Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 169 of 235
Found at i:57281671 original size:38 final size:37
Alignment explanation
Indices: 57281619--57281695 Score: 136
Period size: 38 Copynumber: 2.1 Consensus size: 37
57281609 TTATACCCCA
*
57281619 CTCTTTCCCTTTAAAACTCTAAACCTTAAAACCATTC
1 CTCTTTCCCTTTAAAACCCTAAACCTTAAAACCATTC
57281656 CNTCTTTCCCTTTAAAACCCTAAACCTTAAAACCATTC
1 C-TCTTTCCCTTTAAAACCCTAAACCTTAAAACCATTC
57281694 CT
1 CT
57281696 ATTTAAACTC
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
37 2 0.05
38 36 0.95
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (37 bp):
CTCTTTCCCTTTAAAACCCTAAACCTTAAAACCATTC
Found at i:57282039 original size:17 final size:17
Alignment explanation
Indices: 57282019--57282072 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
57282009 TATCCTCCTC
* *
57282019 TTTTTTTCTTTGTTTTC
1 TTTTTTTCTTTATTTTA
*
57282036 TTTTTCT-TTTATTTTA
1 TTTTTTTCTTTATTTTA
*
57282052 TTTTATTCTTTATTTTA
1 TTTTTTTCTTTATTTTA
57282069 TTTT
1 TTTT
57282073 AATTTTATCT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 12 0.39
17 19 0.61
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTTTTTCTTTATTTTA
Found at i:57282056 original size:5 final size:5
Alignment explanation
Indices: 57282037--57282080 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
57282027 TTTGTTTTCT
*
57282037 TTTTC TTTTA TTTTA TTTTA TTCTTTA TTTTA TTTTAA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA -T-TTTA TTTTA TTTT-A TTTTA T
57282081 CTCTCTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
5 24 0.69
6 7 0.20
7 4 0.11
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:57282089 original size:22 final size:22
Alignment explanation
Indices: 57282040--57282092 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
57282030 GTTTTCTTTT
*
57282040 TCTTTTATTTTATTTTATTCTT
1 TCTTTTATTTTATTTTATTCTC
*
57282062 TATTTTATTTTAATTTTA-TCTC
1 TCTTTTATTTT-ATTTTATTCTC
57282084 TCTTTTATT
1 TCTTTTATT
57282093 CATCCTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (22 bp):
TCTTTTATTTTATTTTATTCTC
Found at i:57287484 original size:74 final size:74
Alignment explanation
Indices: 57287397--57287691 Score: 581
Period size: 74 Copynumber: 4.0 Consensus size: 74
57287387 TGGATTGTGA
57287397 TAGATTGATGATGAAAGTCCGTATGATTATTTTTGTATGTACAGATGTATTATTCGGTAGATTTG
1 TAGATTGATGATGAAAGTCCGTATGATTATTTTTGTATGTACAGATGTATTATTCGGTAGATTTG
57287462 GCCGAACTG
66 GCCGAACTG
57287471 TAGATTGATGATGAAAGTCCGTATGATTATTTTTGTATGTACAGATGTATTATTCGGTAGATTTG
1 TAGATTGATGATGAAAGTCCGTATGATTATTTTTGTATGTACAGATGTATTATTCGGTAGATTTG
57287536 GCCGAACTG
66 GCCGAACTG
57287545 TAGATTGATGATGAAAGTCCGTATGATTATTTTTGTATGTACAGATGTATTATTCGGTAGATTTG
1 TAGATTGATGATGAAAGTCCGTATGATTATTTTTGTATGTACAGATGTATTATTCGGTAGATTTG
57287610 GCCGAACTG
66 GCCGAACTG
*
57287619 TAGATTGATGATGAAAGTCCGTATGATTATTTTTGTATGTGCAGATGTATTATTCGGTAGATTTG
1 TAGATTGATGATGAAAGTCCGTATGATTATTTTTGTATGTACAGATGTATTATTCGGTAGATTTG
57287684 GCCGAACT
66 GCCGAACT
57287692 ATGTATCTGA
Statistics
Matches: 220, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 220 1.00
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.39
Consensus pattern (74 bp):
TAGATTGATGATGAAAGTCCGTATGATTATTTTTGTATGTACAGATGTATTATTCGGTAGATTTG
GCCGAACTG
Found at i:57289164 original size:50 final size:50
Alignment explanation
Indices: 57289033--57289167 Score: 218
Period size: 50 Copynumber: 2.7 Consensus size: 50
57289023 ATGAGATCTA
* *
57289033 ATGTAAGACCATGTCTGGTACATGGCATTGGAATCGATATGTGTGATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGATCCC
57289083 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGAAT-CC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTG-ATCCC
* *
57289133 ATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCATC
57289168 TTACTATGTG
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
50 78 0.98
51 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTGATCCC
Found at i:57295069 original size:26 final size:26
Alignment explanation
Indices: 57295040--57295107 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
57295030 CCTATATATG
57295040 GCTCTTCGTGAGCTTCCCGATTAAAA
1 GCTCTTCGTGAGCTTCCCGATTAAAA
* * * **
57295066 GCTCTTTGTGAGCTTTCTGATTAATG
1 GCTCTTCGTGAGCTTCCCGATTAAAA
57295092 GCTCTTCG-GAGCTTCC
1 GCTCTTCGTGAGCTTCC
57295108 TGATATGGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
25 7 0.20
26 28 0.80
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (26 bp):
GCTCTTCGTGAGCTTCCCGATTAAAA
Found at i:57295177 original size:25 final size:24
Alignment explanation
Indices: 57295037--57295182 Score: 91
Period size: 25 Copynumber: 5.9 Consensus size: 24
57295027 TTCCCTATAT
* *
57295037 ATGGCTCTTCGTGAGCTTCCCGATTA
1 ATGGCTCTTTG-GAGCTTCCTGA-TA
** *
57295063 AAAGCTCTTTGTGAGCTTTCTGATTA
1 ATGGCTCTTTG-GAGCTTCCTGA-TA
*
57295089 ATGGCTCTTCGGAGCTTCCTGAT-
1 ATGGCTCTTTGGAGCTTCCTGATA
* *
57295112 ATGGCTCACTT-GAACTT-CTCGATAA
1 ATGGCTC-TTTGGAGCTTCCT-GAT-A
* *
57295137 ATGGCTATCTGGAGCTTCCTGACTA
1 ATGGCTCTTTGGAGCTTCCTGA-TA
* *
57295162 ATGGCTCTTTGAAGCTACCTG
1 ATGGCTCTTTGGAGCTTCCTG
57295183 TTATTAGCTC
Statistics
Matches: 93, Mismatches: 20, Indels: 15
0.73 0.16 0.12
Matches are distributed among these distances:
22 2 0.02
23 15 0.16
24 3 0.03
25 41 0.44
26 32 0.34
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (24 bp):
ATGGCTCTTTGGAGCTTCCTGATA
Found at i:57295203 original size:49 final size:49
Alignment explanation
Indices: 57295148--57295250 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 49
57295138 TGGCTATCTG
* *
57295148 GAGCTTCCT-GACTAATGGCTCTT-TGAAGCTACCTGTTAT-TAGCTCACAT
1 GAGCTTCCTGGA-T-ATGGCTCTTATG-AGCTACCCGTTATACAGCTCACAT
*
57295197 GAGCTTCCTGGATATGGCTCTTATGAGCTTCCCGTTATACAGCTCACAT
1 GAGCTTCCTGGATATGGCTCTTATGAGCTACCCGTTATACAGCTCACAT
