Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 159 of 373
Found at i:53029250 original size:55 final size:54
Alignment explanation
Indices: 53029113--53029315 Score: 209
Period size: 55 Copynumber: 3.7 Consensus size: 54
53029103 TTTGAAATTC
* * * *
53029113 ACCATTGCCATGTCTCGACATGGTCTTACATG-GTATCCTTGCCTTAT-GAACTC
1 ACCAATGCCATGCCTTGACATGGTCTTACATGAG-ATCCTTGCCTTATAGAACTT
* *
53029166 ACCAATGCCATACCTTGGCATGGTCTTACATGAGA-CCTTTGCCTTATAGTAACTT
1 ACCAATGCCATGCCTTGACATGGTCTTACATGAGATCC-TTGCCTTATAG-AACTT
* * * *
53029221 ATCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGA-AACCTT
1 ACCAATGCCATGCCTTGACATGGTCTTACATGAGATCCTTGCCTTATAGAA-CTT
* *
53029275 ACCAATTGTCATGCCTTGGCATGGTCTTACATG-GTATCCTT
1 ACCAA-TGCCATGCCTTGACATGGTCTTACATGAG-ATCCTT
53029316 AAACCCTAAT
Statistics
Matches: 125, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.02
53 39 0.31
54 9 0.07
55 73 0.58
56 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (54 bp):
ACCAATGCCATGCCTTGACATGGTCTTACATGAGATCCTTGCCTTATAGAACTT
Found at i:53032533 original size:46 final size:45
Alignment explanation
Indices: 53032483--53032658 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
53032473 TGGTTGAGCA
53032483 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
53032529 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
53032576 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
53032622 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53032659 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:53032639 original size:93 final size:93
Alignment explanation
Indices: 53032480--53032650 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
53032470 GGATGGTTGA
* *
53032480 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53032545 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
53032573 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53032638 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
53032651 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:53036338 original size:70 final size:70
Alignment explanation
Indices: 53036252--53036385 Score: 250
Period size: 70 Copynumber: 1.9 Consensus size: 70
53036242 ACATTCACGG
*
53036252 TTAAGACATATCAACTCAATGTCTTTATCTAACATATTCAATACATTTATTAAGCCCTAAATCAT
1 TTAAAACATATCAACTCAATGTCTTTATCTAACATATTCAATACATTTATTAAGCCCTAAATCAT
53036317 CACTA
66 CACTA
*
53036322 TTAAAACATATCAACTCAATGTCTTTATCTAACATATTCACTACATTTATTAAGCCCTAAATCA
1 TTAAAACATATCAACTCAATGTCTTTATCTAACATATTCAATACATTTATTAAGCCCTAAATCA
53036386 AACATACAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.36
Consensus pattern (70 bp):
TTAAAACATATCAACTCAATGTCTTTATCTAACATATTCAATACATTTATTAAGCCCTAAATCAT
CACTA
Found at i:53038765 original size:41 final size:40
Alignment explanation
Indices: 53038675--53038833 Score: 167
Period size: 43 Copynumber: 3.8 Consensus size: 40
53038665 AATGCTAACA
53038675 TCCCAGACATGGTCTTACATAC-AATCACATATCGATGCCACTG
1 TCCCAGACATGGTCTTAC--ACGAATCACATAT-GATGCCA-TG
* *
53038718 TCCCAGACAGGGTCTTACACGAATCAAATATGATGCCGATG
1 TCCCAGACATGGTCTTACACGAATCACATATGATGCC-ATG
*
53038759 TCCCAGACATGGTCGTACACGTAATCACATATTGATGCCAATG
1 TCCCAGACATGGTCTTACACG-AATCACATA-TGATGCC-ATG
** * *
53038802 TCCCAGATGTGGTCTTACTCGAGAACACATAT
1 TCCCAGACATGGTCTTACACGA-ATCACATAT
53038834 CGAAAATCCT
Statistics
Matches: 100, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
41 29 0.29
42 20 0.20
43 51 0.51
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (40 bp):
TCCCAGACATGGTCTTACACGAATCACATATGATGCCATG
Found at i:53038965 original size:15 final size:15
Alignment explanation
Indices: 53038947--53038998 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
53038937 CCAAGCTTAA
53038947 ACATATTTAGCTTTC
1 ACATATTTAGCTTTC
* *
53038962 ACATATATA-CTCTTAA
1 ACATATTTAGCT-TT-C
53038978 ACATATTTAGCTTTC
1 ACATATTTAGCTTTC
53038993 ACATAT
1 ACATAT
53038999 ATACTATCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 2 0.07
15 16 0.53
16 10 0.33
17 2 0.07
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (15 bp):
ACATATTTAGCTTTC
Found at i:53038978 original size:31 final size:31
Alignment explanation
Indices: 53038942--53039003 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
53038932 AGATTCCAAG
53038942 CTTAAACATATTTAGCTTTCACATATATACT
1 CTTAAACATATTTAGCTTTCACATATATACT
53038973 CTTAAACATATTTAGCTTTCACATATATACT
1 CTTAAACATATTTAGCTTTCACATATATACT
53039004 ATCTCATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.42
Consensus pattern (31 bp):
CTTAAACATATTTAGCTTTCACATATATACT
Found at i:53040003 original size:14 final size:15
Alignment explanation
Indices: 53039984--53040012 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
53039974 ACATGAAAAT
53039984 TTCACACAT-ATAAA
1 TTCACACATAATAAA
53039998 TTCACACATAATAAA
1 TTCACACATAATAAA
53040013 CACAGAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:53042079 original size:68 final size:66
Alignment explanation
Indices: 53042007--53042156 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 66
53041997 CATCATGTGT
* * * *
53042007 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
53042070 TGTAG
62 TGTAG
** * *
53042075 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
53042140 AG
65 AG
53042142 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
53042157 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:53042112 original size:64 final size:64
Alignment explanation
Indices: 53042031--53042214 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
53042021 AGACATTATG
* * *
53042031 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
53042095 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
53042160 AA
63 AA
* * * *
53042162 ACTG--GCTAGGTCACATGGGTGGTAATAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
53042215 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 20 0.20
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:53044361 original size:42 final size:42
Alignment explanation
Indices: 53044240--53044361 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
53044230 TACCGTACCA
* *
53044240 ATGCCATATCCTAGATATGGTCTTACATGTATTCTTC-TATTG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATC-TCATATTG
* *
53044282 ATGCCAATAGCCCAGCTATGGTCTTACATG-AAGTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACATGTAA-TCTCATATTG
* * *
53044325 ATGCCATATCCCAAATATGGTTTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
53044362 ATAACCCTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
42 32 0.48
43 35 0.52
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATTG
Found at i:53054066 original size:43 final size:43
Alignment explanation
Indices: 53054017--53054126 Score: 150
Period size: 43 Copynumber: 2.6 Consensus size: 43
53054007 GGGCATTGGC
* **
53054017 CCTAGCAGGCTATAATGCCGGTGAGATAATATCAGGCTTCGGG
1 CCTAGCAGGCTATAATGCCGGTGAAATAATATCAGGCTTCAAG
* *
53054060 CCTAGCAGGCTATAATGCCGGTGAAATGATATCAGGTTTCAAG
1 CCTAGCAGGCTATAATGCCGGTGAAATAATATCAGGCTTCAAG
* *
53054103 CCTAGAAGGCGAT-ATGCCGGTGAA
1 CCTAGCAGGCTATAATGCCGGTGAA
53054127 TGAGTTCAGA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
42 11 0.18
43 49 0.82
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (43 bp):
CCTAGCAGGCTATAATGCCGGTGAAATAATATCAGGCTTCAAG
Found at i:53076552 original size:26 final size:26
Alignment explanation
Indices: 53076523--53076574 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
53076513 CTTCTAACCT
*
53076523 TTTACACATTATAACTTTGGTAGAAA
1 TTTACACATTATAACTTCGGTAGAAA
*
53076549 TTTACACATTATAGCTTCGGTAGAAA
1 TTTACACATTATAACTTCGGTAGAAA
53076575 CACACTCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (26 bp):
TTTACACATTATAACTTCGGTAGAAA
Found at i:53082925 original size:49 final size:50
Alignment explanation
Indices: 53082785--53082917 Score: 196
Period size: 50 Copynumber: 2.7 Consensus size: 50
53082775 ATCTATTGTG
* **
53082785 AGGTCGCATGTGTAGTACTAAGTGCAGGCTAGTACGTGTACCAGATGGTT
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
53082835 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
53082885 -GGTCGCATGTGTAGTACTAAGTGCAAGCTACTA
1 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
53082918 TGCGTACCGG
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 30 0.41
50 44 0.59
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (50 bp):
AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:53085034 original size:27 final size:27
Alignment explanation
Indices: 53084982--53085071 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
53084972 GTGACAGAGT
53084982 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
53085011 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
53085038 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
53085066 CACCAG
1 CACCAG
53085072 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:53085224 original size:28 final size:28
Alignment explanation
Indices: 53085177--53085243 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
53085167 AAATTAACCC
*
53085177 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
* *
53085205 TAGGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
53085233 TAGGGGTATAA
1 TAGGGGTATAA
53085244 TAGTACATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:53098671 original size:35 final size:35
Alignment explanation
Indices: 53098626--53098736 Score: 132
Period size: 35 Copynumber: 3.2 Consensus size: 35
53098616 CATTCGAGGG
*
53098626 GACACTGTGTAAATGATATATAGGTCCTTCAAGGT
1 GACACCGTGTAAATGATATATAGGTCCTTCAAGGT
* * * *
53098661 GACATCGTGTAAATGGTATATAAGTCCTTCAAGTT
1 GACACCGTGTAAATGATATATAGGTCCTTCAAGGT
* * * * *
53098696 GACACCATGTAAATGACATATAGGTCATTCAGGGC
1 GACACCGTGTAAATGATATATAGGTCCTTCAAGGT
53098731 GACACC
1 GACACC
53098737 TCGAAAGAAG
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 62 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (35 bp):
GACACCGTGTAAATGATATATAGGTCCTTCAAGGT
Found at i:53101198 original size:39 final size:40
Alignment explanation
Indices: 53101093--53101300 Score: 217
Period size: 40 Copynumber: 5.2 Consensus size: 40
53101083 TATTCGAATG
* * * *
53101093 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGAGC-GAGTTACT
* *
