Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 195 of 444
Found at i:54461855 original size:38 final size:39
Alignment explanation
Indices: 54461756--54461937 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
54461746 AATGTTCGAG
54461756 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
54461795 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
54461834 TGATATCC-GGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
54461872 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
54461912 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
54461938 GTTTGAACGA
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
38 34 0.27
39 52 0.42
40 38 0.31
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:54465207 original size:47 final size:47
Alignment explanation
Indices: 54465138--54465342 Score: 320
Period size: 47 Copynumber: 4.4 Consensus size: 47
54465128 CCCTTCGGGA
* * * *
54465138 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
54465185 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
54465232 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
54465279 CTTATCACACATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
54465326 TTTATCACATATATACA
1 CTTATCACATATATACA
54465343 TATCACACAT
Statistics
Matches: 144, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 144 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:54465392 original size:48 final size:48
Alignment explanation
Indices: 54465316--54465499 Score: 323
Period size: 48 Copynumber: 3.8 Consensus size: 48
54465306 CATCACATGG
* *
54465316 GCCATTAGGCTTTATCACATATATACATATCACACATATATTTCACATTA
1 GCCATTCGGCTTTA-C-CACATATACATATCACACATATATTTCACATTA
*
54465366 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATCA
1 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
54465414 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
1 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
54465462 GCCATTCGGCTTTACCACATATACATATCACACATATA
1 GCCATTCGGCTTTACCACATATACATATCACACATATA
54465500 CTTATTTATC
Statistics
Matches: 130, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
48 116 0.89
49 1 0.01
50 13 0.10
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.33
Consensus pattern (48 bp):
GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
Found at i:54465397 original size:94 final size:97
Alignment explanation
Indices: 54465167--54465493 Score: 358
Period size: 94 Copynumber: 3.4 Consensus size: 97
54465157 TTCACATCCA
* * * *
54465167 TCACATTGGCCACTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 TCACATTAGCCATTCGGCCTTATCACACATATACACTATCACATTCATCACATCGGCCATTAGGC
* *
54465232 CTTATCACATATATACACT-T-TCACAT-TCA--
66 TTTATCACATATATACA-TATCACACATAT-ATT
* * * *
54465261 TCACATTGGCCATTCGGCCTTATCACACATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 TCACATTAGCCATTCGGCCTTATCACACATATACACTATCACATTCATCACATCGGCCATTAGGC
54465326 TTTATCACATATATACATATCACACATATATT
66 TTTATCACATATATACATATCACACATATATT
* *
54465358 TCACATTAGCCATTCGGCTTTA-C-CACATATACA-TATCACACATAT-ATTTCACATCAGCCAT
1 TCACATTAGCCATTCGGCCTTATCACACATATACACTAT--CACAT-TCA--TCACATCGGCCAT
* *
54465419 TCGGCTTTA-C-CACATATACATATCACACATATATT
61 TAGGCTTTATCACATATATACATATCACACATATATT
*
54465454 TCACATTAGCCATTCGGCTTTA-C-CACATATACA-TATCACA
1 TCACATTAGCCATTCGGCCTTATCACACATATACACTATCACA
54465494 CATATACTTA
Statistics
Matches: 209, Mismatches: 14, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
93 1 0.00
94 84 0.40
95 15 0.07
96 68 0.33
97 22 0.11
98 19 0.09
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (97 bp):
TCACATTAGCCATTCGGCCTTATCACACATATACACTATCACATTCATCACATCGGCCATTAGGC
TTTATCACATATATACATATCACACATATATT
Found at i:54465397 original size:141 final size:141
Alignment explanation
Indices: 54465138--54465397 Score: 305
Period size: 141 Copynumber: 1.8 Consensus size: 141
54465128 CCCTTCGGGA
** * *
54465138 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATCCATCACATGGGCCACTAGGCCTTATCACATATATACAC
* * * *
54465203 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
66 TTACACATTCATCACATCAGCCATTAGGCCTTATCACACATATACACTATCACATTCATCACATT
54465268 GGCCATTCGGC
131 GGCCATTCGGC
* * * *
54465279 CTTATCACACATATGCACTTTCACATTCATCACATGGGCCATTAGGCTTTATCACATATATACA-
1 CTTATCACACATATACACTTTCACATCCATCACATGGGCCACTAGGCCTTATCACATATATACAC
* * *
54465343 TATCACACATAT-ATTTCACATTAGCCATTCGGCTTTA-C-CACATATACA-TATCACA
66 T-T-ACACAT-TCA--TCACATCAGCCATTAGGCCTTATCACACATATACACTATCACA
54465398 CATATATTTC
Statistics
Matches: 99, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
140 1 0.01
141 63 0.64
142 15 0.15
143 2 0.02
144 18 0.18
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACACATATACACTTTCACATCCATCACATGGGCCACTAGGCCTTATCACATATATACAC
TTACACATTCATCACATCAGCCATTAGGCCTTATCACACATATACACTATCACATTCATCACATT
GGCCATTCGGC
Found at i:54469332 original size:28 final size:28
Alignment explanation
Indices: 54469300--54469398 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
54469290 GCAATAAGCC
*
54469300 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
54469328 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
54469356 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
54469385 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54469399 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:54477012 original size:28 final size:28
Alignment explanation
Indices: 54476980--54477078 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
54476970 GCAATAAGCC
*
54476980 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
54477008 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
54477036 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
54477065 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54477079 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:54478686 original size:39 final size:38
Alignment explanation
Indices: 54478634--54478783 Score: 117
Period size: 39 Copynumber: 3.9 Consensus size: 38
54478624 ATGATGTCCG
54478634 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA-TCC
1 GGCTAAGT-CCGAAGGCATTTGTGC-AAGTGACTAATTCC
* *
54478672 GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GG-CTAAG-TCCGAAGGCATTTGTGCAAGTGACTAATTCC
* * * * * * *
54478712 GGCTAAGCCCGAAGGCA-TGGTGCGAGTTATTAAATCTG
1 GGCTAAGTCCGAAGGCATTTGTGCAAGTGACTAATTC-C
* * *
54478750 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 GGCTAAGT-CCGAAGGCATTTGTGCAAGTGACTA
54478784 TAACCGGGCT
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
37 16 0.17
38 17 0.18
39 35 0.37
40 26 0.28
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (38 bp):
GGCTAAGTCCGAAGGCATTTGTGCAAGTGACTAATTCC
Found at i:54478800 original size:40 final size:39
Alignment explanation
Indices: 54478631--54478811 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 39
54478621 CGAATGATGT
* * *
54478631 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
54478670 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
54478710 CC-GGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
54478746 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
54478787 CCGGGCTATGTCCCGAAGGTATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
54478812 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
37 15 0.13
38 15 0.13
39 41 0.35
40 45 0.38
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54486804 original size:40 final size:39
Alignment explanation
Indices: 54486747--54486929 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 39
54486737 TCGAATGATG
54486747 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-AAGTGACTAAA
* * * *
54486787 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCAAGTGACTAAA
* * * *
54486827 TCCGGGCTAAG-CCGAAGGCA-TGGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCAAGTGACTAAA
* * *
54486864 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCAAGTGACTA-AA
* *
54486905 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
54486930 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
37 24 0.20
38 9 0.07
39 9 0.07
40 71 0.58
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCAAGTGACTAAA
Found at i:54486881 original size:77 final size:79
Alignment explanation
Indices: 54486747--54486923 Score: 209
Period size: 77 Copynumber: 2.2 Consensus size: 79
54486737 TCGAATGATG
* *
54486747 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAG-CCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
54486812 GTGCGAGTTACTAAT
65 GTGCGAGTTACTAAT
* * * **
54486827 TCCGGGCTAAG-CCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATTT
54486889 GTGCGAGTTACT-AT
65 GTGCGAGTTACTAAT
* *
54486903 AACCGGGCTATGTCCCGAAGG
1 -TCCGGGCTAAG-CCCGAAGG
54486924 TATTTGAACG
Statistics
Matches: 84, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
76 3 0.04
77 50 0.60
78 13 0.15
79 7 0.08
80 11 0.13
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTAAT
Found at i:54494763 original size:46 final size:47
Alignment explanation
Indices: 54494640--54494773 Score: 141
Period size: 47 Copynumber: 2.9 Consensus size: 47
54494630 TCGGGCGTTC
54494640 GCATCCATAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT
1 GCATCCAT-AATGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTT
* * * * * *
54494690 ACAT-C-TCACGAACTCAGACTCAACTCAACGAGTTTGGA-C-ATTT
1 GCATCCATAATGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT
*
54494733 GCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 GCATCCATAA-TGAACTCGGACTCAACTCAACGAGTTCGGA
54494774 TGCTCAACCA
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
43 6 0.09
