Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 178 of 325
Found at i:54821339 original size:32 final size:32
Alignment explanation
Indices: 54821242--54821339 Score: 100
Period size: 32 Copynumber: 3.2 Consensus size: 32
54821232 CAAGTCATTT
54821242 AACATAACTTCAAGCTTCATATTATACCATAA
1 AACATAACTTCAAGCTTCATATTATACCATAA
** *
54821274 AACATCAAAAT-AA-C--CATATT-TCACC-TATT
1 AACAT-AACTTCAAGCTTCATATTAT-ACCATA-A
54821303 AACATAACTTCAAGCTTCATATTATACCATAA
1 AACATAACTTCAAGCTTCATATTATACCATAA
54821335 AACAT
1 AACAT
54821340 CAAAATAACC
Statistics
Matches: 51, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
28 6 0.12
29 16 0.31
30 1 0.02
31 1 0.02
32 21 0.41
33 6 0.12
ACGTcount: A:0.45, C:0.22, G:0.02, T:0.31
Consensus pattern (32 bp):
AACATAACTTCAAGCTTCATATTATACCATAA
Found at i:54822951 original size:19 final size:19
Alignment explanation
Indices: 54822927--54822965 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
54822917 TACGTTAGTT
54822927 TATTTTATAAAGTGGTACA
1 TATTTTATAAAGTGGTACA
54822946 TATTTTATAAAGTGGTACA
1 TATTTTATAAAGTGGTACA
54822965 T
1 T
54822966 TGAAAGTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
TATTTTATAAAGTGGTACA
Found at i:54824292 original size:27 final size:27
Alignment explanation
Indices: 54824277--54824348 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
54824267 AACCTACAGA
*
54824277 GGTATTTTGGTAATTTTACACTATAAG
1 GGTATTTTGGTAATTTTACACTACAAG
****
54824304 GGTATTTCAACAATTTTACACTACAAG
1 GGTATTTTGGTAATTTTACACTACAAG
54824331 GGTATTTTGGTAATTTTA
1 GGTATTTTGGTAATTTTA
54824349 AAAACTGGGG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.43
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACACTACAAG
Found at i:54825749 original size:46 final size:46
Alignment explanation
Indices: 54825680--54825851 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
54825670 GTAACCCGCC
* *
54825680 CCTAAGTGAACTCCGACTCAACTCAACGAGCTCAG-GCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCAGAGCGTTCGCAT
*
54825725 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCAGA-G-C--GTTCGCAT
* * *
54825775 -CTCA-TGAACTCGGACTCAACTCAACGAGTTC-GAACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCAGAGCGTTCGCAT
54825818 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTC
54825852 GGATGCTCAA
Statistics
Matches: 109, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 4 0.04
46 60 0.55
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCAGAGCGTTCGCAT
Found at i:54825799 original size:93 final size:93
Alignment explanation
Indices: 54825686--54825857 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
54825676 CGCCCCTAAG
* *
54825686 TGAACTCCGACTCAACTCAACGAGCTC-AGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 TGAACTCCGACTCAACTCAACGAGCTCGA-ACATTCGCATCCATAAGTGAACTCGGACTCAACTC
54825750 AACGAGTTCAGATGCCTAGTTACATCTCA
65 AACGAGTTCAGATGCCTAGTTACATCTCA
* * *
54825779 TGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTCA
1 TGAACTCCGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
54825844 ACGAGTTCGGATGC
66 ACGAGTTCAGATGC
54825858 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
TGAACTCCGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:54825873 original size:46 final size:46
Alignment explanation
Indices: 54825680--54825873 Score: 159
Period size: 46 Copynumber: 4.2 Consensus size: 46
54825670 GTAACCCGCC
* * * * *
54825680 CCTAAGTGAACTCCGACTCAACTCAACGAGCTCAGG-CGTTC-GCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATGCTCAACAT
*
54825725 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGC-CTAGTTACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACAT
* * *** *
54825775 -CTCA-TGAACTCGGACTCAACTCAACGAGTTCGAACATTC-GCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
54825818 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAA-CAT
54825866 CCT-AGTGA
1 CCTAAGTGA
54825874 CATGTCACTT
Statistics
Matches: 117, Mismatches: 19, Indels: 25
0.73 0.12 0.16
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 6 0.05
46 66 0.56
47 29 0.25
48 8 0.07
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACAT
Found at i:54827239 original size:27 final size:27
Alignment explanation
Indices: 54827145--54827239 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
54827135 ATATTACACG
*
54827145 GTAATTTTA-AAATTTGAGGGTATTTCA
1 GTAATTTTACAAA-TTAAGGGTATTTCA
* ** * **
54827172 ATAATTTTACAAACCAGGGGTATTTTT
1 GTAATTTTACAAATTAAGGGTATTTCA
*
54827199 GTAATTTTACAAATTAAGGATATTTCA
1 GTAATTTTACAAATTAAGGGTATTTCA
54827226 GTAATTTTACAAAT
1 GTAATTTTACAAAT
54827240 CGGGGTTTTA
Statistics
Matches: 53, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
27 50 0.94
28 3 0.06
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (27 bp):
GTAATTTTACAAATTAAGGGTATTTCA
Found at i:54833827 original size:55 final size:55
Alignment explanation
Indices: 54833672--54833878 Score: 206
Period size: 53 Copynumber: 3.8 Consensus size: 55
54833662 TTCCTTTTTA
* * * *
54833672 AACTTACTAATGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCGTTAT-G-
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGT
* * * * *
54833725 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGT
** * * * * *
54833780 AGTTTATCAATGCCATGTCTTGACATGGTCTTATC-TGATTTCCTTGCCTTGTA-T
1 AACTTACCAATGCCATGCCTTGACATGGTCTTA-CATGGTATCCTTGCCTTATAGT
* * *
54833834 AACTTACCAATTCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
54833879 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 29, Indels: 7
0.77 0.18 0.04
Matches are distributed among these distances:
53 44 0.36
54 37 0.31
55 39 0.32
56 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (55 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGT
Found at i:54835856 original size:39 final size:40
Alignment explanation
Indices: 54835755--54835957 Score: 238
Period size: 39 Copynumber: 5.1 Consensus size: 40
54835745 TCGAATGATG
* *
54835755 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
54835795 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
54835834 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
54835874 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
54835913 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
54835953 TCCGG
1 TCCGG
54835958 TTAAACTCCG
Statistics
Matches: 142, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
39 71 0.50
40 63 0.44
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:54835956 original size:79 final size:79
Alignment explanation
Indices: 54835756--54835971 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 79
54835746 CGAATGATGT
* ** *
54835756 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGGGTTAAG-CCCGAAGGCATT
*
54835819 TGTGCGAGTTACTAATT
63 TGTGCGAGTTACTAATA
* *
54835836 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCCGGGTTAAGCCCGAAGGCATTTG
54835899 TGCGAGTTACT-ATAA
65 TGCGAGTTACTAAT-A
* ** *
54835914 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAAACTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGGTTAAGC-CCGAAGG
54835972 TACGTGATTC
Statistics
Matches: 116, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
77 2 0.02
78 42 0.36
79 55 0.47
80 17 0.15
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGGTTAAGCCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:54847242 original size:39 final size:41
Alignment explanation
Indices: 54847141--54847325 Score: 215
Period size: 39 Copynumber: 4.7 Consensus size: 41
54847131 TCGAATGATG
* *
54847141 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAATA
*
54847181 TCCGGACTAAGAT-CCGAAGGCATTTGTGCAAGTTACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAATA
* * *
54847221 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATA
*
54847260 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATA
* *
54847299 ACCGGGCTATGTCCCGAAGGCATTTGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGT
54847326 ACGAGTAGCT
Statistics
Matches: 127, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
38 1 0.01
39 67 0.53
40 48 0.38
41 11 0.09
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAATA
Found at i:54847342 original size:79 final size:80
Alignment explanation
Indices: 54847142--54847343 Score: 236
Period size: 79 Copynumber: 2.5 Consensus size: 80
54847132 CGAATGATGT
* * *
54847142 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GATTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGGACTAAGACCCGAAGGCATT
*
54847205 TGTGCAAGTTACTAATT
64 TGTGCAAGTTACTAATA
* * *
54847222 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTCA-CTAAATCCGGGCTAAG-CCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-AGCTATATCCGGACTAAGACCCGAAGGCATTT
*
54847284 GTGCGAGTTACT-ATAA
65 GTGCAAGTTACTAAT-A
* *
54847300 CCGGGCTATGTCCCGAAGGCATTTGTACGAGTAGCTATATCCGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGG
54847344 TTAAACTCCG
Statistics
Matches: 104, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
77 2 0.02
78 33 0.32
79 53 0.51
80 16 0.15
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGACTAAGACCCGAAGGCATTTG
TGCAAGTTACTAATA
Found at i:54849168 original size:28 final size:28
Alignment explanation
Indices: 54849099--54849199 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
54849089 GACAAGATTG
* * * *
54849099 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
54849129 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
54849157 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
54849186 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
54849200 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:54857115 original size:28 final size:28
Alignment explanation
Indices: 54857046--54857146 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
54857036 GACAAGATTG
* * * *
54857046 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
54857076 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
54857104 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
54857133 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
54857147 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:54863428 original size:25 final size:28
Alignment explanation
Indices: 54863377--54863431 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 28
54863367 TTATCGCTAT
* *
54863377 TATGTGTTGAATGATTGATTTTTAATAA
1 TATGTGTTGAATGATTGATTATGAATAA