53101134 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGAGCGAGTTACT
*
53101174 A-ATTCCGGGCTAAG-CCCGAAGGCATTGGAGCGAGTTACT
1 ATA-TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACT
* * * *
53101213 AAATCCAGGTTAAGTCCCGAAGGCATTTGCGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACT
* * * *
53101253 ATAACTGGGCTATGTCCCGAAGGCGTTTGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CT
53101293 ATATCCGG
1 ATATCCGG
53101301 TTAAATTCCG
Statistics
Matches: 140, Mismatches: 21, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
39 35 0.25
40 76 0.54
41 28 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACT
Found at i:53101239 original size:79 final size:79
Alignment explanation
Indices: 53101097--53101314 Score: 203
Period size: 79 Copynumber: 2.7 Consensus size: 79
53101087 CGAATGATAT
* * * * * *
53101097 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGT-GACTATATCCGGACTAAGAT-CCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTGGAGC-GAGTAG-CTAAATCCGG-TTAA-ATCCCGAAGGCAT
* *
53101160 TTGTGCGAGTTACTA-ATT
62 TTGCGCGAGTTACTATA-A
*
53101178 CCGGGCTAAG-CCCGAAGGCATTGGAGCGAGTTA-CTAAATCCAGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGGAGCGAG-TAGCTAAATCC-GGTTAAATCCCGAAGGCATTT
53101241 GCGCGAGTTACTATAA
64 GCGCGAGTTACTATAA
* * * * * *
53101257 CTGGGCTATGTCCCGAAGGCGTTTGAGCGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTGGAGCGAGTAGCTAAATCCGGTTAAATCCCGAAGG
53101315 TATGTTTCAT
Statistics
Matches: 114, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
78 1 0.01
79 60 0.53
80 43 0.38
81 10 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTGGAGCGAGTAGCTAAATCCGGTTAAATCCCGAAGGCATTTGC
GCGAGTTACTATAA
Found at i:53109180 original size:40 final size:40
Alignment explanation
Indices: 53109124--53109302 Score: 240
Period size: 40 Copynumber: 4.5 Consensus size: 40
53109114 TCGGATAATA
* *
53109124 ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATG
* *
53109164 TCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATG
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
*
53109204 ACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
*
53109244 ACCGGGCTAAGTCCCGAAGGCATTTGGGCGAG-TAGCTAT-
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATG
*
53109283 ATCC-GGCTAAATCCCGAAGG
1 A-CCGGGCTAAGTCCCGAAGG
53109303 TACTTGGTTG
Statistics
Matches: 126, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 20 0.16
40 106 0.84
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (40 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATG
Found at i:53114304 original size:40 final size:40
Alignment explanation
Indices: 53114109--53114296 Score: 322
Period size: 40 Copynumber: 4.7 Consensus size: 40
53114099 TTGATATCCA
53114109 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
* *
53114149 GGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
53114189 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
* * *
53114229 GGCCAAGTCCTGAAGGCAATTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
*
53114269 GGCTAAGTCCCGAAGGCATTTGAGCGAG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAG
53114297 AAGCTATATC
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
Found at i:53122056 original size:40 final size:40
Alignment explanation
Indices: 53121861--53122048 Score: 322
Period size: 40 Copynumber: 4.7 Consensus size: 40
53121851 TTGATATCCA
53121861 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
* *
53121901 GGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
53121941 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
* *
53121981 GGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
* *
53122021 GGCTAAGTCCCGAAGGTATTTGAGCGAG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAG
53122049 AAGCTATATC
Statistics
Matches: 138, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
Found at i:53126771 original size:22 final size:22
Alignment explanation
Indices: 53126741--53126821 Score: 90
Period size: 23 Copynumber: 3.6 Consensus size: 22
53126731 CCCGAGCTGA
* *
53126741 TGAATAGTAAACTCTATTGAGC
1 TGAACAGTAAGCTCTATTGAGC
*
53126763 TGAACAGTAAGCTCTATCGAGC
1 TGAACAGTAAGCTCTATTGAGC
* * *
53126785 TGAATCAATAAGCTCCAATGAGC
1 TGAA-CAGTAAGCTCTATTGAGC
53126808 TGAAACAGTAAGCT
1 TG-AACAGTAAGCT
53126822 TTTACGAGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
22 23 0.47
23 24 0.49
24 2 0.04
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATTGAGC
Found at i:53126807 original size:23 final size:23
Alignment explanation
Indices: 53126758--53126847 Score: 76
Period size: 23 Copynumber: 4.0 Consensus size: 23
53126748 TAAACTCTAT
* *
53126758 TGAGCTGAA-CAGTAAGCT-CTA
1 TGAGCTGAATCAATAAGCTCCAA
53126779 TCGAGCTGAATCAATAAGCTCCAA
1 T-GAGCTGAATCAATAAGCTCCAA
* * ***
53126803 TGAGCTGAAACAGTAAGCTTTTA
1 TGAGCTGAATCAATAAGCTCCAA
* *
53126826 CGAGCTGAATCGATAAGCTCCA
1 TGAGCTGAATCAATAAGCTCCA
53126848 TTGATGTAAC
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
21 1 0.02
22 8 0.15
23 40 0.77
24 3 0.06
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (23 bp):
TGAGCTGAATCAATAAGCTCCAA
Found at i:53126819 original size:46 final size:45
Alignment explanation
Indices: 53126758--53126847 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 45
53126748 TAAACTCTAT
53126758 TGAGCTGAACAGTAAGCTCTAT-CGAGCTGAATCAATAAGCTCCAA
1 TGAGCTGAACAGTAAGCT-TATACGAGCTGAATCAATAAGCTCCAA
* *
53126803 TGAGCTGAAACAGTAAGCTTTTACGAGCTGAATCGATAAGCTCCA
1 TGAGCTG-AACAGTAAGCTTATACGAGCTGAATCAATAAGCTCCA
53126848 TTGATGTAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
45 9 0.22
46 32 0.78
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (45 bp):
TGAGCTGAACAGTAAGCTTATACGAGCTGAATCAATAAGCTCCAA
Found at i:53134762 original size:47 final size:47
Alignment explanation
Indices: 53134615--53134776 Score: 167
Period size: 47 Copynumber: 3.5 Consensus size: 47
53134605 GCATCCATAA
* *
53134615 CAACTCAATGAGTTCGGATGCCTAGTTACAT-TTCACGAACTCGGACT
1 CAACTCAACGAGTTCGGATGCCTAGTTACATCTT-ACAAACTCGGACT
* * *
53134662 CAACTCAACGAGTTCGGA---C--GTTCGCATCCATA-AGTGAACTCGAACT
1 CAACTCAACGAGTTCGGATGCCTAGTT-ACAT-CTTACA---AACTCGGACT
*
53134708 CAACTCAACGAGTTTGGATGCCTAGTTACATCTTACAAACTCGGACT
1 CAACTCAACGAGTTCGGATGCCTAGTTACATCTTACAAACTCGGACT
53134755 CAACTCAACGAGTTCGGATGCC
1 CAACTCAACGAGTTCGGATGCC
53134777 CAAATATCCG
Statistics
Matches: 93, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 1 0.01
46 26 0.28
47 47 0.51
49 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (47 bp):
CAACTCAACGAGTTCGGATGCCTAGTTACATCTTACAAACTCGGACT
Found at i:53137879 original size:19 final size:20
Alignment explanation
Indices: 53137857--53137895 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
53137847 CAAAAGAATG
*
53137857 TTATTTTTA-TAAAATTATT
1 TTATATTTATTAAAATTATT
53137876 TTATATTTATTAAAATTATT
1 TTATATTTATTAAAATTATT
53137896 ATGCATATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATATTTATTAAAATTATT
Found at i:53145381 original size:26 final size:27
Alignment explanation
Indices: 53145350--53145406 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
53145340 TTTAGCGATG
* * *
53145350 TTTATATTTTTTTTA-TCAATTTAGTT
1 TTTATATATTTTTAATTAAATTTAGTT
*
53145376 TTTATATATTTTTAATTAAATTTGGTT
1 TTTATATATTTTTAATTAAATTTAGTT
53145403 TTTA
1 TTTA
53145407 ACCTTTTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (27 bp):
TTTATATATTTTTAATTAAATTTAGTT
Found at i:53146159 original size:14 final size:14
Alignment explanation
Indices: 53146140--53146171 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
53146130 AGGTCATTTA
53146140 GCCCAACCAAACTG
1 GCCCAACCAAACTG
53146154 GCCCAACCAAACTG
1 GCCCAACCAAACTG
53146168 GCCC
1 GCCC
53146172 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:53151284 original size:14 final size:14
Alignment explanation
Indices: 53151265--53151296 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
53151255 AGGTCATTTA
53151265 GCCCAACCAAACTG
1 GCCCAACCAAACTG
53151279 GCCCAACCAAACTG
1 GCCCAACCAAACTG
53151293 GCCC
1 GCCC
53151297 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:53151961 original size:9 final size:9
Alignment explanation
Indices: 53151939--53152212 Score: 118
Period size: 9 Copynumber: 29.4 Consensus size: 9
53151929 TATAAAATAT
*
53151939 TAAAAATCA
1 TAAAAATTA
*
53151948 CAAAAATTA
1 TAAAAATTA
*
53151957 TAAAAAATA
1 TAAAAATTA
*
53151966 TAAAAATGA
1 TAAAAATTA
*
53151975 TCAAATATT-
1 T-AAAAATTA
53151984 TAAAATATT-
1 TAAAA-ATTA
53151993 TAAAAA-TA
1 TAAAAATTA
*
53152001 TGAAAATTGA
1 TAAAAATT-A
* *
53152011 TATGAACTTA
1 TA-AAAATTA
*
53152021 TGAAAATTA
1 TAAAAATTA
53152030 TAAAAA-TA
1 TAAAAATTA
53152038 TAAAATATTA
1 TAAAA-ATTA
53152048 TAAAAATCTA
1 TAAAAAT-TA
*
53152058 -ATAAATCTA
1 TAAAAAT-TA
*
53152067 -ATAAATTA
1 TAAAAATTA
*
53152075 TAAAAA-AA
1 TAAAAATTA
53152083 T-AAAATTAA
1 TAAAAATT-A
*
53152092 TAAAACATATT
1 TAAAA-AT-TA
*
53152103 TAAAATTTTA
1 TAAAA-ATTA
*
53152113 TAAAAAACGTA
1 T-AAAAA-TTA
53152124 TTAAAAAATTCTA
1 -T-AAAAA-T-TA
53152137 TAAAAATTA
1 TAAAAATTA
**
53152146 TAAAAAACA
1 TAAAAATTA
53152155 TAAAAA-TA
1 TAAAAATTA
53152163 TAAAAATTA
1 TAAAAATTA
*
53152172 TTAAAATTGA
1 TAAAAATT-A
*
53152182 TATAAACTTA
1 TA-AAAATTA
**
53152192 TAAAAAACA
1 TAAAAATTA
53152201 TAAAAATT-
1 TAAAAATTA
53152209 TAAA
1 TAAA
53152213 TTAGACTGGA
Statistics
Matches: 203, Mismatches: 40, Indels: 45
0.70 0.14 0.16
Matches are distributed among these distances:
7 5 0.02
8 31 0.15
9 99 0.49
10 29 0.14
11 28 0.14
12 9 0.04
13 2 0.01
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:53151969 original size:27 final size:27
Alignment explanation
Indices: 53151932--53151999 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
53151922 ATTTTTCTAT
53151932 AAAATATTAAAAATCA-CAAAAATTATAA
1 AAAATA-TAAAAATCATCAAAAATT-TAA
* *
53151960 AAAATATAAAAATGATCAAATATTTAA
1 AAAATATAAAAATCATCAAAAATTTAA
* *
53151987 AATATTTAAAAAT
1 AAAATATAAAAAT
53152000 ATGAAAATTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 22 0.63
28 13 0.37
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (27 bp):
AAAATATAAAAATCATCAAAAATTTAA
Found at i:53152125 original size:23 final size:24
Alignment explanation