44 2 0.03
45 2 0.03
46 26 0.38
47 28 0.41
48 1 0.01
49 1 0.01
50 3 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (47 bp):
GCATCCATAATGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT
Found at i:54495227 original size:30 final size:30
Alignment explanation
Indices: 54495193--54495252 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
54495183 ATTTAATACG
54495193 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
54495223 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
54495253 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:54496208 original size:17 final size:17
Alignment explanation
Indices: 54496186--54496230 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
54496176 GCTTTTGCCA
54496186 CAACACTTTTACAAGTG
1 CAACACTTTTACAAGTG
54496203 CAACACTTTTACAAGTG
1 CAACACTTTTACAAGTG
54496220 CAACACTTTTA
1 CAACACTTTTA
54496231 TTTCTTAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.31
Consensus pattern (17 bp):
CAACACTTTTACAAGTG
Found at i:54496612 original size:21 final size:21
Alignment explanation
Indices: 54496588--54496627 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
54496578 AGATTTCTGT
54496588 CAATCT-GAAGCAGCTTTCAAA
1 CAATCTCGAAGCA-CTTTCAAA
*
54496609 CAATCTCGAATCACTTTCA
1 CAATCTCGAAGCACTTTCA
54496628 CCTTTTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.35, C:0.28, G:0.10, T:0.28
Consensus pattern (21 bp):
CAATCTCGAAGCACTTTCAAA
Found at i:54499839 original size:40 final size:40
Alignment explanation
Indices: 54499758--54499938 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
54499748 AAACCAAGTA
** * *
54499758 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
54499797 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
54499837 CCTTTGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
54499877 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
54499917 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
54499939 CAATCCGAAT
Statistics
Matches: 130, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 26 0.20
40 104 0.80
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.28
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:54505206 original size:19 final size:20
Alignment explanation
Indices: 54505182--54505219 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
54505172 GGTACCACCA
54505182 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
54505201 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
54505220 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:54505559 original size:93 final size:93
Alignment explanation
Indices: 54505449--54505619 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
54505439 GCCCCTAAGT
* *
54505449 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
54505514 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * *
54505542 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
54505607 CGAGCTCGGATGC
66 CGAGCTCGGATGC
54505620 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:54505616 original size:46 final size:46
Alignment explanation
Indices: 54505444--54505616 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
54505434 AACCCGCCCC
* * *
54505444 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
* * * *
54505490 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATCCA
* * *
54505538 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
54505583 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
54505617 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
Found at i:54506072 original size:30 final size:30
Alignment explanation
Indices: 54506038--54506097 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
54506028 ATTTAATACG
54506038 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
54506068 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
54506098 GGCTCGGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:54511416 original size:34 final size:34
Alignment explanation
Indices: 54511342--54511430 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 34
54511332 ACTGTATTGA
* *
54511342 ATTGGGCTAAGGCCCATACTGATACTGCAACTGT
1 ATTGGGCTAAGGCCCACACTGATACTGCAACTAT
* *
54511376 ATTGGGCTAAGGCCCACA-TAGATATTGCCACTA-
1 ATTGGGCTAAGGCCCACACT-GATACTGCAACTAT
* *
54511409 ATATGGGCTTAGGCCCAGACTG
1 AT-TGGGCTAAGGCCCACACTG
54511431 TTCAACACTA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
33 3 0.07
34 42 0.91
35 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.25
Consensus pattern (34 bp):
ATTGGGCTAAGGCCCACACTGATACTGCAACTAT
Found at i:54513777 original size:46 final size:46
Alignment explanation
Indices: 54513727--54513899 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
54513717 TGGTTGAGCA
*
54513727 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
54513773 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
54513820 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
54513866 CCCGATCTCGTTGAGTTGAATCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54513900 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:54513883 original size:93 final size:93
Alignment explanation
Indices: 54513724--54513894 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
54513714 GGATGGTTGA
* *
54513724 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
54513789 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAATCCGAGTTCGTGAGATGTAACTAG
* *
54513817 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGATCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
54513882 TGAATCCGAGTTC
66 TGAATCCGAGTTC
54513895 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAATCCGAGTTCGTGAGATGTAACTAG
Found at i:54514161 original size:19 final size:20
Alignment explanation
Indices: 54514124--54514161 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
54514114 ATAAGGTCGT
54514124 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
54514144 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
54514162 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:54516658 original size:39 final size:40
Alignment explanation
Indices: 54516614--54516779 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
54516604 CGGAATATAA
54516614 CCGGATATAATCACGT-GCACAAATG-CTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
54516653 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** *
54516693 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTT-GAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAG-C
** * * * *
54516733 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
54516772 CCGGATAT
1 CCGGATAT
54516780 CATTCAATTT
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
38 1 0.01
39 33 0.32
40 70 0.67
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:54518040 original size:56 final size:53
Alignment explanation
Indices: 54517967--54518078 Score: 129
Period size: 56 Copynumber: 2.1 Consensus size: 53
54517957 TCCTCCCCCT
54517967 TTTCCCTAGTAATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTC
1 TTTCCCTAGTAATTTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTT-TTTTC
* ***
54518023 TTTCCTTAGTACA-TTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTC
1 TTTCCCTAGTA-ATTTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTC
54518076 TTT
1 TTT
54518079 TTTTTTTTCA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
53 8 0.16
54 6 0.12
56 32 0.64
57 4 0.08
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (53 bp):
TTTCCCTAGTAATTTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTC
Found at i:54522121 original size:19 final size:19
Alignment explanation
Indices: 54522097--54522138 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
54522087 CATTGAATGT
54522097 TGGCCTACAATGGTTATGA
1 TGGCCTACAATGGTTATGA
** *
54522116 TGGCCTATTATGGTTATGT
1 TGGCCTACAATGGTTATGA
54522135 TGGC
1 TGGC
54522139 TATTGATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.19, C:0.14, G:0.29, T:0.38
Consensus pattern (19 bp):
TGGCCTACAATGGTTATGA
Found at i:54526924 original size:23 final size:23
Alignment explanation
Indices: 54526881--54526925 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
54526871 TGCCACAACC
* *
54526881 AAATACTCACATCCATTAACCAT
1 AAATACTCACATACATAAACCAT
54526904 AAATAC-CACATACATCAAACCA
1 AAATACTCACATACAT-AAACCA
54526926 CAAGTTCACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (23 bp):
AAATACTCACATACATAAACCAT
Found at i:54531820 original size:25 final size:25
Alignment explanation
Indices: 54531792--54531887 Score: 88
Period size: 25 Copynumber: 3.9 Consensus size: 25
54531782 ACAACCTGTA
*
54531792 AATCGGTAAGCTCATATGAGCTGAG
1 AATCGGTAAGCTCATACGAGCTGAG
* *
54531817 AATCTGTAAGCTC-TCACGAGCT-AC
1 AATCGGTAAGCTCAT-ACGAGCTGAG
* *
54531841 AATCGGTAAGATCATACGAGTTGAG
1 AATCGGTAAGCTCATACGAGCTGAG
* * **
54531866 ATTTGGTAAGCTCCCACGAGCT
1 AATCGGTAAGCTCATACGAGCT
54531888 ACAATTAGTA
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
24 19 0.35
25 36 0.65
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (25 bp):
AATCGGTAAGCTCATACGAGCTGAG
Found at i:54531866 original size:49 final size:49
Alignment explanation
Indices: 54531792--54531892 Score: 141
Period size: 49 Copynumber: 2.1 Consensus size: 49
54531782 ACAACCTGTA
* * *
54531792 AATCGGTAAGCTCATATGAGCTGAGAATCT-GTAAGCTCTCACGAGCTAC
1 AATCGGTAAGATCATACGAGCTGAG-ATCTGGTAAGCTCCCACGAGCTAC
* *
54531841 AATCGGTAAGATCATACGAGTTGAGATTTGGTAAGCTCCCACGAGCTAC
1 AATCGGTAAGATCATACGAGCTGAGATCTGGTAAGCTCCCACGAGCTAC
54531890 AAT
1 AAT
54531893 TAGTAATCCC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 3 0.07
49 43 0.93
