAAATGATAGTCAGTGTAAGGCCATGTCTGGGACATGGCATCGACTTGAG
ACGTAAGCCAGTGTAAGACATGTCTGGGCCATGCATCGGCTATGAGATGATACTCA
Found at i:57619533 original size:39 final size:40
Alignment explanation
Indices: 57619396--57619533 Score: 217
Period size: 40 Copynumber: 3.5 Consensus size: 40
57619386 CGGATGATAA
57619396 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
57619436 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57619476 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
57619516 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
57619534 TACTTGGTTT
Statistics
Matches: 91, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 17 0.19
40 74 0.81
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57628342 original size:20 final size:20
Alignment explanation
Indices: 57628319--57628365 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
57628309 GAATAATAAG
57628319 AAAAATAAGA-ATAAAGAA-
1 AAAAATAAGATATAAAGAAT
* *
57628337 ATAAAATAATATATTAAGAAT
1 A-AAAATAAGATATAAAGAAT
57628358 AAAAATAA
1 AAAAATAA
57628366 ATAAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 1 0.04
19 8 0.33
20 14 0.58
21 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (20 bp):
AAAAATAAGATATAAAGAAT
Found at i:57628376 original size:16 final size:16
Alignment explanation
Indices: 57628319--57628378 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
57628309 GAATAATAAG
* *
57628319 AAAAATAAGAATAAAG
1 AAAAATAAAAATAAAT
* *
57628335 AAATAA-AATAATATATT
1 AAA-AATAAAAATA-AAT
*
57628352 AAGAATAAAAATAAAT
1 AAAAATAAAAATAAAT
57628368 AAAAATAAAAA
1 AAAAATAAAAA
57628379 ATAATTAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
16 23 0.68
17 11 0.32
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (16 bp):
AAAAATAAAAATAAAT
Found at i:57628378 original size:17 final size:17
Alignment explanation
Indices: 57628335--57628387 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
57628325 AAGAATAAAG
57628335 AAATAAAATAATATATTAA
1 AAATAAAA-AATA-ATTAA
* *
57628354 GAAT-AAAAATAAATAA
1 AAATAAAAAATAATTAA
57628370 AAATAAAAAATAATTAA
1 AAATAAAAAATAATTAA
57628387 A
1 A
57628388 TAAATAGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 7 0.24
17 16 0.55
18 3 0.10
19 3 0.10
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (17 bp):
AAATAAAAAATAATTAA
Found at i:57630327 original size:42 final size:42
Alignment explanation
Indices: 57630281--57630364 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
57630271 AACATTTATT
*
57630281 CACATATGTATCACATTATACACTTATAATTCAATTCAAATC
1 CACATATGTATCACATTATACACTAATAATTCAATTCAAATC
57630323 CACATATGTATCACATTATACACTAATAATTCAATTCAAATC
1 CACATATGTATCACATTATACACTAATAATTCAATTCAAATC
57630365 AAACTCACAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.35
Consensus pattern (42 bp):
CACATATGTATCACATTATACACTAATAATTCAATTCAAATC
Found at i:57630644 original size:89 final size:88
Alignment explanation
Indices: 57630524--57630773 Score: 401
Period size: 89 Copynumber: 2.8 Consensus size: 88
57630514 CCAGTATTTT
* * * *
57630524 GCCTGCTAGGCTCAAAACCCGATATCATTTCATCAGCATTATAGCCTGCTAGGCGCGAAGGCCCG
1 GCCTGCTAGGCTCAAAGCCCGATATCATTTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCG
57630589 AATAGTATCTCACCGGCATTATA
66 AATAGTATCTCACCGGCATTATA
* *
57630612 GCCTGCTAGGTTCAAAGGCCCGATATCATTTCACCGGCATTATAGCCTGTTAGGCTCGAAGGCCC
1 GCCTGCTAGGCTCAAA-GCCCGATATCATTTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCC
57630677 GAATAGTATCTCACCGGCATTATA
65 GAATAGTATCTCACCGGCATTATA
* *
57630701 GCCTGCTAGGCTCAAAAGCCCGATATCATTTCACCGGCATTATAGCCTACTAGGCTCAAAGGCCC
1 GCCTGCTAGGCTC-AAAGCCCGATATCATTTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCC
*
57630766 GATTAGTA
65 GAATAGTA
57630774 CCGTACGATA
Statistics
Matches: 149, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
88 15 0.10
89 131 0.88
90 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (88 bp):
GCCTGCTAGGCTCAAAGCCCGATATCATTTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCG
AATAGTATCTCACCGGCATTATA
Found at i:57630674 original size:44 final size:44
Alignment explanation
Indices: 57630524--57630768 Score: 325
Period size: 44 Copynumber: 5.5 Consensus size: 44
57630514 CCAGTATTTT
* * *
57630524 GCCTGCTAGGCTCAAA-ACCCGATATCATTTCATCAGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGATATCATTTCACCGGCATTATA
* * *
57630567 GCCTGCTAGGCGCGAAGGCCCGAATAGT-ATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCG-ATA-TCATTTCACCGGCATTATA
*
57630612 GCCTGCTAGGTTCAAAGGCCCGATATCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGATATCATTTCACCGGCATTATA
* * *
57630656 GCCTGTTAGGCTCGAAGGCCCGAATAGT-ATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCG-ATA-TCATTTCACCGGCATTATA
*
57630701 GCCTGCTAGGCTCAAAAGCCCGATATCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGATATCATTTCACCGGCATTATA
*
57630745 GCCTACTAGGCTCAAAGGCCCGAT
1 GCCTGCTAGGCTCAAAGGCCCGAT
57630769 TAGTACCGTA
Statistics
Matches: 175, Mismatches: 20, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
43 16 0.09
44 83 0.47
45 74 0.42
46 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (44 bp):
GCCTGCTAGGCTCAAAGGCCCGATATCATTTCACCGGCATTATA
Found at i:57638575 original size:34 final size:34
Alignment explanation
Indices: 57638532--57638601 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
57638522 CAATGACGGA
57638532 TACGGGTTAAGGGTGTTACACATTAGGCATACAC
1 TACGGGTTAAGGGTGTTACACATTAGGCATACAC
57638566 TACGGGTTAAGGGTGTTACACATTAGGCATACAC
1 TACGGGTTAAGGGTGTTACACATTAGGCATACAC
57638600 TA
1 TA
57638602 TCTCTTCAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (34 bp):
TACGGGTTAAGGGTGTTACACATTAGGCATACAC
Found at i:57641051 original size:116 final size:116
Alignment explanation
Indices: 57640847--57641081 Score: 452
Period size: 116 Copynumber: 2.0 Consensus size: 116
57640837 CACTTTGTTT
57640847 ACCTATCAAATTTCACACCAAAAGTACCAAATATGCCATTTTACATCTAGCACCAATAGCCATTC
1 ACCTATCAAATTTCACACCAAAAGTACCAAATATGCCATTTTACATCTAGCACCAATAGCCATTC
*
57640912 ATGTCATCTATAACAATTATACCAATTCACCACATTCAAACATATCAAAAG
66 ATGTCAACTATAACAATTATACCAATTCACCACATTCAAACATATCAAAAG
*
57640963 ACCTATCAAATTTCACACTAAAAGTACCAAATATGCCATTTTACATCTAGCACCAATAGCCATTC
1 ACCTATCAAATTTCACACCAAAAGTACCAAATATGCCATTTTACATCTAGCACCAATAGCCATTC
57641028 ATGTCAACTATAACAATTATACCAATTCACCACATTCAAACATATCAAAAG
66 ATGTCAACTATAACAATTATACCAATTCACCACATTCAAACATATCAAAAG
57641079 ACC
1 ACC
57641082 ATTTATAATA
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 117 1.00
ACGTcount: A:0.42, C:0.27, G:0.05, T:0.26
Consensus pattern (116 bp):
ACCTATCAAATTTCACACCAAAAGTACCAAATATGCCATTTTACATCTAGCACCAATAGCCATTC
ATGTCAACTATAACAATTATACCAATTCACCACATTCAAACATATCAAAAG
Found at i:57641516 original size:15 final size:16
Alignment explanation
Indices: 57641487--57641516 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57641477 CAAACATGCT
57641487 TTAACACATTATCAAA
1 TTAACACATTATCAAA
57641503 TTAACACA-TATCAA
1 TTAACACATTATCAA
57641517 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:57641796 original size:24 final size:24
Alignment explanation
Indices: 57641764--57641812 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
57641754 AAATGAATGC
57641764 TTAGTAAGCTTGTATAAACTTTAT
1 TTAGTAAGCTTGTATAAACTTTAT
57641788 TTAGTAAGCTTGTATAAACTTTAT
1 TTAGTAAGCTTGTATAAACTTTAT
57641812 T
1 T
57641813 CATATCAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (24 bp):
TTAGTAAGCTTGTATAAACTTTAT
Found at i:57642716 original size:25 final size:25
Alignment explanation
Indices: 57642654--57642717 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
57642644 GTACATGTAT
* * *
57642654 GCTCATATGAGCTGTGAATCGGTAT
1 GCTCATATGAGCTGTAAATCGATAA
** **
57642679 GCTTTTACAAGCTGTAAATCGATAA
1 GCTCATATGAGCTGTAAATCGATAA
57642704 GCTCATATGAGCTG
1 GCTCATATGAGCTG
57642718 ATAATTGGTA
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
GCTCATATGAGCTGTAAATCGATAA
Found at i:57642729 original size:25 final size:25
Alignment explanation
Indices: 57642695--57642801 Score: 87
Period size: 25 Copynumber: 4.4 Consensus size: 25
57642685 ACAAGCTGTA
* *
57642695 AATCGATAAGCTCAT-ATGAGCTGAT
1 AATCGGTAAGCTC-TCATGAGCTGAC
* * *
57642720 AATTGGTAAGCTCTCACGACCTG-C
1 AATCGGTAAGCTCTCATGAGCTGAC
* * *
57642744 AATCAGTAAGCTCGT-ATGATCTGAG
1 AATCGGTAAGCTC-TCATGAGCTGAC
57642769 AATCGGTAAGCTCTCATGAGCT-AC
1 AATCGGTAAGCTCTCATGAGCTGAC
*
57642793 AATTGGTAA
1 AATCGGTAA
57642802 TCCCTAATGA
Statistics
Matches: 64, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
24 28 0.44
25 36 0.56
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (25 bp):
AATCGGTAAGCTCTCATGAGCTGAC
Found at i:57657669 original size:47 final size:47
Alignment explanation
Indices: 57657549--57657843 Score: 401
Period size: 47 Copynumber: 6.2 Consensus size: 47
57657539 AATTCTAAAT
57657549 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* * *
57657598 TGTGATAAGGCTTAATGGCTGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
57657645 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
57657694 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
57657741 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
57657788 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
57657835 TGTGATAAG
1 TGTGATAAG
57657844 TCCCGAAGGG
Statistics
Matches: 218, Mismatches: 26, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
