Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 160 of 345
Found at i:54479117 original size:137 final size:136
Alignment explanation
Indices: 54478841--54479121 Score: 375
Period size: 137 Copynumber: 2.1 Consensus size: 136
54478831 ATGAAATGTG
* ** *
54478841 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGCTTGAAAGA
* * ** * *
54478906 TACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGCAACATGACAGG
66 TACCATGACAACATGATAAAAAATGAATAAGACCATAGTTGAAAGACACCATGCAACATGACA-G
*
54478971 AAATGAA
130 AAATAAA
* *
54478978 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGCTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGCTTGAAAGA
* * * *
54479043 TACCATGACAACATGATAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCA-
66 TACCATGACAACATGATAAAAAATGAATAAGACCATAGTTGAAAGACACCAT-GCAACATGACAG
54479107 AAGATAAA
130 AA-ATAAA
54479115 TAAGACC
1 TAAGACC
54479122 GTGGATGGGA
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
136 2 0.02
137 114 0.91
138 9 0.07
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (136 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGCTTGAAAGA
TACCATGACAACATGATAAAAAATGAATAAGACCATAGTTGAAAGACACCATGCAACATGACAGA
AATAAA
Found at i:54479273 original size:34 final size:34
Alignment explanation
Indices: 54479230--54479298 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
54479220 ACAAGAACTA
54479230 GTCATATGGAAATATATGTACAAAATAGTTGTAT
1 GTCATATGGAAATATATGTACAAAATAGTTGTAT
54479264 GTCATATGGAAATATATGTACAAAATAGTTGTAT
1 GTCATATGGAAATATATGTACAAAATAGTTGTAT
54479298 G
1 G
54479299 AAATAATTAT
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:0.41, C:0.06, G:0.19, T:0.35
Consensus pattern (34 bp):
GTCATATGGAAATATATGTACAAAATAGTTGTAT
Found at i:54479439 original size:16 final size:17
Alignment explanation
Indices: 54479418--54479450 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
54479408 ATGATGGAGC
54479418 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
54479434 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
54479451 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:54480089 original size:14 final size:14
Alignment explanation
Indices: 54480070--54480098 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
54480060 ACTCTGGCCC
54480070 TATTTCACAAAAAT
1 TATTTCACAAAAAT
54480084 TATTTCACAAAAAT
1 TATTTCACAAAAAT
54480098 T
1 T
54480099 CAAATATCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (14 bp):
TATTTCACAAAAAT
Found at i:54486987 original size:33 final size:33
Alignment explanation
Indices: 54486945--54487017 Score: 146
Period size: 33 Copynumber: 2.2 Consensus size: 33
54486935 CATCGCCCCT
54486945 TCAGCCGGAGCTGGTGCATTACTCTCTACATCA
1 TCAGCCGGAGCTGGTGCATTACTCTCTACATCA
54486978 TCAGCCGGAGCTGGTGCATTACTCTCTACATCA
1 TCAGCCGGAGCTGGTGCATTACTCTCTACATCA
54487011 TCAGCCG
1 TCAGCCG
54487018 CAACTGGATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.26
Consensus pattern (33 bp):
TCAGCCGGAGCTGGTGCATTACTCTCTACATCA
Found at i:54491433 original size:47 final size:47
Alignment explanation
Indices: 54491379--54491572 Score: 262
Period size: 47 Copynumber: 4.1 Consensus size: 47
54491369 TTAGGATTTT
** * * *
54491379 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
54491426 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
54491473 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
54491520 ATATGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
54491567 ATGTGA
1 ATGTGA
54491573 AATATATATA
Statistics
Matches: 128, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 128 1.00
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:54491862 original size:35 final size:35
Alignment explanation
Indices: 54491778--54491881 Score: 163
Period size: 35 Copynumber: 2.9 Consensus size: 35
54491768 AAATATATTC
54491778 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATT-TGT
* *
54491814 CCGGTAAGACCCGATGACTACGTGTGGAGATTTTT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTGT
* *
54491849 CGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTT
54491882 CGTCTGAGCT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 32 0.51
36 31 0.49
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (35 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTGT
Found at i:54493553 original size:40 final size:40
Alignment explanation
Indices: 54493153--54493541 Score: 629
Period size: 40 Copynumber: 9.8 Consensus size: 40
54493143 GAATTGAGAC
* *
54493153 TGATATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* *
54493193 TGATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
54493233 TGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
54493273 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
54493313 TGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
54493353 TGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
*
54493393 TGATGTATCC-GGATAAAGTCCCGAAGAGCATTC-TGCTAG
1 TGATGTATCCGGGCT-AAGTCCCGAAGAGCATTCGTGCTAG
*
54493432 TGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCTAG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* *
54493472 TGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGG
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
* * *
54493512 TGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 TGATGTATCCGGGCTAAGTCCCGAAGAGCA
54493542 ATCATGCTGG
Statistics
Matches: 330, Mismatches: 16, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
39 36 0.11
40 294 0.89
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAG
Found at i:54495488 original size:40 final size:40
Alignment explanation
Indices: 54495384--54495503 Score: 136
Period size: 40 Copynumber: 3.0 Consensus size: 40
54495374 CCACATGAGA
* *
54495384 TTACTAAATCCGGGCTAAG-CCCGAAGGCATTGGTGCGAG
1 TTACTAAATACGGGCTAAGTCCCGAAGGCATTTGTGCGAG
* * * * *
54495423 TTAGTAAATCCAGGTTAAGTGCCGAAGGCATTTGTGCGAG
1 TTACTAAATACGGGCTAAGTCCCGAAGGCATTTGTGCGAG
* *
54495463 TTACTATAA-ACGGGCTATGTCCCGAAGGCATTTGAGCGAG
1 TTACTA-AATACGGGCTAAGTCCCGAAGGCATTTGTGCGAG
54495503 T
1 T
54495504 AGTTATATCC
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
39 16 0.24
40 49 0.73
41 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (40 bp):
TTACTAAATACGGGCTAAGTCCCGAAGGCATTTGTGCGAG
Found at i:54503672 original size:40 final size:40
Alignment explanation
Indices: 54503518--54503711 Score: 205
Period size: 40 Copynumber: 4.8 Consensus size: 40
54503508 TTCGAATGAT
* ** * * *
54503518 ATCCGGGCTAAGTCCCGAATGTTTTTGTGCTAAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
* *
54503559 ATCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
54503599 TTCCGGGCTAAG-CCCAAAGGCATTGGTGTGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
54503638 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
54503679 A-CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
54503712 AGCTATATCC
Statistics
Matches: 127, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
39 32 0.25
40 69 0.54
41 25 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:54503735 original size:79 final size:79
Alignment explanation
Indices: 54503575--54503737 Score: 188
Period size: 79 Copynumber: 2.1 Consensus size: 79
54503565 ACTAAGATCT
* * *
54503575 GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCAAAGGCATTGGTGTGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAGCGAGTTACTAAAT
* *
54503640 CCGGGTTAAGTCCC
66 CCGGATTAAATCCC
* * *
54503654 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTA
1 GAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAGCGAGTTA-CTA
* *
54503717 TATCC-GATTAAATTCC
63 AATCCGGATTAAATCCC
54503733 GAAGG
1 GAAGG
54503738 TATGTGATTC
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.65
80 23 0.32
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCAAAGGCATTGGAGCGAGTTACTAAAT
CCGGATTAAATCCC
Found at i:54508657 original size:47 final size:47
Alignment explanation
Indices: 54508603--54508796 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
54508593 TTAGGATTTT
** * *
54508603 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
54508650 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
54508697 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
54508744 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
54508791 ATGTGA
1 ATGTGA
54508797 AATATATATA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:54508703 original size:22 final size:22
Alignment explanation
Indices: 54508632--54508703 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
54508622 GTATATATGA
54508632 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
54508654 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
54508679 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
54508701 GAT
1 GAT
54508704 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:54508752 original size:25 final size:25
Alignment explanation
Indices: 54508677--54508752 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
54508667 ATGCATATAT
54508677 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
54508702 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
54508724 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
54508749 GTGA
1 GTGA
54508753 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:54508850 original size:94 final size:92
Alignment explanation
Indices: 54508632--54508851 Score: 207
Period size: 94 Copynumber: 2.3 Consensus size: 92
54508622 GTATATATGA
* * *
54508632 GATAAGGCCGAATGGCCAA-TGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 GATAAAGCCGAATGG-CAAGTGTGA--AATATGAACATGCATATATGTGATAAAGCCGAATGGCC
*
54508696 AATGTGATGAATGTGAGCATGCATATGTGT
63 AATGTGATGAATATGAGCATGCATATGTGT
* * *
54508726 GATAAGGCCGAATGGCCAATGTGGTG-AATATGAACATGCATATATGTGGTAAAGCCGAATGGTC
1 GATAAAGCCGAATGG-CAA-GT-GTGAAATATGAACATGCATATATGTGATAAAGCCGAATGGCC
* * *
54508790 AATGTGAAAT-ATATATATAGATATGTATATGTG-
63 AATGTG--ATGA-ATAT-GAG-CATGCATATGTGT
*
54508823 G-TAAAGCCGAATGGCTAGTGTGAAATATG
1 GATAAAGCCGAATGGCAAGTGTGAAATATG
54508852 TAGGCGATGT
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
93 3 0.03
94 67 0.63
95 3 0.03
96 18 0.17
97 6 0.06
98 10 0.09
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (92 bp):
GATAAAGCCGAATGGCAAGTGTGAAATATGAACATGCATATATGTGATAAAGCCGAATGGCCAAT
GTGATGAATATGAGCATGCATATGTGT
Found at i:54509107 original size:37 final size:37
Alignment explanation
Indices: 54508999--54509107 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
54508989 GGAAATATAT
* *
54508999 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
54509036 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
54509073 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
54509108 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:54512692 original size:19 final size:19
Alignment explanation
Indices: 54512668--54512704 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
54512658 TATTTTTCAG
54512668 CAATAATAATATGAAAAAA