57295246 GAGCT
1 GAGCT
57295251 CCCCGTTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
48 20 0.42
49 26 0.54
50 2 0.04
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.33
Consensus pattern (49 bp):
GAGCTTCCTGGATATGGCTCTTATGAGCTACCCGTTATACAGCTCACAT
Found at i:57295247 original size:25 final size:25
Alignment explanation
Indices: 57295219--57295285 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
57295209 TATGGCTCTT
*
57295219 ATGAGCTTCCCGTTATACAGCTCAC
1 ATGAGCTCCCCGTTATACAGCTCAC
57295244 ATGAGCTCCCCGTTATACAGCTCAC
1 ATGAGCTCCCCGTTATACAGCTCAC
*
57295269 ATCAGCTCCCCGTTATA
1 ATGAGCTCCCCGTTATA
57295286 TGGATCAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.24, C:0.34, G:0.15, T:0.27
Consensus pattern (25 bp):
ATGAGCTCCCCGTTATACAGCTCAC
Found at i:57301316 original size:296 final size:296
Alignment explanation
Indices: 57300780--57301352 Score: 952
Period size: 296 Copynumber: 1.9 Consensus size: 296
57300770 TGCTCCAAAT
* * ***
57300780 TAGTCCTTGCCTATTTTTAGACTATTTTTAGGGTCTTGTAGACTCGAAATAGAGGCTATAATTGT
1 TAGTCCTTGCCTATTTTTAGACTATTTTTAGGGTCTCGTAGACTCAAAATAGAGGCTATAAGAAT
* * * *
57300845 AAGTTTTATTCTGAATTGGAATGAATTAGCAAACCTGAATTAAGTGAATTCTACTAAAATCATCG
66 AAATTTTACTCTAAATTGGAATGAATTAGCAAACCTAAATTAAGTGAATTCTACTAAAATCATCG
57300910 AAGGTAGTAATAGTCGAAGTATGGACCAATACTCTGATGCTAATAATTGGAATAGTATTGTTATG
131 AAGGTAGTAATAGTCGAAGTATGGACCAATACTCTGATGCTAATAATTGGAATAGTATTGTTATG
* *
57300975 CATCCAACTTTTAGCTTTCAAGATGGGATAAATAGTGAGAAGAGTGTAGACAGTGGAAAACCAAG
196 CATCCAACTTCTAGCTTTCAAGAAGGGATAAATAGTGAGAAGAGTGTAGACAGTGGAAAACCAAG
57301040 TTTAGCATTGCATGGTATGGTACACTATTTGGTTAC
261 TTTAGCATTGCATGGTATGGTACACTATTTGGTTAC
*
57301076 TAGTCCTTGCC-AGTTTTTAGACTATTTTTAGGGTCTCGTAGACTCAAAATAGAGGCTGTAAGAA
1 TAGTCCTTGCCTA-TTTTTAGACTATTTTTAGGGTCTCGTAGACTCAAAATAGAGGCTATAAGAA
*
57301140 TAAATTTTACTCTAAATTGGAATGAATTAGCAAACCTAAATTAAGTGAATTCTACTAACATCATC
65 TAAATTTTACTCTAAATTGGAATGAATTAGCAAACCTAAATTAAGTGAATTCTACTAAAATCATC
* *
57301205 GAAGGTAGTAATAGTC-AGAGTATGGACCAATACTTTGATGCTAATAATTGGAATAGTCTTGTTA
130 GAAGGTAGTAATAGTCGA-AGTATGGACCAATACTCTGATGCTAATAATTGGAATAGTATTGTTA
* * *
57301269 TGTATCCAACTTCTAGCTTTCAAGAAGGGATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCA
194 TGCATCCAACTTCTAGCTTTCAAGAAGGGATAAATAGTGAGAAGAGTGTAGACAGTGGAAAACCA
57301334 AGTTTAGCATTGCATGGTA
259 AGTTTAGCATTGCATGGTA
57301353 CGATATGCTA
Statistics
Matches: 257, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
295 2 0.01
296 255 0.99
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.33
Consensus pattern (296 bp):
TAGTCCTTGCCTATTTTTAGACTATTTTTAGGGTCTCGTAGACTCAAAATAGAGGCTATAAGAAT
AAATTTTACTCTAAATTGGAATGAATTAGCAAACCTAAATTAAGTGAATTCTACTAAAATCATCG
AAGGTAGTAATAGTCGAAGTATGGACCAATACTCTGATGCTAATAATTGGAATAGTATTGTTATG
CATCCAACTTCTAGCTTTCAAGAAGGGATAAATAGTGAGAAGAGTGTAGACAGTGGAAAACCAAG
TTTAGCATTGCATGGTATGGTACACTATTTGGTTAC
Found at i:57311492 original size:44 final size:43
Alignment explanation
Indices: 57311429--57311515 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 43
57311419 TTGAATGATC
57311429 ATGGTGGTTTGAGGAGTTTATACTCCTCATTCCTACTATTAAT
1 ATGGTGGTTTGAGGAGTTTATACTCCTCATTCCTACTATTAAT
* * *
57311472 NATGGTGGTTTGAGGAGTTTATTCTCCTTATTCCTGCTATTAAT
1 -ATGGTGGTTTGAGGAGTTTATACTCCTCATTCCTACTATTAAT
57311516 CCCATCAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (43 bp):
ATGGTGGTTTGAGGAGTTTATACTCCTCATTCCTACTATTAAT
Found at i:57339848 original size:40 final size:40
Alignment explanation
Indices: 57339816--57340207 Score: 552
Period size: 40 Copynumber: 9.8 Consensus size: 40
57339806 CCAGCATGAT
* * * *
57339816 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATATATCACTAGCACGAA
**
57339856 TGCTCTTCGGGGTTTAG-CACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTC-CGGATATATCACTAGCACGAA
* *
57339896 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATATATCACTAGCACGAA
* *
57339936 TGCTCTTCGGGATTTAGGCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATATATCACTAGCACGAA
* *
57339976 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATATATCACTAGCACGAA
* *
57340016 TGCTCTTCGGGATTTAGGCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATATATCACTAGCACGAA
* *
57340056 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATATATCACTAGCACGAA
* *
57340096 TGCTCTTCGGGATTTAGGCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATATATCACTAGCACGAA
* *
57340136 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGTCCGGATATATCACTAGCACGAA
* * * *
57340176 TGCTCTTCGGGATTTAGCCCGGACATTTCACT
1 TGCTCTTCGGGACTTAGTCCGGATATATCACT
57340208 CTCAATTCTC
Statistics
Matches: 311, Mismatches: 39, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
39 1 0.00
40 309 0.99
41 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGTCCGGATATATCACTAGCACGAA
Found at i:57339932 original size:80 final size:80
Alignment explanation
Indices: 57339816--57340207 Score: 678
Period size: 80 Copynumber: 4.9 Consensus size: 80
57339806 CCAGCATGAT
* * * * * * *
57339816 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTA-GCACGGAT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGGC-CGGAT
57339880 ATATCACTAGCACGAA
65 ATATCACTAGCACGAA
57339896 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGGCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGGCCGGATA
57339961 TATCACTAGCACGAA
66 TATCACTAGCACGAA
57339976 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGGCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGGCCGGATA
57340041 TATCACTAGCACGAA
66 TATCACTAGCACGAA
57340056 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGGCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGGCCGGATA
57340121 TATCACTAGCACGAA
66 TATCACTAGCACGAA
* *