47 136 0.62
49 82 0.38
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:57657696 original size:96 final size:96
Alignment explanation
Indices: 57657552--57657828 Score: 432
Period size: 96 Copynumber: 2.9 Consensus size: 96
57657542 TCTAAATTGT
57657552 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
* *
57657617 TGATGTGATGAATGTGAAAGTGTATATGTGC
66 CGATGTGATGAATGTGAAAGTGTATATGCGC
*
57657648 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
*
57657713 CGATGTGATGAATGTGAAAGTGTATATGCGT
66 CGATGTGATGAATGTGAAAGTGTATATGCGC
* * * ** *
57657744 GATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
* *
57657807 CAATGTGATGGATGTGAAAGTG
66 CGATGTGATGAATGTGAAAGTG
57657829 CATAAATGTG
Statistics
Matches: 168, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
94 40 0.24
96 128 0.76
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (96 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
CGATGTGATGAATGTGAAAGTGTATATGCGC
Found at i:57663231 original size:27 final size:26
Alignment explanation
Indices: 57663214--57663283 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
57663204 ATATTAAGTC
57663214 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
57663241 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
57663269 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
57663284 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:57663277 original size:28 final size:28
Alignment explanation
Indices: 57663214--57663311 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
57663204 ATATTAAGTC
*
57663214 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
57663241 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
57663269 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
57663298 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57663312 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:57666362 original size:25 final size:25
Alignment explanation
Indices: 57666334--57666403 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
57666324 CTCTTTTAAT
* *
57666334 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
57666359 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
57666384 AACTAGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
57666404 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:57666636 original size:27 final size:27
Alignment explanation
Indices: 57666606--57666933 Score: 415
Period size: 27 Copynumber: 12.1 Consensus size: 27
57666596 GGGGCAAAAT
* * *
57666606 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
57666633 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
57666660 GGTAATTCTACCCTA-TAGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
57666687 GGTAATTCTACCCTGCAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57666714 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
57666741 AGTATTTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57666768 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57666795 GGTATTTCTAACCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57666822 GGTAGTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57666849 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57666876 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
57666903 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
57666930 GGTA
1 GGTA
57666934 GTTTTACAAA
Statistics
Matches: 267, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.00
27 264 0.99
28 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:57667052 original size:27 final size:27
Alignment explanation
Indices: 57666918--57667052 Score: 101
Period size: 27 Copynumber: 5.0 Consensus size: 27
57666908 TTCTACCCTA
* *
57666918 CAGGGGTATTTTGGTAGTTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAT
* * *
57666945 CAGGGTTATTTTGGTAATTTTCCTAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
** *
57666972 C-GAGGGTATTTTGGTAATTTTGTAAAC
1 CAG-GGGTATTTTGGTAATTTTACAAAT
* **** * *
57666999 CAAGGGTAAAACGGTAATTCTATAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
* *
57667026 CGGGGGTACTTTGGTAATTTTACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
57667053 TGAGGGCATT
Statistics
Matches: 80, Mismatches: 26, Indels: 4
0.73 0.24 0.04
Matches are distributed among these distances:
26 1 0.01
27 79 0.99
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAT
Found at i:57668392 original size:16 final size:16
Alignment explanation
Indices: 57668371--57668402 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
57668361 GAGTTTGCAT
57668371 TAAATCTCATGATTAC
1 TAAATCTCATGATTAC
57668387 TAAATCTCATGATTAC
1 TAAATCTCATGATTAC
57668403 CACTTACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.38
Consensus pattern (16 bp):
TAAATCTCATGATTAC
Found at i:57669295 original size:6 final size:6
Alignment explanation
Indices: 57669280--57669442 Score: 142
Period size: 6 Copynumber: 26.8 Consensus size: 6
57669270 AACCAAAATG
* *
57669280 AGAATT AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
57669328 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
57669377 AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAATTAC ATG-A-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAA-T-C A-GAATC
57669426 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
57669443 GTGAATGCAA
Statistics
Matches: 130, Mismatches: 11, Indels: 32
0.75 0.06 0.18
Matches are distributed among these distances:
4 1 0.01
5 11 0.08
6 105 0.81
7 7 0.05
8 5 0.04
9 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:57669631 original size:27 final size:27
Alignment explanation
Indices: 57669560--57669633 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
57669550 AGCATGGCTG
* * *
57669560 CCAGAA-CAGATATTGTGACAGTGTCA
1 CCAGAATCAGATATTGTGGCAGAGCCA
57669586 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATTGTGGCAGAGCCA
*
57669613 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATATTGTGGCA
57669634 AACCCACCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 1 0.02
26 4 0.10
27 34 0.83
28 2 0.05
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (27 bp):
CCAGAATCAGATATTGTGGCAGAGCCA
Found at i:57669640 original size:27 final size:27
Alignment explanation
Indices: 57669584--57669641 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
57669574 GTGACAGTGT
* * *
57669584 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
57669611 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
57669638 CACC
1 CACC
57669642 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:57669846 original size:22 final size:22
Alignment explanation
Indices: 57669798--57669856 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
57669788 GTAAATACGT
*
57669798 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
57669820 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
57669842 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
57669857 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:57670009 original size:27 final size:26
Alignment explanation
Indices: 57669944--57670026 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
57669934 TCGATCGGTC
* * *
57669944 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
57669970 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
* *
57669997 AACAGATATTTGTGGCATAGCCATCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
57670024 AAC
1 AAC
57670027 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:57670255 original size:27 final size:27
Alignment explanation
Indices: 57670225--57670420 Score: 212
Period size: 27 Copynumber: 7.3 Consensus size: 27
57670215 GGGGCAAAAT
* * *
57670225 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57670252 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
57670279 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
57670306 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
57670333 GGTAATTCTATCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
57670360 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
57670387 GGAAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
57670414 AGTAATT
1 GGTAATT
57670421 TCACAATCAA
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:57670418 original size:54 final size:54
Alignment explanation
Indices: 57670225--57670420 Score: 241
Period size: 54 Copynumber: 3.6 Consensus size: 54
57670215 GGGGCAAAAT
* * * * * *
57670225 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * *
57670279 GGTATTTCTACCCTACAAGGGTATTT-TGATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTATAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTC
* * *
57670333 GGTAATTCTATCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
57670387 GGAAATTCTACCCTATAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTATAAGGGTATTTCAGTAATT
57670421 TCACAATCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 121 0.98
55 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (54 bp):
GGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:57670455 original size:27 final size:27
Alignment explanation
Indices: 57670425--57670618 Score: 221
Period size: 27 Copynumber: 7.2 Consensus size: 27
57670415 GTAATTTCAC
*
57670425 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
57670452 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