1 CAATAATAATATGAAAAAA
54512687 CAATAATAATATGAAAAA
1 CAATAATAATATGAAAAA
54512705 TAAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (19 bp):
CAATAATAATATGAAAAAA
Found at i:54513742 original size:20 final size:20
Alignment explanation
Indices: 54513717--54513754 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
54513707 TATTCTGAGT
54513717 GATGAATATTATATTTAGGA
1 GATGAATATTATATTTAGGA
54513737 GATGAATATTATATTTAG
1 GATGAATATTATATTTAG
54513755 AACTCTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.42
Consensus pattern (20 bp):
GATGAATATTATATTTAGGA
Found at i:54520166 original size:21 final size:21
Alignment explanation
Indices: 54520116--54520172 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 21
54520106 ATATTTTATA
*
54520116 AATCAATAAATTTTTAAACAAT
1 AATCAA-AAATTTTCAAACAAT
* *
54520138 ATTTAAAAATTTTCAAATC-AT
1 AATCAAAAATTTTCAAA-CAAT
54520159 AATCAAAATATTTT
1 AATCAAAA-ATTTT
54520173 TTCTATTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (21 bp):
AATCAAAAATTTTCAAACAAT
Found at i:54525966 original size:39 final size:39
Alignment explanation
Indices: 54525922--54526088 Score: 226
Period size: 39 Copynumber: 4.3 Consensus size: 39
54525912 ATATATGGCG
54525922 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGGGA
1 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGGGA
*
54525961 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGGAA
1 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGGGA
*
54526000 ATTATATTCGGACTTAAGGTCCGTAGGCTATATGCGGGA
1 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGGGA
* * * ** * ** * *
54526039 ATCATATTCGAACTTCGGGTTCGCCGGCTATGTGCTGGA
1 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGGGA
54526078 ATTATATCCGG
1 ATTATATCCGG
54526089 GCTAATAGTC
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 113 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (39 bp):
ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCGGGA
Found at i:54529152 original size:19 final size:19
Alignment explanation
Indices: 54529117--54529153 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
54529107 CTCAGTTGAG
*
54529117 GGTAATTAGCGACTTAATT
1 GGTAATTAGAGACTTAATT
*
54529136 GGTAATTAGAGATTTAAT
1 GGTAATTAGAGACTTAAT
54529154 CGATCATAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (19 bp):
GGTAATTAGAGACTTAATT
Found at i:54529230 original size:29 final size:29
Alignment explanation
Indices: 54529197--54529272 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 29
54529187 TAGGAAAAGG
54529197 AAATTACATTAGGTTATCTTAGGTTAATT
1 AAATTACATTAGGTTATCTTAGGTTAATT
* *
54529226 AAATTCCATTAGGTTATTTTTTAGGTTAATT
1 AAATTACATTAGGTTA--TCTTAGGTTAATT
* *
54529257 AATTTA-ATTAGTTTAT
1 AAATTACATTAGGTTAT
54529273 ATTTTAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 1 0.03
29 15 0.38
30 8 0.20
31 16 0.40
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (29 bp):
AAATTACATTAGGTTATCTTAGGTTAATT
Found at i:54529278 original size:30 final size:31
Alignment explanation
Indices: 54529215--54529278 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
54529205 TTAGGTTATC
* *
54529215 TTAGGTTAATTAAATTCCATTAGGTTATTTT
1 TTAGGTTAATTAAATTCAATTAGGTTATATT
* *
54529246 TTAGGTTAATT-AATTTAATTAGTTTATATT
1 TTAGGTTAATTAAATTCAATTAGGTTATATT
54529276 TTA
1 TTA
54529279 ATTTTGCATC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 18 0.62
31 11 0.38
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.55
Consensus pattern (31 bp):
TTAGGTTAATTAAATTCAATTAGGTTATATT
Found at i:54531166 original size:50 final size:48
Alignment explanation
Indices: 54531091--54531316 Score: 202
Period size: 50 Copynumber: 4.5 Consensus size: 48
54531081 TGAGTACACG
* * *
54531091 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTT-GGTCACA
* * * * *
54531141 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTTA-ATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATG--TT-GGTCACA
* * * *
54531192 TGTGTATTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GT-TGGTCACA
* * * * *
54531242 TGTGTAGTACTAAGTGCAGGTTACTATGTGTACCGGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGTTGGTCACA
*
54531291 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
54531317 TGCGTATCAG
Statistics
Matches: 143, Mismatches: 26, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
49 31 0.22
50 73 0.51
51 38 0.27
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGTTGGTCACA
Found at i:54531267 original size:101 final size:101
Alignment explanation
Indices: 54531087--54531274 Score: 279
Period size: 101 Copynumber: 1.9 Consensus size: 101
54531077 ATTGTGAGTA
* * *
54531087 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTGAAGTCACATGTGTAGTACT
54531152 AAGTGCAGGCTACTATGCGTACTTAATGACTTCGAT
66 AAGTGCAGGCTACTATGCGTACTTAATGACTTCGAT
* * * *
54531188 CACGTGTGTATTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACGTGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTGAAGTCACATGTGTAGTAC
* *
54531252 TAAGTGCAGGTTACTATGTGTAC
65 TAAGTGCAGGCTACTATGCGTAC
54531275 CGGATTATTG
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
100 1 0.01
101 76 0.99
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTGAAGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACTTAATGACTTCGAT
Found at i:54533645 original size:36 final size:35
Alignment explanation
Indices: 54533588--54533658 Score: 81
Period size: 36 Copynumber: 2.0 Consensus size: 35
54533578 ATATTATTAT
* * *
54533588 ATTAATAATAAATTTTTATTTTTAAAAATATCTAAA
1 ATTAATAATAAATTATAATTTTCAAAAATAT-TAAA
*
54533624 ATTAATAA-AATATTATAATTTTCAATAATATTAAA
1 ATTAATAATAA-ATTATAATTTTCAAAAATATTAAA
54533659 CATAAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
35 6 0.20
36 24 0.80
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (35 bp):
ATTAATAATAAATTATAATTTTCAAAAATATTAAA
Found at i:54533709 original size:16 final size:15
Alignment explanation
Indices: 54533688--54533781 Score: 54
Period size: 16 Copynumber: 6.3 Consensus size: 15
54533678 TTATCTTATC
54533688 ATATAATAAATTATT-
1 ATAT-ATAAATTATTA
54533703 A-ATATAAATTATTA
1 ATATATAAATTATTA
* *
54533717 TTTTAATAAATTATTTA
1 ATAT-ATAAATTA-TTA
* *
54533734 ATATTTCAATT-TT-
1 ATATATAAATTATTA
54533747 A-ATATAAATTATTA
1 ATATATAAATTATTA
* *
54533761 TTTTAATAAATTATTTA
1 ATAT-ATAAATTA-TTA
54533778 ATAT
1 ATAT
54533782 TTCAATTTTG
Statistics
Matches: 58, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
12 7 0.12
13 13 0.22
14 4 0.07
15 3 0.05
16 21 0.36
17 10 0.17
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATATAAATTATTA
Found at i:54533711 original size:13 final size:13
Alignment explanation
Indices: 54533693--54533760 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 13
54533683 TTATCATATA
54533693 ATAAATTATTAAT
1 ATAAATTATTAAT
*
54533706 ATAAATTATTATTTT
1 ATAAATTATTA--AT
54533721 AATAAATTATTTAAT
1 -ATAAATTA-TTAAT
*
54533736 ATTTCAATT-TTAAT
1 A--TAAATTATTAAT
54533750 ATAAATTATTA
1 ATAAATTATTA
54533761 TTTTAATAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
12 5 0.11
13 14 0.32
14 7 0.16
15 2 0.05
16 13 0.30
17 3 0.07
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (13 bp):
ATAAATTATTAAT
Found at i:54533810 original size:44 final size:44
Alignment explanation
Indices: 54533696--54533790 Score: 181
Period size: 44 Copynumber: 2.1 Consensus size: 44
54533686 TCATATAATA
54533696 AATTATTAATATAAATTATTATTTTAATAAATTATTTAATATTTC
1 AATT-TTAATATAAATTATTATTTTAATAAATTATTTAATATTTC
54533741 AATTTTAATATAAATTATTATTTTAATAAATTATTTAATATTTC
1 AATTTTAATATAAATTATTATTTTAATAAATTATTTAATATTTC
54533785 AATTTT
1 AATTTT
54533791 GTTTTAGTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 46 0.92
45 4 0.08
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (44 bp):
AATTTTAATATAAATTATTATTTTAATAAATTATTTAATATTTC
Found at i:54534035 original size:30 final size:28
Alignment explanation
Indices: 54533967--54534035 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
54533957 ACTTTTCACA
*
54533967 AATTTG-AAATTTAGTCTCTATACTTTT
1 AATTTGAAAATTTAGTCCCTATACTTTT
* * *
54533994 ATTTTCAAAAATTTAGTCCCTTTACTTTTT
1 AATTT-GAAAATTTAGTCCCTATAC-TTTT
54534024 AGATTTGAAAAT
1 A-ATTTGAAAAT
54534036 CGAGTCCAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
27 4 0.12
29 15 0.47
30 10 0.31
31 3 0.09
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (28 bp):
AATTTGAAAATTTAGTCCCTATACTTTT
Found at i:54534337 original size:22 final size:23
Alignment explanation
Indices: 54534286--54534346 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
54534276 TATGACATAT
*
54534286 TTTAACTTGATATAAAATATGATTAC
1 TTTAA-TT-ATAT-AAATATGAGTAC
54534312 TTTAATTATATAAATATGAGTA-
1 TTTAATTATATAAATATGAGTAC
* *
54534334 TTTACTTAAATAA
1 TTTAATTATATAA
54534347 TGCTTAGCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 11 0.34
23 10 0.31
24 4 0.12
25 2 0.06
26 5 0.16
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (23 bp):
TTTAATTATATAAATATGAGTAC
Found at i:54534759 original size:21 final size:21
Alignment explanation
Indices: 54534714--54534757 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
54534704 ATCCAAATAT
54534714 AAAA-AAAATATTAATTTTTC
1 AAAAGAAAATATTAATTTTTC
54534734 AAAAGAAAATATT-ATTTTTC
1 AAAAGAAAATATTAATTTTTC
54534754 AAAA
1 AAAA
54534758 AGTAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAAGAAAATATTAATTTTTC
Found at i:54544046 original size:44 final size:45
Alignment explanation
Indices: 54543991--54544163 Score: 149
Period size: 44 Copynumber: 3.8 Consensus size: 45
54543981 TATACGTGCT
* *
54543991 GATGCATGTCCTAGACATGTCTTACACTAGCACAAC-TCTTA-GCC
1 GATGCATGTCCTAGACATGTCTTACACTGGCACAACGTC-GAGGCC
* *
54544035 GATGCATGTCCTAGACACGTCTTACACTGGCTATCATCGTCGAGGCC
1 GATGCATGTCCTAGACATGTCTTACACTGGC-A-CAACGTCGAGGCC
* * * *
54544082 GATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATA-AT-GTGGCT
1 GATG-CATGTCCTAGACAT-GTCTTACACTGGCA--CA-ACGTCGAGGCC
*
54544130 GATGCATGTCCCA-AGCATGTCTTACACTGGCACA
1 GATGCATGTCCTAGA-CATGTCTTACACTGGCACA
54544164 CAAGAAATTC
Statistics
Matches: 110, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
44 31 0.28
45 1 0.01
46 19 0.17
47 21 0.19
48 21 0.19
49 17 0.15
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (45 bp):
GATGCATGTCCTAGACATGTCTTACACTGGCACAACGTCGAGGCC
Found at i:54544099 original size:48 final size:46
Alignment explanation
Indices: 54544032--54544162 Score: 140
Period size: 48 Copynumber: 2.8 Consensus size: 46
54544022 ACAACTCTTA
* **
54544032 GCCGATGCATGTCCTAGACACGTCTTACACTGGCTA-TCATCGTCGAG
1 GCCGATGCATGTCCCAGACACGTCTTACACTGGC-ACTCATAAT-GAG
* *
54544079 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATAATGTG
1 GCCGATG-CATGTCCCAGACA-CGTCTTACACTGGCACTCATAATGAG
* *
54544127 GCTGATGCATGTCCCA-AGCATGTCTTACACTGGCAC
1 GCCGATGCATGTCCCAGA-CACGTCTTACACTGGCAC
54544163 ACAAGAAATT
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
46 16 0.22
47 18 0.25
48 21 0.29
49 18 0.25