54863405 TATG-GTTGAAT-A-TGATTATGAATAA
1 TATGTGTTGAATGATTGATTATGAATAA
54863430 TA
1 TA
54863432 CATGATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 13 0.52
26 1 0.04
27 7 0.28
28 4 0.16
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (28 bp):
TATGTGTTGAATGATTGATTATGAATAA
Found at i:54866746 original size:29 final size:29
Alignment explanation
Indices: 54866704--54866776 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
54866694 GGCCCGATCT
* *
54866704 CATTTATATGGCCCATCAGGCCTAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* * *
54866733 CATTCATATTGCCCATCATGCCCAATTTA
1 CATTCATATGGCCCATCAGGCCCAATTCA
*
54866762 GATTCATATGGCCCA
1 CATTCATATGGCCCA
54866777 CATCACATGC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAATTCA
Found at i:54867020 original size:8 final size:8
Alignment explanation
Indices: 54867007--54867045 Score: 78
Period size: 8 Copynumber: 4.9 Consensus size: 8
54866997 ACTTTTAGCT
54867007 TTTCGGCA
1 TTTCGGCA
54867015 TTTCGGCA
1 TTTCGGCA
54867023 TTTCGGCA
1 TTTCGGCA
54867031 TTTCGGCA
1 TTTCGGCA
54867039 TTTCGGC
1 TTTCGGC
54867046 TTTTGCCGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.10, C:0.26, G:0.26, T:0.38
Consensus pattern (8 bp):
TTTCGGCA
Found at i:54875470 original size:40 final size:40
Alignment explanation
Indices: 54875425--54875591 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
54875415 CGGAATATAA
*
54875425 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
54875465 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
54875505 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
54875545 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
54875584 CCGGATAT
1 CCGGATAT
54875592 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54877397 original size:29 final size:29
Alignment explanation
Indices: 54877322--54877403 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 29
54877312 GGCCCACTTG
* * **
54877322 GCCCAA-TCTTATTTATATGGCCCATCCG
1 GCCCAATTCATATTCATATGGCCCATCAA
* *
54877350 GCCTAATTCACA-TCTATATGGCCCATCAA
1 GCCCAATTCATATTC-ATATGGCCCATCAA
*
54877379 GCCCAATTCATATTCATATGACCCA
1 GCCCAATTCATATTCATATGGCCCA
54877404 CATCACATGC
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
28 6 0.14
29 34 0.81
30 2 0.05
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (29 bp):
GCCCAATTCATATTCATATGGCCCATCAA
Found at i:54879729 original size:28 final size:28
Alignment explanation
Indices: 54879685--54879777 Score: 127
Period size: 28 Copynumber: 3.3 Consensus size: 28
54879675 ACACACATGC
54879685 ATATGGCCCA-CTAGGCCCAATCTCATTT
1 ATATGGCCCATCT-GGCCCAATCTCATTT
*
54879713 ATATGGCCCATCTGGCCCAAT-TCACGTTC
1 ATATGGCCCATCTGGCCCAATCTCA--TTT
*
54879742 ATATGGCCCATCAGGCCCAATCTCATTT
1 ATATGGCCCATCTGGCCCAATCTCATTT
54879770 ATATGGCC
1 ATATGGCC
54879778 TATCGAGCCC
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
27 3 0.05
28 28 0.48
29 24 0.41
30 3 0.05
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (28 bp):
ATATGGCCCATCTGGCCCAATCTCATTT
Found at i:54879787 original size:28 final size:28
Alignment explanation
Indices: 54879685--54879788 Score: 108
Period size: 28 Copynumber: 3.7 Consensus size: 28
54879675 ACACACATGC
*
54879685 ATATGGCCCA-CTAGGCCCAATCTCATTT
1 ATATGGCCCATCGA-GCCCAATCTCATTT
*
54879713 ATATGGCCCATCTG-GCCCAAT-TCACGTTC
1 ATATGGCCCATC-GAGCCCAATCTCA--TTT
54879742 ATATGGCCCATC-AGGCCCAATCTCATTT
1 ATATGGCCCATCGA-GCCCAATCTCATTT
*
54879770 ATATGGCCTATCGAGCCCA
1 ATATGGCCCATCGAGCCCA
54879789 TTTAGCCCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
27 3 0.05
28 35 0.55
29 23 0.36
30 3 0.05
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (28 bp):
ATATGGCCCATCGAGCCCAATCTCATTT
Found at i:54883541 original size:48 final size:47
Alignment explanation
Indices: 54883483--54883689 Score: 211
Period size: 48 Copynumber: 4.3 Consensus size: 47
54883473 GATATGTGCG
**
54883483 AGTGTAAGACCATGTTTGGGTCATGGCATCGGCCATGATATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCAT-ATATGAGAGCC
* * * *
54883531 AGTGTAAGACCATGTTTGGAAGATGGCATCGGCAATATTGTGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCATA-TATGAGAGCC
* * **
54883579 AGTGTAAGACCATGTTTGGAACATGGCATCGG-CATTGAGACGAGAGGT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCA-T-ATATGAGAGCC
* * * * *
54883627 AGTGTAAGACCATGTTTGGGACATGCCATTGGCTTCA-ACATGTGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGC--CATATATGAGAGCC
54883675 AGTGTAAGACCATGT
1 AGTGTAAGACCATGT
54883690 CTCAGACATG
Statistics
Matches: 133, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
47 2 0.02
48 128 0.96
49 1 0.01
51 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGCCATATATGAGAGCC
Found at i:54883679 original size:96 final size:95
Alignment explanation
Indices: 54883483--54883689 Score: 240
Period size: 96 Copynumber: 2.2 Consensus size: 95
54883473 GATATGTGCG
** * *
54883483 AGTGTAAGACCATGTTTGGGTCATGGCATCGGCCATGATATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCATGAGACGAGAGCCAGTGTAAGACCATGTTT
* * * *
54883548 GGAAGATGGCATCGGCAATATTGTGAGAGCT
66 GGAACATGCCATCGGCAACATTGT-AGAGCC
**
54883579 AGTGTAAGACCATGTTTGGAACATGGCATCGG-CATTGAGACGAGAGGTAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCA-TGAGACGAGAGCCAGTGTAAGACCATGTT
* *
54883643 TGGGACATGCCATTGGCTTCAACA-TGT-GAGCC
65 TGGAACATGCCATCGG---CAACATTGTAGAGCC
54883675 AGTGTAAGACCATGT
1 AGTGTAAGACCATGT
54883690 CTCAGACATG
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
95 2 0.02
96 86 0.91
98 3 0.03
99 4 0.04
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (95 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGCCATGAGACGAGAGCCAGTGTAAGACCATGTTT
GGAACATGCCATCGGCAACATTGTAGAGCC
Found at i:54886881 original size:40 final size:40
Alignment explanation
Indices: 54886815--54886981 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
54886805 AAATTGAATG
* * *
54886815 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
54886854 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
54886894 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
54886934 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
54886974 ATATCCGG
1 ATATCCGG
54886982 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:54894183 original size:40 final size:40
Alignment explanation
Indices: 54894018--54894185 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
54894008 AAATTGAATG
* * * * **
54894018 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGATT
* * * **
54894058 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* *
54894098 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* *
54894138 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGATT
54894178 ATATCCGG
1 ATATCCGG
54894186 TTATATTCCG
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 104 0.99
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:54897274 original size:50 final size:49
Alignment explanation
Indices: 54897143--54897340 Score: 222
Period size: 49 Copynumber: 4.0 Consensus size: 49
54897133 AATGATCTAT
* * * *
54897143 TGTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACGAAAA
1 TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-AAGA
* **
54897193 CTGTGA--TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA
1 -TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAGA
* *
54897241 TGGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
1 T-GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAGA
* * * *
54897291 T-TGTTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
1 TGTG-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAGA
54897340 T
1 T
54897341 AACTTCGGCT
Statistics
Matches: 130, Mismatches: 13, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
47 1 0.01
48 8 0.06
49 75 0.58
50 41 0.32
51 5 0.04
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (49 bp):
TGTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAAGA
Found at i:54897315 original size:99 final size:99
Alignment explanation
Indices: 54897144--54897330 Score: 268
Period size: 99 Copynumber: 1.9 Consensus size: 99
54897134 ATGATCTATT
* * *
54897144 GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACGAAAACTGTGATCACGTGTGT
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACGAAAACTGTGATCACATGTGT
54897209 AGTACTAAGTGCAGGCTACTACGTGTATTAGATG
66 AGTACTAAGTGCAGGCTACTACGTGTATTAGATG
* * * * * * *
54897243 GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTGTTGGTCGCATGTG
1 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACGAAAACTG-TGATCACATGTG
54897307 TAGTACTAAGTGCAGGCTACTACG
65 TAGTACTAAGTGCAGGCTACTACG
54897331 CGTACCAGAT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
98 4 0.05
99 73 0.95
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (99 bp):
GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACGAAAACTGTGATCACATGTGT
AGTACTAAGTGCAGGCTACTACGTGTATTAGATG
Found at i:54899408 original size:16 final size:17
Alignment explanation
Indices: 54899387--54899419 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
54899377 GTTTACAGTA
54899387 CAAACA-AACAAAATTT
1 CAAACATAACAAAATTT
*
54899403 CAAACATATCAAAATTT
1 CAAACATAACAAAATTT
54899420 GTATAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (17 bp):
CAAACATAACAAAATTT
Found at i:54901727 original size:21 final size:20
Alignment explanation
Indices: 54901689--54901728 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
54901679 TACATGTGTG
54901689 TTTTGATGATTTATGATAGA
1 TTTTGATGATTTATGATAGA
54901709 TTTTGAATG-TTTGATGATAG
1 TTTTG-ATGATTT-ATGATAG
54901729 TTGTACAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.50
Consensus pattern (20 bp):
TTTTGATGATTTATGATAGA
Found at i:54906940 original size:46 final size:47
Alignment explanation
Indices: 54906889--54907065 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 47
54906879 ATGGTTGAGC
54906889 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
54906936 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
54906981 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
54907029 AT-C-AAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 ATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54907066 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 59 0.55
47 30 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54907046 original size:93 final size:93
Alignment explanation