Indices: 53152093--53152142 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
53152083 TAAAATTAAT
* *
53152093 AAAACATATT-TAAAATTTTATAA
1 AAAACATATTAAAAAATTCTATAA
*
53152116 AAAACGTATTAAAAAATTCTATAA
1 AAAACATATTAAAAAATTCTATAA
53152140 AAA
1 AAA
53152143 TTATAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (24 bp):
AAAACATATTAAAAAATTCTATAA
Found at i:53176624 original size:159 final size:159
Alignment explanation
Indices: 53176330--53176656 Score: 420
Period size: 159 Copynumber: 2.1 Consensus size: 159
53176320 CCGTGTGGTA
* * * *
53176330 GGCCGTATGACGTAGCACGGGCGTGTAGTCGACGAGGCAGGCCGTGTGCGACACATGAACCAGAT
1 GGCCGTGTGACGTAACACGGGCGTGTAGTCGACGAGGCAGGCCGTGTGCGACACACGAACCAGAC
* * *
53176395 TGAATTGGGCCGTGTGGGCCCATACGGGTAGTCCACACAGGCGTGTGGGACTTTTGGGCCAAGCC
66 TGAATTGGGCCATGTGGGCCCACACAGGTAGTCCACACAGGCGTGTGGGACTTTTGGGCCAAGCC
* * *
53176460 GTGTGATCTACACGGCCAAGGCCAATTTG
131 ATGTGATCCACACGACCAAGGCCAATTTG
* * * * * **
53176489 GGCCGTGTGACGTAACGCGGGCGTGTGGTTGACGAGGCAGGCCGTGTGCGACATACGAGCTGGAC
1 GGCCGTGTGACGTAACACGGGCGTGTAGTCGACGAGGCAGGCCGTGTGCGACACACGAACCAGAC
* * * ** * * *
53176554 TGAATTGTGCCATGTGGGCCCACACAGGTTGTCTACATGGGTGTGTGGGATTTTTGGGCGAAGCC
66 TGAATTGGGCCATGTGGGCCCACACAGGTAGTCCACACAGGCGTGTGGGACTTTTGGGCCAAGCC
*
53176619 ATGTGATCCACACGACCAGGGCCAATTTG
131 ATGTGATCCACACGACCAAGGCCAATTTG
53176648 GGCCGTGTG
1 GGCCGTGTG
53176657 GGCCATACAA
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
159 142 1.00
ACGTcount: A:0.19, C:0.23, G:0.36, T:0.21
Consensus pattern (159 bp):
GGCCGTGTGACGTAACACGGGCGTGTAGTCGACGAGGCAGGCCGTGTGCGACACACGAACCAGAC
TGAATTGGGCCATGTGGGCCCACACAGGTAGTCCACACAGGCGTGTGGGACTTTTGGGCCAAGCC
ATGTGATCCACACGACCAAGGCCAATTTG
Found at i:53179391 original size:42 final size:42
Alignment explanation
Indices: 53179340--53179549 Score: 282
Period size: 42 Copynumber: 5.0 Consensus size: 42
53179330 CATTCATTAT
* *
53179340 ATTTAGAGGCCGAGGTGTGGAGGTTCATTTACTTTTCATTGT
1 ATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTTTTCATTGC
* *
53179382 ATTTAGAGGCCTAGGTGTGGAGG-TCGATTTACCTTTCATTGC
1 ATTTAGAGGCCCAGGTGTGGAGGTTC-ATTTACTTTTCATTGC
*
53179424 ATTTAGAGGCCCAGGTGTGGA-GATCGATTTACTTTTCATTGC
1 ATTTAGAGGCCCAGGTGTGGAGGTTC-ATTTACTTTTCATTGC
* * *
53179466 ATTTAGAGGCCCAGGTATGGAGATCCATTTA-TCTTTCATTGC
1 ATTTAGAGGCCCAGGTGTGGAGGTTCATTTACT-TTTCATTGC
* *
53179508 ATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCCTTGC
1 ATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTTTTCATTGC
53179550 GTTGTATATG
Statistics
Matches: 151, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
41 4 0.03
42 145 0.96
43 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (42 bp):
ATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTTTTCATTGC
Found at i:53180145 original size:3 final size:3
Alignment explanation
Indices: 53180137--53180177 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
53180127 AAAAACGTAA
53180137 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
53180178 GCATTCTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:53180701 original size:21 final size:20
Alignment explanation
Indices: 53180664--53180702 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
53180654 AGAAAAGTAG
* *
53180664 TGATTTTTTAAAGAAAATTT
1 TGATTTTTAAAACAAAATTT
53180684 TGATTTTTCAAAACAAAAT
1 TGATTTTT-AAAACAAAAT
53180703 ATTTCCGGCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (20 bp):
TGATTTTTAAAACAAAATTT
Found at i:53183673 original size:25 final size:25
Alignment explanation
Indices: 53183640--53183747 Score: 117
Period size: 25 Copynumber: 4.3 Consensus size: 25
53183630 CAGCTCATGA
53183640 GAGCATACCGATTTACAACTCGTGT
1 GAGCATACCGATTTACAACTCGTGT
* * *
53183665 GAGCATACCGATTTATAGCTCGTGA
1 GAGCATACCGATTTACAACTCGTGT
* * * *
53183690 GAGCATACAGATCTACAGCTCGAGT
1 GAGCATACCGATTTACAACTCGTGT
* * *
53183715 TAGCATATCGATTTACAACTCGTAT
1 GAGCATACCGATTTACAACTCGTGT
*
53183740 GAGTATAC
1 GAGCATAC
53183748 ATGTACAGGA
Statistics
Matches: 65, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (25 bp):
GAGCATACCGATTTACAACTCGTGT
Found at i:53183691 original size:50 final size:50
Alignment explanation
Indices: 53183631--53183729 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
53183621 TCTGACCCAC
* * *
53183631 AGCTCATGAGAGCATACCGATTTACAACTCGTGTGAGCATACCGATTTAT
1 AGCTCATGAGAGCATACAGATCTACAACTCGAGTGAGCATACCGATTTAT
* * * *
53183681 AGCTCGTGAGAGCATACAGATCTACAGCTCGAGTTAGCATATCGATTTA
1 AGCTCATGAGAGCATACAGATCTACAACTCGAGTGAGCATACCGATTTA
53183730 CAACTCGTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (50 bp):
AGCTCATGAGAGCATACAGATCTACAACTCGAGTGAGCATACCGATTTAT
Found at i:53195275 original size:13 final size:13
Alignment explanation
Indices: 53195257--53195281 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53195247 GGAGTAATCG
53195257 CACACGGGCGTGT
1 CACACGGGCGTGT
53195270 CACACGGGCGTG
1 CACACGGGCGTG
53195282 CCTTGTTGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.40, T:0.12
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:53200766 original size:28 final size:27
Alignment explanation
Indices: 53200718--53200776 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
53200708 ATTTATTGTG
*
53200718 TTTTTACTTTTATCTTTTTAAGAC-TAT
1 TTTTTACTTTTATCTCTTTAAG-CTTAT
53200745 TTTTTA-TTTTATTCCTCTTTAAGCTTAT
1 TTTTTACTTTTA-T-CTCTTTAAGCTTAT
53200773 TTTT
1 TTTT
53200777 CTTATTTAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 5 0.18
27 8 0.29
28 15 0.54
ACGTcount: A:0.19, C:0.12, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTTTACTTTTATCTCTTTAAGCTTAT
Found at i:53204568 original size:47 final size:47
Alignment explanation
Indices: 53204515--53204644 Score: 197
Period size: 47 Copynumber: 2.8 Consensus size: 47
53204505 ACAATCGATA
* *
53204515 AGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGG
1 AGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCCGG
* ***
53204562 AGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCCTCTTTG
1 AGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCCGG
*
53204609 AATACCTATACCATGGCCTGTAGCCAAATCAAGGTA
1 AGTACCTATACCATGGCCTGTAGCCAAATCAAGGTA
53204645 TTATTTGGAC
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 76 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (47 bp):
AGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCCCGG
Found at i:53210233 original size:24 final size:24
Alignment explanation
Indices: 53210173--53210239 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
53210163 GTAGCTCCAA
*
53210173 AGAGCCATTAACGGGAAGATTCAG
1 AGAGCCATTATCGGGAAGATTCAG
*
53210197 ATAGCCATATATCGGGAAG-TTCAAG
1 AGAGCCAT-TATCGGGAAGATTC-AG
* *
53210222 CGAGCCATTATCAGGAAG
1 AGAGCCATTATCGGGAAG
53210240 CTCAGAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 19 0.53
25 17 0.47
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (24 bp):
AGAGCCATTATCGGGAAGATTCAG
Found at i:53210264 original size:26 final size:26
Alignment explanation
Indices: 53210231--53210303 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
53210221 GCGAGCCATT
* * *
53210231 ATCAGGAAGCTCAGAAATAGCCTTAA
1 ATCAGGAAGCTCACAAAGAGCATTAA
*
53210257 ATCGGGAAGCTCACAAAGAGCATTAA
1 ATCAGGAAGCTCACAAAGAGCATTAA
*
53210283 ATCAGGAAGCTCACGAAGAGC
1 ATCAGGAAGCTCACAAAGAGC
53210304 CATATAATCG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.15
Consensus pattern (26 bp):
ATCAGGAAGCTCACAAAGAGCATTAA
Found at i:53210320 original size:27 final size:26
Alignment explanation
Indices: 53210236--53210320 Score: 84
Period size: 26 Copynumber: 3.2 Consensus size: 26
53210226 CCATTATCAG
* * * *
53210236 GAAGCTCAGAAATAGCCTTAAATCGG
1 GAAGCTCACAAAGAGCATTAAATCGA
53210262 GAAGCTCACAAAGAGCATTAAATC-A
1 GAAGCTCACAAAGAGCATTAAATCGA
*
53210287 GGAAGCTCACGAAGAGCCA-TATAATCGA
1 -GAAGCTCACAAAGAG-CATTA-AATCGA
53210315 GAAGCT
1 GAAGCT
53210321 TATAAGAGCT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
26 37 0.74
27 12 0.24
28 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.22, T:0.16
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCATTAAATCGA
Found at i:53216305 original size:22 final size:22
Alignment explanation
Indices: 53216279--53216321 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
53216269 ACTATGGATT
53216279 TCGTATTGGGTTTACTCCTATA
1 TCGTATTGGGTTTACTCCTATA
53216301 TCGTATTGGGTTTACTCCTAT
1 TCGTATTGGGTTTACTCCTAT
53216322 CTCCGAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.47
Consensus pattern (22 bp):
TCGTATTGGGTTTACTCCTATA
Found at i:53221098 original size:21 final size:21
Alignment explanation
Indices: 53221073--53221119 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
53221063 ACATAACCTT
53221073 TCATCTACTTCATATTCAATA
1 TCATCTACTTCATATTCAATA
53221094 TCATCTACTTCATATTCAATA
1 TCATCTACTTCATATTCAATA
53221115 TCATC
1 TCATC
53221120 AACCACATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.43
Consensus pattern (21 bp):
TCATCTACTTCATATTCAATA
Found at i:53221128 original size:21 final size:21
Alignment explanation
Indices: 53221083--53221128 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
53221073 TCATCTACTT
* **
53221083 CATATTCAATATCATCTACTT
1 CATATTCAATATCATCAACCA
53221104 CATATTCAATATCATCAACCA
1 CATATTCAATATCATCAACCA
53221125 CATA
1 CATA
53221129 GGTTCCGTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.35
Consensus pattern (21 bp):
CATATTCAATATCATCAACCA
Found at i:53225947 original size:13 final size:13
Alignment explanation
Indices: 53225929--53225955 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
53225919 CTAGTACTTT
53225929 TAGTTCCTTTGGG
1 TAGTTCCTTTGGG
53225942 TAGTTCCTTTGGG
1 TAGTTCCTTTGGG
53225955 T
1 T
53225956 TCGACAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (13 bp):
TAGTTCCTTTGGG
Found at i:53229222 original size:55 final size:55
Alignment explanation
Indices: 53229132--53229255 Score: 149
Period size: 55 Copynumber: 2.3 Consensus size: 55
53229122 TGATGTGCCA
* * * * *
53229132 TGGTTGAGCCTACCAAAACAACACGGGTGTGCGACACGCCCGTGTGGAAGAACCG
1 TGGTCGAGCCTGCCAAAACAACACGGATGTACGACACGCCCGTGTCGAAGAACCG
* * * * *
53229187 TGGTCGAGCCTGCCAAAACAGCACGGATGTACGACATGCCCGTGTCTAATACCCG
1 TGGTCGAGCCTGCCAAAACAACACGGATGTACGACACGCCCGTGTCGAAGAACCG
*