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.25
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACACGTCTTACACTGGCACTCATAATGAG
Found at i:54556129 original size:46 final size:46
Alignment explanation
Indices: 54556079--54556254 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
54556069 TGTTTGGGCA
54556079 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
54556125 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
54556170 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACATATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
54556218 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54556255 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 63 0.59
47 28 0.26
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54556234 original size:93 final size:93
Alignment explanation
Indices: 54556075--54556246 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
54556065 AGGATGTTTG
* * *
54556075 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAACGCCCGAACTCGTTGAG
54556140 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* *
54556168 GGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACATATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAACGCCCGAACTCGTTGAG
*
54556233 TTGAGTTCGAGTTC
66 TTGAGTCCGAGTTC
54556247 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACATATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:54564308 original size:47 final size:46
Alignment explanation
Indices: 54564106--54564421 Score: 232
Period size: 47 Copynumber: 6.7 Consensus size: 46
54564096 ATAAGTTGCT
*
54564106 GATGCCATGTCCCAGACATGGTCTTACATTGGCTATCATCATCGAGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGC-ATCATCATCGAGGCC
* * * * *
54564155 GATGCCATGTCCCAGACATGATCTTATACTAGCTCTCGTAT-ATACG-TGCT
1 GATG-CATGTCCCAGACATG-TCTTACACTGGC-ATC--ATCAT-CGAGGCC
* * * * * * *
54564205 GATGCTTGTCCTAGACATATCTTACACTAGCA-CAAC-TCTTA-GTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCATCATCATC-GAGGCC
* *
54564249 GATGCATGTCCCAGACACGTCTTACACTGGCTATCATCGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ATCATCATCGAGGCC
* * * *
54564296 GATGCATGTCCCACACATGTCTTACACTGGCACTCATC-TCTACGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCATCGAGGCC
* * * *
54564342 GAAGCCATGTCCTAGACATGGTCTTACACTGGCACTCATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCA-TCATCATCGAGGCC
*
54564390 GATGCATGTCCTAGACATGTCTTACACTGGCA
1 GATGCATGTCCCAGACATGTCTTACACTGGCA
54564422 CACAAGAAAT
Statistics
Matches: 215, Mismatches: 37, Indels: 33
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.00
44 29 0.13
45 1 0.00
46 28 0.13
47 64 0.30
48 36 0.17
49 44 0.20
50 8 0.04
51 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCATCATCATCGAGGCC
Found at i:54564393 original size:141 final size:140
Alignment explanation
Indices: 54564106--54564420 Score: 350
Period size: 141 Copynumber: 2.2 Consensus size: 140
54564096 ATAAGTTGCT
* * *
54564106 GATGCCATGTCCCAGACATGGTCTTACATTGGCTATCATCATCGAGGCCGATGCCATGTCCCAGA
1 GATG-CATGTCCCAGACA-CGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCACA
* * * * *
54564171 CATGATCTTATACTAGCTCTCGTATATACGTGCTGATGCTTGTCCTAGACATATCTTACACTAGC
64 CATGATCTTACACTAGCACTCATATATACG-GCTGAAGCATGTCCTAGACATATCTTACACTAGC
* * *
54564236 ACAACTCTTAGTC
128 ACAAATCGTAGCC
*
54564249 GATGCATGTCCCAGACACGTCTTACACTGGCTATCATCGTCGAGGCCGATG-CATGTCCCACACA
1 GATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCACACA
* * * * *
54564313 TG-TCTTACACTGGCACTCATCTCTAC-GCTGAAGCCATGTCCTAGACATGGTCTTACACTGGCA
66 TGATCTTACACTAGCACTCATATATACGGCTGAAG-CATGTCCTAGACAT-ATCTTACACTAGCA
*
54564376 CTCATAAT-GTGGCC
129 --CA-AATCGTAGCC
* *
54564390 GATGCATGTCCTAGACATGTCTTACACTGGC
1 GATGCATGTCCCAGACACGTCTTACACTGGC
54564421 ACACAAGAAA
Statistics
Matches: 147, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
137 6 0.04
138 13 0.09
139 30 0.20
140 14 0.10
141 65 0.44
142 15 0.10
143 4 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (140 bp):
GATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGATGCCATGTCCCACACA
TGATCTTACACTAGCACTCATATATACGGCTGAAGCATGTCCTAGACATATCTTACACTAGCACA
AATCGTAGCC
Found at i:54569988 original size:27 final size:27
Alignment explanation
Indices: 54569950--54570008 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
54569940 TTCGGACTGA
54569950 ATAGAAGGTTTTTTTTATCTTAAGTTG
1 ATAGAAGGTTTTTTTTATCTTAAGTTG
* * *
54569977 ATAGAAGTTTTTTTTTATCTTAATTTT
1 ATAGAAGGTTTTTTTTATCTTAAGTTG
54570004 ATAGA
1 ATAGA
54570009 TCGTTAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (27 bp):
ATAGAAGGTTTTTTTTATCTTAAGTTG
Found at i:54578878 original size:39 final size:39
Alignment explanation
Indices: 54578850--54578952 Score: 161
Period size: 40 Copynumber: 2.6 Consensus size: 39
54578840 GGATATAGCC
*
54578850 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG-TATAGTA
* *
54578890 ACTTGCACAAATGCCTTCGGGACTTAGCCCGGTATAATA
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTA
*
54578929 ACTCGCACAAATGCCTTCGGGACT
1 ACTAGCACAAATGCCTTCGGGACT
54578953 CGCACAAATA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 29 0.49
40 30 0.51
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTATAGTA
Found at i:54578901 original size:40 final size:39
Alignment explanation
Indices: 54578857--54578952 Score: 165
Period size: 39 Copynumber: 2.4 Consensus size: 39
54578847 GCCACTAGCT
* *
54578857 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
54578897 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
54578936 CAAATGCCTTCGGGACT
1 CAAATGCCTTCGGGACT
54578953 CGCACAAATA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
39 29 0.54
40 25 0.46
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
Found at i:54578968 original size:34 final size:37
Alignment explanation
Indices: 54578857--54578973 Score: 123
Period size: 39 Copynumber: 3.1 Consensus size: 37
54578847 GCCACTAGCT
* * *
54578857 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCAC-G--ATAATAACTCGCA
*
54578897 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCAC-G-ATAATAACTCGCA
*
54578936 CAAATGCCTTCGGGAC-TCGCAC-A-AATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCACGATAATAACTCGCA
54578970 CAAA
1 CAAA
54578974 CTTTAACATG
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
34 15 0.21
35 1 0.01
38 4 0.05
39 28 0.38
40 25 0.34
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (37 bp):
CAAATGCCTTCGGGACTTAGCACGATAATAACTCGCA
Found at i:54596176 original size:13 final size:13
Alignment explanation
Indices: 54596152--54596188 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
54596142 CGGCAGGGAT
*
54596152 ACGCCTGTGTGAC
1 ACGCCCGTGTGAC
*
54596165 ATGCCCGTGTGAC
1 ACGCCCGTGTGAC
54596178 ACGCCCGTGTG
1 ACGCCCGTGTG
54596189 TGATTACTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.32, G:0.32, T:0.22
Consensus pattern (13 bp):
ACGCCCGTGTGAC
Found at i:54600829 original size:23 final size:23
Alignment explanation
Indices: 54600801--54600849 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
54600791 CTAGAGTAGT
54600801 TTTGGCTTATCGTGTATTCTCAG
1 TTTGGCTTATCGTGTATTCTCAG
*
54600824 TTTGGCTTATCGTGTATTCTCGG
1 TTTGGCTTATCGTGTATTCTCAG
54600847 TTT
1 TTT
54600850 ATGTGTCCGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.10, C:0.16, G:0.22, T:0.51
Consensus pattern (23 bp):
TTTGGCTTATCGTGTATTCTCAG
Found at i:54615467 original size:30 final size:30
Alignment explanation
Indices: 54615433--54615492 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
54615423 TTCCCGAGCC
* *
54615433 TAGGGGCAATAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
54615463 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
54615493 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:54625300 original size:48 final size:49
Alignment explanation
Indices: 54625245--54625349 Score: 119
Period size: 48 Copynumber: 2.2 Consensus size: 49
54625235 GAGGCCCTGA
* *
54625245 GATATGTTGGATA-GATAAGGGAATGTTGAGCT-TA-GCTCCA-TTCAATGG
1 GATATGTTGGATATG-TAAGAGAATGTT-AGCTATATGCTACACTTC-ATGG
* *
54625293 GATATGTTGGTTATGTTAGAGAATGTTAGCTATATGCTACACTTCATGG
1 GATATGTTGGATATGTAAGAGAATGTTAGCTATATGCTACACTTCATGG
54625342 GATATGTT
1 GATATGTT
54625350 AGATGTTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
47 4 0.08
48 24 0.49
49 18 0.37
50 3 0.06
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.36
Consensus pattern (49 bp):
GATATGTTGGATATGTAAGAGAATGTTAGCTATATGCTACACTTCATGG
Found at i:54626261 original size:11 final size:11
Alignment explanation
Indices: 54626245--54626271 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
54626235 TGATGTTGCA
54626245 ATGACATTAGT
1 ATGACATTAGT
54626256 ATGACATTAGT
1 ATGACATTAGT
54626267 ATGAC
1 ATGAC
54626272 GTTGCGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (11 bp):
ATGACATTAGT
Found at i:54635852 original size:29 final size:29
Alignment explanation
Indices: 54635810--54635886 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
54635800 GAACAATTAT
*
54635810 CATGGCTCGAAGCCAAATCATCCGATATG
1 CATGGCCCGAAGCCAAATCATCCGATATG
* * *
54635839 CATGGCCCAAAGCCAAGTCATTCGATATG
1 CATGGCCCGAAGCCAAATCATCCGATATG
*
54635868 CATGGCCTGAAGCCAAATC
1 CATGGCCCGAAGCCAAATC
54635887 GATATAACTT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (29 bp):
CATGGCCCGAAGCCAAATCATCCGATATG
Found at i:54652147 original size:37 final size:37
Alignment explanation
Indices: 54652088--54652230 Score: 223
Period size: 37 Copynumber: 3.9 Consensus size: 37
54652078 AGCTCAGACG
* *
54652088 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
54652125 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
54652162 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * * *
54652199 TACTCTCCACACGTAGTCATCAGGTCTCACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
54652231 AGAATATATT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:54652450 original size:47 final size:47
Alignment explanation
Indices: 54652396--54652957 Score: 838
Period size: 47 Copynumber: 12.0 Consensus size: 47
54652386 TTTCACACTA
* * * *
54652396 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
54652443 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
54652490 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
54652537 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
54652584 GTCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
54652631 GCCATTCGGCCTTATCACACATATGCATGCTAACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
54652678 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
54652725 GTCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
54652772 GCCATTCGGCCTTATCACATATATGCAT-TCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGT-TCACATTCATCACATTG
* * * *
54652819 GCCATTCGGCCTCATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* *
54652866 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* **
54652913 GCCATTCGGCCTTATCACATATATACAAATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