Indices: 54906887--54907058 Score: 285
Period size: 93 Copynumber: 1.8 Consensus size: 93
54906877 GGATGGTTGA
* *
54906887 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
54906952 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
54906980 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGAT-C-AAGCTCATTGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-TCCGAA-CTCATTGA
54907043 GTTGAGTCCGAGTTCG
64 GTTGAGTCCGAGTTCG
54907059 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
92 2 0.03
93 71 0.96
94 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:54919236 original size:23 final size:23
Alignment explanation
Indices: 54919103--54919273 Score: 243
Period size: 25 Copynumber: 7.1 Consensus size: 23
54919093 CCTAGCCTCT
* *
54919103 TTTAGTAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
54919126 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
54919150 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
*
54919175 TTCATCATAACTGGGGCATAAGCCC
1 TT--TAATAACTGGGGCATAAGCCC
54919200 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
54919225 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
54919248 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
54919271 TTT
1 TTT
54919274 TGCACTTCCT
Statistics
Matches: 135, Mismatches: 6, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
23 49 0.36
24 20 0.15
25 65 0.48
27 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:54919350 original size:20 final size:20
Alignment explanation
Indices: 54919325--54919430 Score: 194
Period size: 20 Copynumber: 5.3 Consensus size: 20
54919315 TATGAACACC
54919325 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
54919345 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
54919365 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
54919385 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
54919405 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
54919425 TCATGT
1 TCATGT
54919431 TTATCAAAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:54919495 original size:25 final size:25
Alignment explanation
Indices: 54919467--54919514 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
54919457 ATATATAAAC
* * *
54919467 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
54919492 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
54919515 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:54922515 original size:24 final size:24
Alignment explanation
Indices: 54922223--54922513 Score: 528
Period size: 24 Copynumber: 12.1 Consensus size: 24
54922213 GCAAAGACCA
54922223 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
54922247 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
54922271 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
54922295 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
54922319 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
54922343 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
54922367 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
54922391 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
54922415 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
54922439 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
54922463 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
54922487 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
54922511 TAT
1 TAT
54922514 AGTCACATTC
Statistics
Matches: 261, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 261 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:54923955 original size:27 final size:26
Alignment explanation
Indices: 54923925--54924026 Score: 71
Period size: 27 Copynumber: 3.8 Consensus size: 26
54923915 AGGCATATTC
*
54923925 GTCATTTTACCATAGAGGGGTATTACA
1 GTCATTTTACC-TACAGGGGTATTACA
* *
54923952 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACA
* * **
54923979 GTCTTTTTACCTAATAGGGGTATTTTA
1 GTCATTTTACCT-ACAGGGGTATTACA
* *
54924006 GTCATTTCATCCTACAAGGGT
1 GTCATTTTA-CCTACAGGGGT
54924027 GTTTTGGTAA
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
26 4 0.07
27 47 0.82
28 6 0.11
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACA
Found at i:54924073 original size:27 final size:27
Alignment explanation
Indices: 54924040--54924325 Score: 177
Period size: 27 Copynumber: 10.6 Consensus size: 27
54924030 TTGGTAAATC
*
54924040 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** * *
54924067 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAATCAAGGGTATTTC-AGTAA-TTT
* * *
54924095 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-TCAAGGGTATTTCAGTAATTT
** * **
54924123 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** *
54924150 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * **
54924177 CACAAA-CCAGTGGTATTTTGGTAATTT
1 TACAAATCAAG-GGTATTTCAGTAATTT
* **
54924204 TACAAA-CTAGGGGTATTTTGGTAATTT
1 TACAAATC-AAGGGTATTTCAGTAATTT
** *
54924231 TACAAATTGAGGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * *
54924258 TACAAACCAAGGGTATTTTAGCAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* *
54924285 TACAGA-CTAGGGTA-TTCTAGTAATTT
1 TACAAATCAAGGGTATTTC-AGTAATTT
** *
54924311 TGTAAATCGAGGGTA
1 TACAAATCAAGGGTA
54924326 AAATAGTAAT
Statistics
Matches: 203, Mismatches: 47, Indels: 18
0.76 0.18 0.07
Matches are distributed among these distances:
25 2 0.01
26 19 0.09
27 153 0.75
28 15 0.07
29 14 0.07
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCAGTAATTT
Found at i:54924226 original size:81 final size:81
Alignment explanation
Indices: 54924131--54924325 Score: 277
Period size: 81 Copynumber: 2.4 Consensus size: 81
54924121 TTTGTAAATC
54924131 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAG-GGTATTT
* *
54924195 TGGTAATTTTACAAACT
65 TAGCAATTTTACAAACT
* *
54924212 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
*
54924277 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
* * ** *
54924293 A-GGGTATTCTAGTAATTTTGTAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
54924326 AAATAGTAAT
Statistics
Matches: 103, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
80 27 0.26
81 74 0.72
82 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:54924276 original size:54 final size:54
Alignment explanation
Indices: 54924022--54924311 Score: 200
Period size: 54 Copynumber: 5.4 Consensus size: 54
54924012 TCATCCTACA
* * * * ** *
54924022 AGGGTGTTT-TGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACC
1 AGGGTATTTCTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATC
* * * * * **
54924075 AATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTAAATC
1 -AGGGTATTTCTGGTAA-TTTTACAAA-CCAAGGGTATTT-TAGTAATTTTACAAATC
*** ** * *
54924131 AGGGGTATTT-TGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC
1 A-GGGTATTTCTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATC
* * * *
54924185 AGTGGTATTT-TGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTG
1 AG-GGTATTTCTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAA-TC
* *
54924240 AGGGTATTTCT-GTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGA-C
1 AGGGTATTTCTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATC
*
54924292 TAGGGTA-TTCTAGTAATTTT
1 -AGGGTATTTCTGGTAATTTT
54924312 GTAAATCGAG
Statistics
Matches: 190, Mismatches: 34, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
52 4 0.02
53 15 0.08
54 117 0.62
55 20 0.11
56 34 0.18
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATC
Found at i:54924435 original size:38 final size:38
Alignment explanation
Indices: 54924393--54924474 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 38
54924383 CGGTACTTCT
* * *
54924393 GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
* * *
54924431 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
54924469 GTAAAA
1 GTAAAA
54924475 TGGTAATTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.38, C:0.07, G:0.32, T:0.23
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGAGG
Found at i:54924438 original size:27 final size:27
Alignment explanation
Indices: 54924304--54924439 Score: 182
Period size: 27 Copynumber: 5.0 Consensus size: 27
54924294 GGGTATTCTA
* **
54924304 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
54924331 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
54924358 GTAATTCTATGAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
54924385 GTACTTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
54924412 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
54924439 G
1 G
54924440 GGGTAAAATG
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.27
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:54924461 original size:65 final size:65
Alignment explanation
Indices: 54924375--54924498 Score: 185
Period size: 65 Copynumber: 1.9 Consensus size: 65
54924365 TATGAATCAA
* * *
54924375 GGGTAAAACGGTACTTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGG
1 GGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGG
* * * *
54924440 GGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCGGGGGTA
1 GGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
54924499 CTTTGGTAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 52 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (65 bp):
GGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGG
Found at i:54924509 original size:27 final size:27
Alignment explanation
Indices: 54924431--54924498 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
54924421 TAAGTCGAGG
*
54924431 GTAAAACGGGGGTAAAATGGTAATTAT
1 GTAAATCGGGGGTAAAATGGTAATTAT
*
54924458 GTAAATCGGGGGTAAAATGGTAATTCT
1 GTAAATCGGGGGTAAAATGGTAATTAT
54924485 GTAAATCGGGGGTA
1 GTAAATCGGGGGTA
54924499 CTTTGGTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.35, C:0.06, G:0.32, T:0.26
Consensus pattern (27 bp):
GTAAATCGGGGGTAAAATGGTAATTAT
Found at i:54924525 original size:27 final size:27
Alignment explanation
Indices: 54924495--54924593 Score: 92
Period size: 27 Copynumber: 3.7 Consensus size: 27
54924485 GTAAATCGGG
** *
54924495 GGTACTTTGGTAATTTTACAAGTCGAA
1 GGTACTTCAGTAATTTTACAAATCGAA
*
54924522 GGTACTTCAGTAATTTTACAAATCGAG
1 GGTACTTCAGTAATTTTACAAATCGAA
* * * *
54924549 GGTATTTCAATATTTTTACAAA-CTAA
1 GGTACTTCAGTAATTTTACAAATCGAA
* *
54924575 GCGTATTTCGGTAATTTTA
1 G-GTACTTCAGTAATTTTA