57670479 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
57670506 AATCAAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
57670533 AATTGAGAGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
57670560 AATCGTGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
57670587 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
57670614 AATCG
1 AATCG
57670619 GGAGTACTTT
Statistics
Matches: 134, Mismatches: 29, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
26 2 0.01
27 130 0.97
28 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:57670635 original size:54 final size:54
Alignment explanation
Indices: 57670430--57670618 Score: 270
Period size: 54 Copynumber: 3.5 Consensus size: 54
57670420 TTCACAATCA
* *
57670430 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAACTG
* * * ** *
57670484 AGGGTAAACCAGTAATTCTGTAAATCAAGGGTAAAATGGTAATTTTACAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAACTG
* * * *
57670538 AGAGTAAAACGGTAATTCTGTAAATCGTGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAACTG
57670592 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
57670619 GGAGTACTTT
Statistics
Matches: 116, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 116 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTGTAAACTG
Found at i:57670635 original size:81 final size:81
Alignment explanation
Indices: 57670425--57670624 Score: 244
Period size: 81 Copynumber: 2.5 Consensus size: 81
57670415 GTAATTTCAC
* *
57670425 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGG-GTAAAACGATAATTTTGTAAACTGAGGGT
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCG-GGAGTAAAACGGTAATTCTGTAAACTGAGGGT
*
57670489 AAACCAGTAATTCTGTA
65 AAAACAGTAATTCTGTA
* * ** * * *
57670506 AATCAAGGGTAAAATGGTAATTTTACAAATTGAGAGTAAAACGGTAATTCTGTAAA-TCGTGGGT
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGGGAGTAAAACGGTAATTCTGTAAACT-GAGGGT
*
57670570 AAAATAGTAATTCTGTA
65 AAAACAGTAATTCTGTA
*
57670587 AA-CTGAGGGTAAAACGGTAATTCTGTAAATCGGGAGTA
1 AATC-AAGGGTAAAACGGTAATTCTGTAAATCGGGAGTA
57670625 CTTTGGTAAT
Statistics
Matches: 98, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
80 3 0.03
81 95 0.97
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.28
Consensus pattern (81 bp):
AATCAAGGGTAAAACGGTAATTCTGTAAATCGGGAGTAAAACGGTAATTCTGTAAACTGAGGGTA
AAACAGTAATTCTGTA
Found at i:57670649 original size:54 final size:53
Alignment explanation
Indices: 57670430--57670641 Score: 241
Period size: 54 Copynumber: 3.9 Consensus size: 53
57670420 TTCACAATCA
* *
57670430 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTTTGTA-AACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAA-TTT-TACAACTG
* * * *
57670484 AGGGTAAACCAGTAATTCTGTAAATCAAGGGTAAAATGGTAATTTTACAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAC-AACTG
* * *
57670538 AGAGTAAAACGGTAATTCTGTAAATCGTGGGTAAAATAGTAATTCTGTA-AACTG
1 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATT-T-TACAACTG
***
57670592 AGGGTAAAACGGTAATTCTGTAAATCG-GGAGTACTTTGGTAATTTTACAA
1 AGGGTAAAACGGTAATTCTGTAAATCGAGG-GTAAAATGGTAATTTTACAA
57670642 GTCGAGGGCA
Statistics
Matches: 134, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
52 4 0.03
53 8 0.06
54 119 0.89
55 1 0.01
56 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (53 bp):
AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTACAACTG
Found at i:57679366 original size:19 final size:19
Alignment explanation
Indices: 57679342--57679378 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
57679332 TAGGAGATAG
57679342 GCCCGTGTGCCCTCGACAT
1 GCCCGTGTGCCCTCGACAT
*
57679361 GCCCGTGTGCCCTTGACA
1 GCCCGTGTGCCCTCGACA
57679379 CACCCGTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.11, C:0.41, G:0.27, T:0.22
Consensus pattern (19 bp):
GCCCGTGTGCCCTCGACAT
Found at i:57679384 original size:19 final size:19
Alignment explanation
Indices: 57679343--57679387 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
57679333 AGGAGATAGG
**
57679343 CCCGTGTGCCCTCGACATG
1 CCCGTGTGCCCTCGACACA
*
57679362 CCCGTGTGCCCTTGACACA
1 CCCGTGTGCCCTCGACACA
57679381 CCCGTGT
1 CCCGTGT
57679388 CCTCAGGCCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.11, C:0.42, G:0.24, T:0.22
Consensus pattern (19 bp):
CCCGTGTGCCCTCGACACA
Found at i:57681537 original size:79 final size:80
Alignment explanation
Indices: 57681428--57681610 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
57681418 TACTAGTCCA
* *
57681428 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
*
57681492 TTTAGTAACTT-GCACC
65 TATAGTAACTTAGCA-C
* **
57681508 AATGCCTTCGGG-CTTAGCCTGGA-ATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
57681571 TATGGTCACTTAGCAC
65 TATAGTAACTTAGCAC
*
57681587 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
57681611 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 4 0.04
79 60 0.67
80 25 0.28
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:57681610 original size:40 final size:40
Alignment explanation
Indices: 57681426--57681610 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
57681416 GCTACTAGTC
* *
57681426 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
57681466 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
57681506 CCAATGCCTTCGGG-CTTAGCCTGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
57681545 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
57681586 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57681611 CATCATTCGA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 78 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:57689377 original size:8 final size:8
Alignment explanation
Indices: 57689364--57689388 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
57689354 AGAGGGAAAA
57689364 GATCATGG
1 GATCATGG
57689372 GATCATGG
1 GATCATGG
57689380 GATCATGG
1 GATCATGG
57689388 G
1 G
57689389 CCTACTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (8 bp):
GATCATGG
Found at i:57699215 original size:49 final size:49
Alignment explanation
Indices: 57699136--57699380 Score: 292
Period size: 49 Copynumber: 4.9 Consensus size: 49
57699126 GCTATTGTGA
* *
57699136 GGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGCGTACCAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * * *
57699185 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT
* * * * * ** *
57699235 CGATCACGTGTGTACTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAAT-T
* * *
57699286 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
57699335 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
57699381 GCTTCGGCTA
Statistics
Matches: 163, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 82 0.50
50 45 0.28
51 36 0.22
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:57715401 original size:40 final size:40
Alignment explanation
Indices: 57715346--57715599 Score: 361
Period size: 40 Copynumber: 6.4 Consensus size: 40
57715336 TGATAACCGA
* * *
57715346 GCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGG
*
57715386 GCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
57715426 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCTGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
57715466 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
*
57715506 GCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* * * *
57715546 GCTATGTCCCGAAGGTATTCGAGCGAG-TATCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
* *
57715585 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
57715600 TACTTGGCTT
Statistics
Matches: 197, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 16 0.08
40 181 0.92
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:57731823 original size:39 final size:40
Alignment explanation
Indices: 57731778--57731945 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
57731768 CGGGGTTTAG
* * *
57731778 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
57731817 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
57731857 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
57731897 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
57731938 CCGGATAT
1 CCGGATAT
57731946 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:57731928 original size:41 final size:40
Alignment explanation
Indices: 57731801--57731945 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
57731791 CTCGCACAAG
* * * * *
57731801 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
57731841 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
57731881 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
57731922 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
57731946 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:57738111 original size:21 final size:21
Alignment explanation
Indices: 57738085--57738127 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
57738075 GGGTATGTAT
*
57738085 GACCATTTTTAGGGCACACGG
1 GACCATTTTGAGGGCACACGG
57738106 GACCATTTTGAGGGCACACGG
1 GACCATTTTGAGGGCACACGG
57738127 G
1 G
57738128 CTAGCCACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.21
Consensus pattern (21 bp):
GACCATTTTGAGGGCACACGG
Found at i:57741186 original size:55 final size:54
Alignment explanation
Indices: 57740932--57741186 Score: 262
Period size: 55 Copynumber: 4.8 Consensus size: 54
57740922 ACACAGCTAC