54652958 AAAATCCTAA
Statistics
Matches: 462, Mismatches: 51, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
47 461 1.00
48 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:54652582 original size:25 final size:25
Alignment explanation
Indices: 54652503--54652628 Score: 72
Period size: 25 Copynumber: 5.3 Consensus size: 25
54652493 ATTCGGCCTT
*
54652503 ATCACATATATGCATGCTCACATTC
1 ATCACATATATGCATGTTCACATTC
* * *
54652528 ATCACAT-T-GGCCA--TTCGGC-CTC
1 ATCACATATATG-CATGTTC-ACATTC
54652550 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCATGTTCACATTC
** * *
54652575 ATCACATAGGT-CA--TTCGGCCTT-
1 ATCACATATATGCATGTTC-ACATTC
*
54652597 ATCACATATATGCATGTTCATATTC
1 ATCACATATATGCATGTTCACATTC
*
54652622 ACCACAT
1 ATCACAT
54652629 TGGCCATTCG
Statistics
Matches: 72, Mismatches: 17, Indels: 24
0.64 0.15 0.21
Matches are distributed among these distances:
22 23 0.32
23 10 0.14
24 9 0.12
25 30 0.42
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.33
Consensus pattern (25 bp):
ATCACATATATGCATGTTCACATTC
Found at i:54652595 original size:141 final size:141
Alignment explanation
Indices: 54652396--54652957 Score: 926
Period size: 141 Copynumber: 4.0 Consensus size: 141
54652386 TTTCACACTA
* * * *
54652396 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTCATCACATATATACATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
54652461 ACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACAT
66 ACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACAT
54652526 TCATCACATTG
131 TCATCACATTG
* * * * *
54652537 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAGGTCATTCGGCCTTATCAC
1 GCCATTCGGCCTCATCACATATATACATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
* * * * * *
54652602 ATATATGCATGTTCATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCATGCTAACAT
66 ACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACAT
54652667 TCATCACATTG
131 TCATCACATTG
* *
54652678 GCCATTCGGCCTTATCACATATATACATGTTCATATTCACCACATTGGTCATTCGGCCTTATCAC
1 GCCATTCGGCCTCATCACATATATACATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
*
54652743 ACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATTCTCACAT
66 ACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACAT
54652808 TCATCACATTG
131 TCATCACATTG
54652819 GCCATTCGGCCTCATCACATATATACATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTCATCACATATATACATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
* ***
54652884 ACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAAATTCACAT
66 ACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACAT
54652949 TCATCACAT
131 TCATCACAT
54652958 AAAATCCTAA
Statistics
Matches: 390, Mismatches: 31, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
141 390 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (141 bp):
GCCATTCGGCCTCATCACATATATACATGTTCATATTCACCACATTGGCCATTCGGCCTTATCAC
ACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACAT
TCATCACATTG
Found at i:54652790 original size:22 final size:22
Alignment explanation
Indices: 54652763--54652838 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
54652753 GCTCACATTC
54652763 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
54652785 ATCACATATATG-CATTC-TCACATT
1 ATCACAT-T-GGCCATTCGGC-C-TT
*
54652809 CATCACATTGGCCATTCGGCCTC
1 -ATCACATTGGCCATTCGGCCTT
54652832 ATCACAT
1 ATCACAT
54652839 ATATACATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 15 0.36
23 9 0.21
24 10 0.24
25 8 0.19
ACGTcount: A:0.25, C:0.32, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:54652814 original size:25 final size:25
Alignment explanation
Indices: 54652738--54652816 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
54652728 ATTCGGCCTT
* *
54652738 ATCACACATATGCATGCTCACATTC
1 ATCACATATATGCATTCTCACATTC
* *
54652763 ATCACAT-T-GGCCATTCGGC-C-TT-
1 ATCACATATATG-CATTC-TCACATTC
54652785 ATCACATATATGCATTCTCACATTC
1 ATCACATATATGCATTCTCACATTC
54652810 ATCACAT
1 ATCACAT
54652817 TGGCCATTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 8 0.20
23 10 0.24
24 9 0.22
25 14 0.34
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (25 bp):
ATCACATATATGCATTCTCACATTC
Found at i:54656884 original size:25 final size:25
Alignment explanation
Indices: 54656856--54656930 Score: 123
Period size: 25 Copynumber: 3.0 Consensus size: 25
54656846 CGTTTCGACC
54656856 TATAGCTCGTGTGAGCATACCGATT
1 TATAGCTCGTGTGAGCATACCGATT
* *
54656881 TATAGCTCGTGAGAGCATACCGATC
1 TATAGCTCGTGTGAGCATACCGATT
*
54656906 TATAGCTCGAGTGAGCATACCGATT
1 TATAGCTCGTGTGAGCATACCGATT
54656931 CACAGCTAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (25 bp):
TATAGCTCGTGTGAGCATACCGATT
Found at i:54656945 original size:25 final size:25
Alignment explanation
Indices: 54656857--54656950 Score: 95
Period size: 25 Copynumber: 3.8 Consensus size: 25
54656847 GTTTCGACCT
* *
54656857 ATAGCTCGTGTGAGCATACCGATTT
1 ATAGCTCGTATGAGCATACCGATTC
54656882 ATAGCTCGTGA-GAGCATACCGA-TC
1 ATAGCTCGT-ATGAGCATACCGATTC
54656906 TATAGCTCG-AGTGAGCATACCGATTC
1 -ATAGCTCGTA-TGAGCATACCGATTC
* * *
54656932 ACAGCTAGTATGAGTATAC
1 ATAGCTCGTATGAGCATAC
54656951 ATGTACATGA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 53 0.91
26 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (25 bp):
ATAGCTCGTATGAGCATACCGATTC
Found at i:54659699 original size:34 final size:34
Alignment explanation
Indices: 54659656--54659720 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
54659646 TTACTGTCGC
*
54659656 TGTAATGGGCTAAGGCCC-ACACTGATATTGATAT
1 TGTAATGGGCTAAGGCCCTA-ACTGAAATTGATAT
*
54659690 TGTAATGGGCTATGGCCCTAACTGAAATTGA
1 TGTAATGGGCTAAGGCCCTAACTGAAATTGA
54659721 ACTGTTACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (34 bp):
TGTAATGGGCTAAGGCCCTAACTGAAATTGATAT
Found at i:54662587 original size:140 final size:141
Alignment explanation
Indices: 54662331--54662600 Score: 348
Period size: 140 Copynumber: 1.9 Consensus size: 141
54662321 TCATTCGTGT
* * *
54662331 GTAAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCA
1 GTAAGCCAGTGTAAGACATGTCTGGGACATACATCGGCCACATGATGAGAGCCAGTGTAAGACCA
*** * *
54662396 TGTCTGGGACATGGCATTGGCATTGAGATGAGGGCTAATGTAAGACATGTCTGGCACAT-GCATC
66 TGTCTGGGACATGGCATCAACATTGAGATGAGAGCCAATGTAAGACATGTCTGGCACATGGCATC
54662460 GGCCTCGAGAA
131 GGCCTCGAGAA
* * * * *
54662471 GTAAGCCAGTGTAAGACATGTTTGGGACATACATCGGCTATGA-GATGATAGTCAGTGTAAGACC
1 GTAAGCCAGTGTAAGACATGTCTGGGACATACATCGGCCA-CATGATGAGAGCCAGTGTAAGACC
* * * *
54662535 ATGTCTGGGACATGGCATCAAC-TTGAGATGTGAGCCAGTGTAAGACTGTGTCTGGGACATGGCA
65 ATGTCTGGGACATGGCATCAACATTGAGATGAGAGCCAATGTAAGAC-ATGTCTGGCACATGGCA
54662599 TC
129 TC
54662601 AGCACCTTAC
Statistics
Matches: 110, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
139 20 0.18
140 84 0.76
141 6 0.05
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (141 bp):
GTAAGCCAGTGTAAGACATGTCTGGGACATACATCGGCCACATGATGAGAGCCAGTGTAAGACCA
TGTCTGGGACATGGCATCAACATTGAGATGAGAGCCAATGTAAGACATGTCTGGCACATGGCATC
GGCCTCGAGAA
Found at i:54662601 original size:47 final size:47
Alignment explanation
Indices: 54662338--54662600 Score: 243
Period size: 47 Copynumber: 5.6 Consensus size: 47
54662328 TGTGTAAGCT
*** * *
54662338 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGA-GATGTGAGCC
* * * *
54662384 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGATGAGGGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGATGTGAGCC
* * * * *
54662432 AATGTAAGA-CATGTCTGGCACAT-GCATCGGCCTCGAGAAGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGAGATGTGAGCC
* * *
54662478 AGTGTAAGA-CATGTTTGGGACAT-ACATCGGCTATGAGATGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGATG-TGAGCC
**
54662524 AGTGTAAGACCATGTCTGGGACATGGCATCAACTTGAGATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATGTGAGCC
**
54662571 AGTGTAAGACTGTGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
54662601 AGCACCTTAC
Statistics
Matches: 178, Mismatches: 30, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
45 2 0.01
46 67 0.38
47 80 0.45
48 28 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATGTGAGCC
Found at i:54673089 original size:46 final size:46
Alignment explanation
Indices: 54672894--54673115 Score: 173
Period size: 46 Copynumber: 4.7 Consensus size: 46
54672884 ATTCGTGTGT
* * * * *
54672894 GAGCTAGTGTAAGAAATGCCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACGA-GATGA
* * * *
54672940 GAGCCAGTGTAAGACCATGTCTAGTACATGGCATTGGC-ATTGAGATGA
1 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTA-CGAGATGA
* * * * *
54672988 GGGCTAGTGTAAGACATGCCT-GGCACATGCATCTGCTTCGAGAAGTA
1 GAGCTAGTGTAAGACATGTCTAGG-ACATGCATCGGCTACGAGATG-A
*
54673035 -AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGA
* * * *
54673080 TAGTTAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCG
54673116 ACTTGAGATG
Statistics
Matches: 138, Mismatches: 27, Indels: 20
0.75 0.15 0.11
Matches are distributed among these distances:
45 1 0.01
46 71 0.51
47 36 0.26
48 29 0.21
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGA
Found at i:54673132 original size:93 final size:92
Alignment explanation
Indices: 54672894--54673165 Score: 219
Period size: 94 Copynumber: 2.9 Consensus size: 92
54672884 ATTCGTGTGT
* * * ** * * *
54672894 GAGCTAGTGTAAGAAATGCCTGGGACATGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCAT
1 GAGCTAGTGTAAGACATGCCTGGCACATGCATCTGCTTCGA-GAAGTGAGCCAGTGTAAGA-CAT
* * *
54672958 GTCTAGTACATGGCATTGGCATTGAGATGA
64 GTCTAGGACAT-GCATCGGCATCGAGATGA
* *
54672988 GGGCTAGTGTAAGACATGCCTGGCACATGCATCTGCTTCGAGAAGTAAGCCAGTGTAAGACATGT
1 GAGCTAGTGTAAGACATGCCTGGCACATGCATCTGCTTCGAGAAGTGAGCCAGTGTAAGACATGT
54673053 CTAGGACATGCATCGGC-TACGAGATGA
66 CTAGGACATGCATCGGCAT-CGAGATGA
* * ** * * * *
54673080 TAGTTAGTGTAAGACCATGTTTGGGACATGGCATC-GACTT-GAGATGTGAGCCACTGTATGACT
1 GAGCTAGTGTAAGA-CATGCCTGGCACAT-GCATCTG-CTTCGAGAAGTGAGCCAGTGTAAGAC-
* * *
54673143 GTGTCTGGGACATGGCATTGGCA
62 ATGTCTAGGACAT-GCATCGGCA
54673166 CCTTAACCAT
Statistics
Matches: 144, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
91 1 0.01
92 25 0.17
93 43 0.30
94 67 0.47
95 8 0.06
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (92 bp):
GAGCTAGTGTAAGACATGCCTGGCACATGCATCTGCTTCGAGAAGTGAGCCAGTGTAAGACATGT
CTAGGACATGCATCGGCATCGAGATGA
Found at i:54677771 original size:43 final size:43
Alignment explanation
Indices: 54677690--54677774 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
54677680 AAGTCGTACA
**
54677690 ATGCCAACGTCCCAGACGTGGTCTTACATGTAGTCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
54677733 ATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACATATC
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GTAAACACATATC
54677775 AGAATCACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
42 3 0.08
43 33 0.89
44 1 0.03
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACACATATCG
Found at i:54679980 original size:20 final size:20
Alignment explanation