54924594 GTAAACTAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 3 0.05
27 56 0.95
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (27 bp):
GGTACTTCAGTAATTTTACAAATCGAA
Found at i:54927353 original size:28 final size:27
Alignment explanation
Indices: 54927269--54927377 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
54927259 CGAAGCGTTT
* *
54927269 TGGTGGCTCTGCCATAAATATCTGTTC
1 TGGTGGCTCTGCCACAATTATCTGTTC
** *
54927296 CAGTGGCTCTGCCACAAATT-TTTGTTTC
1 TGGTGGCTCTGCCAC-AATTATCTG-TTC
*
54927324 TGGTGGCCCTGCCACAATTATCTGTATC
1 TGGTGGCTCTGCCACAATTATCTGT-TC
* *
54927352 TGGTGACTCTGTCACAA-TATCT-TTC
1 TGGTGGCTCTGCCACAATTATCTGTTC
54927377 T
1 T
54927378 AGCAGCCATG
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 25 0.38
28 37 0.56
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGTTC
Found at i:54931581 original size:28 final size:27
Alignment explanation
Indices: 54931508--54931623 Score: 155
Period size: 27 Copynumber: 4.3 Consensus size: 27
54931498 TGGAGGAAGC
54931508 GTTCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
*
54931535 GTTCTGGTGGCTCTACCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCT
*
54931562 GTTTCTGGTGGGC-CTGCCACAATTATCT
1 G-TTCTGGT-GGCTCTGCCACAAATATCT
* *
54931590 GTATCTGGTGACTCTGTCAC-AATATCT
1 GT-TCTGGTGGCTCTGCCACAAATATCT
54931617 GTTCTGG
1 GTTCTGG
54931624 CAGCCATGCT
Statistics
Matches: 79, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
26 5 0.06
27 38 0.48
28 33 0.42
29 3 0.04
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAAATATCT
Found at i:54931614 original size:55 final size:54
Alignment explanation
Indices: 54931508--54931623 Score: 155
Period size: 55 Copynumber: 2.1 Consensus size: 54
54931498 TGGAGGAAGC
*
54931508 GTTCTGGTGGCTCTGCCACAAATATCTGTTCTGGTGGCTCTACCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTGTTCTGGTGACTCTACCACAAATATCT
* **
54931562 GTTTCTGGTGGGC-CTGCCACAATTATCTGTATCTGGTGACTCTGTCAC-AATATCT
1 G-TTCTGGT-GGCTCTGCCACAAATATCTGT-TCTGGTGACTCTACCACAAATATCT
54931617 GTTCTGG
1 GTTCTGG
54931624 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
54 7 0.13
55 31 0.56
56 17 0.31
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
GTTCTGGTGGCTCTGCCACAAATATCTGTTCTGGTGACTCTACCACAAATATCT
Found at i:54932792 original size:25 final size:25
Alignment explanation
Indices: 54932762--54932811 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
54932752 TCACATAAGA
54932762 ATGCTTTTTTCTTTTCATGAACTTT
1 ATGCTTTTTTCTTTTCATGAACTTT
54932787 ATGCTTTTTTCTTTTCATGAACTTT
1 ATGCTTTTTTCTTTTCATGAACTTT
54932812 TTCTACTCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.60
Consensus pattern (25 bp):
ATGCTTTTTTCTTTTCATGAACTTT
Found at i:54940228 original size:34 final size:34
Alignment explanation
Indices: 54940185--54940253 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
54940175 TATAGCTTAA
54940185 GTAAATGTGTTAAATTGCTTGGATTGATTCATAT
1 GTAAATGTGTTAAATTGCTTGGATTGATTCATAT
54940219 GTAAATGTGTTAAATTGCTTGGATTGATTCATAT
1 GTAAATGTGTTAAATTGCTTGGATTGATTCATAT
54940253 G
1 G
54940254 ATTGTAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (34 bp):
GTAAATGTGTTAAATTGCTTGGATTGATTCATAT
Found at i:54944466 original size:3 final size:3
Alignment explanation
Indices: 54944452--54944483 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
54944442 TGCTTGGATG
*
54944452 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
54944484 TCGTAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:54948174 original size:28 final size:27
Alignment explanation
Indices: 54948111--54948180 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
54948101 ATAGTGAGTC
*
54948111 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
54948138 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
54948166 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54948181 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:54951461 original size:28 final size:28
Alignment explanation
Indices: 54951430--54951500 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
54951420 CTCAATAATG
* *
54951430 TCGCACACTCAGTGTCAATATAATC-AAC
1 TCGCACACTTAGTG-CAACATAATCAAAC
* *
54951458 TCGCACACTTAGTGCTACATGATCAAAC
1 TCGCACACTTAGTGCAACATAATCAAAC
54951486 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
54951501 TGTACAAGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 7 0.18
28 31 0.82
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (28 bp):
TCGCACACTTAGTGCAACATAATCAAAC
Found at i:54958303 original size:40 final size:40
Alignment explanation
Indices: 54958258--54958424 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
54958248 CGGAATATAA
54958258 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
54958298 CCGGATAGAAT-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
54958337 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
54958377 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
54958417 CCGGATAT
1 CCGGATAT
54958425 CATTCAATTT
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.31
40 73 0.68
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54958322 original size:39 final size:39
Alignment explanation
Indices: 54958274--54958383 Score: 141
Period size: 39 Copynumber: 2.8 Consensus size: 39
54958264 ATAATCACGT
* *
54958274 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGA-ATACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAGACACTA
* *
54958313 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAGACACTA
*
54958353 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
54958384 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 33 0.52
40 30 0.48
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAGACACTA
Found at i:54966274 original size:40 final size:40
Alignment explanation
Indices: 54966229--54966395 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
54966219 CGGAATATAA
54966229 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
54966269 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
54966309 CCGGATATAGCCACTAGCACAATTGCCTTCGGGT-TTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
54966348 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
54966388 CCGGATAT
1 CCGGATAT
54966396 CATTCAATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 31 0.30
40 74 0.70
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54971620 original size:16 final size:16
Alignment explanation
Indices: 54971573--54971620 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
54971563 CGTTGTAGCT
* *
54971573 AACCATGCATGAATCC
1 AACCATGCATGCACCC
54971589 -ACCTATGCATTGCACCC
1 AACC-ATGCA-TGCACCC
54971606 AACCATGCATGCACC
1 AACCATGCATGCACC
54971621 TTGCATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 3 0.11
16 11 0.41
17 10 0.37
18 3 0.11
ACGTcount: A:0.31, C:0.38, G:0.12, T:0.19
Consensus pattern (16 bp):
AACCATGCATGCACCC
Found at i:54977210 original size:24 final size:24
Alignment explanation
Indices: 54977144--54977223 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 24
54977134 TATCCGGTGC
* **
54977144 TTCCTGATAAAAACTCTTCGGAGT
1 TTCCTGATTAAAACTCTTATGAGT
* *
54977168 TACCTG-TT-AAGCTC-TATGAGT
1 TTCCTGATTAAAACTCTTATGAGT
54977189 TTCCTGATTAAAACTCTTATGAGT
1 TTCCTGATTAAAACTCTTATGAGT
*
54977213 TTCCTGTTTAA
1 TTCCTGATTAA
54977224 CCCAGATAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
21 10 0.22
22 7 0.16
23 6 0.13
24 22 0.49
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (24 bp):
TTCCTGATTAAAACTCTTATGAGT
Found at i:54981544 original size:51 final size:49
Alignment explanation
Indices: 54981435--54981551 Score: 148
Period size: 49 Copynumber: 2.3 Consensus size: 49
54981425 TGTCACTAGT
* * *
54981435 AAGTGTGGTACTATGTGAAGGCCACTGTGAGAAGAGTTAGCTTGGTCAC
1 AAGTGTGGTACTATGTGAAGGCCACTGTGAGAAAAGGTAGCTTGGACAC
*
54981484 AAGTGTGGTACTATGTGAAGGCCACTTTGTGA-AAAAGGTAGCTTTGACTAC
1 AAGTGTGGTACTATGTGAAGGCCAC--TGTGAGAAAAGGTAGCTTGGAC-AC
54981535 AAG-GATGGTACTATGTG
1 AAGTG-TGGTACTATGTG
54981552 CGGGCCATCG
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
49 25 0.42
50 13 0.22
51 22 0.37
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (49 bp):
AAGTGTGGTACTATGTGAAGGCCACTGTGAGAAAAGGTAGCTTGGACAC
Found at i:54984800 original size:16 final size:16
Alignment explanation
Indices: 54984779--54984809 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54984769 TTCACTATTA
*
54984779 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
54984795 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
54984810 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:54988197 original size:48 final size:48
Alignment explanation
Indices: 54987968--54988198 Score: 269
Period size: 48 Copynumber: 4.9 Consensus size: 48
54987958 CACATAGTAA
* * * *
54987968 GATGCCAATGCCATATCCTAGATATGGTCTTACATGGGATCACAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * * *
54988016 GAAGCCGAT---A-G-CCCA-ACTATGGTCTTACACGATG-TCTCATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATG-GGATCACATATC
* * * * *
54988059 AATGCCAATGCCATATCCCAGATATGGTCTTACGTGGGATCAAATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
54988107 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
54988155 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
54988199 CATAACCCTA
Statistics
Matches: 150, Mismatches: 24, Indels: 18
0.78 0.12 0.09
Matches are distributed among these distances:
42 1 0.01
43 28 0.19
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 116 0.77
49 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:54990580 original size:46 final size:46
Alignment explanation
Indices: 54990522--54990737 Score: 168
Period size: 46 Copynumber: 4.6 Consensus size: 46
54990512 TCACATGTGT
* *
54990522 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATCATGG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAACATGG
* * * * *
54990568 GAGCCAGTGTAAGACCATGTCTGGGATATGGCAT-TGACATTGAGACA--A
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CA-ACATGG
* * * * *
54990616 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACACGT
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAACATGG
* * * * * * *
54990662 AAGCCAATGTAAGACATGTTTGGGACATGCGTCGGCTACAAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAACATGG
* *
54990708 TAGCCAGTATAAGACCATGTCTGGGACATG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG
54990738 GCTTTGACTT