* * *
57740932 CTTACC-ATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
57740981 CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * *
57741034 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGAG-A-CCTTTGCCTTATAGTAT
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATG-GTATCC-TTGCC-T-TAGAAA
* * * *
57741089 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
57741142 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
57741187 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 20, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
49 40 0.23
52 4 0.02
53 42 0.25
54 13 0.08
55 70 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:57745738 original size:15 final size:15
Alignment explanation
Indices: 57745718--57745747 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
57745708 TGGGCTGCGC
57745718 TGCTTCTATTTGTAA
1 TGCTTCTATTTGTAA
57745733 TGCTTCTATTTGTAA
1 TGCTTCTATTTGTAA
57745748 AGAAGAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (15 bp):
TGCTTCTATTTGTAA
Found at i:57749089 original size:20 final size:20
Alignment explanation
Indices: 57749064--57749115 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
57749054 AGGGACAAAA
57749064 ATGAAAAGATGTAAAATTTG
1 ATGAAAAGATGTAAAATTTG
* *
57749084 ATGAAAA-ATTCTAAAATTTT
1 ATGAAAAGA-TGTAAAATTTG
*
57749104 ATGAATAGATGT
1 ATGAAAAGATGT
57749116 GCTGGAAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGAAAAGATGTAAAATTTG
Found at i:57759438 original size:36 final size:36
Alignment explanation
Indices: 57759386--57759455 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
57759376 TGTAGGAAAG
57759386 AGGTATTTCATACAAATTTATTGTAAAGAAGTATCC
1 AGGTATTTCATACAAATTTATTGTAAAGAAGTATCC
* *
57759422 AGGTATTTCGTGCAAATTTATTGTAAAGAAGTAT
1 AGGTATTTCATACAAATTTATTGTAAAGAAGTAT
57759456 TCACAATCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (36 bp):
AGGTATTTCATACAAATTTATTGTAAAGAAGTATCC
Found at i:57762099 original size:46 final size:46
Alignment explanation
Indices: 57761946--57762157 Score: 177
Period size: 46 Copynumber: 4.6 Consensus size: 46
57761936 TTATTTGTGT
* * *
57761946 GCTAGTGTAAGACATCTCTGGGACATGCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGA
* * * * *
57761992 GCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGA
*
57762040 G-TCAGTGTAAGACATGTCTGGGACATGCATGGGCCTCGAGATGTA-A
1 GCT-AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGA
* * * *
57762086 GCTAGTGTAAGACATGTCTGGGGA-ATGCA-CCGACTACGAAATGTG-
1 GCTAGTGTAAGACATGTCT-GGGACATGCATCGGCCT-CGAGATGAGA
*
57762131 TC-AGTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
57762158 GCGTCGGCAC
Statistics
Matches: 135, Mismatches: 20, Indels: 23
0.76 0.11 0.13
Matches are distributed among these distances:
44 13 0.10
45 14 0.10
46 53 0.39
47 31 0.23
48 23 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:57764849 original size:2 final size:2
Alignment explanation
Indices: 57764842--57764877 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
57764832 CATTCCGAAG
* *
57764842 TA TA TA TA TA TA TA TA TA CA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57764878 CACAAGTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:57764887 original size:18 final size:18
Alignment explanation
Indices: 57764845--57764881 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
57764835 TCCGAAGTAT
* *
57764845 ATATATATATATATACAT
1 ATATATGTATATATACAC
57764863 ATATATGTATATATACAC
1 ATATATGTATATATACAC
57764881 A
1 A
57764882 AGTATGCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.41
Consensus pattern (18 bp):
ATATATGTATATATACAC
Found at i:57765398 original size:27 final size:27
Alignment explanation
Indices: 57765360--57765537 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
57765350 TAAATTGTAC
*
57765360 AGCACTAAGTGTGCGGTTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57765387 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57765413 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57765441 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57765469 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
** * *
57765496 AGCACTAAGTGTGCGAGATGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57765523 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57765538 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57765474 original size:82 final size:81
Alignment explanation
Indices: 57765361--57765511 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
57765351 AAATTGTACA
* *
57765361 GCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
57765425 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
57765442 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
57765507 TGCGA
65 TGCGA
57765512 GATGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 14 0.22
82 48 0.76
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57765528 original size:82 final size:81
Alignment explanation
Indices: 57765357--57765538 Score: 224
Period size: 82 Copynumber: 2.2 Consensus size: 81
57765347 GATTAAATTG
* *
57765357 TACAGCACTAAGTGTGCGGTTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57765422 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57765438 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCG-GTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
57765502 AAGTGTGCGAGA-TGATTA
64 AAGTGTGCGA-ATTGACCA
* *
57765520 TATAGCACTGAGTGTGCGG
1 TACAGCACTAAGTGTGCGG
57765539 GCTCAATATA
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
81 18 0.21
82 66 0.78
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGGTTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57780881 original size:27 final size:27
Alignment explanation
Indices: 57780850--57781027 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57780840 TAAATTGTAC
57780850 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57780877 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57780903 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57780931 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57780959 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57780986 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57781013 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57781028 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57780964 original size:82 final size:81
Alignment explanation
Indices: 57780851--57781006 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57780841 AAATTGTACA
* *
57780851 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
57780915 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
57780932 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
57780997 TGCGAGTTGA
65 TGCGAATTGA
57781007 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57781018 original size:82 final size:81
Alignment explanation
Indices: 57780847--57781027 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
57780837 GATTAAATTG
* *
57780847 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57780912 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57780928 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57780992 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57781010 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57781028 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57783004 original size:48 final size:47
Alignment explanation
Indices: 57782952--57783270 Score: 243
Period size: 46 Copynumber: 6.8 Consensus size: 47
57782942 GCCACATTAT
57782952 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGA
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGA
* * * *
57782999 CGAGAGCCGGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA
1 -GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGA
*
57783045 TGTA-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--T-ACGA
1 -G-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGA-GA
* * * *
57783089 GATGTGTCAGTGTATGACCATGTCTAGGACATGGCATCAGCACGTAT-AGA
1 GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCA--T-TGAGA
* ** * * * *
57783139 G-GTGTTAGTGTAAGACCATGTCTAGGACATGGCATCTGCACAAAT-ATGT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG--C-ATTGA-GA
*
57783188 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGATG-
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCA-TTGA-GA
*
57783234 GATGCGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
57783271 TGGCACTACA
Statistics
Matches: 229, Mismatches: 23, Indels: 39
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 12 0.05
45 14 0.06
46 57 0.25
47 50 0.22
48 51 0.22
49 3 0.01
50 36 0.16
51 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGA
Found at i:57783061 original size:46 final size:46
Alignment explanation
Indices: 57782913--57783126 Score: 213
Period size: 46 Copynumber: 4.6 Consensus size: 46
57782903 TTTGTGTGCT
* * * *
57782913 AGTGTAAGACAAGTTTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* * * *
57782959 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGACGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCC
*
57783007 GGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCC
* *
57783053 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCC
* *
57783097 AGTGTATGACCATGTCTAGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