53229242 TGGTCGAACCTGCC
1 TGGTCGAGCCTGCC
53229256 CAATTAACAC
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.17
Consensus pattern (55 bp):
TGGTCGAGCCTGCCAAAACAACACGGATGTACGACACGCCCGTGTCGAAGAACCG
Found at i:53239849 original size:18 final size:19
Alignment explanation
Indices: 53239821--53239857 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
53239811 AACACCCTTA
53239821 TTTTCTTTCTCTACACTAG
1 TTTTCTTTCTCTACACTAG
*
53239840 TTTT-TTTCTCTTCACTAG
1 TTTTCTTTCTCTACACTAG
53239858 CATGACAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.14, C:0.24, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTTCTTTCTCTACACTAG
Found at i:53240595 original size:29 final size:30
Alignment explanation
Indices: 53240538--53240605 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
53240528 CACCCTTAAA
* * * *
53240538 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTC
*
53240568 ATATTTACACT-TTAATCCCTCAAATTTTG
1 ATATTTACACTATTAATCCCTCAAATTTTC
53240597 ATTATTTAC
1 A-TATTTAC
53240606 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.21, G:0.03, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCCTCAAATTTTC
Found at i:53242847 original size:27 final size:27
Alignment explanation
Indices: 53242809--53242861 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
53242799 TCTAATTGAT
*
53242809 AAAATGACTATTATGCCGC-TATGTGAC
1 AAAAAGACTATTATGCC-CTTATGTGAC
53242836 AAAAAGACTATTATGCCCTTATGTGA
1 AAAAAGACTATTATGCCCTTATGTGA
53242862 TGTATGACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (27 bp):
AAAAAGACTATTATGCCCTTATGTGAC
Found at i:53243488 original size:90 final size:90
Alignment explanation
Indices: 53243309--53243481 Score: 292
Period size: 90 Copynumber: 1.9 Consensus size: 90
53243299 ATTTTCATAA
53243309 CTCACCCATCTATTTCTTTGTACAGGTAATCCCCGAACTTAGACAAATCGATGCTGCGAGGGACT
1 CTCACCCATCTATTTCTTTGTACAGGTAATCCCCGAACTTAGACAAATCGATGCTGCGAGGGACT
53243374 CAAAAGTGGCCACACAACCACACAT
66 CAAAAGTGGCCACACAACCACACAT
* * * * *
53243399 CTCACCCATCTGTTTCTTTGTACAGGTAATCCCTGAACTTAGGCAGATCGATGCTGTGAGGGACT
1 CTCACCCATCTATTTCTTTGTACAGGTAATCCCCGAACTTAGACAAATCGATGCTGCGAGGGACT
*
53243464 GAAAAGTGGCCACACAAC
66 CAAAAGTGGCCACACAAC
53243482 TGCACATACT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 77 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (90 bp):
CTCACCCATCTATTTCTTTGTACAGGTAATCCCCGAACTTAGACAAATCGATGCTGCGAGGGACT
CAAAAGTGGCCACACAACCACACAT
Found at i:53251341 original size:28 final size:29
Alignment explanation
Indices: 53251304--53251366 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
53251294 AAGTCTACAT
* *
53251304 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGACCCACTAGGCCCAAATC
* * *
53251332 TCATTCATATGACCCATTTGGCCCAAATC
1 ACATTCATATGACCCACTAGGCCCAAATC
53251361 ACATTC
1 ACATTC
53251367 GTATACATGC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.25
Consensus pattern (29 bp):
ACATTCATATGACCCACTAGGCCCAAATC
Found at i:53259056 original size:29 final size:29
Alignment explanation
Indices: 53258936--53259060 Score: 171
Period size: 29 Copynumber: 4.3 Consensus size: 29
53258926 AAGTCTACAT
* *
53258936 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
53258964 TCATTCGTATCGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
53258993 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
53259022 ACATTCATATGGCCCATTAGGCCCAAATT
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
53259051 AGATTCATAT
1 ACATTCATAT
53259061 ACATGCTTTC
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 19 0.22
29 67 0.78
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:53260896 original size:40 final size:40
Alignment explanation
Indices: 53260684--53260889 Score: 342
Period size: 40 Copynumber: 5.2 Consensus size: 40
53260674 AACCCAAGTA
* * *
53260684 CCTTCAGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
53260723 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
53260763 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
53260803 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
53260843 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
53260883 CCTTCGG
1 CCTTCGG
53260890 ATCTTAGTCC
Statistics
Matches: 157, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 12 0.08
40 145 0.92
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:53266988 original size:26 final size:26
Alignment explanation
Indices: 53266942--53266991 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
53266932 ATGAATTTTC
*
53266942 TCAAAATTTTATCGGGGGTAAAATCA
1 TCAAAATTTTATCGGGAGTAAAATCA
53266968 TCAAAATTTTAT-GAGGAGTAAAAT
1 TCAAAATTTTATCG-GGAGTAAAAT
53266992 TGGAGTGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTATCGGGAGTAAAATCA
Found at i:53272616 original size:46 final size:44
Alignment explanation
Indices: 53272521--53272739 Score: 174
Period size: 46 Copynumber: 4.7 Consensus size: 44
53272511 GTAGGATGTT
* * *
53272521 GATGCCATATCCCAGACATGGTCTTACACT-GACTATCAACTCATAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CT-TCATCTC-GAGCC
*
53272569 GATGCATGTCCCAAACATGTCTTACACTAGCTTACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTT-CATCTCGA-GCC
* * * * *
53272615 GATGCATGTCCCGGACATGTCTCACATTAGCGCTCGTCTCGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-TTCATCTCGA-GCC
* *
53272661 GATGCCATGTCCCAGACATGGTCTTACAC-AGGCTCTCATAAT-GTAGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTA-GCT-TCAT-CTCG-AGCC
*
53272709 GATGTATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
53272740 CCACAATAAC
Statistics
Matches: 141, Mismatches: 19, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
45 2 0.01
46 72 0.51
47 42 0.30
48 23 0.16
49 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTCATCTCGAGCC
Found at i:53283887 original size:26 final size:27
Alignment explanation
Indices: 53283851--53283903 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
53283841 TGTCAGCTAG
* *
53283851 TGAAATTTTAA-TGTTCGAATGTATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
*
53283877 TGAATTTTTAAGTGTCCGAATGCATGC
1 TGAAATTTTAAGTGTCCGAATGCATGC
53283904 CAAAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
TGAAATTTTAAGTGTCCGAATGCATGC
Found at i:53285235 original size:48 final size:48
Alignment explanation
Indices: 53285171--53285318 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
53285161 TTGATGTACA
*
53285171 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
53285219 AGATATATATATGTGGTAAAGCCGAAAGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
** ** * *
53285267 AGCCATGCATATGTGGTAAAGCCAAATGGTTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
53285315 AGAT
1 AGAT
53285319 GTGTATATAT
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 89 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (48 bp):
AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:53285979 original size:13 final size:13
Alignment explanation
Indices: 53285961--53285985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53285951 TGGAAAGCAA
53285961 ATATGAATATGCC
1 ATATGAATATGCC
53285974 ATATGAATATGC
1 ATATGAATATGC
53285986 GGGTATACAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
ATATGAATATGCC
Found at i:53291569 original size:26 final size:26
Alignment explanation
Indices: 53291532--53291581 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
53291522 ATTATTATTA
*
53291532 AAAATATTTAT-ATTAATAATTTTGGT
1 AAAATATATATAATTAAT-ATTTTGGT
53291558 AAAATATATATAATTAATATTTTG
1 AAAATATATATAATTAATATTTTG
53291582 TGTGAATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (26 bp):
AAAATATATATAATTAATATTTTGGT
Found at i:53294805 original size:48 final size:48
Alignment explanation
Indices: 53294739--53294983 Score: 454
Period size: 48 Copynumber: 5.1 Consensus size: 48
53294729 GCGGAAATTG
53294739 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
53294787 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
53294835 ATGTAGGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
53294883 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
53294931 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
53294979 ATGTA
1 ATGTA
53294984 GGCGATGTGT
Statistics
Matches: 191, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 191 1.00
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (48 bp):
ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:53295275 original size:37 final size:37
Alignment explanation
Indices: 53295130--53295274 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
53295120 GGAAATATAT
*
53295130 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
53295167 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
53295204 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
53295241 TCCGGGTAAGACCTGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
53295275 TCATCTGAGC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:53296724 original size:47 final size:47
Alignment explanation
Indices: 53296653--53297010 Score: 574
Period size: 47 Copynumber: 7.6 Consensus size: 47
53296643 CCCTTCGGGA
* * * * *
53296653 CTTATCACATTTATACACTTTCACA-TCTATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTC-ATCACATCGGCCATTAGGC
* * *
53296700 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53296747 CTTATCACATATATACACTTTCACATTAATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53296794 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53296841 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53296888 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53296937 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53296984 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
53297011 TATTCAAATA
Statistics
Matches: 293, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
47 246 0.84
48 2 0.01
49 45 0.15
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53296731 original size:25 final size:24
Alignment explanation
Indices: 53296702--53296781 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
53296692 CACTCGGCCC
53296702 TATCACATATATACACTTTCACAT
1 TATCACATATATACACTTTCACAT
** * * *
53296726 TCATCACAT-T-GGC-CATTCGGCCT
1 T-ATCACATATATACACTTTC-ACAT