Indices: 54679955--54679993 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
54679945 AGGGACTAAA
* *
54679955 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
54679975 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
54679994 TATTAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:54683229 original size:41 final size:41
Alignment explanation
Indices: 54683172--54683253 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
54683162 ATAGCCAAGA
54683172 AATCATTTTTCCGAGAGCTCCTCCGATAATCAAATCCGAGT
1 AATCATTTTTCCGAGAGCTCCTCCGATAATCAAATCCGAGT
*
54683213 AATCATTTTTCCGAGAGCTCCTCCGATAATCGAATCCGAGT
1 AATCATTTTTCCGAGAGCTCCTCCGATAATCAAATCCGAGT
54683254 CCTAATTAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (41 bp):
AATCATTTTTCCGAGAGCTCCTCCGATAATCAAATCCGAGT
Found at i:54685164 original size:42 final size:40
Alignment explanation
Indices: 54685065--54685174 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 40
54685055 CAATGCCAAC
* * * **
54685065 GTCCCAGACGTGGTCTTACATGTAATCAAATATGGCCTTT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATGGCCGAT
* *
54685105 GTCCCAGACAGGGTCTTACACGAAATCAAATATGATGTCGAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATG--GCCGAT
*
54685147 GTCTCAGACATGGTCTTACACGTAAATC
1 GTCCCAGACATGGTCTTACACG-AAATC
54685175 TCAAATCAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 30 0.52
42 23 0.40
43 5 0.09
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (40 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATATGGCCGAT
Found at i:54690023 original size:46 final size:46
Alignment explanation
Indices: 54689967--54690141 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
54689957 TGGTTGAGCA
*
54689967 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
54690013 TCCGAACTCGTTGAGTTGAGTCTGA-TTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* ** *
54690057 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATTTATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
54690105 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54690142 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 16, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 4 0.04
45 3 0.03
46 79 0.77
47 3 0.03
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54705263 original size:40 final size:41
Alignment explanation
Indices: 54705219--54705319 Score: 172
Period size: 40 Copynumber: 2.5 Consensus size: 41
54705209 GAACTAAGAT
54705219 CCGAAGGCAATT-GTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCAATTCGTGCGGGTTATTATAACCGGGTTAAGTC
54705259 CCGAAGGC-ATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCAATTCGTGCGGGTTATTATAACCGGGTTAAGTC
*
54705299 CCGAAGGC-ATTCGTGCTGGTT
1 CCGAAGGCAATTCGTGCGGGTT
54705320 GTTACATCCG
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
39 3 0.05
40 56 0.95
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.28
Consensus pattern (41 bp):
CCGAAGGCAATTCGTGCGGGTTATTATAACCGGGTTAAGTC
Found at i:54728312 original size:78 final size:79
Alignment explanation
Indices: 54728150--54728370 Score: 234
Period size: 78 Copynumber: 2.8 Consensus size: 79
54728140 GAATCACATA
* * **
54728150 CCTTCGGAATTTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGT
1 CCTTCGGAACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGAATATAGT
54728215 AACTCGCACAAATG
66 AACTCGCACAAATG
* * * *
54728229 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGCACCAATGCCTTCGGG-CTTAGCCCGAAT-TA
1 CCTTCGGAACTTAA-CCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACATAGCCCGAATATA
54728291 GTAACTCGCACAAATG
64 GTAACTCGCACAAATG
** * * * * *
54728307 CCTTCGGATGTTAGTCCGGATATAG-TCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGAACTTA-ACCGGATATAGCT-AC-TCGCACAAATGCCTTCGGGACATAGCCCGAATAT
54728371 CATTCGAATA
Statistics
Matches: 118, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 40 0.34
79 38 0.32
80 39 0.33
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CCTTCGGAACTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGAATATAGT
AACTCGCACAAATG
Found at i:54728367 original size:41 final size:40
Alignment explanation
Indices: 54728164--54728370 Score: 251
Period size: 40 Copynumber: 5.2 Consensus size: 40
54728154 CGGAATTTAA
* *
54728164 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
54728204 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
54728244 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
54728283 CCGAAT-TAGTAACTCGCACAAATGCCTTC-GGATGTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
54728322 CCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
54728363 CCGGATAT
1 CCGGATAT
54728371 CATTCGAATA
Statistics
Matches: 143, Mismatches: 18, Indels: 11
0.83 0.10 0.06
Matches are distributed among these distances:
37 2 0.01
38 22 0.15
39 20 0.14
40 70 0.49
41 26 0.18
42 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:54735523 original size:79 final size:79
Alignment explanation
Indices: 54735381--54735592 Score: 227
Period size: 79 Copynumber: 2.7 Consensus size: 79
54735371 CCTTCAGAAT
* *
54735381 TTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACA
1 TTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACA
54735446 AATGCCTTCGGGAC
66 AATGCCTTCGGGAC
* * * *
54735460 TTAACCCGGATTTAG-TAACTCGCACCAATGCCTTCGGG-CTTAGCTCGGA-ATTAGTAACTCGC
1 TTAA-CCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGC
*
54735522 ACAAATGCCTTC-GGATG
63 ACAAATGCCTTCGGGA-C
* * * *
54735539 TTAGTCCGGATATAG-TCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 TTA-ACCGGATATAGCT-AC-TCGCACAAATGCCTTCGGGACATAGCCCGGATAT
54735593 CATTCGAATA
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
78 4 0.04
79 51 0.46
80 44 0.40
81 11 0.10
82 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (79 bp):
TTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACA
AATGCCTTCGGGAC
Found at i:54735529 original size:39 final size:40
Alignment explanation
Indices: 54735397--54735590 Score: 232
Period size: 40 Copynumber: 4.8 Consensus size: 40
54735387 GGATATAGCT
* *
54735397 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
54735437 ACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
54735477 ACTCGCACCAATGCCTTCGGG-CTTAGCTCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
54735516 ACTCGCACAAATGCCTTC-GGATGTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
54735556 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGAT
54735591 ATCATTCGAA
Statistics
Matches: 131, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.02
39 32 0.24
40 68 0.52
41 26 0.20
42 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:54738479 original size:27 final size:27
Alignment explanation
Indices: 54738457--54738552 Score: 129
Period size: 27 Copynumber: 3.6 Consensus size: 27
54738447 AGTACCCCCG
* *
54738457 ATTTACATAATTACCGTTTTACCCTCA
1 ATTTACAGAATTACTGTTTTACCCTCA
* * **
54738484 ATTTATAGAATTACTATTTTACCCTTG
1 ATTTACAGAATTACTGTTTTACCCTCA
54738511 ATTTACAGAATTACTGTTTTACCCTCA
1 ATTTACAGAATTACTGTTTTACCCTCA
*
54738538 ATTTACAAAATTACT
1 ATTTACAGAATTACT
54738553 AAAATACCAT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (27 bp):
ATTTACAGAATTACTGTTTTACCCTCA
Found at i:54738496 original size:54 final size:54
Alignment explanation
Indices: 54738436--54738560 Score: 160
Period size: 54 Copynumber: 2.3 Consensus size: 54
54738426 CTCGACTTGT
* * *
54738436 AAAATTACTAAAGTACCCCCGATTTACATAATTACCGTTTTACCCTCAATTTAT
1 AAAATTACTAAAATACCCCCGATTTACAGAATTACCGTTTTACCCTCAATTTAC
* *** ** *
54738490 AGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCAATTTAC
1 AAAATTACTAAAATACCCCCGATTTACAGAATTACCGTTTTACCCTCAATTTAC
54738544 AAAATTACTAAAATACC
1 AAAATTACTAAAATACC
54738561 ATTGGTTTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.37
Consensus pattern (54 bp):
AAAATTACTAAAATACCCCCGATTTACAGAATTACCGTTTTACCCTCAATTTAC
Found at i:54738577 original size:54 final size:54
Alignment explanation
Indices: 54738436--54738579 Score: 153
Period size: 54 Copynumber: 2.7 Consensus size: 54
54738426 CTCGACTTGT
* *** * *
54738436 AAAATTACTAAAGTACCCCCGATTTACATAATTACCGTTTTACCCTCAATTTAT
1 AAAATTACTAAAATACCATTGATTTACAAAATTACCGTTTTACCCTCAATTTAC
* *** * * *
54738490 AGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCAATTTAC
1 AAAATTACTAAAATACCATTGATTTACAAAATTACCGTTTTACCCTCAATTTAC
* *
54738544 AAAATTACTAAAATACCATTGGTTTATAAAATTACC
1 AAAATTACTAAAATACCATTGATTTACAAAATTACC
54738580 AAAATACCCT
Statistics
Matches: 72, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.36, C:0.20, G:0.06, T:0.38
Consensus pattern (54 bp):
AAAATTACTAAAATACCATTGATTTACAAAATTACCGTTTTACCCTCAATTTAC
Found at i:54738588 original size:54 final size:53
Alignment explanation
Indices: 54738530--54738668 Score: 120
Period size: 53 Copynumber: 2.6 Consensus size: 53
54738520 ATTACTGTTT
* * *
54738530 TACCCTCAATTTA-CAAAATTACTAAAATACCATTGGTTTATAAAATTACCAAAA
1 TACCCTCAA-TTAGCAAAATTACCAAAATACC-CTGGTCTATAAAATTACCAAAA
** * * * *
54738584 TACCCTTGATTAGTAAAATTACCAAAATACCCTGGTCTGTAAAATTGCTAAAA
1 TACCCTCAATTAGCAAAATTACCAAAATACCCTGGTCTATAAAATTACCAAAA
** * *
54738637 TACCC-CTGGTTTGTAAAATTACCAAAATACCC
1 TACCCTC-AATTAGCAAAATTACCAAAATACCC
54738669 CTAATTTGCA
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
53 48 0.68
54 23 0.32
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (53 bp):
TACCCTCAATTAGCAAAATTACCAAAATACCCTGGTCTATAAAATTACCAAAA
Found at i:54738656 original size:80 final size:81
Alignment explanation
Indices: 54738544--54738765 Score: 270
Period size: 80 Copynumber: 2.8 Consensus size: 81
54738534 CTCAATTTAC
** * * * *
54738544 AAAATTACTAAAATACCATTGGTTTATAAAATTACCAAAATACCCTTGATTAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAATTAGCAAAATTACCAA
*
54738609 AATAC-CCTGGTCTGT
66 AATACTACTGGTCTGT
* *
54738624 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAATTTGCAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAATTAGCAAAATTACCAA
*
54738689 AATACTACTGGTTTGT
66 AATACTACTGGTCTGT
* ** **
54738705 GAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTA-CAAAATTA
1 AAAATTACTAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCCTAA-TTAGCAAAATTA
54738766 TAGAAATACC
Statistics
Matches: 122, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
80 66 0.54
81 54 0.44
82 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.30
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAATTAGCAAAATTACCAA
AATACTACTGGTCTGT
Found at i:54738702 original size:54 final size:52
Alignment explanation
Indices: 54738570--54738749 Score: 216
Period size: 54 Copynumber: 3.4 Consensus size: 52
54738560 CATTGGTTTA
* * ** *
54738570 TAAAATTACCAAAATACCCTTGATTAGTAAAATTACCAAAATACCCTGGTCTG
1 TAAAATTACCAAAATACCC-TGGTTTGTAAAATTACCAAAATACCCTAATTTG
* *
54738623 TAAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAATTTG
1 TAAAATTACCAAAATA-CCCTGGTTTGTAAAATTACCAAAATA-CCCTAATTTG
* * * *
54738677 CAAAATTACCAAAATACTACTGGTTTGTGAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATAC-CCTGGTTTGTAAAATTACCAAAATACCCT-AATTTG