57783127 AGCACGTATA
Statistics
Matches: 142, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 66 0.46
47 27 0.19
48 23 0.16
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:57795238 original size:40 final size:40
Alignment explanation
Indices: 57795183--57795440 Score: 319
Period size: 40 Copynumber: 6.5 Consensus size: 40
57795173 CTGATGATAA
*
57795183 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-T
* *
57795223 CCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-T
* * * *
57795263 TCGGTCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
57795303 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATAT
* *
57795343 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
* * * *
57795383 CAGGGCTAAGTCCTGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATAT
*
57795423 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
57795441 TACTTGGTTT
Statistics
Matches: 196, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
39 16 0.08
40 179 0.91
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:57801930 original size:13 final size:13
Alignment explanation
Indices: 57801912--57801936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57801902 TATTATAAAC
57801912 ATTTTATGTTAGT
1 ATTTTATGTTAGT
57801925 ATTTTATGTTAG
1 ATTTTATGTTAG
57801937 GAATAATAAA
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:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (13 bp):
ATTTTATGTTAGT
Found at i:57811672 original size:46 final size:46
Alignment explanation
Indices: 57811602--57811693 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
57811592 TTTATAAAGT
*
57811602 GATTTCGTGAACCACAACTATAACAAGCTCGGCTATTACTCTTTCC
1 GATTTCGTGAACCACAACTATAACAAGCTCGACTATTACTCTTTCC
* * * *
57811648 GATTTTGTGAACCACAACTGTAACAAGCTCGATTATTACTTTTTCC
1 GATTTCGTGAACCACAACTATAACAAGCTCGACTATTACTCTTTCC
57811694 CTAGCATTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (46 bp):
GATTTCGTGAACCACAACTATAACAAGCTCGACTATTACTCTTTCC
Found at i:57818973 original size:38 final size:36
Alignment explanation
Indices: 57818921--57818995 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 36
57818911 ATTGGGCTTG
* *
57818921 ATCGGAATATATTTACTATA-TCAAAATACAATATAAA
1 ATCGGAAGACATTTACTATATTC-AAATACAAT-TAAA
*
57818958 NATCGGAAGACATTTACTCTATTCAAATACAATTAAA
1 -ATCGGAAGACATTTACTATATTCAAATACAATTAAA
57818995 A
1 A
57818996 GGGTTAGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 1 0.03
37 4 0.12
38 26 0.79
39 2 0.06
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (36 bp):
ATCGGAAGACATTTACTATATTCAAATACAATTAAA
Found at i:57822149 original size:27 final size:27
Alignment explanation
Indices: 57822118--57822295 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57822108 TAAATTGTAC
57822118 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57822145 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57822171 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57822199 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57822227 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57822254 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57822281 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57822296 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57822232 original size:82 final size:81
Alignment explanation
Indices: 57822119--57822274 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57822109 AAATTGTACA
* *
57822119 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
57822183 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
57822200 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
57822265 TGCGAGTTGA
65 TGCGAATTGA
57822275 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57822286 original size:82 final size:81
Alignment explanation
Indices: 57822115--57822295 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
57822105 GATTAAATTG
* *
57822115 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57822180 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57822196 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57822260 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57822278 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57822296 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57823880 original size:14 final size:14
Alignment explanation
Indices: 57823858--57823887 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57823848 TCTGGGACAT
57823858 ACATCGGCCTCGAG
1 ACATCGGCCTCGAG
*
57823872 ACATTGGCCTCGAG
1 ACATCGGCCTCGAG
57823886 AC
1 AC
57823888 GTAAGCAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.33, G:0.27, T:0.17
Consensus pattern (14 bp):
ACATCGGCCTCGAG
Found at i:57828606 original size:12 final size:12
Alignment explanation
Indices: 57828584--57828615 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
57828574 GCTAATAAAA
57828584 GATTA-CGAGTT
1 GATTATCGAGTT
57828595 GATTATCGAGTT
1 GATTATCGAGTT
57828607 GATTATCGA
1 GATTATCGA
57828616 CTACCACCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.38
Consensus pattern (12 bp):
GATTATCGAGTT
Found at i:57831578 original size:46 final size:46
Alignment explanation
Indices: 57831429--57831649 Score: 207
Period size: 46 Copynumber: 4.7 Consensus size: 46
57831419 ATTTTTTTGT
* * * *
57831429 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCA-C-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CATCGA-GACGA
*
57831475 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGA
* * * *
57831523 GAGCTAGTGTAAGACATGTTTAGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACG-A
*** *
57831570 -AGCCAGTGTAAGACATGTCTGGGACATGCATCAATAT-GAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGA
* * *
57831614 TAGTCAGTGTAAGACCATGTCTGGGATATGGCATCG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
57831650 ACTTAAGATA
Statistics
Matches: 146, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
44 1 0.01
45 17 0.12
46 71 0.49
47 34 0.23
48 22 0.15
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGA
Found at i:57831670 original size:47 final size:47
Alignment explanation
Indices: 57831475--57831698 Score: 210
Period size: 47 Copynumber: 4.8 Consensus size: 47
57831465 CACATTATGA
* *
57831475 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGA-TAT
* * * * * **
57831523 GAGCTAGTGTAAGA-CATGTTTAGGACAT-GCATCGGCCTCGAGACGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGATAT
* *
57831569 AAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC-AATATGAGATGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGAT-AT
* * *
57831615 -AGTCAGTGTAAGACCATGTCTGGGATATGGCATCGACTTAAGATAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAT
* *
57831661 GAGCCAGTGTAAGACCATGTCTAGGATATGGCATCGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
57831699 ACCTTACCCA
Statistics
Matches: 146, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.01
45 16 0.11
46 55 0.38
47 59 0.40
48 15 0.10
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAT
Found at i:57832866 original size:20 final size:21
Alignment explanation
Indices: 57832828--57832866 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
57832818 TCGCGTTGGT
*
57832828 CACATGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
57832849 CACACGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
57832867 GTCTTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.36, G:0.31, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:57835570 original size:48 final size:48
Alignment explanation
Indices: 57835518--57835883 Score: 371
Period size: 48 Copynumber: 7.6 Consensus size: 48
57835508 TATGTGTGCC
* * *
57835518 AGTGTAAGACCATGTCTAGGACATGACATCAGCCACGATATGAGATCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCT
* * * * *
57835566 AGTGTAAGAACATGTCTGGGACATGGCATC-GGCATTGATATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-CGATATGAGAGCT
* * *
57835614 AGTGTAAGACCATGTCTAGGACATGGCATCAGCCA-TATCATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGAT-ATGAGAGCT
* * * *** * *
57835662 AGTGTAAGACCATGTCTAGGACATGTCATCGGCTTTGATATGTGCA-TT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAG-AGCT
*
57835710 AGTGTAAGACCATGTCTGGGACATGGCATCAACCAC-ATCATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGAT-ATGAGAGCT
* * * * * *
57835758 AGTGTAAGACCGTGTCTGGGACATGGCATCGGCAATGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCT
* * * *
57835806 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCT
* **
57835854 AGTGTAAGACCATGTTTGAAACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
57835884 GACAATACAC
Statistics
Matches: 259, Mismatches: 51, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
47 8 0.03
48 244 0.94
49 7 0.03
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACGATATGAGAGCT
Found at i:57835669 original size:96 final size:96
Alignment explanation
Indices: 57835505--57835884 Score: 469
Period size: 96 Copynumber: 4.0 Consensus size: 96
57835495 GACATTTGGG
* * * * *
57835505 TGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGACATCAGCCACGAT-ATGAGATCTAGT
1 TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCA-TATCATGAGAGCCAGT
*
57835569 GTAAGAACATGTCTGGGACATGGCATCGGCAT
65 GTAAGACCATGTCTGGGACATGGCATCGGCAT