53296749 TATCACATATATACACTTTCACAT
1 TATCACATATATACACTTTCACAT
53296773 TAATCACAT
1 T-ATCACAT
53296782 CGGCCATTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 11
0.66 0.16 0.18
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 6 0.15
25 18 0.45
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (24 bp):
TATCACATATATACACTTTCACAT
Found at i:53296974 original size:190 final size:188
Alignment explanation
Indices: 53296653--53297010 Score: 619
Period size: 190 Copynumber: 1.9 Consensus size: 188
53296643 CCCTTCGGGA
* * * *
53296653 CTTATCACATTTATACACTTTCACATCTATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCTATCACATCGGCCACTAGGCCCTATCACATATATACAC
53296718 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTAATCACATC
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTAATCACATC
53296783 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
53296841 CTTATCACATATATACACTTTCACAT-TCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACACTTTCACATCT-ATCACATCGGCCACTAGGCCCTATCAC--ATATATA
*
53296905 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCAC
63 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTAATCAC
53296970 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
128 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
53297011 TATTCAAATA
Statistics
Matches: 160, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
187 1 0.01
188 47 0.29
190 112 0.70
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (188 bp):
CTTATCACATATATACACTTTCACATCTATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTAATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:53300842 original size:25 final size:25
Alignment explanation
Indices: 53300805--53300856 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
53300795 AAGGAATTCG
53300805 CACACACACAGTGC-CTCTAATCATT
1 CACACACACAGTGCTCT-TAATCATT
* *
53300830 CACACACATAGTGCTCTTATTCATT
1 CACACACACAGTGCTCTTAATCATT
53300855 CA
1 CA
53300857 TTATTACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.29
Consensus pattern (25 bp):
CACACACACAGTGCTCTTAATCATT
Found at i:53301064 original size:40 final size:40
Alignment explanation
Indices: 53301032--53301354 Score: 479
Period size: 40 Copynumber: 8.1 Consensus size: 40
53301022 CCAGCATGAT
* * * * *
53301032 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* * ** * *
53301072 TGCTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* *
53301112 TGCTCTTCG-GAACTTAGTCCGGATACATCACTAGCATGAA
1 TGCTCTTCGAG-ACTTAGCCCGGATACATCACTAGCACGAA
*
53301152 TGCTCTTCGAGACTTAGCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
53301192 TGCTCTTCGAGACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
53301232 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
53301272 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
53301312 TGCTCTTCTG-GACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTC-GAGACTTAGCCCGGATACATCACTAGCACGAA
53301352 TGC
1 TGC
53301355 CCCGGATACA
Statistics
Matches: 260, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.00
40 257 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:53301237 original size:120 final size:118
Alignment explanation
Indices: 53301032--53301449 Score: 563
Period size: 120 Copynumber: 3.6 Consensus size: 118
53301022 CCAGCATGAT
* * * * * * ** *
53301032 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* *
53301097 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCATGAA
66 CATCACTAGCACGAATGCTCTTC-GAACTTAG-CCGGATACATCACTAGCACGAA
* * *
53301152 TGCTCTTCGAGACTTAGCCTGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCAGATA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
53301217 CATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGA-ACTTAG-CCGGATACATCACTAGCACGAA
*
53301272 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCTGGACTTAGCCCGGATA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
53301337 CATCACTAGCACGAATG-----C---C----CCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGAACTTAGCCGGATACATCACTAGCACGAA
* *
53301378 TGCTCTTCGGGACTTAGCCCGGATACATGACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
53301443 CATCACT
66 CATCACT
53301450 CTCAATTCTC
Statistics
Matches: 275, Mismatches: 22, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
106 91 0.33
111 1 0.00
115 1 0.00
119 2 0.01
120 180 0.65
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (118 bp):
TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
CATCACTAGCACGAATGCTCTTCGAACTTAGCCGGATACATCACTAGCACGAA
Found at i:53301363 original size:26 final size:26
Alignment explanation
Indices: 53301329--53301380 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
53301319 CTGGACTTAG
53301329 CCCGGATACATCACTAGCACGAATGC
1 CCCGGATACATCACTAGCACGAATGC
53301355 CCCGGATACATCACTAGCACGAATGC
1 CCCGGATACATCACTAGCACGAATGC
53301381 TCTTCGGGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.35, G:0.19, T:0.15
Consensus pattern (26 bp):
CCCGGATACATCACTAGCACGAATGC
Found at i:53301395 original size:66 final size:66
Alignment explanation
Indices: 53301289--53301420 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
53301279 CGAGACTTAG
*
53301289 CCCGGATACATCACTAGCACGAATGCTCTTCTGGACTTAGCCCGGATACATCACTAGCACGAATG
1 CCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
53301354 C
66 C
*
53301355 CCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATGACTAGCACGAATG
1 CCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
53301420 C
66 C
53301421 TCTTCGGGAC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.20
Consensus pattern (66 bp):
CCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
C
Found at i:53301411 original size:40 final size:40
Alignment explanation
Indices: 53301355--53301449 Score: 181
Period size: 40 Copynumber: 2.4 Consensus size: 40
53301345 GCACGAATGC
53301355 CCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAG
1 CCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAG
*
53301395 CCCGGATACATGACTAGCACGAATGCTCTTCGGGACTTAG
1 CCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAG
53301435 CCCGGATACATCACT
1 CCCGGATACATCACT
53301450 CTCAATTCTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.22
Consensus pattern (40 bp):
CCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAG
Found at i:53301434 original size:106 final size:106
Alignment explanation
Indices: 53301249--53301449 Score: 375
Period size: 106 Copynumber: 1.9 Consensus size: 106
53301239 CGAGACTTAG
53301249 CCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATG
1 CCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATG
*
53301314 CTCTTCTGGACTTAGCCCGGATACATCACTAGCACGAATGC
66 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
* *
53301355 CCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATGACTAGCACGAATG
1 CCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATG
53301420 CTCTTCGGGACTTAGCCCGGATACATCACT
66 CTCTTCGGGACTTAGCCCGGATACATCACT
53301450 CTCAATTCTC
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 92 1.00
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (106 bp):
CCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATG
CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
Found at i:53301435 original size:23 final size:23
Alignment explanation
Indices: 53301369--53301435 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
53301359 GATACATCAC
53301369 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * * *
53301392 TAGCCCGGAT--ACAT---GAC-
1 TAGCACGAATGCTCTTCGGGACT
53301409 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
53301432 TAGC
1 TAGC
53301436 CCGGATACAT
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 3 0.10
19 2 0.07
21 2 0.07
22 3 0.10
23 12 0.40
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:53302976 original size:47 final size:47
Alignment explanation
Indices: 53302865--53303124 Score: 402
Period size: 47 Copynumber: 5.6 Consensus size: 47
53302855 CCCTTCGGGA
* * * * * *
53302865 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53302911 ---ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53302955 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
53303002 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53303051 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53303098 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
53303125 TATTCAAATA
Statistics
Matches: 198, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
43 37 0.19
47 116 0.59
49 45 0.23
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53303052 original size:96 final size:94
Alignment explanation
Indices: 53302865--53303124 Score: 402
Period size: 96 Copynumber: 2.8 Consensus size: 94
53302855 CCCTTCGGGA
* * * * * *
53302865 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG----ATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
53302926 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
53302955 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
53303020 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
53303051 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
53303116 TTTCACATT
66 TTTCACATT
53303125 TATTCAAATA
Statistics
Matches: 156, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
90 40 0.26
94 24 0.15
96 92 0.59
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:53306671 original size:40 final size:40
Alignment explanation
Indices: 53306567--53307035 Score: 668
Period size: 40 Copynumber: 11.7 Consensus size: 40
53306557 TTGAGAGTTA
* *
53306567 TATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG-T
* * *
53306608 ATATAGCTGGGCTAAGCCCCGAAGAGCATTCGTGCTGGTGT
1 -TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
53306649 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
53306689 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
53306729 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
53306769 TATATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
53306809 TGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
53306849 TATATCCAGGCTAAGTCCCAAAGAGCATTCGTGCTCGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