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (49 bp):
AATCGGTAAGATCATACGAGCTGAGATCTGGTAAGCTCCCACGAGCTAC
Found at i:54543026 original size:80 final size:80
Alignment explanation
Indices: 54542868--54543031 Score: 215
Period size: 80 Copynumber: 2.0 Consensus size: 80
54542858 TGGATGATAA
* * * *
54542868 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTGGCGCGAGTGACTAGTTCCGGGCTAAGTCCCAAAGGCATTCG
* *
54542933 TGCGAGTTACTATAT
66 AGCAAGTTACTATAT
* * *
54542948 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-TATCCGGGCTATGTCCCAAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTGGCGCGAGTGACTAGT-TCCGGGCTAAGTCCCAAAGGCATTC
54543012 GAGCAAG-TAGCTATAT
65 GAGCAAGTTA-CTATAT
54543028 CCGG
1 CCGG
54543032 TTAAATCTCG
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
79 3 0.04
80 70 0.96
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTGGCGCGAGTGACTAGTTCCGGGCTAAGTCCCAAAGGCATTCG
AGCAAGTTACTATAT
Found at i:54543031 original size:40 final size:40
Alignment explanation
Indices: 54542868--54543010 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
54542858 TGGATGATAA
* * *
54542868 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
54542908 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
54542948 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
54542988 CCGGGCTATGTCCCAAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
54543011 CGAGCAAGTA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 95 0.99
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54548308 original size:46 final size:46
Alignment explanation
Indices: 54548253--54548433 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
54548243 TAGGATGGTT
54548253 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
54548299 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
54548345 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
54548392 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54548434 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:54548414 original size:93 final size:93
Alignment explanation
Indices: 54548255--54548425 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
54548245 GGATGGTTGA
* *
54548255 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
54548320 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
54548348 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
54548413 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
54548426 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54551370 original size:15 final size:15
Alignment explanation
Indices: 54551350--54551418 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
54551340 GTATCTTGGG
54551350 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
54551365 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
54551380 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
54551395 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
54551410 TTTCTTTAT
1 TTTCTTTAT
54551419 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:54551419 original size:30 final size:30
Alignment explanation
Indices: 54551341--54551428 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
54551331 CATAGTATCG
* * * *
54551341 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
54551371 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
54551401 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
54551429 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:54553860 original size:93 final size:93
Alignment explanation
Indices: 54553748--54553919 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
54553738 GCCCATAAGT
* *
54553748 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
54553813 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
54553841 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
54553906 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
54553920 AAATATCCTA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:54553915 original size:46 final size:46
Alignment explanation
Indices: 54553740--54553915 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
54553730 TGTAACCCGC
* *
54553740 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
54553786 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
54553832 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
54553879 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
54553916 TGCCAAATAT
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
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:54556313 original size:15 final size:15
Alignment explanation
Indices: 54556295--54556335 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
54556285 ACAAGAAAAC
54556295 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
54556310 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
54556325 GGATAAAGAAA
1 GAATAAAGAAA
54556336 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:54556344 original size:15 final size:15
Alignment explanation
Indices: 54556297--54556344 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
54556287 AAGAAAACGA
54556297 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
54556311 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
54556327 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
54556342 ATA
1 ATA
54556345 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:54559318 original size:46 final size:46
Alignment explanation
Indices: 54559251--54559379 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
54559241 TGTAACCCGC
* * *
54559251 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
54559297 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
54559343 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
54559380 TGCCAAACAT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:54561786 original size:15 final size:15
Alignment explanation
Indices: 54561768--54561808 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
54561758 AAGAAAAACT
54561768 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
54561783 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
*
54561798 GGATAAAGAAA
1 GAATAAAGAAA
54561809 CCCAAGATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.20, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:54561817 original size:15 final size:15
Alignment explanation
Indices: 54561770--54561817 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
54561760 GAAAAACTGA
54561770 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
54561784 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
54561800 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
54561815 ATA
1 ATA
54561818 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:54564861 original size:46 final size:46
Alignment explanation
Indices: 54564741--54564866 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
54564731 TGTAACCTGC
* * * *
54564741 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
*
54564787 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
54564833 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
54564867 GGATGCGCAA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
Found at i:54570754 original size:19 final size:19
Alignment explanation
Indices: 54570730--54570767 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
54570720 ATAGAGTTAC
*
54570730 AATGGATTCTGTATCGGGT
1 AATGGATTCTGCATCGGGT
*
54570749 AATGGATTTTGCATCGGGT
1 AATGGATTCTGCATCGGGT
54570768 TTTCCTCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.11, G:0.32, T:0.37
Consensus pattern (19 bp):
AATGGATTCTGCATCGGGT
Found at i:54579268 original size:22 final size:22
Alignment explanation
Indices: 54579240--54579283 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
54579230 AATAACACAT
54579240 GTTATAAAACTAGGTCCCTATA
1 GTTATAAAACTAGGTCCCTATA
54579262 GTTATAAAACTAGGTCCCTATA
1 GTTATAAAACTAGGTCCCTATA
54579284 CATGCCACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (22 bp):
GTTATAAAACTAGGTCCCTATA
Found at i:54580368 original size:49 final size:49
Alignment explanation
Indices: 54580302--54580546 Score: 292
Period size: 49 Copynumber: 4.9 Consensus size: 49
54580292 TAGCCAAAGC
* * * *
54580302 TATCTAGTACGCATAGTAGCCTGCACTTAGTAATACACATGCGACCAAT
1 TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
54580351 TATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAAC
1 TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * *
54580401 CATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * **
54580452 TATCGAGTACGCATAGTAGCCTGCACTTAGTACTACACGTGCGACCAAT
1 TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* *
54580501 TATCTAGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
54580547 TCACAATAGA
Statistics
Matches: 163, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 79 0.48
50 47 0.29
51 37 0.23
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:54580532 original size:100 final size:99
Alignment explanation
Indices: 54580301--54580546 Score: 307
Period size: 100 Copynumber: 2.5 Consensus size: 99
54580291 GTAGCCAAAG
* * * * * *
54580301 CTATCTAGTACGCATAGTAGCCTGCACTTAGTAATACACATGCGACCAATTATCTGGTACACGTA
1 CTATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACATA
*
54580366 GTAGCCTACACTTAGTACTACACACGTGACCTAA
66 GTAGCCTACACTTAGTACTACACACGCGACCTAA
* * * *
54580400 CCATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATC-GAGTACGC
1 CTATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTG-GTACAC
* **
54580464 ATAGTAGCCTGCACTTAGTACTACACGTGCGACC-AA
63 ATAGTAGCCTACACTTAGTACTACACACGCGACCTAA