57835601 TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCATATCATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCATATCATGAGAGCCAGTG
* * *
57835666 TAAGACCATGTCTAGGACATGTCATCGGCTT
66 TAAGACCATGTCTGGGACATGGCATCGGCAT
*** * * * *
57835697 TGATATGTGCATTAGTGTAAGACCATGTCTGGGACATGGCATCAACCACATCATGAGAGCTAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCATATCATGAGAGCCAGTG
* *
57835762 TAAGACCGTGTCTGGGACATGGCATCGGCAA
66 TAAGACCATGTCTGGGACATGGCATCGGCAT
* * * * * *
57835793 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCC-TCGA-CATGTGAGCCAG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCAT--ATCATGAGAGCCAG
* **
57835856 TGTAAGACCATGTTTGAAACATGGCATCG
64 TGTAAGACCATGTCTGGGACATGGCATCG
57835885 ACAATACACC
Statistics
Matches: 246, Mismatches: 35, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
95 2 0.01
96 243 0.99
97 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (96 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCATATCATGAGAGCCAGTG
TAAGACCATGTCTGGGACATGGCATCGGCAT
Found at i:57836946 original size:28 final size:28
Alignment explanation
Indices: 57836906--57837113 Score: 389
Period size: 28 Copynumber: 7.4 Consensus size: 28
57836896 CACAGGTTGA
57836906 GACACGGGCGTGTCATGGCCGTGTGAAG
1 GACACGGGCGTGTCATGGCCGTGTGAAG
57836934 GACACGGGCGTGTCATGGCCGTGTGAAG
1 GACACGGGCGTGTCATGGCCGTGTGAAG
*
57836962 GAGACGGGCGTGTCATGGCCGTGTGAAG
1 GACACGGGCGTGTCATGGCCGTGTGAAG
57836990 GACACGGGCGTGTCATGGCCGTGTGAAG
1 GACACGGGCGTGTCATGGCCGTGTGAAG
*
57837018 GAGACGGGCGTGTCATGGCCGTGTGAAG
1 GACACGGGCGTGTCATGGCCGTGTGAAG
57837046 GACACGGGCGTGTCATGGCCGTGTGAAG
1 GACACGGGCGTGTCATGGCCGTGTGAAG
*
57837074 GAGACGGGCGTGTCATGGCCGTGTGAAG
1 GACACGGGCGTGTCATGGCCGTGTGAAG
57837102 GACACGGGCGTG
1 GACACGGGCGTG
57837114 AACTAGGCTG
Statistics
Matches: 174, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 174 1.00
ACGTcount: A:0.18, C:0.20, G:0.45, T:0.17
Consensus pattern (28 bp):
GACACGGGCGTGTCATGGCCGTGTGAAG
Found at i:57839886 original size:180 final size:179
Alignment explanation
Indices: 57839540--57839905 Score: 497
Period size: 180 Copynumber: 2.0 Consensus size: 179
57839530 TAGCTGGAGC
* * **
57839540 TACGAAACTCCAAATTAAGATCCGTTAATTTTTCCAAAAACTAGACTCACATATATTCTTACAAA
1 TACGAGACTCCAAATTAAGAACCACTAATTTTTCCAAAAACTAGACTCACATATATTCTTACAAA
* * * *
57839605 AAAATTTAGAATTTTTTGGTTTAGCCAATTTGTACATTTTATTCATTAAAATTACCCCTATTTCA
66 AAAATTTAGAATTTTTTGGTTCAGCCAATTAGTACAGTTTATTCATTAAAATTACCACTATTTCA
* * *
57839670 CTATCTAACAGTTCTGACATCTCTTCACTTAAAATTATTTATCTCATGG
131 CTATCCAACAGTTCCGACATCTCTTCACTAAAAATTATTTATCTCATGG
*
57839719 TACGAGACTCCAAATTAAGAACCACTAATTTTTCCAGAAACTAGACTCACATATATTCTTATCAT
1 TACGAGACTCCAAATTAAGAACCACTAATTTTTCCAAAAACTAGACTCACATATATTCTTA-CA-
* *
57839784 AAAATATTTAGAA-TTTTTGGTTCAGCCAATTAGTATAGTTTATTCATTAAAGA-TACCACTATT
64 AAAAAATTTAGAATTTTTTGGTTCAGCCAATTAGTACAGTTTATTCATTAAA-ATTACCACTATT
* * * * *
57839847 TCACTGTCCGATAGTTCCGATC-TTTCTTCACTAAAAATTATTTATGTCATGG
128 TCACTATCCAACAGTTCCGA-CATCTCTTCACTAAAAATTATTTATCTCATGG
57839899 TAC-AGAC
1 TACGAGAC
57839906 CTCGGATGCT
Statistics
Matches: 164, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
179 60 0.37
180 90 0.55
181 14 0.09
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (179 bp):
TACGAGACTCCAAATTAAGAACCACTAATTTTTCCAAAAACTAGACTCACATATATTCTTACAAA
AAAATTTAGAATTTTTTGGTTCAGCCAATTAGTACAGTTTATTCATTAAAATTACCACTATTTCA
CTATCCAACAGTTCCGACATCTCTTCACTAAAAATTATTTATCTCATGG
Found at i:57840528 original size:50 final size:50
Alignment explanation
Indices: 57840474--57840907 Score: 404
Period size: 50 Copynumber: 8.6 Consensus size: 50
57840464 CTGGTATGAA
* *
57840474 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* * * * * **
57840524 TAGTAGCCTACACTTAGTACAACACATGTGACTTATCCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* * * * * * *
57840574 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA--CAATCTGGTACACG
* * * * *
57840625 TAATAGCCTGCACTTAGTACTACACATGCGGCCTATCAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* * * * *
57840675 TAGTAGCCTGCACTTAGTGCTACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* ** ** ** * *
57840725 GAGTAGCCTGTGCTTAGTACTACACACATGATCGAAACTATC-GAGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTAACAATCTG-GTACACG
* *
57840776 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* *** *
57840826 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAAATGTCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA--TCTGGTACACG
* *
57840878 TAGTAGCCTGCACATGGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
57840908 TTCTCACAAT
Statistics
Matches: 303, Mismatches: 73, Indels: 14
0.78 0.19 0.04
Matches are distributed among these distances:
49 2 0.01
50 195 0.64
51 71 0.23
52 35 0.12
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
Found at i:57840650 original size:101 final size:100
Alignment explanation
Indices: 57840474--57840860 Score: 273
Period size: 101 Copynumber: 3.9 Consensus size: 100
57840464 CTGGTATGAA
* * * * * *
57840474 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATCAATCGGGTACACATAATAGCCTACACTT
* * * *
57840539 AGTACAACACATGTGACTTATCCATCTAATACACG
66 AGTACAACACATGCGACCTATCAATCCAATACACG
* * * *
57840574 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGGGTACGCATAATAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TCAATCGGGTACACATAATAGCCTACAC
* * **
57840638 TTAGTACTACACATGCGGCCTATCAATCCGGTACACG
64 TTAGTACAACACATGCGACCTATCAATCCAATACACG
* * ** * ** * ***
57840675 TAGTAGCCTGCACTTAGTGCTACACACGTGACCTAA-CCATTTGATACACGGAGTAGCCTGTGCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATCAATCGGGTACACATAATAGCCTACACT
* * * * *
57840739 TAGTACTACACACATGATCGA---AACTATCGAGTACACA
65 TAGTAC-A-ACACATG--CGACCTATCAATCCAATACACG
* * * ** * *
57840776 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CAATCTGGTACATGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATCAATCGGGTACACATAATAGCCTACACT
* *
57840840 TAGTACTACACATGTGACCTA
65 TAGTACAACACATGCGACCTA
57840861 AAAATGTCTT
Statistics
Matches: 226, Mismatches: 50, Indels: 22
0.76 0.17 0.07
Matches are distributed among these distances:
97 2 0.01
99 8 0.04
100 52 0.23
101 152 0.67
102 10 0.04
104 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATCAATCGGGTACACATAATAGCCTACACTT
AGTACAACACATGCGACCTATCAATCCAATACACG
Found at i:57840751 original size:151 final size:151
Alignment explanation
Indices: 57840477--57840861 Score: 572
Period size: 151 Copynumber: 2.5 Consensus size: 151
57840467 GTATGAATAG
*
57840477 TAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTACACTTAGT
1 TAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGT
* * * * *
57840542 ACAACACATGTGACTTATCCATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC
66 ACTACACATGTGACCTAACCATCTAATACACGGAGTAGCCTGCACTTAGTACTACACACATGATC
** * *
57840607 GAAGTTAACGGGTACGCATAA
131 GAAACTAACGAGTACACATAA
* *
57840628 TAGCCTGCACTTAGTACTACACATGCGGCCTATCAATCCGGTACACGTAGTAGCCTGCACTTAGT
1 TAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGT
* * * * **
57840693 GCTACACACGTGACCTAACCATTTGATACACGGAGTAGCCTGTGCTTAGTACTACACACATGATC
66 ACTACACATGTGACCTAACCATCTAATACACGGAGTAGCCTGCACTTAGTACTACACACATGATC
* *
57840758 GAAACTATCGAGTACACATAG
131 GAAACTAACGAGTACACATAA
* *
57840779 TAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACATGTAGTAGCCTGCACTTAGT
1 TAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGT
57840844 ACTACACATGTGACCTAA
66 ACTACACATGTGACCTAA
57840862 AAATGTCTTA
Statistics
Matches: 208, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
151 208 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (151 bp):
TAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGT
ACTACACATGTGACCTAACCATCTAATACACGGAGTAGCCTGCACTTAGTACTACACACATGATC
GAAACTAACGAGTACACATAA
Found at i:57840903 original size:151 final size:150
Alignment explanation
Indices: 57840473--57840905 Score: 557
Period size: 151 Copynumber: 2.9 Consensus size: 150
57840463 TCTGGTATGA
*
57840473 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTACACT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACT
* * *
57840538 TAGTACAACACATGTGACTTATCCA-TC-TAATACACGTAGTAGCCTGCACTTAGTACTACACAC
66 TAGTACTACACATGTGACCTAACCATTCTTAA-ACACGTAGTAGCCTGCACTTAGTACTACACA-
** * *
57840601 GTGATCGAAGTTAACGGGTACGC
129 -TGATCGAAACTAACGAGTACAC
* * *
57840624 ATAATAGCCTGCACTTAGTACTACACATGCGGCCTATCAATCCGGTACACGTAGTAGCCTGCACT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACT
* * * * * **
57840689 TAGTGCTACACACGTGACCTAACCATT-TGATACACGGAGTAGCCTGTGCTTAGTACTACACACA
66 TAGTACTACACATGTGACCTAACCATTCTTAAACACGTAGTAGCCTGCACTTAGTACT--ACACA
*
57840753 TGATCGAAACTATCGAGTACAC
129 TGATCGAAACTAACGAGTACAC
* *
57840775 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACATGTAGTAGCCTGCACT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACT
** * * *
57840840 TAGTACTACACATGTGACCTAAAAATGTCTTAAACACATAGTAGCCTGCACATGGTACTACACAT
66 TAGTACTACACATGTGACCTAACCAT-TCTTAAACACGTAGTAGCCTGCACTTAGTACTACACAT
57840905 G
130 G
57840906 TGTTCTCACA
Statistics
Matches: 240, Mismatches: 36, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
151 210 0.88
152 3 0.01
153 27 0.11
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (150 bp):
ATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACT
TAGTACTACACATGTGACCTAACCATTCTTAAACACGTAGTAGCCTGCACTTAGTACTACACATG
ATCGAAACTAACGAGTACAC