54738731 TAAAATTACCAAAATACCC
1 TAAAATTACCAAAATACCC
54738750 CTAATTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
53 41 0.38
54 67 0.62
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (52 bp):
TAAAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAATACCCTAATTTG
Found at i:54738743 original size:81 final size:80
Alignment explanation
Indices: 54738570--54738765 Score: 250
Period size: 81 Copynumber: 2.4 Consensus size: 80
54738560 CATTGGTTTA
* * * * * * *
54738570 TAAAATTACCAAAATACCCTTGATTAGTAAAATTACCAAAATACCCTGGTCTGTAAAATTGCTAA
1 TAAAATTACCAAAATACCCCTAATTTGCAAAATTACCAAAATACACTGGTCTGTAAAATTACCAA
**
54738635 AATACCCCTGGTTTG
66 AATACCCCTAATTTG
* * *
54738650 TAAAATTACCAAAATACCCCTAATTTGCAAAATTACCAAAATACTACTGGTTTGTGAAATTACCG
1 TAAAATTACCAAAATACCCCTAATTTGCAAAATTACCAAAATAC-ACTGGTCTGTAAAATTACCA
54738715 AAATA-CCCTCAATTTG
65 AAATACCCCT-AATTTG
*
54738731 TAAAATTACCAAAATACCCCTAATTTACAAAATTA
1 TAAAATTACCAAAATACCCCTAATTTGCAAAATTA
54738766 TAGAAATACC
Statistics
Matches: 101, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 44 0.44
81 57 0.56
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (80 bp):
TAAAATTACCAAAATACCCCTAATTTGCAAAATTACCAAAATACACTGGTCTGTAAAATTACCAA
AATACCCCTAATTTG
Found at i:54738777 original size:54 final size:54
Alignment explanation
Indices: 54738538--54738765 Score: 201
Period size: 54 Copynumber: 4.2 Consensus size: 54
54738528 TTTACCCTCA
* * * *** * *
54738538 ATTTACAAAATTACTAAAATACCATTGGTTTATAAAATTACCAAAATACCCTTG
1 ATTTATAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTG
** * * *
54738592 A-TTAGTAAAATTACCAAAATACCCT-GGTCTGTAAAATTGCTAAAATACCCCTG
1 ATTTA-TAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTG
* * * **
54738645 GTTTGTAAAATTACCAAAATACCC-CTAATTTGCAAAATTACCAAAATACTACTG
1 ATTTATAAAATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTG
* * * * *
54738699 GTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTA
1 ATTTATAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTG
*
54738753 ATTTACAAAATTA
1 ATTTATAAAATTA
54738766 TAGAAATACC
Statistics
Matches: 141, Mismatches: 28, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
53 45 0.32
54 95 0.67
55 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
ATTTATAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTG
Found at i:54738795 original size:29 final size:27
Alignment explanation
Indices: 54738754--54738834 Score: 92
Period size: 29 Copynumber: 2.9 Consensus size: 27
54738744 ATACCCCTAA
*
54738754 TTTACAAAATTATAGAAATACCCTTGAC
1 TTTATAAAATTATAGAAATACCCTTG-C
* * *
54738782 TTTCTAAAAATTATAGAAATACCATTGG
1 TTTAT-AAAATTATAGAAATACCCTTGC
54738810 TTTATAAAATTACT-GAAATACCCTT
1 TTTATAAAATTA-TAGAAATACCCTT
54738835 TGTTTGTAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 17 0.38
28 8 0.18
29 20 0.44
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (27 bp):
TTTATAAAATTATAGAAATACCCTTGC
Found at i:54738839 original size:27 final size:26
Alignment explanation
Indices: 54738539--54738860 Score: 180
Period size: 27 Copynumber: 11.9 Consensus size: 26
54738529 TTACCCTCAA
* * *
54738539 TTTACAAAATTACTAAAATACCATTGG
1 TTTATAAAATTACCAAAATACC-CTGG
*
54738566 TTTATAAAATTACCAAAATACCCTTG
1 TTTATAAAATTACCAAAATACCCTGG
*
54738592 ATTAGTAAAATTACCAAAATACCCTGG
1 TTTA-TAAAATTACCAAAATACCCTGG
* * * *
54738619 TCTGTAAAATTGCTAAAATACCCCTGG
1 TTTATAAAATTACCAAAATA-CCCTGG
* **
54738646 TTTGTAAAATTACCAAAATACCCCTAA
1 TTTATAAAATTACCAAAATA-CCCTGG
** *
54738673 TTTGCAAAATTACCAAAATACTACTGG
1 TTTATAAAATTACCAAAATAC-CCTGG
* * * **
54738700 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTATAAAATTACCAAAATACCCT-GG
* **
54738727 TTTGTAAAATTACCAAAATACCCCTAA
1 TTTATAAAATTACCAAAATA-CCCTGG
* * *
54738754 TTTACAAAATTA-TAGAAATACCCTTGAC
1 TTTATAAAATTACCA-AAATACCC-TG-G
* * *
54738782 TTTCTAAAAATTA-TAGAAATACCATTGG
1 TTTAT-AAAATTACCA-AAATACC-CTGG
** *
54738810 TTTATAAAATTACTGAAATACCCTTTG
1 TTTATAAAATTACCAAAATACCC-TGG
* * * *
54738837 TTTGTAGATTTACCAAAACACCCT
1 TTTATAAAATTACCAAAATACCCT
54738861 TGTAGGGTGA
Statistics
Matches: 236, Mismatches: 47, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
26 27 0.11
27 178 0.75
28 12 0.05
29 19 0.08
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (26 bp):
TTTATAAAATTACCAAAATACCCTGG
Found at i:54738923 original size:27 final size:27
Alignment explanation
Indices: 54738893--54738980 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
54738883 ACCCCTATTA
*
54738893 GGTAAAAAGACCGTAAAGCCTCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
** *
54738920 GGTAAAGTGACCGTCAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAGCCCCTGTAG
** * *
54738947 GGTAAAGTGACCATAATA-CCCCTGTAT
1 GGTAAAAAGACCGTAA-AGCCCCTGTAG
54738974 GGTAAAA
1 GGTAAAA
54738981 TGACGAATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAGCCCCTGTAG
Found at i:54740551 original size:47 final size:47
Alignment explanation
Indices: 54740496--54740604 Score: 191
Period size: 47 Copynumber: 2.3 Consensus size: 47
54740486 ATACCGATGC
54740496 CATGTCCCAGACATGGTATTACACTGGCTCTCATAATGTAGCCAACG
1 CATGTCCCAGACATGGTATTACACTGGCTCTCATAATGTAGCCAACG
* *
54740543 TATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTAGCCAACG
1 CATGTCCCAGACATGGTATTACACTGGCTCTCATAATGTAGCCAACG
*
54740590 CATGTCCCAAACATG
1 CATGTCCCAGACATG
54740605 TCTTACTCTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 58 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGACATGGTATTACACTGGCTCTCATAATGTAGCCAACG
Found at i:54744492 original size:46 final size:49
Alignment explanation
Indices: 54744260--54744578 Score: 199
Period size: 46 Copynumber: 6.7 Consensus size: 49
54744250 TCATTTGTGT
* * * *
54744260 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GAATCAGCCAC-ATTATG-A
1 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGA-GATGTA
* *
54744306 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATGGAGATG-A
1 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTA-CGAGATGTA
* * * ** *
54744354 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTTGGA-ACGTA
1 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATC-GGCTACGAGATGTA
* * * *
54744401 -AGCCAGTATAAGA-CATGCCTGGGACAT-GCATCGGCTACGAGATGT-
1 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGATGTA
* *
54744446 G-TC-AGTGTAAGACCATGTTTAGGACATGGCATCGGC-ACG-GTTATGTGA
1 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAG--ATGT-A
* * * *
54744494 GAGCTAGTGTAAGACCATGTCTGGGTCATGGCATCAGCCT-CTAAGATG-A
1 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATC-GGCTAC-GAGATGTA
* * * *
54744543 TAGCCAGTGTATGACCATGTCTGGGACATGGCATCG
1 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCG
54744579 ACACTTTACC
Statistics
Matches: 220, Mismatches: 32, Indels: 40
0.75 0.11 0.14
Matches are distributed among these distances:
44 9 0.04
45 20 0.09
46 64 0.29
47 34 0.15
48 25 0.11
49 34 0.15
50 27 0.12
51 6 0.03
53 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (49 bp):
GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCTACGAGATGTA
Found at i:54751003 original size:42 final size:42
Alignment explanation
Indices: 54750936--54751020 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
54750926 ATCGGTATAT
* *
54750936 GATTTCATGTAAGACCATATCTGGGA-TATGGCGTTGATATGA
1 GATTTCATGTAAGACCATATCTGGGACT-TGGCATCGATATGA
* * *
54750978 GATTTCGTGTAAGACCATGTTTGGGACTTGGCATCGATATGA
1 GATTTCATGTAAGACCATATCTGGGACTTGGCATCGATATGA
54751020 G
1 G
54751021 GTCCCGTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 36 0.97
43 1 0.03
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (42 bp):
GATTTCATGTAAGACCATATCTGGGACTTGGCATCGATATGA
Found at i:54761036 original size:39 final size:39
Alignment explanation
Indices: 54760986--54761222 Score: 366
Period size: 39 Copynumber: 6.1 Consensus size: 39
54760976 ATTATATTAT
* *
54760986 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
54761025 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
54761064 CAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
54761103 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
54761142 AAGCACGAAGCCTGTGGGACGTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* **
54761181 CAGCACGAAGCCTGTGGGACTTTAGCTTGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
54761220 CAG
1 CAG
54761223 TGTCTTGCAT
Statistics
Matches: 181, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 181 1.00
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:54766859 original size:39 final size:39
Alignment explanation
Indices: 54766815--54767051 Score: 393
Period size: 39 Copynumber: 6.1 Consensus size: 39
54766805 ATTATATTAT
* *
54766815 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
54766854 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
54766893 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
54766932 CAGCACGAAGCCTGCGGGACTTTGGCCCAGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
54766971 CAGCACGAAGCCTGCGAGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
54767010 CAGCACGAAGTCTGTGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
54767049 CAG
1 CAG
54767052 TGTCTTGCAT
Statistics
Matches: 184, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 184 1.00
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:54770078 original size:29 final size:29
Alignment explanation
Indices: 54770011--54770105 Score: 120
Period size: 29 Copynumber: 3.3 Consensus size: 29
54770001 AAGTCTATAT
* * *
54770011 ACATACATATGGCCCACTAGG-CCTAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
54770039 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
54770068 ACATTCGTATGGCCCATTAGGCCCAATTC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
54770097 ACACTCATA
1 ACATTCATA
54770106 GTCATGCTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
28 18 0.32
29 39 0.68
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:54774113 original size:39 final size:40
Alignment explanation
Indices: 54773926--54774187 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
54773916 TTGAATGCTG
* * * * * *
54773926 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
54773966 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
54774006 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
54774046 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
54774086 TCCGGGTTAAGT-CCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
54774125 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
54774164 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
54774188 TGAACGAGGA
Statistics
Matches: 197, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 71 0.36
40 118 0.60
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:54774139 original size:79 final size:79
Alignment explanation
Indices: 54773965--54774185 Score: 302
Period size: 79 Copynumber: 2.8 Consensus size: 79
54773955 AAGTGAATAT