* *
54580500 TTATCTAGTACACGTAGTAGCCTACACTTAGTACTACACACGTGACC
1 CTATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
54580547 TCACAATAGA
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
99 39 0.31
100 47 0.38
101 39 0.31
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
CTATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACATA
GTAGCCTACACTTAGTACTACACACGCGACCTAA
Found at i:54583734 original size:49 final size:49
Alignment explanation
Indices: 54583672--54583831 Score: 148
Period size: 49 Copynumber: 3.3 Consensus size: 49
54583662 CCATCAAGTT
* *
54583672 GATGCCATTTCCCAGATGTGGTCTTATACTGACTATCGAAATCGAGGCC
1 GATGCCATGTCCCAGATGTGGTCTTATACTGACTATCGTAATCGAGGCC
* ** * * * *
54583721 GATGCCATGTCCCATACATGGTCTT-TCACTCAC-ACCTC-TATTCG-TGCT
1 GATGCCATGTCCCAGATGTGGTCTTAT-ACTGACTA--TCGTAATCGAGGCC
* *
54583769 GATGCCATGTCCTAGATGTGATCTTATACTGACTATCGTAATCGAGGCC
1 GATGCCATGTCCCAGATGTGGTCTTATACTGACTATCGTAATCGAGGCC
* *
54583818 AACGCCATGTCCCA
1 GATGCCATGTCCCA
54583832 TACATGGTCT
Statistics
Matches: 83, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
47 2 0.02
48 34 0.41
49 45 0.54
50 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
GATGCCATGTCCCAGATGTGGTCTTATACTGACTATCGTAATCGAGGCC
Found at i:54583780 original size:48 final size:48
Alignment explanation
Indices: 54583721--54583900 Score: 152
Period size: 48 Copynumber: 3.7 Consensus size: 48
54583711 AATCGAGGCC
*
54583721 GATGCCATGTCCCATACATGGTCTTTCACTCACACCTCTATTCGTGCT
1 GATGCCATGTCCCATACATGGTCTTACACTCACACCTCTATTCGTGCT
* * * * * *
54583769 GATGCCATGT-CC-TAGATGTGATCTTATACTGACTA--TCGTAATCGAGGCC
1 GATGCCATGTCCCATACATG-G-TCTTACACTCAC-ACCTC-TATTCG-TGCT
* * *
54583818 AACGCCATGTCCCATACATGGTCTTACACTCACACCTCTATACGTGCT
1 GATGCCATGTCCCATACATGGTCTTACACTCACACCTCTATTCGTGCT
* * ** *
54583866 GATTCCTTGTCCCAGGCATGGTCTTACACTGACAC
1 GATGCCATGTCCCATACATGGTCTTACACTCACAC
54583901 ATCTCGTAGC
Statistics
Matches: 100, Mismatches: 23, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
46 5 0.05
47 5 0.05
48 55 0.55
49 25 0.25
50 5 0.05
51 5 0.05
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (48 bp):
GATGCCATGTCCCATACATGGTCTTACACTCACACCTCTATTCGTGCT
Found at i:54583795 original size:97 final size:97
Alignment explanation
Indices: 54583671--54583880 Score: 330
Period size: 97 Copynumber: 2.2 Consensus size: 97
54583661 TCCATCAAGT
* * * *
54583671 TGATGCCATTTCCCAGATGTGGTCTTATACTGACTATCGAAATCGAGGCCGATGCCATGTCCCAT
1 TGATGCCATGTCCCAGATGTGATCTTATACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAT
* *
54583736 ACATGGTCTTTCACTCACACCTCTATTCGTGC
66 ACATGGTCTTACACTCACACCTCTATACGTGC
* *
54583768 TGATGCCATGTCCTAGATGTGATCTTATACTGACTATCGTAATCGAGGCCAACGCCATGTCCCAT
1 TGATGCCATGTCCCAGATGTGATCTTATACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAT
54583833 ACATGGTCTTACACTCACACCTCTATACGTGC
66 ACATGGTCTTACACTCACACCTCTATACGTGC
* *
54583865 TGATTCCTTGTCCCAG
1 TGATGCCATGTCCCAG
54583881 GCATGGTCTT
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 102 1.00
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.30
Consensus pattern (97 bp):
TGATGCCATGTCCCAGATGTGATCTTATACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAT
ACATGGTCTTACACTCACACCTCTATACGTGC
Found at i:54583964 original size:46 final size:46
Alignment explanation
Indices: 54583873--54584172 Score: 236
Period size: 46 Copynumber: 6.5 Consensus size: 46
54583863 GCTGATTCCT
* * * *
54583873 TGTCCCAGGCATGGTCTTACACT-G-ACACATCTCGTA-GCCAATGCA
1 TGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCG-AGGCCGATGCA
* * *
54583918 TTTCCCAGACATGTCTTACACTGGCT-TACATCGCGACGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGCCGATGCA
* * * ** *
54583964 TGTCCTAGACATGTCTTACACTAGCTCTCATCTCAATACTGATGACA
1 TGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATG-CA
* *
54584011 TGTCCCCGACATGTCTTACACTGGCT-TACAT-TGTGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGGCTCT-CATCT-CGAGGCCGATGCA
* * * * * *
54584057 TGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGCTGATGCCA
1 TGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATG-CA
* * *
54584104 TGTCCCAGACATGGTTTTACACTGGCTCTCATAAT-GTGGCCGATGCA
1 TGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGGCCGATGCA
* *
54584151 TTTCCTAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
54584173 AGCACACAAA
Statistics
Matches: 200, Mismatches: 42, Indels: 25
0.75 0.16 0.09
Matches are distributed among these distances:
44 10 0.05
45 12 0.06
46 93 0.47
47 62 0.31
48 22 0.11
49 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
TGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGCCGATGCA
Found at i:54584031 original size:93 final size:93
Alignment explanation
Indices: 54583920--54584175 Score: 361
Period size: 93 Copynumber: 2.7 Consensus size: 93
54583910 CCAATGCATT
* * *
54583920 TCCCAGACATGTCTTACACTGGCTTACATCGCGACGCCGATGCATGTCCTAGACATGTCTTACAC
1 TCCCAGACATGTCTTACACTGGCTTACATAGTGAGGCCGATGCATGTCCTAGACATGTCTTACAC
54583985 TAGCTCTCATCTCAATACTGATGACATG
66 TAGCTCTCATCTCAATACTGATGACATG
* * * *
54584013 TCCCCGACATGTCTTACACTGGCTTACATTGTGAGGCCGATGCATGTCCCAAACATGTCTTACAC
1 TCCCAGACATGTCTTACACTGGCTTACATAGTGAGGCCGATGCATGTCCTAGACATGTCTTACAC
* * *
54584078 TAGCTCTCGTCTCAATGCTGATGCCATG
66 TAGCTCTCATCTCAATACTGATGACATG
* * * *
54584106 TCCCAGACATGGTTTTACACTGGCTCT-CATAATGTGGCCGATGCATTTCCTAGACATGTCTTAC
1 TCCCAGACAT-GTCTTACACTGGCT-TACATAGTGAGGCCGATGCATGTCCTAGACATGTCTTAC
54584170 ACTAGC
64 ACTAGC
54584176 ACACAAATAA
Statistics
Matches: 144, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
93 93 0.65
94 50 0.35
95 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (93 bp):
TCCCAGACATGTCTTACACTGGCTTACATAGTGAGGCCGATGCATGTCCTAGACATGTCTTACAC
TAGCTCTCATCTCAATACTGATGACATG
Found at i:54585569 original size:29 final size:29
Alignment explanation
Indices: 54585509--54585619 Score: 125
Period size: 29 Copynumber: 3.9 Consensus size: 29
54585499 ACATACAGGC
** * *
54585509 ATATGGCCCA-CTTGCCCCAATCTCATTT
1 ATATGGCCCATCAGGCCCAAATCACATTT
* *
54585537 ATATGGCCCATCAGGCCCAATTCACATTC
1 ATATGGCCCATCAGGCCCAAATCACATTT
* *
54585566 ATATGGCCCATCAAGCCCAAATCACCTTT
1 ATATGGCCCATCAGGCCCAAATCACATTT
* *
54585595 ATATGGCCCGTTAGGCCCAAATCAC
1 ATATGGCCCATCAGGCCCAAATCAC
54585620 CTTATATACA
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
28 10 0.14
29 59 0.86
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATCAGGCCCAAATCACATTT
Found at i:54585611 original size:58 final size:57
Alignment explanation
Indices: 54585508--54585619 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 57
54585498 TACATACAGG
** * * *
54585508 CATATGGCCCACTTGCCCCAATCTCATTTATATGGCCCATCAGGCCCAATTCACATT
1 CATATGGCCCACAAGCCCAAATCACATTTATATGGCCCATCAGGCCCAAATCACATT
* * *
54585565 CATATGGCCCATCAAGCCCAAATCACCTTTATATGGCCCGTTAGGCCCAAATCAC
1 CATATGGCCCA-CAAGCCCAAATCACATTTATATGGCCCATCAGGCCCAAATCAC
54585620 CTTATATACA
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
57 11 0.24
58 35 0.76
ACGTcount: A:0.27, C:0.35, G:0.13, T:0.25
Consensus pattern (57 bp):
CATATGGCCCACAAGCCCAAATCACATTTATATGGCCCATCAGGCCCAAATCACATT
Found at i:54588536 original size:40 final size:40
Alignment explanation
Indices: 54588481--54588702 Score: 360
Period size: 40 Copynumber: 5.6 Consensus size: 40
54588471 TATTCGAATG
54588481 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
54588521 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
54588561 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
54588601 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCT-GTTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
54588641 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
54588681 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
54588703 TACTTGGGTT
Statistics
Matches: 172, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 15 0.09
40 153 0.89
41 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:54591279 original size:40 final size:39
Alignment explanation
Indices: 54591122--54591306 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
54591112 TCGAATGATG
* *
54591122 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTAAA
*
54591162 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGGTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGA-GTACTAAA
*
54591202 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAAA
* **
54591242 TCCGGGTTAAGTCCCGAAGGCATTTGTATGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTA-AA
* *
54591283 -CCGGGCTATGTCCCGAAGGTATTT
1 TCCGGGCTAAGTCCCGAAGGCATTT
54591307 TAACGAGTAT
Statistics
Matches: 128, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
39 2 0.02
40 114 0.89
41 12 0.09
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAA
Found at i:54592183 original size:17 final size:18
Alignment explanation
Indices: 54592141--54592189 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
54592131 AGTTGAAAAG
54592141 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
54592160 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
54592177 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
54592190 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:54593078 original size:40 final size:40
Alignment explanation
Indices: 54593012--54593178 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
54593002 AAATTGAATG
* * *
54593012 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
54593051 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
54593091 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
54593131 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