Statistics
Matches: 131, Mismatches: 30, Indels: 17
0.74 0.17 0.10
Matches are distributed among these distances:
44 3 0.02
45 1 0.01
46 63 0.48
47 45 0.34
48 16 0.12
49 1 0.01
50 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAACATGG
Found at i:54990781 original size:140 final size:141
Alignment explanation
Indices: 54990529--54990789 Score: 364
Period size: 140 Copynumber: 1.9 Consensus size: 141
54990519 TGTGAGCTAG
* * *
54990529 TGTAAGACATGTCTGGGACATGCATCGGCCACATCATGGGAGCCAGTGTAAGACCATGTCTGGGA
1 TGTAAGACATGTCTGGGACATGCATCGGCCACAACATGAGAGCCAGTATAAGACCATGTCTGGGA
* * * *
54990594 TATGGCATTGACATTGAGACAAGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCAAC
66 CATGGCATTGACATTGAGACAAGAGCCAGTGTAAGACATGTATGGGACATGGCATCGGCCTCAAC
54990658 ACGTAAGCCAA
131 ACGTAAGCCAA
* * * * *
54990669 TGTAAGACATGTTTGGGACATGCGTCGGCTACAAGATGATAGCCAGTATAAGACCATGTCTGGGA
1 TGTAAGACATGTCTGGGACATGCATCGGCCACAACATGAGAGCCAGTATAAGACCATGTCTGGGA
* * *
54990734 CATGGCTTTGAC-TTGAGATATGAGCCAGTGTAAGACCATGTATGGGACATGGCATC
66 CATGGCATTGACATTGAGACAAGAGCCAGTGTAAGA-CATGTATGGGACATGGCATC
54990790 AGCACCTTAC
Statistics
Matches: 104, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
139 19 0.18
140 80 0.77
141 5 0.05
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (141 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCACAACATGAGAGCCAGTATAAGACCATGTCTGGGA
CATGGCATTGACATTGAGACAAGAGCCAGTGTAAGACATGTATGGGACATGGCATCGGCCTCAAC
ACGTAAGCCAA
Found at i:54999620 original size:25 final size:25
Alignment explanation
Indices: 54999591--54999638 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
54999581 TTATAATATG
* * *
54999591 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
54999616 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
54999639 GTTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:54999722 original size:11 final size:11
Alignment explanation
Indices: 54999686--54999741 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
54999676 CATGGTATGT
54999686 ATGATATGCAC
1 ATGATATGCAC
* *
54999697 ATGACATG--T
1 ATGATATGCAC
54999706 ATGATATGCAC
1 ATGATATGCAC
*
54999717 ATGATATG--T
1 ATGATATGCAC
54999726 ATGATATGCAC
1 ATGATATGCAC
54999737 ATGAT
1 ATGAT
54999742 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:54999741 original size:20 final size:20
Alignment explanation
Indices: 54999675--54999741 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
54999665 ATTTTGATAA
*
54999675 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
54999695 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
54999715 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
54999735 ACATGAT
1 ACATGAT
54999742 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:54999821 original size:23 final size:23
Alignment explanation
Indices: 54999791--54999957 Score: 262
Period size: 23 Copynumber: 7.1 Consensus size: 23
54999781 AGGAAGTGAA
54999791 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
54999814 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
54999837 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
54999861 AAAGGGCTTATGCCCTAGTTATCG
1 AAAGGGCTTATGCCCCAGTTAT-T
*
54999885 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
54999908 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
54999931 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
54999955 AAA
1 AAA
54999958 AGAGGCTAGG
Statistics
Matches: 134, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 70 0.52
24 64 0.48
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:54999869 original size:24 final size:23
Alignment explanation
Indices: 54999790--54999964 Score: 242
Period size: 24 Copynumber: 7.4 Consensus size: 23
54999780 GAGGAAGTGA
54999790 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
54999813 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
54999836 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
54999859 CAAAAGGGCTTATGCCCTAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
54999883 CGAAAGGGCTTATGCCCCAATTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
54999907 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
54999931 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
54999955 AAAAGAGGCT
1 AAAAG-GGCT
54999965 AGGCCTCCAG
Statistics
Matches: 139, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
23 65 0.47
24 70 0.50
25 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:54999907 original size:71 final size:70
Alignment explanation
Indices: 54999790--54999953 Score: 274
Period size: 71 Copynumber: 2.3 Consensus size: 70
54999780 GAGGAAGTGA
* *
54999790 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAG
1 AAAAGGGCTTATGCCCCAGTTATGAAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAG
54999855 TTATC
66 TTATC
*
54999860 AAAAGGGCTTATGCCCTAGTTATCGAAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTAT-GAAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCA
*
54999925 GTTATT
65 GTTATC
*
54999931 AAAAGGGCTTTTGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
54999954 TAAAAGAGGC
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 22 0.25
71 65 0.75
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (70 bp):
AAAAGGGCTTATGCCCCAGTTATGAAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAG
TTATC
Found at i:54999912 original size:47 final size:46
Alignment explanation
Indices: 54999790--54999957 Score: 255
Period size: 47 Copynumber: 3.6 Consensus size: 46
54999780 GAGGAAGTGA
54999790 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* * *
54999836 TAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCTAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* *
54999883 CGAAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTA-T
*
54999931 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
54999958 AGAGGCTAGG
Statistics
Matches: 109, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
46 22 0.20
47 65 0.60
48 22 0.20
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:55000209 original size:31 final size:31
Alignment explanation
Indices: 55000171--55000231 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
55000161 CGTTTACAGT
55000171 AAAGGCTTCGGCCCAGTAATATGAAATATGG
1 AAAGGCTTCGGCCCAGTAATATGAAATATGG
* **
55000202 AAAGGCTTTGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
55000232 AAATATGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGG
Found at i:55000233 original size:7 final size:7
Alignment explanation
Indices: 55000221--55000248 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
55000211 GGCCCAGTGT
55000221 TATGAAA
1 TATGAAA
55000228 TATGAAA
1 TATGAAA
55000235 TATGAAA
1 TATGAAA
55000242 TATGAAA
1 TATGAAA
55000249 AGGGCTATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:55002088 original size:29 final size:28
Alignment explanation
Indices: 55002018--55002092 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
55002008 ATACTCGATT
* *
55002018 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
55002046 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
55002075 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
55002093 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:55002109 original size:29 final size:29
Alignment explanation
Indices: 55002076--55002149 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
55002066 CCTTCGAGCT
55002076 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
55002105 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
55002134 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
55002150 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:55009927 original size:29 final size:29
Alignment explanation
Indices: 55009893--55009967 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
55009883 TACTCGATTT
*
55009893 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
55009922 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
55009951 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
55009968 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:55009984 original size:29 final size:29
Alignment explanation
Indices: 55009951--55010024 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
55009941 CCTTCGAGCT
55009951 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
55009980 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
55010009 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
55010025 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:55018684 original size:25 final size:25
Alignment explanation
Indices: 55018655--55018702 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55018645 TTATAATATG
* * *
55018655 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
55018680 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
55018703 GTTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:55018786 original size:11 final size:11
Alignment explanation
Indices: 55018750--55018805 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
55018740 CATGGTATGT
55018750 ATGATATGCAC
1 ATGATATGCAC
* *
55018761 ATGACATG--T
1 ATGATATGCAC
55018770 ATGATATGCAC
1 ATGATATGCAC
*
55018781 ATGATATG--T
1 ATGATATGCAC
55018790 ATGATATGCAC
1 ATGATATGCAC
55018801 ATGAT
1 ATGAT
55018806 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:55018805 original size:20 final size:20
Alignment explanation
Indices: 55018739--55018805 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
55018729 ATTTTGATAA
*
55018739 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
55018759 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
55018779 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
55018799 ACATGAT
1 ACATGAT
55018806 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:55018889 original size:23 final size:23
Alignment explanation
Indices: 55018858--55019020 Score: 272
Period size: 23 Copynumber: 7.0 Consensus size: 23
55018848 AAGTGAAAAA
55018858 GGCTTATGCCCCAGTTATTAAAG
1 GGCTTATGCCCCAGTTATTAAAG
*
55018881 GGCTAATGCCCCAGTTATTAAAG
1 GGCTTATGCCCCAGTTATTAAAG
55018904 GGCTTATGCCCCAGTTATTAAAAG
1 GGCTTATGCCCCAGTTATT-AAAG
*
55018928 GGCTTATGCCCCAGTTATCAAAAG
1 GGCTTATGCCCCAGTTAT-TAAAG
55018952 GGCTTATGCCCCAGTTATTAAAG
1 GGCTTATGCCCCAGTTATTAAAG
55018975 GGCTTATGCCCCAGTTATTAAAAG
1 GGCTTATGCCCCAGTTATT-AAAG
*