* * * *
54773965 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAG
54774029 TCGTGCGAGTTATTAA
64 TCGTGCGAGTTATTAA
*
54774045 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGT-CCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAGT
*
54774109 CGTGCGAGTTGTTAA
65 CGTGCGAGTTATTAA
* * * * *
54774124 ATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 ATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
54774186 TTTGAACGAG
Statistics
Matches: 126, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
78 22 0.17
79 61 0.48
80 43 0.34
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (79 bp):
ATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAGTC
GTGCGAGTTATTAA
Found at i:54774207 original size:79 final size:79
Alignment explanation
Indices: 54773965--54774222 Score: 218
Period size: 79 Copynumber: 3.3 Consensus size: 79
54773955 AAGTGAATAT
* * * * * * *
54773965 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGT-CCGAAGGCAG
** * *
54774029 TCGTGCGAGTTA-TTAA
64 TCGAACGAG-GAGCTAA
* * *
54774045 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCAGTC
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGCAGTC
** ** *
54774110 GTGCGAGTTGTTAA
66 GAACGAGGAGCTAA
* * * *
54774124 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGT-CCGAAGGCAGT
* *
54774188 TGAACGAGGAGCTAT
65 CGAACGAGGAGCTAA
*
54774203 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
54774223 TACGTGATTT
Statistics
Matches: 152, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
78 37 0.24
79 69 0.45
80 46 0.30
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGCAGTC
GAACGAGGAGCTAA
Found at i:54780211 original size:35 final size:36
Alignment explanation
Indices: 54780172--54780243 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
54780162 CCTACTAGTG
54780172 CATGTGGACAAA-GGGGGACTTGCATGTCAAATTCC
1 CATGTGGACAAAGGGGGGACTTGCATGTCAAATTCC
54780207 CATGTGGACAAAGGGGGGACTTGCATGTCAAATTCC
1 CATGTGGACAAAGGGGGGACTTGCATGTCAAATTCC
54780243 C
1 C
54780244 CCCCTAATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 12 0.33
36 24 0.67
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (36 bp):
CATGTGGACAAAGGGGGGACTTGCATGTCAAATTCC
Found at i:54781673 original size:39 final size:40
Alignment explanation
Indices: 54781525--54781747 Score: 299
Period size: 40 Copynumber: 5.6 Consensus size: 40
54781515 AAGTGAATAT
* * * * *
54781525 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAA
54781565 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
54781605 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
* *
54781645 ATCCGGGTTAAGT-CCGAAGGCAGTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
* * *
54781684 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
* * *
54781723 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
54781748 TGAACGAGGA
Statistics
Matches: 167, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 71 0.43
40 96 0.57
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
Found at i:54781699 original size:79 final size:79
Alignment explanation
Indices: 54781525--54781745 Score: 302
Period size: 79 Copynumber: 2.8 Consensus size: 79
54781515 AAGTGAATAT
* * * *
54781525 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAG
54781589 TCGTGCGAGTTATTAA
64 TCGTGCGAGTTATTAA
*
54781605 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGT-CCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAGT
*
54781669 CGTGCGAGTTGTTAA
65 CGTGCGAGTTATTAA
* * * * *
54781684 ATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 ATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
54781746 TTTGAACGAG
Statistics
Matches: 126, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
78 22 0.17
79 61 0.48
80 43 0.34
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (79 bp):
ATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAGTC
GTGCGAGTTATTAA
Found at i:54781767 original size:79 final size:79
Alignment explanation
Indices: 54781525--54781782 Score: 218
Period size: 79 Copynumber: 3.3 Consensus size: 79
54781515 AAGTGAATAT
* * * * * * *
54781525 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGT-CCGAAGGCAG
** * *
54781589 TCGTGCGAGTTA-TTAA
64 TCGAACGAG-GAGCTAA
* * *
54781605 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCAGTC
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGCAGTC
** ** *
54781670 GTGCGAGTTGTTAA
66 GAACGAGGAGCTAA
* * * *
54781684 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGT-CCGAAGGCAGT
* *
54781748 TGAACGAGGAGCTAT
65 CGAACGAGGAGCTAA
*
54781763 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
54781783 TACGTGATTT
Statistics
Matches: 152, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
78 37 0.24
79 69 0.45
80 46 0.30
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGCAGTC
GAACGAGGAGCTAA
Found at i:54785828 original size:27 final size:27
Alignment explanation
Indices: 54785797--54785849 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
54785787 CATCACATAG
54785797 GGGCAAAATAGTCATCTTACCATATAA
1 GGGCAAAATAGTCATCTTACCATATAA
* *
54785824 GGGCAAAATAGTCATTTTATCATATA
1 GGGCAAAATAGTCATCTTACCATATA
54785850 TGGGGGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (27 bp):
GGGCAAAATAGTCATCTTACCATATAA
Found at i:54792168 original size:13 final size:13
Alignment explanation
Indices: 54792136--54792168 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
54792126 CAATCCCCAC
*
54792136 GGCCGTATGACAT
1 GGCCGTGTGACAT
54792149 GGCCGTGTGACAT
1 GGCCGTGTGACAT
54792162 GGCCGTG
1 GGCCGTG
54792169 GGTGAACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.24, G:0.39, T:0.21
Consensus pattern (13 bp):
GGCCGTGTGACAT
Found at i:54792209 original size:22 final size:23
Alignment explanation
Indices: 54792178--54792220 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
54792168 GGGTGAACTT
*
54792178 GATAGGAAAAACATGGGCGTGGG
1 GATAGGAAAAACACGGGCGTGGG
*
54792201 GATA-GAAAACCACGGGCGTG
1 GATAGGAAAAACACGGGCGTG
54792221 CCAGGGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.35, C:0.14, G:0.40, T:0.12
Consensus pattern (23 bp):
GATAGGAAAAACACGGGCGTGGG
Found at i:54797474 original size:6 final size:6
Alignment explanation
Indices: 54797449--54797525 Score: 84
Period size: 6 Copynumber: 12.5 Consensus size: 6
54797439 TCCTCCTATT
* *
54797449 TTTTTA TTATTTA TTCTTA TTTTTA -TTTTA TTTTATT TATTTTA TTTTTA
1 TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTT-TA T-TTTTA TTTTTA
* *
54797499 TTTTTA TTTTTC TTTTGA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT
54797526 CCATTTCAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
5 5 0.08
6 41 0.69
7 10 0.17
8 3 0.05
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:54797484 original size:26 final size:25
Alignment explanation
Indices: 54797445--54797525 Score: 94
Period size: 26 Copynumber: 3.2 Consensus size: 25
54797435 TGAATCCTCC
*
54797445 TATTTTTTTATTATTTATTCTTATTTT
1 TATTTTATT-TTATTTATT-TTATTTT
54797472 TATTTTATTTTATTTATTTTATTTT
1 TATTTTATTTTATTTATTTTATTTT
* *
54797497 TATTTTTATTTT-TCT-TTTGATTTT
1 TA-TTTTATTTTATTTATTTTATTTT
54797521 TATTT
1 TATTT
54797526 CCATTTCAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
23 3 0.06
24 10 0.20
25 11 0.22
26 18 0.36
27 8 0.16
ACGTcount: A:0.17, C:0.02, G:0.01, T:0.79
Consensus pattern (25 bp):
TATTTTATTTTATTTATTTTATTTT
Found at i:54797499 original size:37 final size:39
Alignment explanation
Indices: 54797445--54797525 Score: 114
Period size: 37 Copynumber: 2.1 Consensus size: 39
54797435 TGAATCCTCC
54797445 TATTTTTTTATTATTTATTCTTATTTTTATTTT-A-TTT
1 TATTTTTTTATTATTTATTCTTATTTTTATTTTGATTTT
* *
54797482 TATTTATTTTATT-TTTATTTTTATTTTTCTTTTGATTTT
1 TATTT-TTTTATTATTTATTCTTATTTTTATTTTGATTTT
54797521 TATTT
1 TATTT
54797526 CCATTTCAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
37 23 0.59
38 8 0.21
39 8 0.21
ACGTcount: A:0.17, C:0.02, G:0.01, T:0.79
Consensus pattern (39 bp):
TATTTTTTTATTATTTATTCTTATTTTTATTTTGATTTT
Found at i:54797500 original size:31 final size:29
Alignment explanation
Indices: 54797450--54797508 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 29
54797440 CCTCCTATTT
54797450 TTTTATTATTTATTCTTATTTTTATTTTA
1 TTTTATTATTTATTCTTATTTTTATTTTA
*
54797479 TTTTATTTATTTTATTTTTATTTTTATTTT
1 TTTTA-TTA-TTTATTCTTATTTTTATTTT
54797509 TCTTTTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 5 0.19
30 3 0.11
31 19 0.70
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (29 bp):
TTTTATTATTTATTCTTATTTTTATTTTA
Found at i:54801050 original size:5 final size:5
Alignment explanation
Indices: 54801040--54801068 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
54801030 TAACATTCAA
54801040 GTAAC GTAAC GTAAC GTAAC GTAAC GTAA
1 GTAAC GTAAC GTAAC GTAAC GTAAC GTAA
54801069 TATAAGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (5 bp):
GTAAC
Found at i:54806549 original size:40 final size:40
Alignment explanation
Indices: 54806358--54806555 Score: 276
Period size: 40 Copynumber: 5.0 Consensus size: 40
54806348 GGACTAAGAT
*
54806358 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGC-AAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAA-TC
* *
54806398 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAATC
*
54806438 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAATC
*
54806478 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAATC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAATC
* * * *
54806518 TCGAAGGCATTCGTACGAGTTG-CTATATCC-GGCTAAAT
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAAT
54806556 TCTGAAGGTA
Statistics
Matches: 147, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 8 0.05
40 135 0.92
41 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAATC
Found at i:54815706 original size:21 final size:23
Alignment explanation
Indices: 54815680--54815732 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
54815670 CTACAAGCAT
*
54815680 CAAATTCATAA-CATTTTA-TAC
1 CAAATTCATAACCATTTTACAAC
54815701 CAAATTC-TCAACCATTTTACAAC
1 CAAATTCAT-AACCATTTTACAAC
54815724 CAAA-TCATA
1 CAAATTCATA
54815733 CATCATTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 1 0.04
21 9 0.33
22 10 0.37
23 7 0.26
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (23 bp):
CAAATTCATAACCATTTTACAAC
Found at i:54816676 original size:43 final size:44
Alignment explanation
Indices: 54816556--54816710 Score: 155
Period size: 43 Copynumber: 3.6 Consensus size: 44
54816546 AGCTCATACA
* *
54816556 ATGCCAATGTCCCAGACA-TGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGAAAGTGGTCTTACATGTAAATCAAATAT-G
* *
54816599 ATGCC-ACTGTCCCAGACAG-GGTCTTACACG-AAATCAAATATG
1 ATGCCAAC-GTCCCAGAAAGTGGTCTTACATGTAAATCAAATATG
54816641 ATGCCAACGTCCCA-AAAGTGGTCTTACATGTAAATCATAAGTA-G
1 ATGCCAACGTCCCAGAAAGTGGTCTTACATGTAAATCA-AA-TATG
* * *
54816685 CTGCCAATGTCCCA-AACGTGGTCTTA
1 ATGCCAACGTCCCAGAAAGTGGTCTTA
54816711 TCACTTATCG
Statistics