54593171 ATATCCGG
1 ATATCCGG
54593179 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:54603504 original size:40 final size:40
Alignment explanation
Indices: 54603449--54603669 Score: 367
Period size: 40 Copynumber: 5.6 Consensus size: 40
54603439 TATTCGAATG
54603449 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
54603489 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
54603529 ATATCCGGGCTAAGTCCCGAAGGCATTT-TGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
54603568 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
54603608 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
54603648 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
54603670 TACTTGGGTT
Statistics
Matches: 171, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 52 0.30
40 117 0.68
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:54603584 original size:79 final size:80
Alignment explanation
Indices: 54603449--54603669 Score: 385
Period size: 79 Copynumber: 2.8 Consensus size: 80
54603439 TATTCGAATG
54603449 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
54603514 TTTGTGCTATTGACT
66 TTTGTGCTATTGACT
54603529 ATATCCGGGCTAAGTCCCGAAGGCATTT-TGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
54603593 TTTGTGCTATTGACT
66 TTTGTGCTATTGACT
* * *
54603608 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCCGAAGG
54603670 TACTTGGGTT
Statistics
Matches: 136, Mismatches: 3, Indels: 5
0.94 0.02 0.03
Matches are distributed among these distances:
79 93 0.68
80 41 0.30
81 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTATTGACT
Found at i:54606651 original size:19 final size:19
Alignment explanation
Indices: 54606623--54606661 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
54606613 GGAGCAAAAG
54606623 AAACGAG-AAACGGGCCAA
1 AAACGAGAAAACGGGCCAA
*
54606641 AAACAGAGAAAATGGGCCAA
1 AAAC-GAGAAAACGGGCCAA
54606661 A
1 A
54606662 GTACAAACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.54, C:0.18, G:0.26, T:0.03
Consensus pattern (19 bp):
AAACGAGAAAACGGGCCAA
Found at i:54619984 original size:23 final size:23
Alignment explanation
Indices: 54619954--54620007 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
54619944 AAATTCTCTA
54619954 CAGTTTCAAGATTCTACGGGCTT
1 CAGTTTCAAGATTCTACGGGCTT
*
54619977 CAGTTTCAAGATTCTATGGGCTT
1 CAGTTTCAAGATTCTACGGGCTT
54620000 CAGTTTCA
1 CAGTTTCA
54620008 TTCTACCTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (23 bp):
CAGTTTCAAGATTCTACGGGCTT
Found at i:54621459 original size:29 final size:29
Alignment explanation
Indices: 54621422--54621516 Score: 120
Period size: 29 Copynumber: 3.3 Consensus size: 29
54621412 GGTCGAATCT
* *
54621422 CATTTATATGGCGCATCAGGCCCAATTCA
1 CATTTATATGGCCCATTAGGCCCAATTCA
* * *
54621451 CATTCATATGGCCCATTAGGTCCAAATCA
1 CATTTATATGGCCCATTAGGCCCAATTCA
* *
54621480 CCTTTATATGGCCCGTTAGGCCCAATTCA
1 CATTTATATGGCCCATTAGGCCCAATTCA
54621509 C-TTTATAT
1 CATTTATAT
54621517 ACATGCTCAC
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 7 0.12
29 49 0.88
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (29 bp):
CATTTATATGGCCCATTAGGCCCAATTCA
Found at i:54621501 original size:58 final size:57
Alignment explanation
Indices: 54621393--54621509 Score: 146
Period size: 58 Copynumber: 2.0 Consensus size: 57
54621383 ACCCCTACAT
* * *
54621393 ACATGCATATGGCCCACTTGGTCGAATCTCATTTATATGGCGCATCAGGCCCAATTC
1 ACATGCATATGGCCCACTTGGTCAAATCACATTTATATGGCCCATCAGGCCCAATTC
* * * *
54621450 ACATTCATATGGCCCA-TTAGGTCCAAATCACCTTTATATGGCCCGTTAGGCCCAATTC
1 ACATGCATATGGCCCACTT-GGT-CAAATCACATTTATATGGCCCATCAGGCCCAATTC
54621508 AC
1 AC
54621510 TTTATATACA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 2 0.04
57 18 0.35
58 31 0.61
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (57 bp):
ACATGCATATGGCCCACTTGGTCAAATCACATTTATATGGCCCATCAGGCCCAATTC
Found at i:54621754 original size:16 final size:16
Alignment explanation
Indices: 54621733--54621770 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
54621723 CAAACTTTCA
*
54621733 GCTTTTTGGCACTTCG
1 GCTTTTCGGCACTTCG
*
54621749 GCTTTTCGGCATTTCG
1 GCTTTTCGGCACTTCG
54621765 GCTTTT
1 GCTTTT
54621771 GCCGATCTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.05, C:0.24, G:0.24, T:0.47
Consensus pattern (16 bp):
GCTTTTCGGCACTTCG
Found at i:54625983 original size:39 final size:40
Alignment explanation
Indices: 54625893--54625986 Score: 120
Period size: 39 Copynumber: 2.4 Consensus size: 40
54625883 ATAGCGACTT
* * *
54625893 GCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTT
1 GCACGAATGCCTTCGGGACTTAACCCAGATTTAGTAACTC
* * *
54625933 GCAC-AAAGCCTTCGGGA-TTAGCCCAGATTTATTAACTC
1 GCACGAATGCCTTCGGGACTTAACCCAGATTTAGTAACTC
54625971 GCACGAATGCCTTCGG
1 GCACGAATGCCTTCGG
54625987 ATCCTAGTCC
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
38 20 0.43
39 22 0.48
40 4 0.09
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGACTTAACCCAGATTTAGTAACTC
Found at i:54626039 original size:40 final size:39
Alignment explanation
Indices: 54625856--54626039 Score: 156
Period size: 40 Copynumber: 4.6 Consensus size: 39
54625846 ACGACTCGCT
** * **
54625856 CAAATGCCTTCGGGACGAAGCCCGGTTATAGCGACTTGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * *
54625896 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 C-AAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * *
54625936 CAAAGCCTTCGGGA-TTAGCCCAGATTTATTAACTCGCA
1 CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * *
54625974 CGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
54626015 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
54626040 CATCATTCGA
Statistics
Matches: 113, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
38 23 0.20
39 20 0.18
40 61 0.54
41 9 0.08
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:54631316 original size:46 final size:46
Alignment explanation
Indices: 54631256--54631482 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
54631246 TTTGACATGA
* * * * * *
54631256 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
54631302 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
54631348 TGCCAT-GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
54631393 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
54631439 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
54631483 AGAGCACACT
Statistics
Matches: 168, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
45 45 0.27
46 123 0.73
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:54631395 original size:91 final size:92
Alignment explanation
Indices: 54631256--54631482 Score: 341
Period size: 91 Copynumber: 2.5 Consensus size: 92
54631246 TTTGACATGA
* * * * *
54631256 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATAGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
***
54631320 CCATGGTCTTGTTCATTTCATATCACGT
65 CCATGGTCTTACACATTTCATATCACGT
54631348 TGCCAT-GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
*
54631412 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACATTTCATATCACGT
*
54631439 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
54631483 AGAGCACACT
Statistics
Matches: 124, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
90 4 0.03
91 77 0.62
92 43 0.35
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (92 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACATTTCATATCACGT
Found at i:54633627 original size:11 final size:11
Alignment explanation
Indices: 54633611--54633662 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
54633601 TATACTAAAT
54633611 AAATAATAATA
1 AAATAATAATA
*
54633622 AAATAAT-ATT
1 AAATAATAATA
* *
54633632 AAATATCTCATA
1 AAATA-ATAATA
*
54633644 AAATATTAATA
1 AAATAATAATA
54633655 AAATAATA
1 AAATAATA
54633663 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:54636360 original size:40 final size:40
Alignment explanation
Indices: 54636232--54636344 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
54636222 TGCTGGAAAT
* * * *
54636232 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
* * *
54636272 TATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTTAC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
*
54636312 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGC
54636345 ACGTGATTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
Found at i:54641498 original size:29 final size:29
Alignment explanation
Indices: 54641464--54641595 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
54641454 TACTCGATTT
** * *
54641464 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
54641493 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
54641522 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
54641551 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
54641580 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
54641596 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:54648430 original size:40 final size:38
Alignment explanation
Indices: 54648381--54648525 Score: 145
Period size: 40 Copynumber: 3.8 Consensus size: 38
54648371 ATCACGATTT
*
54648381 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAAT-ACTA
*
54648421 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATACTA
* * * **
54648460 GCATAA-ACC-TC-GGACTTAGCCCGGAT-GTACCACTA
1 GCACAATGCCTTCGGGTCTTAGCCCGGATAG-AATACTA
*
54648495 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
54648526 TAATTTCCAG
Statistics
Matches: 86, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
35 24 0.28
36 2 0.02
37 4 0.05
38 4 0.05
39 19 0.22
40 33 0.38
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATACTA
Found at i:54656532 original size:40 final size:40
Alignment explanation
Indices: 54656483--54656633 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
54656473 ATCACGATTT
*
54656483 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
54656523 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
54656563 GCATAAATGTCC-TCGGGACTTAGCCCGGAT-GTA-GCCACTA
1 GCACAAATG-CCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* *
54656603 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
54656634 TAATTTCCAG
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.03
40 87 0.95
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:54656571 original size:80 final size:81
Alignment explanation
Indices: 54656487--54656673 Score: 226
Period size: 80 Copynumber: 2.3 Consensus size: 81
54656477 CGATTTGCAC
* * *
54656487 AAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTCGCACGAA-TGCCTTCGGGTCTTAGCCCG
1 AAATGCCTTCGGGACTTAGCCCGGATAGAA-GCACTAGCAC-AATTGCCTTCGGGTCTTAACCCG
*
54656550 GATATAATTACTAGCA-T
64 GATATAATTACCAGCATT
*
54656567 AAATGTCC-TCGGGACTTAGCCCGGAT-GTAGCCACTAGCACAATTGCCTTCGGGTCTTAACCCG
1 AAATG-CCTTCGGGACTTAGCCCGGATAGAAG-CACTAGCACAATTGCCTTCGGGTCTTAACCCG
*
54656630 GATATAATTTCCAGCATT
64 GATATAATTACCAGCATT
54656648 AACAT--CTTCGGGACTTAGCCCGGATA
1 AA-ATGCCTTCGGGACTTAGCCCGGATA
54656674 TCATTCAATT
Statistics
Matches: 93, Mismatches: 6, Indels: 15
0.82 0.05 0.13
Matches are distributed among these distances:
78 1 0.01
79 5 0.05
80 80 0.86
81 5 0.05
82 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (81 bp):
AAATGCCTTCGGGACTTAGCCCGGATAGAAGCACTAGCACAATTGCCTTCGGGTCTTAACCCGGA
TATAATTACCAGCATT
Found at i:54665090 original size:2 final size:2
Alignment explanation
Indices: 54665083--54665107 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
54665073 TTATACTATT
54665083 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
54665108 CTCCTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:54666169 original size:54 final size:55
Alignment explanation
Indices: 54666109--54666214 Score: 187
Period size: 54 Copynumber: 1.9 Consensus size: 55
54666099 ATACATAACT
54666109 TCAAAATCAAACATATTAACTAGCCTATACAT-GCCATAGGTTCAAATTTCAACA
1 TCAAAATCAAACATATTAACTAGCCTATACATCGCCATAGGTTCAAATTTCAACA
54666163 TCAAAATCAAACATATTAACTAGCCTATACATGCCGCCATAGGTTCAAATTT
1 TCAAAATCAAACATATTAACTAGCCTATACAT--CGCCATAGGTTCAAATTT
54666215 AAACTTATCA
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
54 32 0.65
57 17 0.35
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (55 bp):
TCAAAATCAAACATATTAACTAGCCTATACATCGCCATAGGTTCAAATTTCAACA
Found at i:54666904 original size:43 final size:43
Alignment explanation
Indices: 54666838--54666953 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 43
54666828 TTATCAAACA
* *
54666838 ATGCCAATGTCCTAGACGTGGTCTTACATGCT-ATC-TCATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATG-TAATCAT-AGATCG
* *
54666881 ATGCCACTGTCCCAGACAG-GGTCTTACACGTAATCATAGATCG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCATAGATCG
*
54666924 ATGCCAGTGTCCCAGACGTGGTCTTACATG
1 ATGCCAATGTCCCAGACGTGGTCTTACATG
54666954 GGAACACATA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.03
43 59 0.94
44 2 0.03
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCATAGATCG
Found at i:54666967 original size:43 final size:43
Alignment explanation
Indices: 54666838--54666967 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 43
54666828 TTATCAAACA
* * * *
54666838 ATGCCAATGTCCTAGACGTGGTCTTACATGCTATCTCATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGGTAACACATATCG
* * * *
54666881 ATGCCACTGTCCCAGACAG-GGTCTTACA-CGTAATCATAGATCG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACATGGTAA-CACATATCG
* *
54666924 ATGCCAGTGTCCCAGACGTGGTCTTACATGGGAACACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGGTAACACATATCG
54666967 A
1 A
54666968 AAATCCTATG
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
42 3 0.04
43 63 0.90
44 4 0.06
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGGTAACACATATCG
Found at i:54672330 original size:27 final size:27
Alignment explanation
Indices: 54672287--54672338 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
54672277 ACCCCAAATT
54672287 GGTAAAATGACTATTTTGCCCTTATAA
1 GGTAAAATGACTATTTTGCCCTTATAA
* *
54672314 GGTAAAATGATTGTTTTGCCCTTAT
1 GGTAAAATGACTATTTTGCCCTTAT
54672339 GTCGTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (27 bp):
GGTAAAATGACTATTTTGCCCTTATAA
Found at i:54672345 original size:27 final size:27
Alignment explanation
Indices: 54672288--54672351 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
54672278 CCCCAAATTG
*
54672288 GTAAAATGACTATTTTGCCCTTATAAG
1 GTAAAATGACTATTTTGCCCTTATAAC
* * **
54672315 GTAAAATGATTGTTTTGCCCTTATGTC
1 GTAAAATGACTATTTTGCCCTTATAAC
54672342 GTAAAATGAC
1 GTAAAATGAC
54672352 GAAAATGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (27 bp):
GTAAAATGACTATTTTGCCCTTATAAC
Found at i:54672774 original size:18 final size:18
Alignment explanation
Indices: 54672738--54672776 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
54672728 AGACTTGCAT
** *
54672738 ACTGTTTACTGTTATTGC
1 ACTGTTTACCATTACTGC
54672756 ACTGTTTACCATTACTGC
1 ACTGTTTACCATTACTGC
54672774 ACT
1 ACT
54672777 AGGCTAGGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.44
Consensus pattern (18 bp):
ACTGTTTACCATTACTGC
Found at i:54688724 original size:93 final size:93
Alignment explanation
Indices: 54688596--54688765 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
54688586 GCCCCTAAGT
* **
54688596 GAACTCAGACTCAACTCAATGAGCTCAGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
54688661 CAAGTTCGGATGGCTAGTTACATTTCAC
66 CAAGTTCGGATGGCTAGTTACATTTCAC
* *
54688689 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
54688753 ACGAGTTCGGATG
65 ACAAGTTCGGATG
54688766 CTCAACCATC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGGATGGCTAGTTACATTTCAC
Found at i:54688755 original size:46 final size:46
Alignment explanation
Indices: 54688591--54688763 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 46
54688581 AACCCGCCCC
* * * **
54688591 TAAGTGAACTCAGACTCAACTCAATGAGCTCAGG-TGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
* * *
54688637 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGGCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
54688685 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
54688730 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
54688764 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 56 0.55
47 28 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:54692528 original size:39 final size:40
Alignment explanation
Indices: 54692420--54692610 Score: 203
Period size: 39 Copynumber: 4.8 Consensus size: 40
54692410 TTGAATGATG
* * *
54692420 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
54692460 TCCGGACTAAGAT-CCGAAGGCGTTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
54692500 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
54692539 CCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
** *
54692579 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
54692611 CGTTATATCC
Statistics
Matches: 127, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 65 0.51
40 55 0.43
41 7 0.06
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54692636 original size:79 final size:78
Alignment explanation
Indices: 54692420--54692611 Score: 208
Period size: 79 Copynumber: 2.4 Consensus size: 78
54692410 TTGAATGATG
* * * * * ** *
54692420 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-GAGTCACTAAACCCGGGTTAAG-TCCGAAGGCATT
54692484 CGTGCGAGTTAATAAA
63 CGTGCGAGTTAATAAA
* *
54692500 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCGAAGGCATTCGT
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTAAACCCGGGTTAAGTCCGAAGGCATTCGT
*
54692565 GCGAGTTACTATAA
66 GCGAGTTAATA-AA
**
54692579 -CCGGGCTTTGTCCCGAAGGCATTTGAGCGAGTC
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCGAGTC
54692612 GTTATATCCG
Statistics
Matches: 97, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
78 32 0.33
79 47 0.48
80 18 0.19
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (78 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCGAGTCACTAAACCCGGGTTAAGTCCGAAGGCATTCGT
GCGAGTTAATAAA
Found at i:54700452 original size:39 final size:39
Alignment explanation
Indices: 54700370--54700558 Score: 145
Period size: 39 Copynumber: 4.8 Consensus size: 39
54700360 TTGAATGATG
* * * * *
54700370 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTAATAAA
*
54700410 TCCGGACT-AGATCCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * * *
54700449 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
* * *
54700488 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTAATA-AA
* * *
54700528 -CCGGGCT-TGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGT
54700559 CGTTATATCC
Statistics
Matches: 123, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
38 20 0.16
39 68 0.55
40 35 0.28
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:54700505 original size:79 final size:80
Alignment explanation
Indices: 54700370--54700551 Score: 225
Period size: 78 Copynumber: 2.3 Consensus size: 80
54700360 TTGAATGATG
* *
54700370 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAGATCCGAAGGCATTC
54700434 GTGCGAGTTAATA-AA
66 GTGCGAG-TAATATAA
* **
54700449 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTA-AGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAGA-T-CCGAAGGCAT
*
54700511 TCGTGCGAGTACTATAA
64 TCGTGCGAGTAATATAA
*