55018999 GGCTTTTGCCCCAGTTATTAAA
1 GGCTTATGCCCCAGTTATTAAA
55019021 AGAGGCTAGG
Statistics
Matches: 132, Mismatches: 5, Indels: 6
0.92 0.03 0.04
Matches are distributed among these distances:
23 66 0.50
24 66 0.50
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
GGCTTATGCCCCAGTTATTAAAG
Found at i:55018932 original size:24 final size:24
Alignment explanation
Indices: 55018853--55019027 Score: 284
Period size: 24 Copynumber: 7.4 Consensus size: 24
55018843 GGAGGAAGTG
*
55018853 AAAAAGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
55018877 -AAAGGGCTAATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
55018900 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
55018923 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
55018947 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
55018971 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
55018994 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
55019018 AAAAGAGGCT
1 AAAAG-GGCT
55019028 AGGCCTCCAG
Statistics
Matches: 142, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
23 66 0.46
24 72 0.51
25 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:55018973 original size:71 final size:70
Alignment explanation
Indices: 55018853--55019028 Score: 289
Period size: 71 Copynumber: 2.5 Consensus size: 70
55018843 GGAGGAAGTG
* *
55018853 AAAAAGGCTTATGCCCCAGTTATTAAAGGGCTAATGCCCCAGTTATTAAAGGGCTTATGCCCCAG
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTAATGCCCCAGTTATTAAAGGGCTTATGCCCCAG
55018918 TTATT
66 TTATT
*
55018923 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTAATGCCCCAGTTATTAAAGGGCTTATGCCCCA
55018988 GTTATT
65 GTTATT
*
55018994 AAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTA
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTA
55019029 GGCCTCCAGA
Statistics
Matches: 98, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
70 22 0.22
71 71 0.72
72 5 0.05
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (70 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTAATGCCCCAGTTATTAAAGGGCTTATGCCCCAG
TTATT
Found at i:55018975 original size:47 final size:46
Alignment explanation
Indices: 55018853--55019020 Score: 273
Period size: 47 Copynumber: 3.6 Consensus size: 46
55018843 GGAGGAAGTG
* *
55018853 AAAAAGGCTTATGCCCCAGTTATTAAAGGGCTAATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
55018899 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTAT
55018946 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTA-T
*
55018994 AAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
55019021 AGAGGCTAGG
Statistics
Matches: 114, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
46 22 0.19
47 68 0.60
48 24 0.21
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:55019269 original size:31 final size:31
Alignment explanation
Indices: 55019234--55019294 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
55019224 CGTTTACAGT
55019234 AAAGGCTTCGGCCCAGTAATATGAAATATGG
1 AAAGGCTTCGGCCCAGTAATATGAAATATGG
**
55019265 AAAGGCTTCGGCCCAGTGTTATGAAATATG
1 AAAGGCTTCGGCCCAGTAATATGAAATATG
55019295 AAATATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGG
Found at i:55024430 original size:68 final size:68
Alignment explanation
Indices: 55024347--55024484 Score: 258
Period size: 68 Copynumber: 2.0 Consensus size: 68
55024337 TCCAAATCCT
55024347 ATGTCTGATAATTTTTCTCATGTAGCTTCAACTGGCTCAAGGCATAAGCTATCACCTTGCCTTCT
1 ATGTCTGATAATTTTTCTCATGTAGCTTCAACTGGCTCAAGGCATAAGCTATCACCTTGCCTTCT
55024412 TGC
66 TGC
* *
55024415 ATGTCTGATAATTTTTCTCATGTGGCTTCAACTGGCTCGAGGCATAAGCTATCACCTTGCCTTCT
1 ATGTCTGATAATTTTTCTCATGTAGCTTCAACTGGCTCAAGGCATAAGCTATCACCTTGCCTTCT
55024480 TGC
66 TGC
55024483 AT
1 AT
55024485 AAGTACACAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (68 bp):
ATGTCTGATAATTTTTCTCATGTAGCTTCAACTGGCTCAAGGCATAAGCTATCACCTTGCCTTCT
TGC
Found at i:55028048 original size:28 final size:27
Alignment explanation
Indices: 55027985--55028054 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
55027975 ATAGTGAGTC
55027985 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
55028012 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
55028040 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55028055 GTACAAGTTT
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:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:55036081 original size:28 final size:27
Alignment explanation
Indices: 55036018--55036087 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
55036008 ATAGTGAGTC
55036018 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
55036045 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
55036073 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55036088 GTACAAGTTT
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:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:55050702 original size:30 final size:29
Alignment explanation
Indices: 55050608--55050709 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
55050598 TATAGTGAAT
* * *
55050608 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
55050637 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
55050665 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
55050695 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
55050710 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:55058515 original size:30 final size:29
Alignment explanation
Indices: 55058421--55058522 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
55058411 TATAGTGAAT
* * *
55058421 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
55058450 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
55058478 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
55058508 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
55058523 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:55061598 original size:78 final size:79
Alignment explanation
Indices: 55061493--55061639 Score: 217
Period size: 78 Copynumber: 1.9 Consensus size: 79
55061483 TATGGTAACC
*
55061493 CGCACCAAGGCCTACGGGACTTAGCCCGGA-TA-TCACTAGCACAAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAGCCCGGAGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
55061556 CCGGATAGAATGACT
65 CCGGATAGAATGACT
* * * *
55061571 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAGCCCGGA-GTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
55061636 CCGG
65 CCGG
55061640 TTATAATTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
78 26 0.43
80 26 0.43
81 9 0.15
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.22
Consensus pattern (79 bp):
CGCACCAAGGCCTACGGGACTTAGCCCGGAGTAGCCACTAGCACAATTGCCTTCGGGTCTTAACC
CGGATAGAATGACT
Found at i:55061660 original size:40 final size:40
Alignment explanation
Indices: 55061524--55061683 Score: 144
Period size: 40 Copynumber: 4.0 Consensus size: 40
55061514 TAGCCCGGAT
* *
55061524 ATCACTAGCACAAATTGCCTTCGGGTCTTAACCCGGATAGA
1 ATCACCAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
* * *
55061565 ATGACTC-GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTA
1 ATCAC-CAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
** * *
55061605 GCCACTAGCACAATTGCCTTCGGGTCTTAACCCGGTTATA
1 ATCACCAGCACAATTGCCTTCGGGTCTTAACCCGGATATA
** * * * *
55061645 ATTTCCAGCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 ATCACCAGCACAATTGCCTTCGGGTCTTAACCCGGATAT
55061684 CATTCAATTT
Statistics
Matches: 93, Mismatches: 23, Indels: 7
0.76 0.19 0.06
Matches are distributed among these distances:
39 2 0.02
40 81 0.87
41 10 0.11
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (40 bp):
ATCACCAGCACAATTGCCTTCGGGTCTTAACCCGGATATA
Found at i:55069777 original size:40 final size:38
Alignment explanation
Indices: 55069728--55069915 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 38
55069718 ATCACGATTT
*
55069728 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
55069768 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
* *
55069808 GCACAATTGCCTTCGGGTCTTAACCCGGATAGAATG-ACTC
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
55069848 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
55069888 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
55069916 TTATAATTTC
Statistics
Matches: 129, Mismatches: 10, Indels: 18
0.82 0.06 0.11
Matches are distributed among these distances:
38 2 0.02
39 8 0.06
40 114 0.88
41 4 0.03
42 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:55069857 original size:120 final size:119
Alignment explanation
Indices: 55069696--55069915 Score: 291
Period size: 120 Copynumber: 1.8 Consensus size: 119
55069686 CCGCACCAAG
** * *
55069696 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGA
1 GCCTACGGGACTTAACCCGGATAGAACGACTCGCACAAATGCCTTCGGGTCTTAGCCCGGAT-GA
* *
55069761 ATG-ACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATT
65 A-GCACTAGCAC-AATTGCCTTCGGGTCTTAACCCGGATGTAGCCACTAGCACAATT
* * * * *
55069816 GCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATGTA
1 GCCTACGGGACTTAACCCGGATAGAACGACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATGAA
55069881 GCCACTAGCACAATTGCCTTCGGGTCTTAACCCGG
66 G-CACTAGCACAATTGCCTTCGGGTCTTAACCCGG
55069916 TTATAATTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
118 1 0.01
119 4 0.05
120 81 0.94
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (119 bp):
GCCTACGGGACTTAACCCGGATAGAACGACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATGAA
GCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATGTAGCCACTAGCACAATT
Found at i:55069936 original size:40 final size:40
Alignment explanation
Indices: 55069728--55069959 Score: 193
Period size: 40 Copynumber: 5.8 Consensus size: 40
55069718 ATCACGATTT
* * * *
55069728 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCAC-CA
* * ** *
55069768 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATCACCA
* *
55069808 GCACAATTGCCTTCGGGTCTTAACCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCAC-CA
* * ** *
55069848 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATCACCA
* **
55069888 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCACCA
* * * *
55069928 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATAT
55069960 CATTCAATTT
Statistics
Matches: 152, Mismatches: 33, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
39 4 0.03
40 144 0.95
41 4 0.03