57340136 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGACA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGGCCGGATA
*
57340201 TTTCACT
66 TATCACT
57340208 CTCAATTCTC
Statistics
Matches: 301, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
80 299 0.99
81 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGGCCGGATA
TATCACTAGCACGAA
Found at i:57341519 original size:37 final size:37
Alignment explanation
Indices: 57341476--57341583 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
57341466 GCTCGGACGT
* *
57341476 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
57341513 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
57341550 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
57341584 ATATATTTCC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:57341802 original size:47 final size:47
Alignment explanation
Indices: 57341763--57342260 Score: 782
Period size: 47 Copynumber: 10.6 Consensus size: 47
57341753 GGCTTTACCG
* * *
57341763 CATATATGCATTTTCATATTCACCACATTGGCCATTCGGCCTTATCA
1 CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
* *
57341810 CACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCA
1 CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
* * *
57341857 CATATATGCATGCTCACATTTATCACATTGGCCATTCGGCCTCATCA
1 CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
*
57341904 CATATATGCATGTTCACATTCACCACATTGGCCATTCGGCCTTATCA
1 CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
* *
57341951 CACATATGCATGCTCACATTCATCACATTGGCCATTCGG-CTTCATCA
1 CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTT-ATCA
*
57341998 CATATATGCATGTTCACATTCATCACATAGGCCATTCGGCCTTATCA
1 CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
* * *
57342045 CATATATGCATGTTCATATTCACCACATTGGCCATTCGGCTTTATCA
1 CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
* *
57342092 CACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCA
1 CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
* * *
57342139 CATATATGCATGTTCATATTCACCACATTGGCCATTCGGCTTTATCA
1 CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
* *
57342186 CACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCA
1 CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
57342233 CATATATGCATGTTCACATTCATCACAT
1 CATATATGCATGTTCACATTCATCACAT
57342261 AAAATCCTAA
Statistics
Matches: 410, Mismatches: 39, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
46 3 0.01
47 404 0.99
48 3 0.01
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA
Found at i:57342025 original size:25 final size:25
Alignment explanation
Indices: 57341898--57342026 Score: 80
Period size: 25 Copynumber: 5.4 Consensus size: 25
57341888 CCATTCGGCC
57341898 TCATCACATATATGCATGTTCACAT
1 TCATCACATATATGCATGTTCACAT
* * * *
57341923 TCACCACAT-T-GGCCA--TTCGGCCT
1 TCATCACATATATG-CATGTTC-ACAT
* *
57341946 T-ATCACACATATGCATGCTCACAT
1 TCATCACATATATGCATGTTCACAT
* *
57341970 TCATCACAT-T-GGCCA--TTCGGC-T
1 TCATCACATATATG-CATGTTC-ACAT
57341992 TCATCACATATATGCATGTTCACAT
1 TCATCACATATATGCATGTTCACAT
57342017 TCATCACATA
1 TCATCACATA
57342027 GGCCATTCGG
Statistics
Matches: 74, Mismatches: 16, Indels: 28
0.63 0.14 0.24
Matches are distributed among these distances:
22 20 0.27
23 12 0.16
24 12 0.16
25 30 0.41
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (25 bp):
TCATCACATATATGCATGTTCACAT
Found at i:57349557 original size:8 final size:8
Alignment explanation
Indices: 57349544--57349569 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
57349534 CGCTGGCCTA
57349544 AGACATCG
1 AGACATCG
57349552 AGACATCG
1 AGACATCG
57349560 AGACATCG
1 AGACATCG
57349568 AG
1 AG
57349570 TATTAGGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.27, T:0.12
Consensus pattern (8 bp):
AGACATCG
Found at i:57350202 original size:19 final size:20
Alignment explanation
Indices: 57350168--57350207 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
57350158 TCTAAAATTT
*
57350168 ATTAAACAATAATATAGAAA
1 ATTAAACAACAATATAGAAA
*
57350188 ATTAAA-AACAATATATAAA
1 ATTAAACAACAATATAGAAA
57350207 A
1 A
57350208 ATATTTTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (20 bp):
ATTAAACAACAATATAGAAA
Found at i:57352136 original size:23 final size:23
Alignment explanation
Indices: 57352106--57352152 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
57352096 ATTCGATGTT
57352106 TGTAAACCAAGAATAATTGATTC
1 TGTAAACCAAGAATAATTGATTC
57352129 TGTAAACCAAGAATAATTGATTC
1 TGTAAACCAAGAATAATTGATTC
57352152 T
1 T
57352153 TGATATTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (23 bp):
TGTAAACCAAGAATAATTGATTC
Found at i:57362623 original size:29 final size:29
Alignment explanation
Indices: 57362581--57362639 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
57362571 TAATAATCAA
57362581 TTAGTGGATTCACTTCAATTTTCTCACTT
1 TTAGTGGATTCACTTCAATTTTCTCACTT
57362610 TTAGTGGATTCACTTCAATTTTCTCACTT
1 TTAGTGGATTCACTTCAATTTTCTCACTT
57362639 T
1 T
57362640 CTTATTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.49
Consensus pattern (29 bp):
TTAGTGGATTCACTTCAATTTTCTCACTT
Found at i:57368940 original size:22 final size:23
Alignment explanation
Indices: 57368915--57368975 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
57368905 TAATTATAGT
57368915 TTTAATATTTATTTATTTT-TTA
1 TTTAATATTTATTTATTTTATTA
* *
57368937 TTTAAAATGTTATATATTTTAATTA
1 TTTAATAT-TTATTTATTTT-ATTA
57368962 -TTAATATTT-TTTAT
1 TTTAATATTTATTTAT
57368976 ATTACATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
22 11 0.34
23 12 0.38
24 6 0.19
25 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTTAATATTTATTTATTTTATTA
Found at i:57370088 original size:5 final size:5
Alignment explanation
Indices: 57370069--57370104 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
57370059 TTGGAGAAAA