Found at i:57846788 original size:40 final size:40
Alignment explanation
Indices: 57846429--57846776 Score: 511
Period size: 40 Copynumber: 8.7 Consensus size: 40
57846419 AGGTCTCGAC
*
57846429 GATG-ATCCGGGCTAAGTCCCGAAGAGCATCCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
57846468 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
57846508 GATGTACCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* **
57846548 GATGTACCCGGGCTAAGTCCCGAAGAGCATTTATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
57846588 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
57846628 GATGTATCCGGACTAAGTCCCGAAGAGTATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
57846668 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
57846708 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGT
* * *
57846748 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
57846777 ATCATGCTGG
Statistics
Matches: 279, Mismatches: 27, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
39 5 0.02
40 272 0.97
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:57847057 original size:58 final size:57
Alignment explanation
Indices: 57846988--57847096 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 57
57846978 CGAATGATTA
* * *
57846988 GAGGCACTGTGTGTGCAAATTCTTTTAATCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
57847046 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
57847097 ATCAGTGGGC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 25 0.56
58 20 0.44
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:57847303 original size:22 final size:22
Alignment explanation
Indices: 57847277--57847320 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
57847267 GACAAGTACG
*
57847277 ACGCTCTTTAAATTGACAAATC
1 ACGCTCTTTAAATCGACAAATC
57847299 ACGCTCTTTAAATCGACAAATC
1 ACGCTCTTTAAATCGACAAATC
57847321 TTAAGAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (22 bp):
ACGCTCTTTAAATCGACAAATC
Found at i:57851783 original size:48 final size:48
Alignment explanation
Indices: 57851684--57851862 Score: 139
Period size: 48 Copynumber: 3.7 Consensus size: 48
57851674 TCATATCAAC
** * *
57851684 GCCATATCCCAGATATGGTCTTACATGAAATCACCTACCGAGGCTGAT
1 GCCATATCCCAGATATGGTCTTACATGGCATCACATACCGAGGCCGAT
* * *
57851732 GCCATATCCCAGATATGGTCTTACATTGGCA-CACATATCGATGCCGGT
1 GCCATATCCCAGATATGGTCTTACA-TGGCATCACATACCGAGGCCGAT
* * * * * * **
57851780 GCCATGTCCCAAACATGGTCTTACACTGGC-T-ATCATATCAACGTTGAT
1 GCCATATCCCAGATATGGTCTTACA-TGGCATCA-CATACCGAGGCCGAT
* *
57851828 GCCATGTCCCAGACATGGTCTTACACTGGCTATCA
1 GCCATATCCCAGATATGGTCTTACA-TGGC-ATCA
57851863 TTAGTTGTGG
Statistics
Matches: 108, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
47 1 0.01
48 102 0.94
49 3 0.03
50 1 0.01
51 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTACATGGCATCACATACCGAGGCCGAT
Found at i:57851863 original size:48 final size:48
Alignment explanation
Indices: 57851726--57851863 Score: 170
Period size: 48 Copynumber: 2.9 Consensus size: 48
57851716 ACCTACCGAG
* * * * * *
57851726 GCTGATGCCATATCCCAGATATGGTCTTACATTGGC-ACACATATCGAT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATATCAAC
* * *
57851774 GCCGGTGCCATGTCCCAAACATGGTCTTACACTGGCTATCATATCAAC
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATCAAC
*
57851822 GTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT
57851864 TAGTTGTGGT
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
48 75 0.99
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATCAAC
Found at i:57859512 original size:90 final size:90
Alignment explanation
Indices: 57859359--57859525 Score: 246
Period size: 90 Copynumber: 1.9 Consensus size: 90
57859349 GATGCCAAAG
** * * * *
57859359 CCATGTCCCAGACATGGTCTTACATGGGTCTACATATCGATGCCATATCCTAGATATGGTCTTAT
1 CCATGTCCCAGACATGGTCTTACATGGACCTACACATCGATGCCATATCCCAGACATGGTCTTAC
57859424 ACAAAATCTCATGTCGGTGCCGATT
66 ACAAAATCTCATGTCGGTGCCGATT
*
57859449 CCATGTCCCAGACATGGTCTTACATGAGACCT-CACATCGATGCCATGTCCCAGACATGGTCTTA
1 CCATGTCCCAGACATGGTCTTACATG-GACCTACACATCGATGCCATATCCCAGACATGGTCTTA
*
57859513 CACGAAATCTCAT
65 CACAAAATCTCAT
57859526 ATCAACGCCA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
90 65 0.96
91 3 0.04
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (90 bp):
CCATGTCCCAGACATGGTCTTACATGGACCTACACATCGATGCCATATCCCAGACATGGTCTTAC
ACAAAATCTCATGTCGGTGCCGATT
Found at i:57859562 original size:42 final size:42
Alignment explanation
Indices: 57859449--57859568 Score: 159
Period size: 42 Copynumber: 2.9 Consensus size: 42
57859439 GGTGCCGATT
* * * * *
57859449 CCATGTCCCAGACATGGTCTTACATGAGACCTCACATCGATG
1 CCATGTCCCAGACATGGTCTTACATGAAATCTCATATCAACG
*
57859491 CCATGTCCCAGACATGGTCTTACACGAAATCTCATATCAACG
1 CCATGTCCCAGACATGGTCTTACATGAAATCTCATATCAACG
* * *
57859533 CCATATCCCAGATATGGTCTTACATGAAATCACATA
1 CCATGTCCCAGACATGGTCTTACATGAAATCTCATA
57859569 CCGATGCCGA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (42 bp):
CCATGTCCCAGACATGGTCTTACATGAAATCTCATATCAACG
Found at i:57859601 original size:132 final size:132
Alignment explanation
Indices: 57859358--57859604 Score: 325
Period size: 132 Copynumber: 1.9 Consensus size: 132
57859348 GGATGCCAAA
* ** * * *
57859358 GCCATGTCCCAGACATGGTCTTACATGGGTCTACATATCGATGCCATATCCTAGATATGGTCTTA
1 GCCATGTCCCAGACATGGTCTTACACGAATCTACATATCAACGCCATATCCCAGATATGGTCTTA
* * ** * * * *
57859423 TACAAAATCTCATGTCGGTGCCGATTCCATGTCCCAGACATGGTCTTACATGAGACCTCACATCG
66 CACAAAATCACATACCGATGCCGATGCCATATCCCAGACATAGTCTTACATGAGACCTCACATCG
57859488 AT
131 AT
57859490 GCCATGTCCCAGACATGGTCTTACACGAAATCT-CATATCAACGCCATATCCCAGATATGGTCTT
1 GCCATGTCCCAGACATGGTCTTACACG-AATCTACATATCAACGCCATATCCCAGATATGGTCTT
** *
57859554 ACATGAAATCACATACCGATGCCGATGCCATATCCCAGATATAGTCTTACA
65 ACACAAAATCACATACCGATGCCGATGCCATATCCCAGACATAGTCTTACA
57859605 CTAGCACACA
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
132 94 0.97
133 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (132 bp):
GCCATGTCCCAGACATGGTCTTACACGAATCTACATATCAACGCCATATCCCAGATATGGTCTTA
CACAAAATCACATACCGATGCCGATGCCATATCCCAGACATAGTCTTACATGAGACCTCACATCG
AT
Found at i:57859615 original size:48 final size:48
Alignment explanation
Indices: 57859532--57859701 Score: 175
Period size: 48 Copynumber: 3.5 Consensus size: 48
57859522 TCATATCAAC
* * * *
57859532 GCCATATCCCAGATATGGTCTTACA-T-GAAATCACATACCGATGCCGAT
1 GCCATATCCCAGATATGGTCTTACACTAG-CA-CACATATCAAAGCCGAT
*
57859580 GCCATATCCCAGATATAGTCTTACACTAGCACACATATCAAAGCCGAT
1 GCCATATCCCAGATATGGTCTTACACTAGCACACATATCAAAGCCGAT
* * * * * **
57859628 ACCATGTCCCAGACATGGTTTTACACTAGCTA-TCATATCAACCCCGAT
1 GCCATATCCCAGATATGGTCTTACACTAGC-ACACATATCAAAGCCGAT
*
57859676 GCCATGTCCCAGATATGGTCTTACAC
1 GCCATATCCCAGATATGGTCTTACAC
57859702 AGGCTATCAT
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
48 99 0.96
49 3 0.03
50 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTACACTAGCACACATATCAAAGCCGAT
Found at i:57866448 original size:46 final size:46
Alignment explanation
Indices: 57866301--57866448 Score: 135
Period size: 46 Copynumber: 3.2 Consensus size: 46
57866291 GTAACCCGTC
57866301 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A--T-CAT
* * * * *** *
57866350 -TTCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTC-GCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCATCAT
57866393 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAATCAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ATCAT
57866441 CCT-AGTGA
1 CCTAAGTGA
57866449 CATGTCACTT
Statistics
Matches: 77, Mismatches: 16, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
43 3 0.04
45 2 0.03
46 35 0.45
47 29 0.38
48 8 0.10
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCATCAT
Found at i:57875464 original size:17 final size:17
Alignment explanation
Indices: 57875442--57875495 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
57875432 TGACATACGA
57875442 AATTTTTAATTTTTTTT
1 AATTTTTAATTTTTTTT
* **
57875459 AATTTTTTATTTTTAAT
1 AATTTTTAATTTTTTTT
*
57875476 AGTTTTTAAATTTTTATTT
1 AATTTTT-AATTTTT-TTT
57875495 A
1 A
57875496 TTTGTTCTGT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
17 20 0.71
18 6 0.21
19 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (17 bp):
AATTTTTAATTTTTTTT
Found at i:57875471 original size:24 final size:24
Alignment explanation
Indices: 57875443--57875494 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
57875433 GACATACGAA
** *
57875443 ATTTTTAATTTTTTTTAATTTTTT
1 ATTTTTAATAGTTTTTAAATTTTT
57875467 ATTTTTAATAGTTTTTAAATTTTT
1 ATTTTTAATAGTTTTTAAATTTTT
57875491 ATTT
1 ATTT
57875495 ATTTGTTCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (24 bp):
ATTTTTAATAGTTTTTAAATTTTT
Found at i:57876737 original size:40 final size:40
Alignment explanation
Indices: 57876682--57876899 Score: 249
Period size: 40 Copynumber: 5.5 Consensus size: 40
57876672 AGTTTAAATA
* *
57876682 GGGCACGTTTGTGCATTCAGGGGTACTGAAGTACAAACAG
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
* * * * *
57876722 GGGCATGTATGTGCATTTAGGGGTACTGAA-TTCAAATAG
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
* * * ** *
57876761 GGGCACATATGTGTATTCAAGGGTACCGAAGTGTAAACAA
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
* ** *
57876801 GGGCACGCATGTGCATTCAGGGGTACAAAAGTACAAATAG
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
* *