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATATAATCACCA
Found at i:55069936 original size:120 final size:120
Alignment explanation
Indices: 55069696--55069958 Score: 280
Period size: 120 Copynumber: 2.2 Consensus size: 120
55069686 CCGCACCAAG
* ** * *
55069696 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGA
1 GCCTTCGGGACTTAACCCGGATAGAACGACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAGA
* * * * *
55069761 ATGACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATT
66 ATGACTAGCACGAATGCCTTCGGGTCTTAACCCGGATATAACCACCAGCACAATT
* * * *
55069816 GCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GT
1 GCCTTCGGGACTTAACCCGGATAGAACGACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAGA
* *** *
55069880 A-GCCACTAGCAC-AATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCAGCATAATT
66 ATG--ACTAGCACGAA-TGCCTTCGGGTCTTAACCCGGATATAACCACCAGCACAATT
* * *
55069936 GTCTTCGGGGCTTAGCCCGGATA
1 GCCTTCGGGACTTAACCCGGATA
55069959 TCATTCAATT
Statistics
Matches: 118, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
118 1 0.01
119 4 0.03
120 113 0.96
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (120 bp):
GCCTTCGGGACTTAACCCGGATAGAACGACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAGA
ATGACTAGCACGAATGCCTTCGGGTCTTAACCCGGATATAACCACCAGCACAATT
Found at i:55069957 original size:80 final size:80
Alignment explanation
Indices: 55069728--55069915 Score: 358
Period size: 80 Copynumber: 2.4 Consensus size: 80
55069718 ATCACGATTT
* *
55069728 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
55069793 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
55069808 GCACAATTGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAATTGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
55069873 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
55069888 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAATTGCCTTCGGGTCTTAACCCGG
55069916 TTATAATTTC
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 106 1.00
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (80 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
CGGATGTAGCCACTA
Found at i:55070179 original size:110 final size:110
Alignment explanation
Indices: 55070027--55070246 Score: 440
Period size: 110 Copynumber: 2.0 Consensus size: 110
55070017 TCGTTACTAA
55070027 GGCTCAAACACAATTGTAATCATTAGCATATTCGCCTTCGGGACTTAGCCCGGGTGGAATTCAAA
1 GGCTCAAACACAATTGTAATCATTAGCATATTCGCCTTCGGGACTTAGCCCGGGTGGAATTCAAA
55070092 TACTCATACACACATAATCAATAATCATACACATCCATATTTCAT
66 TACTCATACACACATAATCAATAATCATACACATCCATATTTCAT
55070137 GGCTCAAACACAATTGTAATCATTAGCATATTCGCCTTCGGGACTTAGCCCGGGTGGAATTCAAA
1 GGCTCAAACACAATTGTAATCATTAGCATATTCGCCTTCGGGACTTAGCCCGGGTGGAATTCAAA
55070202 TACTCATACACACATAATCAATAATCATACACATCCATATTTCAT
66 TACTCATACACACATAATCAATAATCATACACATCCATATTTCAT
55070247 CTCACATAAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 110 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.28
Consensus pattern (110 bp):
GGCTCAAACACAATTGTAATCATTAGCATATTCGCCTTCGGGACTTAGCCCGGGTGGAATTCAAA
TACTCATACACACATAATCAATAATCATACACATCCATATTTCAT
Found at i:55072441 original size:92 final size:92
Alignment explanation
Indices: 55072283--55072462 Score: 351
Period size: 92 Copynumber: 2.0 Consensus size: 92
55072273 ATAAGTTAAG
*
55072283 AAATATGGAAAAGTGAAATAAAATGAAAGTTTATATTGTGATAAGCTCACCCATGTTTGTTTGAT
1 AAATATGGAAAAGTGAAATAAAATGAAAGTTTATATTGTGATAAGCTCACCCATGTTTGTTCGAT
55072348 AATCCATATGATGTTATGTGCCTTGAA
66 AATCCATATGATGTTATGTGCCTTGAA
55072375 AAATATGGAAAAGTGAAATAAAATGAAAGTTTATATTGTGATAAGCTCACCCATGTTTGTTCGAT
1 AAATATGGAAAAGTGAAATAAAATGAAAGTTTATATTGTGATAAGCTCACCCATGTTTGTTCGAT
55072440 AATCCATATGATGTTATGTGCCT
66 AATCCATATGATGTTATGTGCCT
55072463 AACTTATTTG
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 87 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (92 bp):
AAATATGGAAAAGTGAAATAAAATGAAAGTTTATATTGTGATAAGCTCACCCATGTTTGTTCGAT
AATCCATATGATGTTATGTGCCTTGAA
Found at i:55079974 original size:48 final size:47
Alignment explanation
Indices: 55079873--55079977 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 47
55079863 AGGGTATACA
* * * ***
55079873 TTGATTTGGCTTTGGGCCATGATATTGGCACTTCGGGTGCAAGTTAC
1 TTGATTTGGCTTTAGGCAATGATATCGGCACTTCGGAAACAAGTTAC
*
55079920 TTTGATTTGGCTTTAGGCAATGATATCGGCACTTCGGAAACGAGCTTCAC
1 -TTGATTTGGCTTTAGGCAATGATATCGGCACTTCGGAAACAAG-TT-AC
55079970 -TGATTTGG
1 TTGATTTGG
55079978 ATACGGGCCC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
48 44 0.92
49 2 0.04
50 2 0.04
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (47 bp):
TTGATTTGGCTTTAGGCAATGATATCGGCACTTCGGAAACAAGTTAC
Found at i:55080254 original size:37 final size:37
Alignment explanation
Indices: 55080204--55080278 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
55080194 GTTTATGATC
55080204 AATTATGTGGTTAAATTCCATGTTAACTTAGTGTTTA
1 AATTATGTGGTTAAATTCCATGTTAACTTAGTGTTTA
*
55080241 AATTATGTGGTTAAATTCCATGTTAACTTGGTGTTTA
1 AATTATGTGGTTAAATTCCATGTTAACTTAGTGTTTA
55080278 A
1 A
55080279 TGTTTTTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.45
Consensus pattern (37 bp):
AATTATGTGGTTAAATTCCATGTTAACTTAGTGTTTA
Found at i:55080921 original size:38 final size:38
Alignment explanation
Indices: 55080870--55080945 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
55080860 GAAATAATAG
55080870 AATGTGCATGAGGTATGGCTGAATTGGTTGATTAAAAT
1 AATGTGCATGAGGTATGGCTGAATTGGTTGATTAAAAT
55080908 AATGTGCATGAGGTATGGCTGAATTGGTTGATTAAAAT
1 AATGTGCATGAGGTATGGCTGAATTGGTTGATTAAAAT
55080946 GCCTTTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (38 bp):
AATGTGCATGAGGTATGGCTGAATTGGTTGATTAAAAT
Found at i:55086014 original size:120 final size:120
Alignment explanation
Indices: 55085795--55086035 Score: 428
Period size: 120 Copynumber: 2.0 Consensus size: 120
55085785 TGTTTAGTGG
*
55085795 GTGTCCCAGCTTGGACACTATGAGATTGTGACTTCATCTTTGCTGTTAGAGCTATAGGTGTACTA
1 GTGTCCCAGCTTGGACACTATGAGATTGTGACTTCATCGTTGCTGTTAGAGCTATAGGTGTACTA
* *
55085860 ACATACGTCTTTATTTGTTTCTCCATATTCTTTTAAGATAATAGCTGAGGTAGGT
66 ACATACGTCTTTATTTGTTTCTCCATACTCTTTTAAGATAAAAGCTGAGGTAGGT
*
55085915 GTGTTCCAGCTTGGACACTATGAGATTGTGACTTCATCGTTGCTGTTAGAGCTATAGGTGTACTA
1 GTGTCCCAGCTTGGACACTATGAGATTGTGACTTCATCGTTGCTGTTAGAGCTATAGGTGTACTA
* *
55085980 ACATGCGTCTTTATTTGTTTCTCCATACTGTTTTAAGATAAAAGCTGAGGTAGGT
66 ACATACGTCTTTATTTGTTTCTCCATACTCTTTTAAGATAAAAGCTGAGGTAGGT
55086035 G
1 G
55086036 GATTCTTTGT
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.38
Consensus pattern (120 bp):
GTGTCCCAGCTTGGACACTATGAGATTGTGACTTCATCGTTGCTGTTAGAGCTATAGGTGTACTA
ACATACGTCTTTATTTGTTTCTCCATACTCTTTTAAGATAAAAGCTGAGGTAGGT
Found at i:55089303 original size:22 final size:22
Alignment explanation
Indices: 55089275--55089317 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
55089265 CATCTTTTCC
**
55089275 TTTTATTTTTCAAGATATTTAA
1 TTTTATTTCCCAAGATATTTAA
55089297 TTTTATTTCCCAAGATATTTA
1 TTTTATTTCCCAAGATATTTA
55089318 GACAAAAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTTATTTCCCAAGATATTTAA
Found at i:55094416 original size:2 final size:2
Alignment explanation
Indices: 55094409--55094434 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
55094399 TTTCGATTTG
55094409 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
55094435 GACATCTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:55095810 original size:61 final size:61
Alignment explanation
Indices: 55095683--55095820 Score: 165
Period size: 61 Copynumber: 2.3 Consensus size: 61
55095673 GATCAGCCAA
* * * *
55095683 CTCGCACACTCAATGCTAAATCTTTGTAACGTATCGCACACTTAGTGTCGTTACTTAACAT
1 CTCGCACACTTAGTGCTAAATCTTTGTAACGTATCGCACACTTAGTGTCGTCACTTAACAC
* * *
55095744 GTCGCACACTTAGTGCTAAAATC-TTGTGACGTATCGCACACTTAGT-TCCGTCACTTTATC-C
1 CTCGCACACTTAGTGCT-AAATCTTTGTAACGTATCGCACACTTAGTGT-CGTCAC-TTAACAC
55095805 CTCGCACACTTAGTGC
1 CTCGCACACTTAGTGC
55095821 CATATTTCTT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
60 1 0.02
61 56 0.85
62 9 0.14
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (61 bp):
CTCGCACACTTAGTGCTAAATCTTTGTAACGTATCGCACACTTAGTGTCGTCACTTAACAC
Found at i:55098948 original size:32 final size:32
Alignment explanation
Indices: 55098907--55098973 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
55098897 TAGTTTAACA
55098907 TAAACATTAAACATCACTTGATCATCTATACT
1 TAAACATTAAACATCACTTGATCATCTATACT
55098939 TAAACATTAAACATCACTTGATCATCTATACT
1 TAAACATTAAACATCACTTGATCATCTATACT
55098971 TAA
1 TAA
55098974 CATATATGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (32 bp):
TAAACATTAAACATCACTTGATCATCTATACT
Found at i:55101946 original size:44 final size:44
Alignment explanation
Indices: 55101897--55101987 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
55101887 ATCTAGGATC
55101897 TCTGTTTGAAATAATGGAGATAGGTACTCCATGCAATCTAACAA
1 TCTGTTTGAAATAATGGAGATAGGTACTCCATGCAATCTAACAA
55101941 TCTGTTTGAAATAATGGAGATAGGTACTCCATGCAATCTAACAA
1 TCTGTTTGAAATAATGGAGATAGGTACTCCATGCAATCTAACAA
55101985 TCT
1 TCT
55101988 TAGAGACATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (44 bp):
TCTGTTTGAAATAATGGAGATAGGTACTCCATGCAATCTAACAA
Found at i:55105047 original size:45 final size:45
Alignment explanation
Indices: 55104894--55105114 Score: 228
Period size: 45 Copynumber: 4.8 Consensus size: 45
55104884 TGAATTGCTG
* * * * * * *
55104894 ATGCCATGTCCCAAACGTGGTCTTGCACTAGCTCACATGTCGAGGCCG
1 ATGCCATGT-CC-AACATGGTCTTACACTGGCTCACA-ATCAATGCCA
* * *
55104942 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTC-ATCTTAGTGCCA
1 ATGCCATGT-CC-AACATGGTCTTACACTGGCTCACAATC--AATGCCA
*
55104990 AAGCCATGTCCAACATGGTCTTACACTGGCTCACAATCAATGCCA
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCACAATCAATGCCA
* * * *
55105035 ATTCCATGTCCAACATGGTTTTACACTGGCTCACAATCAACGCCG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCACAATCAATGCCA
*
55105080 ATGCCATGTCCAACATGGTCATACACTGGCTCACA
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCACA
55105115 TGTCACCCAA
Statistics
Matches: 150, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
45 78 0.52
46 23 0.15
47 5 0.03
48 44 0.29
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (45 bp):
ATGCCATGTCCAACATGGTCTTACACTGGCTCACAATCAATGCCA
Found at i:55112786 original size:340 final size:340
Alignment explanation
Indices: 55112160--55112839 Score: 1290
Period size: 340 Copynumber: 2.0 Consensus size: 340