57370069 GTGGG GTGCGG GTGGG GTGGG GTGGG GTGGG GTGGG
1 GTGGG GTG-GG GTGGG GTGGG GTGGG GTGGG GTGGG
57370105 CTTTGTGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.00, C:0.03, G:0.78, T:0.19
Consensus pattern (5 bp):
GTGGG
Found at i:57382951 original size:45 final size:45
Alignment explanation
Indices: 57382887--57382978 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
57382877 TAGAATTCTG
*
57382887 ATATGTGTTTTCATGTAAGACCACATCTGGGACGTTGGTATCAAT
1 ATATGTGTTTTCATGTAAGACCACATCTGGGACGTTGGCATCAAT
** * * *
57382932 ATATGTGTTTTTGTGTAAGACCACGTTTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCATGTAAGACCACATCTGGGACGTTGGCATCAAT
57382977 AT
1 AT
57382979 GTGGTTACGA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (45 bp):
ATATGTGTTTTCATGTAAGACCACATCTGGGACGTTGGCATCAAT
Found at i:57382993 original size:43 final size:42
Alignment explanation
Indices: 57382901--57383020 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 42
57382891 GTGTTTTCAT
* * * ** *
57382901 GTAAGACCACATCTGGGACGTTGGTATCAATATATGTGTTTTTGT
1 GTAAGACCACGTCTGGGACGTTGGCATC---ATATGTGGTTACGA
*
57382946 GTAAGACCACGTTTGGGACGTTGGCATCGATATGTGGTTACGA
1 GTAAGACCACGTCTGGGACGTTGGCATC-ATATGTGGTTACGA
* * *
57382989 GTAAGACCATGTCTGGGACATCGGCATCATAT
1 GTAAGACCACGTCTGGGACGTTGGCATCATAT
57383021 TTGATTCATG
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 4 0.06
43 34 0.54
45 25 0.40
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (42 bp):
GTAAGACCACGTCTGGGACGTTGGCATCATATGTGGTTACGA
Found at i:57383044 original size:41 final size:42
Alignment explanation
Indices: 57382989--57383093 Score: 126
Period size: 41 Copynumber: 2.5 Consensus size: 42
57382979 GTGGTTACGA
** *
57382989 GTAAGACCATGTCTGGGACATCGGCA-TCATATTTGAT-TCAT
1 GTAAGACCATGTCTGGGACAT-GGCATTCATATGAGATAGCAT
*
57383030 GTAAGATCC-TGTCTGGGACAGTGGCATTGATATGAGATAGCAT
1 GTAAGA-CCATGTCTGGGACA-TGGCATTCATATGAGATAGCAT
57383073 GTAAGACCATGTCTGGGACAT
1 GTAAGACCATGTCTGGGACAT
57383094 TGAAATTGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
41 21 0.38
42 14 0.25
43 20 0.36
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (42 bp):
GTAAGACCATGTCTGGGACATGGCATTCATATGAGATAGCAT
Found at i:57395195 original size:114 final size:114
Alignment explanation
Indices: 57394995--57395232 Score: 404
Period size: 114 Copynumber: 2.1 Consensus size: 114
57394985 TAGACTTCCT
* * *
57394995 CACACGGGCAGACCACACGGCCGTGTTAATTTGGCAGAATCGAAGCACGACTCACACGAGTAGAC
1 CACACGGGCAGACCACACGGCCGTATCAATTTGGCAGAATCGAAGCACGACCCACACGAGTAGAC
* *
57395060 CACACGCCCGTGCCTATTTAACAGGCTTGACCATGGCCTGAAGTAATCG
66 CACACGCCCGTGCCTATTTAACAGGCTTGACCACGGCCTGAAGTAATCA
*
57395109 CACACGGGCAGACCACACGGCCGTATCAATTTGGCAGAATCGAAGCACGACCCACACGGGTAGAC
1 CACACGGGCAGACCACACGGCCGTATCAATTTGGCAGAATCGAAGCACGACCCACACGAGTAGAC
*
57395174 CACACGCCCGTGCCTATTTAACAGGCTTGACCACGTCCTGAAGTAATCA
66 CACACGCCCGTGCCTATTTAACAGGCTTGACCACGGCCTGAAGTAATCA
*
57395223 TACACGGGCA
1 CACACGGGCA
57395233 TGTCCCTGTC
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 116 1.00
ACGTcount: A:0.29, C:0.31, G:0.24, T:0.16
Consensus pattern (114 bp):
CACACGGGCAGACCACACGGCCGTATCAATTTGGCAGAATCGAAGCACGACCCACACGAGTAGAC
CACACGCCCGTGCCTATTTAACAGGCTTGACCACGGCCTGAAGTAATCA
Found at i:57405090 original size:18 final size:19
Alignment explanation
Indices: 57405053--57405093 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
57405043 ATTTAGAATC
57405053 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
57405072 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
57405090 AAAA
1 AAAA
57405094 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:57405095 original size:31 final size:31
Alignment explanation
Indices: 57405019--57405092 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
57405009 TCAAATTATC
*
57405019 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATCTAGAA
*
57405051 TCAAA-ACTAAAATAAATAATAAAAA-CTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATCTAGAA
57405081 TTAAATATAAAA
1 TTAAATATAAAA
57405093 ATATCAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
30 10 0.28
31 14 0.39
32 12 0.33
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATCTAGAA
Found at i:57412285 original size:54 final size:51
Alignment explanation
Indices: 57412224--57412393 Score: 196
Period size: 53 Copynumber: 3.2 Consensus size: 51
57412214 AGCTATATCT
* *
57412224 GTATAAGACCATAGCTGGGCTATGGCATCGAAAAACAAGTGATAAGTGATTTTC
1 GTATAAGACCATAGCTGGGCTATGGCATCGGAAAA-AAGTGATAAGTGA--TCC
* * * **
57412278 GTATAAGATCATAGCTGGGTTATGGCTTCGGATTAAAGTGATACAAGTGATCC
1 GTATAAGACCATAGCTGGGCTATGGCATCGGAAAAAAGTGAT--AAGTGATCC
* *
57412331 GTATAAGACCATAGCTGGGCTATGGCATCGGAGAAAAGTGATAAGTGCTCCC
1 GTATAAGACCATAGCTGGGCTATGGCATCGGAAAAAAGTGATAAGTGAT-CC
*
57412383 GTGTAAGACCA
1 GTATAAGACCA
57412394 CATCCAAGAT
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
51 6 0.06
52 12 0.12
53 46 0.46
54 29 0.29
55 6 0.06
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.25
Consensus pattern (51 bp):
GTATAAGACCATAGCTGGGCTATGGCATCGGAAAAAAGTGATAAGTGATCC
Found at i:57414790 original size:15 final size:15
Alignment explanation
Indices: 57414770--57414821 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
57414760 GTATACTTTT
57414770 TTTAAAAATATGTAA
1 TTTAAAAATATGTAA
*
57414785 TTTAAAAATAATATAA
1 TTTAAAAAT-ATGTAA
*
57414801 TTAATAAAACTATGT-A
1 TT--TAAAAATATGTAA
57414817 TTTAA
1 TTTAA
57414822 TCAAAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 3 0.10
15 9 0.29
16 10 0.32
17 3 0.10
18 6 0.19
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (15 bp):
TTTAAAAATATGTAA
Found at i:57416847 original size:83 final size:83
Alignment explanation
Indices: 57416740--57416915 Score: 255
Period size: 83 Copynumber: 2.1 Consensus size: 83
57416730 TCCACCCCAT