54700528 -CCGGGCT-TGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54700552 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
77 2 0.02
78 50 0.55
79 39 0.43
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAGATCCGAAGGCATTC
GTGCGAGTAATATAA
Found at i:54703157 original size:40 final size:40
Alignment explanation
Indices: 54703102--54703279 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
54703092 CGGATGATAA
* *
54703102 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
54703142 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
54703182 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
54703222 CCGGGCTAAGTCTCAAAGGCATTTGAGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
54703262 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54703280 TACTTGGTTG
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 15 0.12
40 110 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54713086 original size:40 final size:40
Alignment explanation
Indices: 54713005--54713211 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
54712995 CATTGGAATG
* * * * *
54713005 ATATCCGGGCTAAG-TCCGAAGGCAATT-ATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCACT
***
54713044 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCACT
* * * *
54713084 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCACT
* * * *
54713124 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAATCACT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCACT
* * * * * * *
54713164 ATAACCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCACT
54713204 ATATCCGG
1 ATATCCGG
54713212 TTAAATCCCG
Statistics
Matches: 138, Mismatches: 28, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
39 17 0.12
40 121 0.88
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCACT
Found at i:54713138 original size:80 final size:79
Alignment explanation
Indices: 54713005--54713157 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 79
54712995 CATTGGAATG
* * ** * *
54713005 ATATCCGGGCTAAGTCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCAT
1 ATATCCGGGCTAAGCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAA
54713070 TCGTGCGAGTTGTT
66 TCGTGCGAGTTGTT
* * * *
54713084 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAG-CCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
54713149 ATCGTGCGA
65 ATCGTGCGA
54713158 ATCACTATAA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
79 14 0.22
80 49 0.78
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAA
TCGTGCGAGTTGTT
Found at i:54720868 original size:40 final size:40
Alignment explanation
Indices: 54720809--54720960 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
54720799 CATTGGAATG
* * * *
54720809 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
54720849 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* * **
54720889 ATATCCGGGCTAAGACGCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * *
54720929 AAATCCGGGTTAAGACCCGAAGGCAATCGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
54720961 GAATCACTAT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.03
40 89 0.95
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:54720913 original size:80 final size:80
Alignment explanation
Indices: 54720809--54720962 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 80
54720799 CATTGGAATG
* * ** *
54720809 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
54720874 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * * *
54720889 ATATCCGGGCTAAGACGCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
54720954 ATCGTGCGA
66 ATCGTGCGA
54720963 ATCACTATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:54720977 original size:40 final size:40
Alignment explanation
Indices: 54720813--54720980 Score: 135
Period size: 40 Copynumber: 4.2 Consensus size: 40
54720803 GGAATGATAT
* * * * * * *
54720813 CCGGGCTAAGTCCCGAAGGCAATT-ATGCTAGTAATTATAT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAATTACTATAA
* ** *
54720853 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAATTACTATAA
* * *
54720893 CCGGGCTAAGACGCGAAGGCATTTGTGC-AAGTTACCA-AA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAA-TTACTATAA
* * *
54720932 TCCGGGTTAAGACCCGAAGGCAATCGTGCGAATCACTATAA
1 -CCGGGCTAAGACCCGAAGGCATTCGTGCGAATTACTATAA
54720973 CCGGGCTA
1 CCGGGCTA
54720981 GGTCCCAAAG
Statistics
Matches: 104, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
39 5 0.05
40 95 0.91
41 4 0.04
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAATTACTATAA
Found at i:54726592 original size:22 final size:22
Alignment explanation
Indices: 54726567--54726610 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
54726557 AATTATTAAC
* *
54726567 ATAATGAATTTTAATTAATTTT
1 ATAATAAAATTTAATTAATTTT
*
54726589 ATAATAAAATTTGATTAATTTT
1 ATAATAAAATTTAATTAATTTT
54726611 GATTATTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
ATAATAAAATTTAATTAATTTT
Found at i:54728916 original size:68 final size:64
Alignment explanation
Indices: 54728830--54729051 Score: 223
Period size: 67 Copynumber: 3.4 Consensus size: 64
54728820 TAATACGGGA
* *
54728830 TGTATACCATGTGTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGGGTGGTACT
1 TGTACACCATGTGTACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTCGCATGGGTGGTACT
54728895 ATG
62 ATG
* * * * *
54728898 TGTACACCATGTAG-ACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAGG
1 TGTACACCATGT-GTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGGTACTA--
54728962 TG
63 TG
* * ** * * * *
54728964 AAGGACACCATGTAAACAAGAAAGCTACGAGATA-AAGTGGCTAGGTCACATGGGTGATACTATG
1 -TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGGTACTATG
54729028 TGTACACCATGTGTACAAGAGAGC
1 TGTACACCATGTGTACAAGAGAGC
54729052 CAAAATTATG
Statistics
Matches: 126, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
63 19 0.15
64 26 0.21
65 2 0.02
66 23 0.18
67 28 0.22
68 27 0.21
69 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (64 bp):
TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGGTACTATG
Found at i:54730532 original size:21 final size:20
Alignment explanation
Indices: 54730487--54730532 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
54730477 TTGTTGGAAT
54730487 GGTTG-ATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
54730506 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
54730527 GGTTGA
1 GGTTGA
54730533 TTGCATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.18
20 8 0.36
21 10 0.45
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:54732827 original size:24 final size:24
Alignment explanation
Indices: 54732753--54732832 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
54732743 AAGCTCCTCC
*
54732753 TGAGCTGATGGACAGTAAGCTC-TA
1 TGAGCTGA-GAACAGTAAGCTCTTA
* * *
54732777 TTGAGCTGA-AATAGTAAACTCTAA
1 -TGAGCTGAGAACAGTAAGCTCTTA
*
54732801 TGAGCTGAGAACAGTCAGCTCTTA
1 TGAGCTGAGAACAGTAAGCTCTTA
54732825 TGAGCTGA
1 TGAGCTGA
54732833 TATATCGGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
23 17 0.38
24 20 0.44
25 8 0.18
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (24 bp):
TGAGCTGAGAACAGTAAGCTCTTA
Found at i:54736194 original size:39 final size:39
Alignment explanation
Indices: 54736137--54736344 Score: 312
Period size: 39 Copynumber: 5.3 Consensus size: 39
54736127 CGAGACTTTA
* * *
54736137 AGCCCGGATATAATACCAGCAC-AAAGCCTGT-TGGACTTT
1 AGCCCGGATATAACACCAGCACGAATGCCT-TCGGGAC-TT
*
54736176 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
54736215 AACCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
**
54736254 AGCCCGGATATAACACCAGCACGAATGCCTTTAGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
54736293 AGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
54736332 AGCCCGGATATAA
1 AGCCCGGATATAA
54736345 TTCTCCATTA
Statistics
Matches: 157, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 148 0.94
40 9 0.06
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:54736880 original size:110 final size:110
Alignment explanation
Indices: 54736687--54736906 Score: 413
Period size: 110 Copynumber: 2.0 Consensus size: 110
54736677 AGTGGATAGG
*
54736687 CTACTCGATTGCTTTATCCTTTCCCCTATCTGATTTACTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTATCCTTTCCCCTATCTGATTTACTTCCTATTTGCTCTTGAGCTTTAAATT
54736752 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
* *
54736797 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTATTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTATCCTTTCCCCTATCTGATTTACTTCCTATTTGCTCTTGAGCTTTAAATT
54736862 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
54736907 AATAGTCACA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.46
Consensus pattern (110 bp):
CTACTCGATTGCTTTATCCTTTCCCCTATCTGATTTACTTCCTATTTGCTCTTGAGCTTTAAATT
TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
Found at i:54738904 original size:12 final size:12
Alignment explanation
Indices: 54738887--54738916 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
54738877 CCAAAGTTAA
54738887 AATATTTATTTT
1 AATATTTATTTT
54738899 AATA-TTATTTT
1 AATATTTATTTT
54738910 AATATTT
1 AATATTT
54738917 TGAGCATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
AATATTTATTTT
Found at i:54744231 original size:39 final size:39
Alignment explanation
Indices: 54744177--54744329 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
54744167 GAATGTTCGA
*
54744177 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
54744216 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
54744255 ATGAGATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
54744294 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