53306889 TGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * * *
53306929 TATATCCGGGCTAAGTCTCAAAGAGCATTTGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
53306969 TATATCAGGGTTAAGTCCCGAAGAGCATTCGCGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
53307009 TATAGCCGGGCTAGGTACCAAAGAGCA
1 TATATCCGGGCTAAGTCCCGAAGAGCA
53307036 ATCATGCTAG
Statistics
Matches: 383, Mismatches: 44, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
40 346 0.90
41 1 0.00
42 36 0.09
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:53309689 original size:37 final size:37
Alignment explanation
Indices: 53309639--53309717 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
53309629 TTATTACGAA
* * *
53309639 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
53309676 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
53309713 GTCTT
1 GTCTT
53309718 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:53309949 original size:58 final size:58
Alignment explanation
Indices: 53309851--53309965 Score: 205
Period size: 58 Copynumber: 2.0 Consensus size: 58
53309841 CACATTCATC
*
53309851 ACATCGGCCATTAGGCCTATCACATATATATACACTTTCACATTCATCACATCGGCCT
1 ACATCGGCCATTAGGCCTATCAAATATATATACACTTTCACATTCATCACATCGGCCT
53309909 ACATCGGCCATTAGGCCTTATCAAATATATATACAC-TTCACATTCATCACATCGGCC
1 ACATCGGCCATTAGGCC-TATCAAATATATATACACTTTCACATTCATCACATCGGCC
53309966 ATTAGGCCTT
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
58 38 0.69
59 17 0.31
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.29
Consensus pattern (58 bp):
ACATCGGCCATTAGGCCTATCAAATATATATACACTTTCACATTCATCACATCGGCCT
Found at i:53310014 original size:47 final size:47
Alignment explanation
Indices: 53309909--53310114 Score: 369
Period size: 47 Copynumber: 4.4 Consensus size: 47
53309899 ACATCGGCCT
*
53309909 ACATCGGCCATTAGGCCTTATCAAATATATATACAC-TTCACATTCATC
1 ACATCGGCCATTAGGCCTTATC--ACATATATACACTTTCACATTCATC
53309957 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
*
53310004 ACATCGGCCATTAGGCATTATCACATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
53310051 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
1 ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
53310098 ACATCGGCCATTAGGCC
1 ACATCGGCCATTAGGCC
53310115 ATACTATCAT
Statistics
Matches: 154, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
46 11 0.07
47 121 0.79
48 22 0.14
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.31
Consensus pattern (47 bp):
ACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
Found at i:53310052 original size:25 final size:25
Alignment explanation
Indices: 53309976--53310054 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
53309966 ATTAGGCCTT
53309976 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
**** ***
53310001 ATCACAT-CGGCCA-TTAGGCATT-
1 ATCACATATATACACTTTCACATTC
53310023 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
53310048 ATCACAT
1 ATCACAT
53310055 CGGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:53314593 original size:49 final size:48
Alignment explanation
Indices: 53314535--53314701 Score: 221
Period size: 49 Copynumber: 3.4 Consensus size: 48
53314525 TATTTGTAAG
*
53314535 TGGCTAATGTGAAATATGTATG-GGTATGTATATGTGGTAAAGCCGGAA
1 TGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC-GAA
*
53314583 TGGGCTAATGTGAAATATGTATAGAGATATGT-TATGTGGTAAAGCCGAT
1 T-GGCTAATGTGAAATATGTAT-GAGATATGTATATGTGGTAAAGCCGAA
53314632 TGGCTAATGTGAAATATGTATGAGATATGGTATATTGCTGGCTAAACGCCGAA
1 TGGCTAATGTGAAATATGTATGAGATAT-GTATA-TG-TGG-TAAA-GCCGAA
*
53314685 TGGCTAGTGTGAAATAT
1 TGGCTAATGTGAAATAT
53314702 CGTTAGGCAT
Statistics
Matches: 106, Mismatches: 4, Indels: 13
0.86 0.03 0.11
Matches are distributed among these distances:
47 7 0.07
48 23 0.22
49 25 0.24
50 17 0.16
51 9 0.08
52 4 0.04
53 21 0.20
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.32
Consensus pattern (48 bp):
TGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
Found at i:53314979 original size:37 final size:36
Alignment explanation
Indices: 53314904--53315004 Score: 129
Period size: 37 Copynumber: 2.9 Consensus size: 36
53314894 TGACTTACGT
*
53314904 GGGTAAG-CCCGATGA-TAC-TGTCGAGA-TTTGTC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
53314936 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGT-C
* * *
53314973 GGGTAAGACCTGATAACTTCGTGTGGAGATTT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTT
53315005 CATCTTGAGC
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
32 7 0.12
33 8 0.13
34 3 0.05
35 7 0.12
36 5 0.08
37 30 0.50
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.29
Consensus pattern (36 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
Found at i:53316424 original size:42 final size:44
Alignment explanation
Indices: 53316322--53316480 Score: 156
Period size: 42 Copynumber: 3.7 Consensus size: 44
53316312 CCCTTCGGGA
* * * *
53316322 CTTATCACATTTATACAC-TTCACATCCATCACGTTGGCCACT-CGGC
1 CTTATC-CATATATACACTTTCACATTCATCAC-AT-GCCATTAC-GC
53316368 C-TATCACATATATACACTTTCACATTCATC-CATGCCATT-CGC
1 CTTATC-CATATATACACTTTCACATTCATCACATGCCATTACGC
* *
53316410 CTTATCCATATATACAC-TTCACATTCATCACATGGCATTAGGC
1 CTTATCCATATATACACTTTCACATTCATCACATGCCATTACGC
53316453 CTTAT-CATATAT--ACTTTCACATTCATCA
1 CTTATCCATATATACACTTTCACATTCATCA
53316481 TCGTTACTTA
Statistics
Matches: 102, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
40 2 0.02
41 25 0.25
42 29 0.28
43 17 0.17
44 1 0.01
45 16 0.16
46 12 0.12
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (44 bp):
CTTATCCATATATACACTTTCACATTCATCACATGCCATTACGC
Found at i:53316472 original size:41 final size:40
Alignment explanation
Indices: 53316377--53316531 Score: 157
Period size: 41 Copynumber: 4.0 Consensus size: 40
53316367 CCTATCACAT
*
53316377 ATATACACTTTCACATTCATCCATGCCATT-CGCCTTATCC
1 ATATACACTTTCACATTCATCCATGCCATTAGGCCTTAT-C
*
53316417 ATATATACAC-TTCACATTCATCACATGGCATTAGGCCTTATC
1 --ATATACACTTTCACATTCATC-CATGCCATTAGGCCTTATC
* *
53316459 ATATATACTTTCACATTCAT-CAT--CGTTA---CTTAT-
1 ATATACACTTTCACATTCATCCATGCCATTAGGCCTTATC
53316492 ATATACACTTTCACATTCATCACATCGCCATTAGGCCTTA
1 ATATACACTTTCACATTCATC-CAT-GCCATTAGGCCTTA
53316532 CCCACCCACA
Statistics
Matches: 96, Mismatches: 6, Indels: 23
0.77 0.05 0.18
Matches are distributed among these distances:
33 19 0.20
34 5 0.05
35 3 0.03
37 4 0.04
38 4 0.04
39 3 0.03
40 7 0.07
41 27 0.28
42 17 0.18
43 7 0.07
ACGTcount: A:0.29, C:0.28, G:0.06, T:0.36
Consensus pattern (40 bp):
ATATACACTTTCACATTCATCCATGCCATTAGGCCTTATC
Found at i:53316479 original size:82 final size:86
Alignment explanation
Indices: 53316322--53316479 Score: 209
Period size: 87 Copynumber: 1.9 Consensus size: 86
53316312 CCCTTCGGGA
* * *
53316322 CTTATCACATTTATACACTTCACATCCATCACGTTGGCCACTCGGCCTATCACATATATACACTT
1 CTTATCACATATATACACTTCACATCCATCACGATGGCCACTAGGCCTAT-ACATATATA-ACTT
53316387 TCACATTCATCCATGCCATTCGC
64 TCACATTCATCCATGCCATTCGC
* *
53316410 CTTATC-CATATATACACTTCACATTCATCAC-ATGG-CATTAGGCCT-TATCATATAT-ACTTT
1 CTTATCACATATATACACTTCACATCCATCACGATGGCCACTAGGCCTATA-CATATATAACTTT
53316470 CACATTCATC
65 CACATTCATC
53316480 ATCGTTACTT
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
82 15 0.23
83 1 0.02
84 8 0.12
85 8 0.12
86 3 0.05
87 23 0.36
88 6 0.09
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (86 bp):
CTTATCACATATATACACTTCACATCCATCACGATGGCCACTAGGCCTATACATATATAACTTTC
ACATTCATCCATGCCATTCGC
Found at i:53322304 original size:47 final size:47
Alignment explanation
Indices: 53322161--53322408 Score: 362
Period size: 47 Copynumber: 5.3 Consensus size: 47
53322151 CCCTTCGGGA
* * * * * *
53322161 CTTATCACATTTATACACTTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACAC-TTTCACATTCATCACATCGGCCATTAGGC
53322208 ---ATCACATATATACACTTTCACATTCATTCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCA-TCACATCGGCCATTAGGC
53322253 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
53322300 CTTATCACATATATATACACTTTCACA-TCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53322348 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
53322395 CTTATCACATATAT
1 CTTATCACATATAT
53322409 NNNNNNNNNN
Statistics
Matches: 185, Mismatches: 8, Indels: 16
0.89 0.04 0.08
Matches are distributed among these distances:
43 10 0.05
44 27 0.15
46 17 0.09
47 60 0.32
48 54 0.29
49 17 0.09
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:53322341 original size:95 final size:97
Alignment explanation
Indices: 53322213--53322408 Score: 369
Period size: 95 Copynumber: 2.0 Consensus size: 97
53322203 CTCGGATCAC
53322213 ATATATACACTTTCACATTCATTCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACA
1 ATATATACACTTTCACATTCATTCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACA
53322278 TTCATCACATCGGCCATTAGGCCTTATCACAT
66 TTCATCACATCGGCCATTAGGCCTTATCACAT
*
53322310 ATATATACACTTTCACA-TCA-TCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACA
1 ATATATACACTTTCACATTCATTCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACA
53322373 TTCATCACATCGGCCATTAGGCCTTATCACAT
66 TTCATCACATCGGCCATTAGGCCTTATCACAT
53322405 ATAT
1 ATAT
53322409 NNNNNNNNNN
Statistics
Matches: 98, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
95 78 0.80
96 3 0.03
97 17 0.17
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (97 bp):
ATATATACACTTTCACATTCATTCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACA
TTCATCACATCGGCCATTAGGCCTTATCACAT
Found at i:53333435 original size:6 final size:6
Alignment explanation
Indices: 53333404--53333472 Score: 79
Period size: 6 Copynumber: 11.3 Consensus size: 6
53333394 TTGCATTCAC
* *
53333404 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
53333453 ATTCTG ATTCT- ATTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
53333473 AATGTTTCTT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
5 3 0.06
6 46 0.85
7 4 0.07
8 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:53342841 original size:46 final size:46
Alignment explanation
Indices: 53342788--53342962 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
53342778 ATTTGGGCAC
53342788 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
* * *
53342834 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--T