* * * * *
57416740 CCCAACCCACTCTACTTCATTATGGATGTATAATTTTAAAAA-TCACTATCACTTCCATGGGATG
1 CCCACCCCACTCCACTTCACTATGGATATATAATTTTAAAAACT-ACTACCACTTCCATGGGATG
57416804 TTGGTGCATCCATTCTAAC
65 TTGGTGCATCCATTCTAAC
* * *
57416823 CCCACCCCACTCCACTTTACTATGGATATATAATTTTGAAAACTACTACCATTTCCATGGGATGT
1 CCCACCCCACTCCACTTCACTATGGATATATAATTTTAAAAACTACTACCACTTCCATGGGATGT
*
57416888 TGGTGCATCCATTCTTAC
66 TGGTGCATCCATTCTAAC
57416906 CCCACCCCAC
1 CCCACCCCAC
57416916 CTTGCTCCAC
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
83 82 0.99
84 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (83 bp):
CCCACCCCACTCCACTTCACTATGGATATATAATTTTAAAAACTACTACCACTTCCATGGGATGT
TGGTGCATCCATTCTAAC
Found at i:57432722 original size:42 final size:42
Alignment explanation
Indices: 57432591--57432785 Score: 153
Period size: 43 Copynumber: 4.6 Consensus size: 42
57432581 AGATTCCATA
* ** *
57432591 TAAGACCATATTTGGGATATGGCATCGGCATGCA-ATTTCGTG
1 TAAGACCATATCTGGGATATGGCATCGATATG-AGACTTCGTG
** * * * * *
57432633 TAAGACCACGTCTGGGACATGGCTTCGAAAATGAGACTTTGTA
1 TAAGACCATATCTGGGATATGGCATCG-ATATGAGACTTCGTG
* *
57432676 TAAGACCATATCTAGGATATGGCATCGATATGAGACATCGTG
1 TAAGACCATATCTGGGATATGGCATCGATATGAGACTTCGTG
* * * * * *
57432718 TAAGACCATAGCTGAGCCAT-TGGCATTGATATGTGA-TCCCATG
1 TAAGACCATATCTG-G-GATATGGCATCGATATGAGACT-TCGTG
57432761 TAAGACCATATCTGGGATATGGCAT
1 TAAGACCATATCTGGGATATGGCAT
57432786 TGAGATCTTA
Statistics
Matches: 118, Mismatches: 29, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
41 2 0.02
42 53 0.45
43 61 0.52
44 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATCGATATGAGACTTCGTG
Found at i:57441886 original size:22 final size:21
Alignment explanation
Indices: 57441861--57441910 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
57441851 TTTATTCTTA
57441861 TTTTTTTAAGAC-TACTGTTTAT
1 TTTTTTTAAG-CTTA-TGTTTAT
*
57441883 TTTTCTTTAAGCTTATTTTTAT
1 TTTT-TTTAAGCTTATGTTTAT
57441905 TTTTTT
1 TTTTTT
57441911 AGGTTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.08
22 15 0.60
23 8 0.32
ACGTcount: A:0.18, C:0.08, G:0.06, T:0.68
Consensus pattern (21 bp):
TTTTTTTAAGCTTATGTTTAT
Found at i:57445138 original size:32 final size:32
Alignment explanation
Indices: 57445015--57445242 Score: 172
Period size: 33 Copynumber: 7.0 Consensus size: 32
57445005 TACCAGTTAT
57445015 GTACACTTTGTGTGTACACTTGAAAAGGAAAG
1 GTACACTTTGTGTGTACACTTGAAAAGGAAAG
* * *
57445047 GTATACTTTGCGTATAC-CATATGAAAAGGAAAG
1 GTACACTTTGTGTGTACAC-T-TGAAAAGGAAAG
* *
57445080 GTATACTTTGTGTATACCACTTGAAAAGGAAAG
1 GTACACTTTGTGTGTA-CACTTGAAAAGGAAAG
* * ** *
57445113 GTACACTATATGTGTACACTTGAAAAGGTTAT
1 GTACACTTTGTGTGTACACTTGAAAAGGAAAG
* ** * ** *
57445145 GTGCACTTTGAATGTACAAATTGAAAAGGGTAT
1 GTACACTTTGTGTGTAC-ACTTGAAAAGGAAAG
* * *
57445178 GTACACTTCGTGTGTACCACTTGAAAAGGGAAT
1 GTACACTTTGTGTGTA-CACTTGAAAAGGAAAG
* * *
57445211 GTGCA-TCTTGAGTGTACAACTAGAAAAGGAAA
1 GTACACT-TTGTGTGTAC-ACTTGAAAAGGAAA
57445243 ATTCCATCGG
Statistics
Matches: 159, Mismatches: 29, Indels: 15
0.78 0.14 0.07
Matches are distributed among these distances:
31 1 0.01
32 42 0.26
33 112 0.70
34 3 0.02
35 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (32 bp):
GTACACTTTGTGTGTACACTTGAAAAGGAAAG
Found at i:57453516 original size:27 final size:27
Alignment explanation
Indices: 57453468--57453626 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
57453458 GCGAGGCTGC
* *
57453468 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
57453495 CAGATATTGTAGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
57453521 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
57453548 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
57453575 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
57453602 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
57453627 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 98 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:57453627 original size:54 final size:54
Alignment explanation
Indices: 57453486--57453629 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
57453476 GTGACGAAGT
* * *
57453486 CACCAGATACAGAT-ATTGTAGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
57453540 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
57453594 CACCAAATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
57453630 GCTTCCTCCA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 80 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:57454032 original size:8 final size:8
Alignment explanation
Indices: 57454016--57454045 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
57454006 CTCAAAATAC
57454016 CGGCTTTT
1 CGGCTTTT
*
57454024 CGGCATTT
1 CGGCTTTT
57454032 CGGCTTTT
1 CGGCTTTT
57454040 CGGCTT
1 CGGCTT
57454046 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:57455253 original size:26 final size:26
Alignment explanation
Indices: 57455223--57455304 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
57455213 TGAAATGCCC
57455223 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
57455249 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
57455275 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
57455301 ATCA
1 ATCA
57455305 ATTTTTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:57455706 original size:33 final size:33
Alignment explanation
Indices: 57455669--57455883 Score: 148
Period size: 33 Copynumber: 6.5 Consensus size: 33
57455659 TATTCAAATG
* ** *
57455669 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTACCACTTGAAAAGGAAAGGTACACTTTGTGT
* * *
57455702 GTA-CACTTGAAAATGAAAGGTATACTTTTTGT
1 GTACCACTTGAAAAGGAAAGGTACACTTTGTGT
* * * *
57455734 ATGCCA-TATGAAAAGGAAAGGTATACTTTGTAT
1 GTACCACT-TGAAAAGGAAAGGTACACTTTGTGT
* * *
57455767 ATACCACTTGAAAAGGAAAGGTACACTATATGT