57876841 GGGCACGTATGTACATTCAGGGGTACCGAAGTACAAACAT
1 GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
*
57876881 GGGCACGTATGTGCGTTCA
1 GGGCACGTATGTGCATTCA
57876900 TACAATAATT
Statistics
Matches: 144, Mismatches: 33, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
39 31 0.22
40 113 0.78
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (40 bp):
GGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAG
Found at i:57876869 original size:80 final size:79
Alignment explanation
Indices: 57876677--57876899 Score: 277
Period size: 80 Copynumber: 2.8 Consensus size: 79
57876667 ATCGGAGTTT
* * * * *
57876677 AAATA-GGGCACGTTTGTGCATTCAGGGGTACTGAAGTACAAACAGGGGCATGTATGTGCATTTA
1 AAATAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCATTCA
** *
57876741 GGGGTACTGAATTC
66 GGGGTACAAAATAC
* * * ** *
57876755 AAATAGGGGCACATATGTGTATTCAAGGGTACCGAAGTGTAAACAAGGGCACGCATGTGCATTCA
1 AAATAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCATTCA
57876820 GGGGTACAAAAGTAC
66 GGGGTACAAAA-TAC
* * *
57876835 AAATAGGGGCACGTATGTACATTCAGGGGTACCGAAGTACAAACATGGGCACGTATGTGCGTTCA
1 AAATAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCATTCA
57876900 TACAATAATT
Statistics
Matches: 120, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
78 5 0.04
79 57 0.47
80 58 0.48
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (79 bp):
AAATAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAACAAGGGCACGTATGTGCATTCA
GGGGTACAAAATAC
Found at i:57882420 original size:27 final size:27
Alignment explanation
Indices: 57882390--57882539 Score: 158
Period size: 27 Copynumber: 5.6 Consensus size: 27
57882380 ATATCGAGTC
* * *
57882390 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
57882417 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
** ** *
57882444 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
57882471 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* * *
57882498 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACATAATCAAAT
57882525 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57882540 GTACAATTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
27 103 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:57882502 original size:81 final size:81
Alignment explanation
Indices: 57882390--57882538 Score: 219
Period size: 81 Copynumber: 1.8 Consensus size: 81
57882380 ATATCGAGTC
*
57882390 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAG
1 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
57882455 TGCCGCATGGTCAATT
66 TGCCGCATGGTCAATT
* * ** * *
57882471 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCACACTTA
1 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTA
57882535 GTGC
65 GTGC
57882539 TGTACAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.03
81 58 0.97
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
TGCCGCATGGTCAATT
Found at i:57890572 original size:27 final size:27
Alignment explanation
Indices: 57890542--57890691 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
57890532 ATATCGAGTC
* * *
57890542 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAATT
* *
57890569 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAATT
** *
57890596 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAATT
* *
57890623 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAATT
*
57890650 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAGTC-AATT
57890677 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57890692 GTACAATTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
27 102 0.98
28 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAATT
Found at i:57890654 original size:81 final size:81
Alignment explanation
Indices: 57890542--57890690 Score: 219
Period size: 81 Copynumber: 1.8 Consensus size: 81
57890532 ATATCGAGTC
*
57890542 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAG
1 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
57890607 TGCCGCATGGTCAATT
66 TGCCGCATGGTCAATT
* * ** * *
57890623 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCACACTTA
1 CGCACACTCAGTGCTAT-ATAGTCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTA
57890687 GTGC
65 GTGC
57890691 TGTACAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.03
81 58 0.97
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
TGCCGCATGGTCAATT
Found at i:57901336 original size:43 final size:43
Alignment explanation
Indices: 57901189--57901347 Score: 191
Period size: 43 Copynumber: 3.7 Consensus size: 43
57901179 TATGTGTTAT
* *
57901189 CGTGTAAGACCACATCTGGGACGTTGGCATTGACT-TATGATTTA
1 CGTGTAAGACCACATCTGGGACGTTGGCATCGA-TATTTGA-TTA
* * *
57901233 TGTGTAAGACCACGTCTGGGACGTTGGCATC-ATATTTGATTT
1 CGTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTA
57901275 CGTGTAAGACC-CTATCTGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-ATCTGGGAC-GTTGGCATCGATATTTGATTA
* *
57901318 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACATCTGGGACGTTGGCAT
57901348 TGTATGAGCT
Statistics
Matches: 99, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 29 0.29
43 40 0.40
44 29 0.29
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTA
Found at i:57913458 original size:125 final size:125
Alignment explanation
Indices: 57913228--57913476 Score: 462
Period size: 125 Copynumber: 2.0 Consensus size: 125
57913218 GTTGAAATCA
57913228 TTCGACAACAACCGAGGTAAGTTTTCGAGTAATGGAACTTAGATTATGATTCGATTAGATCATGT
1 TTCGACAACAACCGAGGTAAGTTTTCGAGTAATGGAACTTAGATTATGATTCGATTAGATCATGT
* *
57913293 TATAAGAAAATCAAAATCATGCTCTTTGTATGTAGCTATTGAGCCGAAAATGATAATGCG
66 TATAAGAAAATCAAAATCATGCTCTTTGTATGGAGATATTGAGCCGAAAATGATAATGCG
*
57913353 TTCGACAACAACCGAGGTAAGTTTTTGAGTAATGGAACTTAGATTATGATTCGATTAGATCATGT
1 TTCGACAACAACCGAGGTAAGTTTTCGAGTAATGGAACTTAGATTATGATTCGATTAGATCATGT
*
57913418 TATAAGCAAATCAAAATCATGCTCTTTGTATGGAGATATTGAGCCGAAAATGATAATGC
66 TATAAGAAAATCAAAATCATGCTCTTTGTATGGAGATATTGAGCCGAAAATGATAATGC
57913477 TTGATAAGTG
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 120 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (125 bp):
TTCGACAACAACCGAGGTAAGTTTTCGAGTAATGGAACTTAGATTATGATTCGATTAGATCATGT
TATAAGAAAATCAAAATCATGCTCTTTGTATGGAGATATTGAGCCGAAAATGATAATGCG
Found at i:57913599 original size:60 final size:60
Alignment explanation
Indices: 57913525--57913645 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
57913515 TGAAATATAA
*
57913525 ATGTGCCATGATTTATTGATATGTACATGAATATTCGGATGATAACCGGGCTAAGTCCCG
1 ATGTGCCATAATTTATTGATATGTACATGAATATTCGGATGATAACCGGGCTAAGTCCCG
* *
57913585 ATGTGTCATAATTTATTGATATGTGCATGAATATTCGGATGATAACCGGGCTAAGTCCCG
1 ATGTGCCATAATTTATTGATATGTACATGAATATTCGGATGATAACCGGGCTAAGTCCCG
57913645 A
1 A
57913646 AGGCATTTGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (60 bp):
ATGTGCCATAATTTATTGATATGTACATGAATATTCGGATGATAACCGGGCTAAGTCCCG
Found at i:57913681 original size:40 final size:40
Alignment explanation
Indices: 57913626--57913807 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
57913616 TATTCGGATG
57913626 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
57913666 ATAACCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
57913706 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
57913746 ATAACTGGGTTAAATCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
57913786 ATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
57913808 TACTTGGTTT
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.12
40 113 0.88
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:57922679 original size:16 final size:16
Alignment explanation
Indices: 57922658--57922693 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
57922648 CTTTTATAAT
*
57922658 AAAATGCCATGTAGTC
1 AAAATGCCATGTAGCC
57922674 AAAATGCCATGTAGCC
1 AAAATGCCATGTAGCC
57922690 AAAA
1 AAAA
57922694 CAAAACACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.19
Consensus pattern (16 bp):
AAAATGCCATGTAGCC
Found at i:57923390 original size:113 final size:113
Alignment explanation
Indices: 57923262--57923485 Score: 394
Period size: 113 Copynumber: 2.0 Consensus size: 113
57923252 GTCGCCAAAC
* *
57923262 TGTTGACACCATTTTTTTATAAAACGGGGTCGACTTAGATTTTGAAAATAAAACGAAAATGGGGG
1 TGTTGACACCATTTTTTTATAAAACGGGATCGACTTAGATTTTGAAAATAAAACGAAAATGGGAG
*
57923327 TCGCCACCAATCTTTTTTACTTAGGTGTGATCAGATCACCTTATAAAG
66 TCACCACCAATCTTTTTTACTTAGGTGTGATCAGATCACCTTATAAAG
* *
57923375 TGTTGACACTATTTTTTTATAAAACGGGATCGACTTGGATTTTGAAAATAAAACGAAAATGGGAG
1 TGTTGACACCATTTTTTTATAAAACGGGATCGACTTAGATTTTGAAAATAAAACGAAAATGGGAG
*
57923440 TCACCACCAATCTTTTTTACTTAGGTGTGATCGGATCACCTTATAA
66 TCACCACCAATCTTTTTTACTTAGGTGTGATCAGATCACCTTATAA
57923486 TTAAATCATT
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 105 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (113 bp):
TGTTGACACCATTTTTTTATAAAACGGGATCGACTTAGATTTTGAAAATAAAACGAAAATGGGAG
TCACCACCAATCTTTTTTACTTAGGTGTGATCAGATCACCTTATAAAG
Found at i:57924353 original size:24 final size:23
Alignment explanation
Indices: 57924309--57924353 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
57924299 TAATGATGAA
*
57924309 AACGTGAAAAAATAATTAAAAGG
1 AACGTGAAAAAATAATAAAAAGG
*
57924332 AACGTGAACAAAATTATAAAAA
1 AACGTGAA-AAAATAATAAAAA
57924354 TACAAGAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.62, C:0.07, G:0.13, T:0.18
Consensus pattern (23 bp):
AACGTGAAAAAATAATAAAAAGG
Done.