* * ***
53342881 CCGAGCTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCGAACAC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
* *
53342927 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53342963 GTGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.58
47 27 0.25
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
Found at i:53342952 original size:93 final size:93
Alignment explanation
Indices: 53342783--53342955 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
53342773 GGGATATTTG
* ***
53342783 GGCACCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCACCCGAACTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCGAACACCCGAACTCGTTGAG
53342848 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
53342876 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCGAACACCCGAGCTCGTTGAG
1 GGCACCCGAACTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCGAACACCCGAACTCGTTGAG
53342941 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
53342956 CTTATGGGTG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCACCCGAACTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:53345483 original size:23 final size:23
Alignment explanation
Indices: 53345439--53345483 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
53345429 ACTCAAACGG
* *
53345439 CCAAAATGATCATCAACTTATAA
1 CCAAAATGACCATCAACCTATAA
53345462 CCAAAATGACCAT-AATCCTATA
1 CCAAAATGACCATCAA-CCTATA
53345484 CATGCCATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.47, C:0.24, G:0.04, T:0.24
Consensus pattern (23 bp):
CCAAAATGACCATCAACCTATAA
Found at i:53347564 original size:16 final size:16
Alignment explanation
Indices: 53347543--53347574 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
53347533 TGCCTAGTTA
53347543 CATCTCTCGAACTCGG
1 CATCTCTCGAACTCGG
53347559 CATCTCTCGAACTCGG
1 CATCTCTCGAACTCGG
53347575 ACTCAACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.38, G:0.19, T:0.25
Consensus pattern (16 bp):
CATCTCTCGAACTCGG
Found at i:53350941 original size:9 final size:9
Alignment explanation
Indices: 53350927--53350954 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
53350917 TGCTCCAACT
53350927 GAGTTGAAA
1 GAGTTGAAA
53350936 GAGTTGAAA
1 GAGTTGAAA
53350945 GAGTTGAAA
1 GAGTTGAAA
53350954 G
1 G
53350955 CCTAGTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.36, T:0.21
Consensus pattern (9 bp):
GAGTTGAAA
Found at i:53355274 original size:46 final size:46
Alignment explanation
Indices: 53355224--53355399 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
53355214 TGGTTGAGCA
*
53355224 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
53355270 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
53355317 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
53355363 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53355400 GCGAGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 65 0.60
47 29 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:53355380 original size:93 final size:93
Alignment explanation
Indices: 53355221--53355391 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
53355211 GGATGGTTGA
* *
53355221 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
53355286 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
53355314 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
53355379 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
53355392 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:53358248 original size:22 final size:23
Alignment explanation
Indices: 53358223--53358272 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
53358213 GTGCCTTTTG
*
53358223 AGGGCTTAT-GTACATG-TGCAAA
1 AGGGATTATAGTACATGTTG-AAA
53358245 AGGGATTATAGGTACATGTTGAAA
1 AGGGATTATA-GTACATGTTGAAA
53358269 AGGG
1 AGGG
53358273 TGAGAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.33
24 14 0.58
25 2 0.08
ACGTcount: A:0.34, C:0.08, G:0.32, T:0.26
Consensus pattern (23 bp):
AGGGATTATAGTACATGTTGAAA
Found at i:53363273 original size:31 final size:31
Alignment explanation
Indices: 53363232--53363335 Score: 136
Period size: 31 Copynumber: 3.4 Consensus size: 31
53363222 AATCAAAATG
*
53363232 AGAATCAGAATCAGGATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTAGGTGACAGAATC
* * *
53363263 AGAATTAGAATCACAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATTAGGTGACAGAATC
* * *
53363294 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATTAGGTGACAGAATC
*
53363325 AAAATCAGAAT
1 AGAATCAGAAT
53363336 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATTAGGTGACAGAATC
Found at i:53363274 original size:12 final size:12
Alignment explanation
Indices: 53363257--53363304 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
53363247 ATTAGGTGAC
53363257 AGAATCAGAATT
1 AGAATCAGAATT
*
53363269 AGAATCACAATT
1 AGAATCAGAATT
*
53363281 AG-GTGACAGAATT
1 AGAAT--CAGAATT
53363294 AGAATCAGAAT
1 AGAATCAGAAT
53363305 CAGTATCAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
11 1 0.03
12 19 0.66
13 8 0.28
14 1 0.03
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.23
Consensus pattern (12 bp):
AGAATCAGAATT
Found at i:53363870 original size:27 final size:27
Alignment explanation
Indices: 53363840--53364302 Score: 622
Period size: 27 Copynumber: 17.2 Consensus size: 27
53363830 AACACCCTAG
** * *
53363840 GGGTAAAATGGTAATTTTATAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
53363867 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
53363894 GGGTAAAACAATAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
53363921 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
53363948 GGGTAAAATAGTAATTCTGTCAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
** *
53363975 GGGTAAAACAGTAATTCGGTAAATCGT
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
53364002 GGGTAAAACAGTAATTCTATAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
53364029 GGGT-AAATAGTAATTTTGCAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
53364055 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
53364082 GGGTAAAACAGTAATTCTGTTAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
53364109 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
53364136 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
53364163 GGGTAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
53364190 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
53364217 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
53364244 GGGTAAAACAATAATTCTGTATATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
53364271 GGGTAAAACAGTAATTTTGTAATTCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
53364298 GGGTA
1 GGGTA
53364303 CTTTGATAAT
Statistics
Matches: 390, Mismatches: 45, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
26 20 0.05
27 370 0.95
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGTAAAACAGTAATTTTGTAAATCGA
Found at i:53364338 original size:54 final size:53
Alignment explanation
Indices: 53364279--53364448 Score: 173
Period size: 54 Copynumber: 3.2 Consensus size: 53
53364269 GAGGGTAAAA
* * * *
53364279 CAGTAATTTTGTAATTCGAGGGTACTTTGATAATTTTACAAGTCAAGGGTATTT
1 CAGTAATTTTATAA-TCGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTT
* * * *
53364333 TAGTAATTTTACAAACTGAGGGTA-TTTCGGTAATTTTACAAATCGAGGATATTT
1 CAGTAATTTTATAATC-GAGGGTACTTT-GGTAATTTTACAAATCGAGGGTATTT
** * * *
53364387 GGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAACT-GGGGGTATTT
1 CAGTAATTTTAT-AATCGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTT
53364440 CAGTAATTT
1 CAGTAATTT
53364449 GGTAAACTAA
Statistics
Matches: 94, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 19 0.20
54 69 0.73
55 6 0.06
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (53 bp):
CAGTAATTTTATAATCGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTT
Found at i:53364366 original size:81 final size:80
Alignment explanation
Indices: 53364279--53364454 Score: 201
Period size: 81 Copynumber: 2.2 Consensus size: 80
53364269 GAGGGTAAAA
* * * *
53364279 CAGTAATTTTGTAATTCGAGGGTACTTT-GATAATTTTACAAGTCAAGGGTATTTTAGTAATTTT
1 CAGTAATTTTGTAAATCGAGGATA-TTTGGATAATTTTACAAATCAAGGGTACTTTAGTAATTTT
53364343 ACAAACTGAGGGTATTT
65 AC-AACTGAGGGTATTT
* ** * * ** *
53364360 CGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTA
1 CAGTAATTTTGTAAATCGAGGATATTTGGATAATTTTACAAATCAAGGGTACTTTAGTAATTTTA
*
53364425 CAACTGGGGGTATTT
66 CAACTGAGGGTATTT
*
53364440 CAGTAATTTGGTAAA
1 CAGTAATTTTGTAAA
53364455 CTAAAGTATT
Statistics
Matches: 77, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
80 27 0.35
81 50 0.65
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (80 bp):
CAGTAATTTTGTAAATCGAGGATATTTGGATAATTTTACAAATCAAGGGTACTTTAGTAATTTTA
CAACTGAGGGTATTT
Found at i:53364445 original size:26 final size:27
Alignment explanation
Indices: 53364294--53364448 Score: 147
Period size: 27 Copynumber: 5.8 Consensus size: 27
53364284 ATTTTGTAAT
* *
53364294 TCGAGGGTACTTT-GATAATTTTACAAG
1 TCGAGGGTA-TTTCGGTAATTTTACAAA
* **
53364321 TCAAGGGTATTTTAGTAATTTTACAAA
1 TCGAGGGTATTTCGGTAATTTTACAAA
53364348 -CTGAGGGTATTTCGGTAATTTTACAAA
1 TC-GAGGGTATTTCGGTAATTTTACAAA
* * *
53364375 TCGAGGATATTTGGGTAATTTTATAAA
1 TCGAGGGTATTTCGGTAATTTTACAAA
* *
53364402 TCGGGGGTACTTT-GGTAATTTTACAAC
1 TCGAGGGTA-TTTCGGTAATTTTACAAA
* *
53364429 T-GGGGGTATTTCAGTAATTT
1 TCGAGGGTATTTCGGTAATTT
53364449 GGTAAACTAA
Statistics
Matches: 108, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
25 3 0.03
26 18 0.17
27 83 0.77
28 4 0.04
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (27 bp):
TCGAGGGTATTTCGGTAATTTTACAAA
Found at i:53384915 original size:23 final size:24
Alignment explanation
Indices: 53384889--53384953 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 24
53384879 GAGCTGATGG
**
53384889 ATAGTAAGCTCTATTGAGCT-AAA
1 ATAGTAAGCTCTAACGAGCTGAAA
*
53384912 ATAGTAAGCTCTAACGAGCTGAGA
1 ATAGTAAGCTCTAACGAGCTGAAA
* *
53384936 ACAGTAAGCTCTTACGAG
1 ATAGTAAGCTCTAACGAG
53384954 TTGATATATC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 18 0.50
24 18 0.50
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (24 bp):
ATAGTAAGCTCTAACGAGCTGAAA
Found at i:53384946 original size:24 final size:24