1 GTACCACTTGAAAAGGAAAGGTACACTTTGTGT
* ** * * * *
57455800 GTA-CACTTGAAAAAGTTATGTGCATTTTGAGT
1 GTACCACTTGAAAAGGAAAGGTACACTTTGTGT
* * ** * *
57455832 GTACAAATTGAAAAGGGTATGTACACTTCGTGT
1 GTACCACTTGAAAAGGAAAGGTACACTTTGTGT
57455865 GTACCACTTGAAAAAGGAA
1 GTACCACTTG-AAAAGGAA
57455884 TGTGCACCTC
Statistics
Matches: 138, Mismatches: 39, Indels: 9
0.74 0.21 0.05
Matches are distributed among these distances:
32 47 0.34
33 84 0.61
34 7 0.05
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (33 bp):
GTACCACTTGAAAAGGAAAGGTACACTTTGTGT
Found at i:57455834 original size:32 final size:32
Alignment explanation
Indices: 57455798--57455902 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 32
57455788 TACACTATAT
* * *
57455798 GTGTACACTTGAAAAAGTTATGTGCATTTTGA
1 GTGTACACTTGAAAAAGGTATGTGCACTTCGA
* * * *
57455830 GTGTACAAATTGAAAAGGGTATGTACACTTCGT
1 GTGTAC-ACTTGAAAAAGGTATGTGCACTTCGA
* *
57455863 GTGTACCACTTGAAAAAGGAATGTGCACCTCGA
1 GTGTA-CACTTGAAAAAGGTATGTGCACTTCGA
*
57455896 ATGTACA
1 GTGTACA
57455903 ACGAAAAAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
32 8 0.14
33 48 0.84
34 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (32 bp):
GTGTACACTTGAAAAAGGTATGTGCACTTCGA
Found at i:57467304 original size:22 final size:22
Alignment explanation
Indices: 57467277--57467360 Score: 60
Period size: 22 Copynumber: 3.5 Consensus size: 22
57467267 TAGAGATCTT
57467277 AGATATGATATGGAATCTTATA
1 AGATATGATATGGAATCTTATA
* ** *
57467299 AGATATTATATTCTAATCTTAGAGATCTT
1 AGATATGATA-TGGAATCTT----A--TA
57467328 AGATATGATATGGAATCTTATA
1 AGATATGATATGGAATCTTATA
*
57467350 AGATATTATAT
1 AGATATGATAT
57467361 TATATTCTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
22 20 0.43
23 7 0.15
24 1 0.02
27 1 0.02
28 7 0.15
29 10 0.22
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.40
Consensus pattern (22 bp):
AGATATGATATGGAATCTTATA
Found at i:57467316 original size:51 final size:51
Alignment explanation
Indices: 57467240--57468089 Score: 1610
Period size: 51 Copynumber: 16.7 Consensus size: 51
57467230 TAGAAACATG
* * * *
57467240 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
* *
57467291 ATCTTATAAGATATTATATTCTAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
57467342 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
57467393 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
57467444 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
57467495 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
57467546 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
57467597 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
57467648 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
57467699 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
57467750 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
57467801 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
57467852 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
57467903 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
57467954 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
*
57468005 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGTA
1 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
* * *
57468056 ATCTTAGAAGATATGATTTTATATTCTTAGAGAT
1 ATCTTATAAGATATTATATTATATTCTTAGAGAT
57468090 TTGATTTGTA
Statistics
Matches: 789, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
51 789 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (51 bp):
ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGGA
Found at i:57470908 original size:22 final size:22
Alignment explanation
Indices: 57470881--57470964 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 22
57470871 TAGAGATCTT
57470881 AGATATGATATGGAATCTTATA
1 AGATATGATATGGAATCTTATA
* **
57470903 AGATATTATATTATAATCTTAGATA
1 AGATATGATA-TGGAATCTT--ATA
57470928 TCTTAGATATGATATGGAATCTTATA
1 ----AGATATGATATGGAATCTTATA
*
57470954 AGATATTATAT
1 AGATATGATAT
57470965 TATATTCTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
22 19 0.40
23 7 0.15
25 3 0.06
26 3 0.06
28 7 0.15
29 9 0.19
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.42
Consensus pattern (22 bp):
AGATATGATATGGAATCTTATA
Found at i:57470908 original size:51 final size:51
Alignment explanation
Indices: 57470844--57471030 Score: 284
Period size: 51 Copynumber: 3.7 Consensus size: 51
57470834 TGGAAACATG
* *
57470844 ATCTTAAAAGATATGATTTTATAATCTTAGAGATCTTAGATATGATATGGA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
* *
57470895 ATCTTATAAGATATTATATTATAATCTTAGATATCTTAGATATGATATGGA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
* * *
57470946 ATCTTATAAGATATTATATTATATTCTTAGAGATCTTAGATATGATATGTA
1 ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
* * *
57470997 ATCTTAGAAGATATGATTTTATATTCTTAGAGAT
1 ATCTTATAAGATATGATATTATAATCTTAGAGAT
57471031 TTGATTTGTA
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 126 1.00
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (51 bp):
ATCTTATAAGATATGATATTATAATCTTAGAGATCTTAGATATGATATGGA
Found at i:57470937 original size:29 final size:28
Alignment explanation
Indices: 57470852--57471004 Score: 96
Period size: 29 Copynumber: 5.8 Consensus size: 28
57470842 TGATCTTAAA
* *
57470852 AGATATGATTTTATAATCTTAGAGATCTT
1 AGATATGA-TATATAATCTTAGATATCTT
**
57470881 AGATATGATATGGAATCTT--ATA----
1 AGATATGATATATAATCTTAGATATCTT
*
57470903 AGATATTATATTATAATCTTAGATATCTT
1 AGATATGATA-TATAATCTTAGATATCTT
**
57470932 AGATATGATATGGAATCTT--ATA----
1 AGATATGATATATAATCTTAGATATCTT
* * *
57470954 AGATATTATATTATATTCTTAGAGATCTT
1 AGATATGATA-TATAATCTTAGATATCTT
*
57470983 AGATATGATATGTAATCTTAGA
1 AGATATGATATATAATCTTAGA
57471005 AGATATGATT
Statistics
Matches: 92, Mismatches: 18, Indels: 29
0.66 0.13 0.21