54744330 GGTTACCATA
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 87 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.33, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:54744345 original size:40 final size:40
Alignment explanation
Indices: 54744184--54744359 Score: 169
Period size: 39 Copynumber: 4.5 Consensus size: 40
54744174 CGAGTGATAT
* *** *
54744184 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* ** * *
54744223 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTATGAGAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
54744262 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
54744301 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
54744341 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
54744360 TGTTTTGAAC
Statistics
Matches: 120, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 80 0.67
40 40 0.33
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:54748491 original size:29 final size:29
Alignment explanation
Indices: 54748459--54748531 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
54748449 CTTCGAGCTC
* *
54748459 GCACACCCAGTGTCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
54748488 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
54748517 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
54748532 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:54754693 original size:39 final size:39
Alignment explanation
Indices: 54754639--54754791 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
54754629 GAATGTTCGA
*
54754639 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
54754678 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
54754717 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
54754756 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
54754792 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:54754807 original size:40 final size:39
Alignment explanation
Indices: 54754640--54754821 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
54754630 AATGTTCGAG
* *
54754640 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
54754679 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
54754718 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
54754757 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
54754797 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
54754822 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:54764552 original size:48 final size:48
Alignment explanation
Indices: 54764500--54764624 Score: 169
Period size: 48 Copynumber: 2.6 Consensus size: 48
54764490 TATCTCGGGT
* *
54764500 ATGGTCTTACATGGGTTCACATATCGATGCCAATGCCAAGTCCCAGAC
1 ATGGTCTTACATGGGATCACATATCGATGCCAACGCCAAGTCCCAGAC
** * * * * *
54764548 ATGGTCTTACATGGGATCGTAGATTGATGCTAACGCCATGTCCGAGAC
1 ATGGTCTTACATGGGATCACATATCGATGCCAACGCCAAGTCCCAGAC
54764596 ATGGTCTTACATGGGATCACATATCGATG
1 ATGGTCTTACATGGGATCACATATCGATG
54764625 TCGATAGCCC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (48 bp):
ATGGTCTTACATGGGATCACATATCGATGCCAACGCCAAGTCCCAGAC
Found at i:54765284 original size:24 final size:24
Alignment explanation
Indices: 54765196--54765296 Score: 150
Period size: 24 Copynumber: 4.2 Consensus size: 24
54765186 AAGTCTGTCA
54765196 GGAGAGGATTTAGGAG-TCGATAAG
1 GGAGAGGATTTAGGAGCT-GATAAG
* *
54765220 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
54765244 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
54765268 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
54765292 GGAGA
1 GGAGA
54765297 ACAGTGTTGG
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
24 71 0.99
25 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.41, T:0.24
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:54766750 original size:27 final size:27
Alignment explanation
Indices: 54766710--54766782 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
54766700 AGGAAGCGTG
*
54766710 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* *
54766737 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* *
54766764 CTGGTGACTCTGTCACATT
1 CTGGTGGCTCTGCCACATT
54766783 ATTTGTTCTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGAT
Found at i:54766790 original size:26 final size:27
Alignment explanation
Indices: 54766710--54766793 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
54766700 AGGAAGCGTG
* * * *
54766710 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGACTCTGCCACAATTATCTGTT
*
54766737 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGACTCTGCCACAATTATCTGTT
* *
54766764 CTGGTGACTCTGTCAC-ATTATTTGTT
1 CTGGTGACTCTGCCACAATTATCTGTT
54766790 CTGG
1 CTGG
54766794 CAGCAATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 13 0.25
27 38 0.75
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
CTGGTGACTCTGCCACAATTATCTGTT
Found at i:54776835 original size:15 final size:13
Alignment explanation
Indices: 54776806--54776832 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54776796 GCTCGACAGG
54776806 GACACGCCCGTGT
1 GACACGCCCGTGT
54776819 GACACGCCCGTGT
1 GACACGCCCGTGT
54776832 G
1 G
54776833 TGATTACTTT
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:54784482 original size:93 final size:93
Alignment explanation
Indices: 54784370--54784541 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
54784360 GCCCATAAGT
* *
54784370 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
54784435 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
54784463 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
54784528 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
54784542 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:54784537 original size:46 final size:46
Alignment explanation
Indices: 54784362--54784537 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
54784352 TGTAACCCGC
* * *
54784362 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
54784408 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
54784458 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
54784501 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
54784538 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:54786962 original size:30 final size:30
Alignment explanation
Indices: 54786918--54787006 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
54786908 CAAAGATAAC
54786918 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
54786947 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
54786977 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
54787007 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:54786966 original size:15 final size:15
Alignment explanation
Indices: 54786918--54786997 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
54786908 CAAAGATAAC
*
54786918 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
54786932 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
54786947 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
54786962 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
54786977 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
54786992 AAGAAA
1 AAGAAA
54786998 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:54787006 original size:15 final size:15
Alignment explanation
Indices: 54786929--54787006 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
54786919 AGAAAACCGA
54786929 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
54786944 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
54786958 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
54786973 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
54786989 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
54787004 ATA
1 ATA
54787007 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:54790066 original size:93 final size:93
Alignment explanation
Indices: 54789954--54790125 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
54789944 GCCCATAAGT
* *
54789954 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
54790019 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
54790047 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
54790112 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
54790126 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:54790121 original size:46 final size:46
Alignment explanation
Indices: 54789946--54790121 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
54789936 TGTAACCCGC
* * *
54789946 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
54789992 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
54790042 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
54790085 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
54790122 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:54792726 original size:40 final size:40
Alignment explanation
Indices: 54792670--54792893 Score: 252
Period size: 40 Copynumber: 5.5 Consensus size: 40
54792660 TATTCGGATG
* *
54792670 ATATCCGGGCTGAGTCCCGAGGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
54792710 ATATCTGGGCTAAGTCCCGAAGGCATTTGTACGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
54792753 ATACCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
54792793 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
54792833 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
54792873 ATATCC-GGCTAAATCCTGAAG
1 ATATCCGGGCTAAGTCCCGAAG
54792894 ATACTTGGGT
Statistics
Matches: 156, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 12 0.08
40 109 0.70
41 1 0.01
43 34 0.22
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Done.