55112150 AAAATTAGAG
* *
55112160 GCTCGAGCTTCAGCGAGAACCTATGCCATACGTGCTAGAGAGGAGGCTTCAGCTCCTGATGTCAT
1 GCTCGAGCTCCAGCGAGAACCTATGCCATACGCGCTAGAGAGGAGGCTTCAGCTCCTGATGTCAT
*
55112225 TATGGGTATATTTTCTATTTATGATACTCATGTTGTTGCCTCAATTGACCCGAGATCAACCCATT
66 TATGGGTATATTTTCTATTTATGATACTCATGTTGTTACCTCAATTGACCCGAGATCAACCCATT
* *
55112290 CATACATTTTCATGAAATTGGTGTCTAGCATGGATATGTCTGTGGAGCCCACAGAATTTGTAATC
131 CATACATTTTCATGAAATTGGTGTCTAGCATGGATATGCCTGTGAAGCCCACAGAATTTGTAATC
55112355 AAGGTGTCAAACCCTTTAGGCAAGTCTGTGTTAGTAGATAAAGTTTGTAAGAATTGTCCTTTGAT
196 AAGGTGTCAAACCCTTTAGGCAAGTCTGTGTTAGTAGATAAAGTTTGTAAGAATTGTCCTTTGAT
55112420 GATTCAAGGTCATTGTTTTCCGGCTAACCTTAGGCTTTTGCCTTTCGATGAATTTGATGTAATAA
261 GATTCAAGGTCATTGTTTTCCGGCTAACCTTAGGCTTTTGCCTTTCGATGAATTTGATGTAATAA
55112485 TTGGCATGGATTGGT
326 TTGGCATGGATTGGT
55112500 GCTCGAGCTCCAGCGAGAACCTATGCCATACGCGCTAGAGAGGAGGCTTCAGCTCCTGATGTCAT
1 GCTCGAGCTCCAGCGAGAACCTATGCCATACGCGCTAGAGAGGAGGCTTCAGCTCCTGATGTCAT
55112565 TATGGGTATATTTTCTATTTATGATACTCATGTTGTTACCTCAATTGACCC-AGGATCAACCCAT
66 TATGGGTATATTTTCTATTTATGATACTCATGTTGTTACCTCAATTGACCCGA-GATCAACCCAT
55112629 TCATACATTTTCATGAAATTGGTGTCTAGCATGGATATGCCTGTGAAGCCCACAGAATTTGTAAT
130 TCATACATTTTCATGAAATTGGTGTCTAGCATGGATATGCCTGTGAAGCCCACAGAATTTGTAAT
55112694 CAAGGTGTCAAACCCTTTAGGCAAGTCTGTGTTAGTAGATAAAGTTTGTAAGAATTGTCCTTTGA
195 CAAGGTGTCAAACCCTTTAGGCAAGTCTGTGTTAGTAGATAAAGTTTGTAAGAATTGTCCTTTGA
*
55112759 TGATTCAAGGTCATTGTTTTTCGGCTAACCTTAGGCTTTTGCCTTTCGATGAATTTGATGTAATA
260 TGATTCAAGGTCATTGTTTTCCGGCTAACCTTAGGCTTTTGCCTTTCGATGAATTTGATGTAATA
55112824 ATTGGCATGGATTGGT
325 ATTGGCATGGATTGGT
55112840 TGGCCATTCA
Statistics
Matches: 333, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
339 1 0.00
340 332 1.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.34
Consensus pattern (340 bp):
GCTCGAGCTCCAGCGAGAACCTATGCCATACGCGCTAGAGAGGAGGCTTCAGCTCCTGATGTCAT
TATGGGTATATTTTCTATTTATGATACTCATGTTGTTACCTCAATTGACCCGAGATCAACCCATT
CATACATTTTCATGAAATTGGTGTCTAGCATGGATATGCCTGTGAAGCCCACAGAATTTGTAATC
AAGGTGTCAAACCCTTTAGGCAAGTCTGTGTTAGTAGATAAAGTTTGTAAGAATTGTCCTTTGAT
GATTCAAGGTCATTGTTTTCCGGCTAACCTTAGGCTTTTGCCTTTCGATGAATTTGATGTAATAA
TTGGCATGGATTGGT
Found at i:55119614 original size:40 final size:40
Alignment explanation
Indices: 55119506--55119755 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
55119496 CGGGATTTAA
* * * * *
55119506 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
55119546 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55119586 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55119626 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55119666 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55119706 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55119746 CCGGATATAT
1 CCGGATATAT
55119756 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:55126641 original size:40 final size:40
Alignment explanation
Indices: 55126533--55126782 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
55126523 CGGGATTTAA
* * * * *
55126533 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
55126573 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55126613 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55126653 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55126693 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55126733 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
55126773 CCGGATATAT
1 CCGGATATAT
55126783 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:55129038 original size:20 final size:21
Alignment explanation
Indices: 55129013--55129051 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
55129003 CCCTTGAAAT
*
55129013 AGGGT-ACACGCCCGTGTGGA
1 AGGGTAACACGCCCATGTGGA
55129033 AGGGTAACACGCCCATGTG
1 AGGGTAACACGCCCATGTG
55129052 TTCATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.26, G:0.36, T:0.15
Consensus pattern (21 bp):
AGGGTAACACGCCCATGTGGA
Found at i:55130399 original size:94 final size:94
Alignment explanation
Indices: 55130199--55130518 Score: 250
Period size: 94 Copynumber: 3.4 Consensus size: 94
55130189 ATGGTATAAT
* *
55130199 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCACGCTAAGTCGACGCCATGTCACAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGCTAAGTCGACGCCATGTCACAG
*
55130264 ACATGGTCTTACACTGGCTCTCATGTTAA
66 ACATGGTCTTACACTGGATCTCATGTTAA
* * * *
55130293 GTCGATGCCATGTCCCAGACATGGTCTTA-ACTGACTCTCACG-TATCCGTGCCGATGCTATGTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGCTA--AGT--CGACGCCATGTC
* * *
55130356 CCAGGCATGGTCTTATACT-GATACATCATG-T-A
62 ACAGACATGGTCTTACACTGGAT-C-TCATGTTAA
* * * * *
55130388 GCCGATG-CATGTCCCAGACAT-GTCTTACAC-AAGCT-T-ACATCTCAAGGCCGATG-CATATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCAC-GCT-AA-GTCGACGCCATGTC
* * * * *
55130447 CCAGACAT-GTCTTACACTAGCTCTCGTCTTAA
62 ACAGACATGGTCTTACACTGGATCTCATGTTAA
** *
55130479 TGAGGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCT
55130519 TGTAATGTGG
Statistics
Matches: 180, Mismatches: 26, Indels: 39
0.73 0.11 0.16
Matches are distributed among these distances:
89 3 0.02
90 11 0.06
91 14 0.08
92 14 0.08
93 33 0.18
94 61 0.34
95 11 0.06
96 28 0.16
97 5 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACGCTAAGTCGACGCCATGTCACAG
ACATGGTCTTACACTGGATCTCATGTTAA
Found at i:55130539 original size:47 final size:47
Alignment explanation
Indices: 55130198--55130558 Score: 226
Period size: 47 Copynumber: 7.7 Consensus size: 47
55130188 TATGGTATAA
55130198 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TTCACGCTAA-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTT---G-TAATG
* *
55130247 T--CGACGCCATGTCACAGACATGGTCTTACACTGGCTCTCATGTTAA-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--TG-TAATG
* *
55130294 T--CGATGCCATGTCCCAGACATGGTCTTA-ACTGACTCTCACGT-ATCCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--TGTAAT--G
* * * * * *
55130341 TGCCGATGCTATGTCCCAGGCATGGTCTTATACT-GATAC--ATCATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CTTGTAATG
** * *
55130386 TAGCCGATG-CATGTCCCAGACAT-GTCTTACACAAGCTTACATCTCAA-G
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CTTGT-AATG
* * *
55130434 -GCCGATG-CATATCCCAGACAT-GTCTTACACTAGCTCTCGTCTTAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--T-GTAATG
*
55130481 AG--GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTGTAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTGTAATG
55130526 TGGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
55130559 AGCACACAGA
Statistics
Matches: 258, Mismatches: 27, Indels: 57
0.75 0.08 0.17
Matches are distributed among these distances:
44 10 0.04
45 22 0.09
46 73 0.28
47 97 0.38
48 23 0.09
49 28 0.11
50 5 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTGTAATG
Found at i:55133634 original size:26 final size:26
Alignment explanation
Indices: 55133598--55133649 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
55133588 ACTTTAGGAC
55133598 ATAGTGTCAGATTTCTAAATTACTCT
1 ATAGTGTCAGATTTCTAAATTACTCT
55133624 ATAGTGTCAGATTTCTAAATTACTCT
1 ATAGTGTCAGATTTCTAAATTACTCT
55133650 TTCAGGAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (26 bp):
ATAGTGTCAGATTTCTAAATTACTCT
Found at i:55137628 original size:53 final size:53
Alignment explanation
Indices: 55137434--55137640 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 53
55137424 ATTAGGGTTT
* * * *
55137434 AAGGATACCAAGTAAGACCATGCCAAGGCATGG-AATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAA-TGGTAAG-TTCATAAGGC
* * * * * * *
55137488 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * * *
55137543 AAAGATCCCATGTAAGACTATGCCAAGGCATGGCAATGGTGAGTTCATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
55137596 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
55137641 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 31, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
53 44 0.37
54 35 0.29
55 40 0.34
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:55141201 original size:68 final size:70
Alignment explanation
Indices: 55141129--55141326 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
55141119 ACACCCTGTA
* * * *
55141129 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
55141191 ATAAAT
65 ATAAAT
*
55141197 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
55141262 ATAAAT
65 ATAAAT
*
55141268 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
55141327 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:55141240 original size:41 final size:41
Alignment explanation
Indices: 55141195--55141312 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
55141185 TGAAAGATAA
55141195 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
55141236 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55141266 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55141307 ATGTAG
1 ATGTAG
55141313 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:55141252 original size:71 final size:71
Alignment explanation
Indices: 55141163--55141326 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
55141153 GAGATGTATC
55141163 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55141228 AGGACA
66 AGGACA
55141234 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
55141299 AGGACA
66 AGGACA
55141305 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
55141327 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:55148764 original size:68 final size:70
Alignment explanation
Indices: 55148692--55148889 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
55148682 ACACCCTGTA
* * * *
55148692 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
55148754 ATAAAT
65 ATAAAT
*
55148760 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
55148825 ATAAAT
65 ATAAAT
*
55148831 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
55148890 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:55148803 original size:41 final size:41
Alignment explanation
Indices: 55148758--55148875 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
55148748 TGAAAGATAA
55148758 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
55148799 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55148829 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
55148870 ATGTAG
1 ATGTAG
55148876 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Done.