Matches are distributed among these distances:
22 18 0.20
23 13 0.14
25 5 0.05
26 5 0.05
28 25 0.27
29 26 0.28
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (28 bp):
AGATATGATATATAATCTTAGATATCTT
Found at i:57470979 original size:22 final size:22
Alignment explanation
Indices: 57470954--57471030 Score: 55
Period size: 22 Copynumber: 3.2 Consensus size: 22
57470944 GAATCTTATA
57470954 AGATATTATATTATATTCTTAG
1 AGATATTATATTATATTCTTAG
* *
57470976 AGATCTTAGATATGATATGTAATCTTAG
1 AGATATT--ATAT--TA--TATTCTTAG
* *
57471004 AAGATATGATTTTATATTCTTAG
1 -AGATATTATATTATATTCTTAG
57471027 AGAT
1 AGAT
57471031 TTGATTTGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
22 10 0.24
23 8 0.19
24 4 0.10
25 2 0.05
26 2 0.05
27 3 0.07
28 8 0.19
29 5 0.12
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.44
Consensus pattern (22 bp):
AGATATTATATTATATTCTTAG
Found at i:57472677 original size:17 final size:17
Alignment explanation
Indices: 57472655--57472696 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
57472645 TTTCTATTTA
57472655 AAAAAAAGTTAAAAA-TG
1 AAAAAAAG-TAAAAACTG
57472672 AAAAAAA-TAAAAATCTG
1 AAAAAAAGTAAAAA-CTG
57472689 AAAAAAAG
1 AAAAAAAG
57472697 GGGATGGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.27
17 16 0.73
ACGTcount: A:0.74, C:0.02, G:0.10, T:0.14
Consensus pattern (17 bp):
AAAAAAAGTAAAAACTG
Found at i:57472780 original size:27 final size:27
Alignment explanation
Indices: 57472742--57472803 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
57472732 GCCTCTGGCC
* *
57472742 CGACACCGATTGTGCCTCGGGCAGGGG
1 CGACACCGATTGTGACTCGGGCAGAGG
*
57472769 CGACACCGATTGTGACTCTGGCAGAGG
1 CGACACCGATTGTGACTCGGGCAGAGG
*
57472796 CGGCACCG
1 CGACACCG
57472804 TCTATTAGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.18, C:0.31, G:0.37, T:0.15
Consensus pattern (27 bp):
CGACACCGATTGTGACTCGGGCAGAGG
Found at i:57472903 original size:3 final size:3
Alignment explanation
Indices: 57472882--57472930 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
57472872 TTCATTTTGG
* *
57472882 GAA GAA -AA GAA GGA GAA GAA GAA -AA GAA G-A GAA GAA GAA GAA GGA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
57472927 GAA G
1 GAA G
57472931 GAAGCGGCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 6 0.15
3 33 0.85
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:57472908 original size:8 final size:8
Alignment explanation
Indices: 57472882--57472920 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
57472872 TTCATTTTGG
57472882 GAAGAAAA
1 GAAGAAAA
*
57472890 GAAGGAGAA
1 GAA-GAAAA
57472899 GAAGAAAA
1 GAAGAAAA
*
57472907 GAAGAGAA
1 GAAGAAAA
57472915 GAAGAA
1 GAAGAA
57472921 GAAGGAGAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (8 bp):
GAAGAAAA
Found at i:57472914 original size:22 final size:22
Alignment explanation
Indices: 57472883--57472924 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
57472873 TCATTTTGGG
*
57472883 AAGAAAAGAAGGAGAAGAAGAA
1 AAGAAAAGAAGAAGAAGAAGAA
*
57472905 AAGAAGAGAAGAAGAAGAAG
1 AAGAAAAGAAGAAGAAGAAG
57472925 GAGAAGGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (22 bp):
AAGAAAAGAAGAAGAAGAAGAA
Found at i:57472916 original size:25 final size:25
Alignment explanation
Indices: 57472882--57472929 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
57472872 TTCATTTTGG
*
57472882 GAAGAAAAGAAGGAGAAGAAGAAAA
1 GAAGAAAAGAAGAAGAAGAAGAAAA
* *
57472907 GAAGAGAAGAAGAAGAAGGAGAA
1 GAAGAAAAGAAGAAGAAGAAGAA
57472930 GGAAGCGGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (25 bp):
GAAGAAAAGAAGAAGAAGAAGAAAA
Found at i:57473491 original size:17 final size:16
Alignment explanation
Indices: 57473467--57473498 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
57473457 ATATCTTAAT
57473467 GAAAAAAATACGAAAG
1 GAAAAAAATACGAAAG
57473483 GAAATAAAATACGAAA
1 GAAA-AAAATACGAAA
57473499 AAAATTCGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.69, C:0.06, G:0.16, T:0.09
Consensus pattern (16 bp):
GAAAAAAATACGAAAG
Found at i:57473880 original size:149 final size:146
Alignment explanation
Indices: 57473531--57475242 Score: 2374
Period size: 149 Copynumber: 11.5 Consensus size: 146
57473521 GCGGGTTTTT
* * *
57473531 TACTAAAATAATATAAAAAATAAAATACAAAAATTGTATATTTTAAAAAATAAAATCCAAAAATT
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTT-AAAAATAAAATCCGAAAA-T
** *
57473596 TGAAAAATACAAACAAAAG-GCCAAAATCAAGGTTATTTACTAAATTATTAAAAAAACACTAAAA
64 AAAAAAATACCAAC-AAAGTGCCAAAATCAAGGTTA-TTACTAAATTATT-AAAAAACACTAAAA
57473660 TAATACATTTGAAACATTATG
126 TAATACATTTGAAACATTATG
* * *
57473681 TACTAAAATAATACAAAAAATAAAATAGGAAAATAGTATATTTTATAAAATAAAATCCAAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTA-AAAATAAAATCCGAAAATA
** *
57473746 TAAAAAATATAAACAAA-TGGCCAAAATCAGGGTTATATACTAAATTATTAAAAAACACTAAAAT
65 -AAAAAATACCAACAAAGT-GCCAAAATCAAGGTTAT-TACTAAATTATTAAAAAACACTAAAAT
57473810 AATACATTTGAAACATTATG
127 AATACATTTGAAACATTATG
57473830 TACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCCGAAAATA
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCCGAAAATA
*
57473895 AAAAAATACCAACAAAGTGCCAAAATCAAGGTTCCTTACTAAATTATTAAAAAAACACTAAAATA
65 AAAAAATACCAACAAAGTGCCAAAATCAAGGTT-ATTACTAAATTATT-AAAAAACACTAAAATA
57473960 ATACATTTGAAAC-TATATG
128 ATACATTTGAAACAT-TATG
57473979 TACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCCGAAAATA
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCCGAAAATA
*
57474044 AAAAAATACCAACAAAGTGCCAAAATCAAGGTTCCTTACTAAATTATTAAAAAAACACTAAAATA
65 AAAAAATACCAACAAAGTGCCAAAATCAAGGTT-ATTACTAAATTATT-AAAAAACACTAAAATA
57474109 ATACATTTGAAACATTATG
128 ATACATTTGAAACATTATG
* * *
57474128 TACTAAAATAATACAAAAAATAAAATAGGAAAATAGTATATTTTATAAAATAAAATCCAAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTA-AAAATAAAATCCGAAAATA