Matches: 97, Mismatches: 7, Indels: 15
0.82 0.06 0.13
Matches are distributed among these distances:
41 3 0.03
42 23 0.24
43 43 0.44
44 26 0.27
45 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (44 bp):
ATGCCAACGTCCCAGAAAGTGGTCTTACATGTAAATCAAATATG
Found at i:54836938 original size:44 final size:44
Alignment explanation
Indices: 54836872--54836968 Score: 167
Period size: 44 Copynumber: 2.2 Consensus size: 44
54836862 GGGCATTACA
*
54836872 GCCAATGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAT
1 GCCAACGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAT
* *
54836916 GCCAACGTCCTAGACGTGGTCTTACACGTAAATCACAAATCGAT
1 GCCAACGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAT
54836960 GCCAACGTC
1 GCCAACGTC
54836969 ATGACATATG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.22
Consensus pattern (44 bp):
GCCAACGTCCCAGACATGGTCTTACACGTAAATCACAAATCGAT
Found at i:54842937 original size:13 final size:13
Alignment explanation
Indices: 54842919--54842958 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
54842909 GCTCGGTAGA
54842919 GACACGCCCGTGT
1 GACACGCCCGTGT
54842932 GACACGCCCGTGT
1 GACACGCCCGTGT
54842945 GACACGCCCGTGT
1 GACACGCCCGTGT
54842958 G
1 G
54842959 CGATTACTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.15, C:0.38, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:54854318 original size:38 final size:38
Alignment explanation
Indices: 54854276--54854436 Score: 308
Period size: 38 Copynumber: 4.3 Consensus size: 38
54854266 ATAGACATGC
54854276 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
54854314 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
54854352 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
54854390 ATGTTCGG-CACATG-ATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
54854426 ATGTTCGGCCA
1 ATGTTCGGCCA
54854437 TAGGTAAGCA
Statistics
Matches: 122, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
36 30 0.25
37 8 0.07
38 84 0.69
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.32
Consensus pattern (38 bp):
ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
Found at i:54855187 original size:39 final size:40
Alignment explanation
Indices: 54855032--54855255 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
54855022 TATTCGTATG
* * * * *
54855032 ATATTCGGGCTAAGTCCCAAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACT
* * * * * * *
54855073 ATAACTGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-CGACT
* *
54855113 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
54855153 ATATCCGGGCTAAGACCCG-AGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
* * * *
54855192 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
54855232 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
54855256 CTTGTGCAAG
Statistics
Matches: 154, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 38 0.25
40 90 0.58
41 26 0.17
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
Found at i:54855211 original size:79 final size:79
Alignment explanation
Indices: 54855032--54855291 Score: 274
Period size: 79 Copynumber: 3.3 Consensus size: 79
54855022 TATTCGTATG
* * * * * *
54855032 ATATTCGGGCTAAGTCCCAAAGGCTTTTGTGCTAGGTGACTATAACTGGACTAAGATCCGAAGGC
1 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCG-AGGC
*
54855097 ATTCGTGCGAGTTGCT
64 ATTCGTGCGAGTCGCT
* * *
54855113 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACCCGAGGCAT
1 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAGGCAT
* *
54855178 TTGTGCTAG-CGACT
66 TCGTGCGAGTCG-CT
* * * *
54855192 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACCATATCCGGGCTAAGACCCGAAGGCC
1 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCG-AGGCA
* * *
54855257 TT-GTGCAAGTAGTT
65 TTCGTGCGAGTCGCT
* *
54855271 ATA-TCTGGCTAAATCCCGAAG
1 ATATTCGGGCTAAGTCCCGAAG
54855292 ATTACTTGAG
Statistics
Matches: 151, Mismatches: 25, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
78 16 0.11
79 78 0.52
80 26 0.17
81 31 0.21
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAGGCAT
TCGTGCGAGTCGCT
Found at i:54857084 original size:104 final size:104
Alignment explanation
Indices: 54856904--54857269 Score: 600
Period size: 104 Copynumber: 3.6 Consensus size: 104
54856894 TGTATATAAA
** * * *
54856904 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
54856968 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
54857008 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
54857073 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
54857112 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATA----
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
*
54857173 TGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
54857211 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
54857270 ATAACGGTTA
Statistics
Matches: 251, Mismatches: 10, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
99 87 0.35
100 7 0.03
104 156 0.62
105 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:54864669 original size:104 final size:104
Alignment explanation
Indices: 54864487--54864856 Score: 622
Period size: 104 Copynumber: 3.6 Consensus size: 104
54864477 TGTATATAAA
** * * *
54864487 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
54864551 TTGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAA-GTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
54864591 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
54864656 TGAAAGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAAGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
54864695 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGG-TGCTAAGTGCGATATCCACCATATCT
54864760 TTGAAA-T-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAAGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
54864798 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
54864857 ATAACGGTTA
Statistics
Matches: 256, Mismatches: 7, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
102 20 0.08
103 71 0.28
104 132 0.52
105 33 0.13
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAAGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:54876147 original size:47 final size:45
Alignment explanation
Indices: 54876077--54876280 Score: 166
Period size: 46 Copynumber: 4.4 Consensus size: 45
54876067 TGTGTAAACC
* * * * *
54876077 AGTGTAAGACCCTATCTGGGACATGGCATCAGCATTGAGATGAGGGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC-TCGAGATGA-AGCT
* *
54876125 AGTGTAAGA-CATGTCTGGGACATGCATTGGCCTCGAGACAT-AAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGG-CTCGAG--ATGAAGCT
54876171 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATGATAG-T
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCT-CGAGATGA-AGCT
* * *
54876216 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGAT-ATGAGCC
1 -AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTCGAGATGA--AGCT
*
54876264 AGTGTAAGACCTTGTCT
1 AGTGTAAGACCATGTCT
54876281 AGGATATGGC
Statistics
Matches: 131, Mismatches: 14, Indels: 23
0.78 0.08 0.14
Matches are distributed among these distances:
44 2 0.02
45 3 0.02
46 56 0.43
47 51 0.39
48 19 0.15
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTCGAGATGAAGCT
Found at i:54876181 original size:46 final size:44
Alignment explanation
Indices: 54876125--54876273 Score: 172
Period size: 46 Copynumber: 3.2 Consensus size: 44
54876115 GATGAGGGCT
54876125 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGACATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGG-CTCGAGACAT-AGCC
* * *
54876171 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCT-CGAGA-CATAGCC
* * * *
54876217 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTCGAGACAT-AGCC
54876264 AGTGTAAGAC
1 AGTGTAAGAC
54876274 CTTGTCTAGG
Statistics
Matches: 91, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
45 2 0.02
46 49 0.54
47 32 0.35
48 8 0.09
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCTCGAGACATAGCC
Found at i:54876290 original size:47 final size:48
Alignment explanation
Indices: 54876075--54876292 Score: 186
Period size: 47 Copynumber: 4.6 Consensus size: 48
54876065 CGTGTGTAAA
* * * **
54876075 CCAGTGTAAGACCCTATCTGGGACATGGCATC-AGC-ATTGAGATGAGGG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTA-CGAGATGATAG
* * * *
54876123 CTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCT-CGAGA-CATAAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCA-TCGACTACGAGATGAT-AG
*
54876169 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGATAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAGATGATAG
* *
54876215 TCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGAGAT-ATGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAGATGAT-AG
* * *
54876262 CCAGTGTAAGACCTTGTCTAGGATATGGCAT
1 CCAGTGTAAGACCATGTCTGGGACATGGCAT
54876293 AGGAACTATG
Statistics
Matches: 141, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
45 5 0.04
46 54 0.38
47 64 0.45
48 18 0.13
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAGATGATAG
Found at i:54881157 original size:20 final size:21
Alignment explanation
Indices: 54881132--54881171 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
54881122 CTCCTGAAAC
54881132 AGGGC-ACATGCCTGTGTGGA
1 AGGGCAACATGCCTGTGTGGA
54881152 AGGGCAACATGCCTGTGTGG
1 AGGGCAACATGCCTGTGTGG
54881172 TCATTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (21 bp):
AGGGCAACATGCCTGTGTGGA
Found at i:54889985 original size:30 final size:31
Alignment explanation
Indices: 54889941--54890003 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
54889931 GAAAATCAGC
54889941 CATTGAAGGGGGTTTGAAAACGTGAAAATTT
1 CATTGAAGGGGGTTTGAAAACGTGAAAATTT
*
54889972 CATTGAA-GGGGTTTGAAAGCGTGAAAATTT
1 CATTGAAGGGGGTTTGAAAACGTGAAAATTT
54890002 CA
1 CA
54890004 GCAACTTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.29
Consensus pattern (31 bp):
CATTGAAGGGGGTTTGAAAACGTGAAAATTT
Found at i:54891064 original size:25 final size:25
Alignment explanation
Indices: 54891030--54891096 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
54891020 AATCAAAATG
* *
54891030 AGAATTAGAATTAGAATCAGGTGAC
1 AGAATCAGAATTAGAATCAGGTAAC
* *
54891055 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATTAGAATCAGGTAAC
54891080 AGAATCAGAATTAGAAT
1 AGAATCAGAATTAGAAT
54891097 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.22
Consensus pattern (25 bp):
AGAATCAGAATTAGAATCAGGTAAC
Found at i:54891261 original size:26 final size:26
Alignment explanation
Indices: 54891221--54891277 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
54891211 CTGCCAAAAT
*
54891221 AGATATTGTGACAGAGTC-CCAGATAC
1 AGATATTGTGACAGAGCCACCAGA-AC
*
54891247 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGACAGAGCCACCAGAAC
54891273 AGATA
1 AGATA
54891278 ATGGGGCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 23 0.82
27 5 0.18
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (26 bp):
AGATATTGTGACAGAGCCACCAGAAC
Done.