Alignment explanation
Indices: 53384891--53384984 Score: 75
Period size: 24 Copynumber: 3.9 Consensus size: 24
53384881 GCTGATGGAT
** * *
53384891 AGTAAGCTCTATTGAGCT-AAAAT
1 AGTAAGCTCTAACGAGCTGAGAAC
53384914 AGTAAGCTCTAACGAGCTGAGAAC
1 AGTAAGCTCTAACGAGCTGAGAAC
* * *
53384938 AGTAAGCTCTTACGAGTTGATATATC
1 AGTAAGCTCTAACGAGCTGAGA-A-C
*
53384964 GGTAAGCT-TATACGAGCTGAG
1 AGTAAGCTCTA-ACGAGCTGAG
53384985 GTGAGTCCGC
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
23 16 0.29
24 22 0.39
25 2 0.04
26 16 0.29
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (24 bp):
AGTAAGCTCTAACGAGCTGAGAAC
Found at i:53388073 original size:47 final size:47
Alignment explanation
Indices: 53388021--53388151 Score: 165
Period size: 47 Copynumber: 2.8 Consensus size: 47
53388011 TACAATCGAT
* *
53388021 AAGTACATATACCAT-GCACCGTAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATACCATGGC-CCGTAGCCAAATCAAGGTAACTCATCCCG
* * * * *
53388068 GAGTACCTATACTATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCT
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCG
* *
53388115 AAATACCTATACCATGGCCTGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
53388152 TTATTCGCAC
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 70 0.97
48 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCG
Found at i:53391005 original size:29 final size:29
Alignment explanation
Indices: 53390971--53391044 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
53390961 TAATCAACCG
*
53390971 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
53391000 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
53391029 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
53391045 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:53395438 original size:47 final size:47
Alignment explanation
Indices: 53395375--53395756 Score: 584
Period size: 47 Copynumber: 8.1 Consensus size: 47
53395365 GAAATGATAG
*
53395375 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
53395422 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
53395469 TAAGGCCTAATAGCCTATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53395516 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
53395565 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
53395612 TAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53395659 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
53395706 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
53395753 TAAG
1 TAAG
53395757 TCCCGAAGGG
Statistics
Matches: 311, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 265 0.85
49 46 0.15
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:53395632 original size:143 final size:143
Alignment explanation
Indices: 53395375--53395701 Score: 568
Period size: 143 Copynumber: 2.3 Consensus size: 143
53395365 GAAATGATAG
*
53395375 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGTGATAAGGCCTAATAGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCG
* * * *
53395438 ATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCTATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAACAGCCGATGTGATGAATGTGAAAG
53395503 TGTATATATGTGA
131 TGTATATATGTGA
* *
53395516 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCG
*
53395581 ATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAACGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAACAGCCGATGTGATGAATGTGAAAG
53395646 TGTATATATGTGA
131 TGTATATATGTGA
53395659 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
53395702 GTGACGGGGC
Statistics
Matches: 175, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
141 35 0.20
143 140 0.80
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCG
ATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAACAGCCGATGTGATGAATGTGAAAG
TGTATATATGTGA
Found at i:53395737 original size:190 final size:188
Alignment explanation
Indices: 53395375--53395756 Score: 593
Period size: 190 Copynumber: 2.0 Consensus size: 188
53395365 GAAATGATAG
* * *
53395375 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAACAGCCGAT
* *
53395440 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCTATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
* * * * *
53395505 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
131 TATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTGCATA-A-ATGTGA
*
53395565 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAACGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAACAGCCGAT
*
53395630 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
** * * *
53395695 TATATATGTGACGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
131 TATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTGCATAAATGTGA
53395753 TAAG
1 TAAG
53395757 TCCCGAAGGG
Statistics
Matches: 175, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
188 10 0.06
189 1 0.01
190 164 0.94
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (188 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAACAGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
TATATATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTGCATAAATGTGA
Found at i:53395931 original size:37 final size:37
Alignment explanation
Indices: 53395875--53395953 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
53395865 CCGAGCTCTA
* *
53395875 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
53395912 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53395949 AAGAC
1 AAGAC
53395954 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53406897 original size:44 final size:43
Alignment explanation
Indices: 53406822--53406926 Score: 106
Period size: 44 Copynumber: 2.4 Consensus size: 43
53406812 CTTAAGGAAC
* *
53406822 TCGCACACTTAGTGCCAAAATGATTAGCCAAAGCTA-TAAAGATA
1 TCGCACACTTAGTGCCAAAACGATTAACCAAAGCTACT-AA-ATA
** * *
53406866 TCGCACACTTAGTGCCATCACG-TTAAACCAAAGTTACCTCAATA
1 TCGCACACTTAGTGCCAAAACGATT-AACCAAAGCTA-CTAAATA
53406910 TCGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
53406927 CATAGAGCTG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
43 2 0.04
44 48 0.92
45 1 0.02
46 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (43 bp):
TCGCACACTTAGTGCCAAAACGATTAACCAAAGCTACTAAATA
Found at i:53410297 original size:43 final size:43
Alignment explanation
Indices: 53410208--53410319 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
53410198 TCTGAACTTG
* * * *
53410208 TTGAGTGGTCCGAGTTCATG-GGGTATG-GAGCATCCGAGCTCG
1 TTGAGAGGTCCAAGTTCATGATGG-ATGTGAGCATCCGAGCTCA
* *
53410250 TTGAGAGGTCCAAGTTCATTATGGATGTGAGCATCTGAGCTCA
1 TTGAGAGGTCCAAGTTCATGATGGATGTGAGCATCCGAGCTCA
*
53410293 TTGAGAGGTCCGAGTTCATGATGGATG
1 TTGAGAGGTCCAAGTTCATGATGGATG
53410320 CGATTCATGT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 20 0.33
43 40 0.67
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (43 bp):
TTGAGAGGTCCAAGTTCATGATGGATGTGAGCATCCGAGCTCA
Found at i:53416378 original size:50 final size:50
Alignment explanation
Indices: 53416320--53416416 Score: 185
Period size: 50 Copynumber: 1.9 Consensus size: 50
53416310 GTATTTGAAT
*
53416320 CATCAATAAATAATCATTTAATAAGTCTCATATCATTACTCAATTCTTAC
1 CATCAATAAATAATCATTTAATAAGTCTCATATCATTACACAATTCTTAC
53416370 CATCAATAAATAATCATTTAATAAGTCTCATATCATTACACAATTCT
1 CATCAATAAATAATCATTTAATAAGTCTCATATCATTACACAATTCT
53416417 AACCCATGAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (50 bp):
CATCAATAAATAATCATTTAATAAGTCTCATATCATTACACAATTCTTAC
Found at i:53434615 original size:50 final size:50
Alignment explanation
Indices: 53434502--53434779 Score: 215
Period size: 50 Copynumber: 5.5 Consensus size: 50
53434492 CTGGTACGCA
* * * * * *
53434502 TAGTAGCCTACACTTAGTATTACACATGCGACC-AACAAT-TCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCT-GATACATG
* *
53434551 TAGTAGTCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACATG
* *** * * * *
53434601 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CCATCTGATACATG
* * * *
53434652 TAGTAGCCTGCACTTAGTACTAAACATGCGACCTAACTATCT-AGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGA-TACATG
* * * * * **
53434702 TAATAGCTTGCACTTAGTACTACACACGTAACCTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACATG
53434754 TAGTAGCCTGCA-TATAGTACTACACA
1 TAGTAGCCTGCACT-TAGTACTACACA
53434780 TGTTTTCTCA
Statistics
Matches: 179, Mismatches: 40, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
49 29 0.16
50 78 0.44
51 38 0.21
52 33 0.18
53 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACATG
Found at i:53437655 original size:20 final size:20
Alignment explanation
Indices: 53437626--53437669 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
53437616 CAATTCATTC
*
53437626 TCATTCATATAATCAACAAT
1 TCATTCATATAACCAACAAT
* *
53437646 TCATTTATATAACCAAGAAT
1 TCATTCATATAACCAACAAT
53437666 TCAT
1 TCAT
53437670 CCGTATAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (20 bp):
TCATTCATATAACCAACAAT
Found at i:53437886 original size:26 final size:24
Alignment explanation
Indices: 53437842--53437899 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 24
53437832 AAACTCGAAT
*
53437842 GAGCTGAGAATAGTAAGCTCTTAC
1 GAGCTGAGAATAGTAAGCTCATAC
*
53437866 GAGCTGATATATAGGTAAGCTCATAC
1 GAGCTGAGA-ATA-GTAAGCTCATAC
53437892 GAGCTGAG
1 GAGCTGAG
53437900 GAGAGTCTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 8 0.28
25 3 0.10
26 18 0.62
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.24
Consensus pattern (24 bp):
GAGCTGAGAATAGTAAGCTCATAC
Found at i:53454291 original size:40 final size:40
Alignment explanation
Indices: 53454231--53454408 Score: 243
Period size: 40 Copynumber: 4.5 Consensus size: 40
53454221 TGGATGATAA
*
53454231 CCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
53454271 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
53454311 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
53454351 CCGGGCTATGTCCCGAAGGTATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
53454391 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
53454409 TACTTGGCTT
Statistics
Matches: 125, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 15 0.12
40 110 0.88
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Done.