** *
57474193 TAAAAAATATAAACAAA-TGGCCAAAATCAGGGTTATATACTAAATTATTAAAAAACACTAAAAT
65 -AAAAAATACCAACAAAGT-GCCAAAATCAAGGTTAT-TACTAAATTATTAAAAAACACTAAAAT
57474257 AATACATTTGAAACATTATG
127 AATACATTTGAAACATTATG
* * *
57474277 TACTAAAATAATACAAAAAATAAAATAGGAAAATAGTATATTTTATAAAATAAAATCCAAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTA-AAAATAAAATCCGAAAATA
** *
57474342 TAAAAAATATAAACAAA-TGGCCAAAATCAGGGTTATATACTAAATTATTAAAAAACACTAAAAT
65 -AAAAAATACCAACAAAGT-GCCAAAATCAAGGTTAT-TACTAAATTATTAAAAAACACTAAAAT
57474406 AATACATTTGAAACATTATG
127 AATACATTTGAAACATTATG
* * *
57474426 TACTAAAATAATACAAAAAATAAAATAGGAAAATAGTATATTTTATAAAATAAAATCCAAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTA-AAAATAAAATCCGAAAATA
** *
57474491 TAAAAAATATAAACAAA-TGGCCAAAATCAGGGTTATATACTAAATTATTAAAAAACACTAAAAT
65 -AAAAAATACCAACAAAGT-GCCAAAATCAAGGTTAT-TACTAAATTATTAAAAAACACTAAAAT
57474555 AATACATTTGAAACATTATG
127 AATACATTTGAAACATTATG
* * * * *
57474575 TACTAAAATATTATAAAAAATACAATA--AAAATAATATATTTTAAAAAATGAAATTCGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTT-AAAAATAAAATCCGAAAATA
*
57474638 AAAAAATACCAACAAAGTGCCAAAATCAAGGTTCCTTACTAAATTATTAAAAAAACACTAAAATA
65 AAAAAATACCAACAAAGTGCCAAAATCAAGGTT-ATTACTAAATTATT-AAAAAACACTAAAATA
57474703 ATACATTTGAAAC-TATATG
128 ATACATTTGAAACAT-TATG
*
57474722 TACTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAAT
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTT-AAAAATAAAATCCGAAAAT
* * * *
57474787 AAAAAAATATCAACAAAAAGTGTCAAAATCAAGGTTATTTATTAAATTAATATAAAAAACACTTA
64 AAAAAAATACCAAC--AAAGTGCCAAAATCAAGGTTA-TTACTAAATT-AT-TAAAAAACACTAA
57474852 AATAATACATTTGAAACATTATG
124 AATAATACATTTGAAACATTATG
* * * *
57474875 TACTAAAATAATATAAAAAATACAATA--AAAATAATATATTTTAAAAAATGAAATTCGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTT-AAAAATAAAATCCGAAAATA
* * * *
57474938 AAAAAATACCAACAAAGTGCCAAAATC-AGAGTTATTTATTAAATTAATAAAAAAAACATTTAAA
65 AAAAAATACCAACAAAGTGCCAAAATCAAG-GTTA-TTACTAAATT-AT-TAAAAAACACTAAAA
*
57475002 TAATGCA-TT-ACAACATTATG
126 TAATACATTTGA-AACATTATG
57475022 TACTAAAATAATATAAAAAATAAAAATACGAAAATAGTATATTTTAAAAATAAAATCCGAAAATA
1 TACTAAAATAATATAAAAAAT-AAAATACGAAAATAGTATATTTTAAAAATAAAATCCGAAAATA
*
57475087 AAAAAATACCAACAAAGTGCCAAAATCAAGGTTCCTTACTAAATTATTAAAAAAACACTAAAATA
65 AAAAAATACCAACAAAGTGCCAAAATCAAGGTT-ATTACTAAATTATT-AAAAAACACTAAAATA
57475152 ATACATTTGAAAC-TATATG
128 ATACATTTGAAACAT-TATG
*
57475171 TACTAAAATAATATAAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAAT
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTT-AAAAATAAAATCCGAAAAT
57475236 AAAAAAA
64 AAAAAAA
57475243 AGAATTTAAT
Statistics
Matches: 1459, Mismatches: 61, Indels: 84
0.91 0.04 0.05
Matches are distributed among these distances:
146 42 0.03
147 112 0.08
148 161 0.11
149 746 0.51
150 308 0.21
152 40 0.03
153 48 0.03
154 2 0.00
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (146 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCCGAAAATAA
AAAAATACCAACAAAGTGCCAAAATCAAGGTTATTACTAAATTATTAAAAAACACTAAAATAATA
CATTTGAAACATTATG
Found at i:57477028 original size:21 final size:20
Alignment explanation
Indices: 57476999--57477037 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
57476989 ACTTGAAGCA
57476999 GGGCACACG-CCTGTGTGGAT
1 GGGCACACGTCC-GTGTGGAT
57477019 GGGCAACACGTCCGTGTGG
1 GGGC-ACACGTCCGTGTGG
57477038 CCATTATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 11 0.65
22 2 0.12
ACGTcount: A:0.15, C:0.26, G:0.41, T:0.18
Consensus pattern (20 bp):
GGGCACACGTCCGTGTGGAT
Found at i:57488842 original size:13 final size:13
Alignment explanation
Indices: 57488826--57488850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57488816 TGCGACACGC
57488826 CCGTGCCATACAT
1 CCGTGCCATACAT
57488839 CCGTGCCATACA
1 CCGTGCCATACA
57488851 CCCATGGACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.40, G:0.16, T:0.20
Consensus pattern (13 bp):
CCGTGCCATACAT
Found at i:57495637 original size:49 final size:48
Alignment explanation
Indices: 57495532--57495706 Score: 174
Period size: 49 Copynumber: 3.6 Consensus size: 48
57495522 AAATGCCGAC
* * * *
57495532 GCCATGTCCCAGACATGGTCTTACACTGGCTAGC--ACATTAAAGTTGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGACTATCATATATTGAAG-TGAT
* * *
57495580 GCCGTGTCCCAGACAGGTCTTACACTGACTTTCATATATTGAGGCTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTATCATATATTGAAG-TGAT
* * * * * *
57495629 GCCATGTCCTAGACAGGTCTTATACTGACTCTCATCTATCGATGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTATCATATATTGAAGT-GAT
*
57495678 GCCATGTCCCAGATAGGTCTTACACTGAC
1 GCCATGTCCCAGACAGGTCTTACACTGAC
57495707 ATACAACAAG
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
47 15 0.14
48 15 0.14
49 76 0.72
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (48 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTATCATATATTGAAGTGAT
Found at i:57501896 original size:39 final size:37
Alignment explanation
Indices: 57501853--57501944 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 37
57501843 AATATAAATC
57501853 AACAATAATAATAACTAA-C-AATAATTAGGGTTTTTTACT
1 AACAATAATAATAAC-AACCTAATAA-TA--GTTTTTTACT
*
57501892 AACAATAATAACCAACAATCCTAATAATAGTTTTTTACT
1 AACAATAATAA-TAACAA-CCTAATAATAGTTTTTTACT
57501931 AACAATAATAATAA
1 AACAATAATAATAA
57501945 GAGTTTTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
38 2 0.04
39 34 0.72
40 3 0.06
41 3 0.06
42 5 0.11
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (37 bp):
AACAATAATAATAACAACCTAATAATAGTTTTTTACT
Found at i:57501942 original size:26 final size:26
Alignment explanation
Indices: 57501913--57501970 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
57501903 CCAACAATCC
* *
57501913 TAATAATAGTTTTTTACTAACAATAA
1 TAATAAGAGTTTTTTACAAACAATAA
57501939 TAATAAGAGTTTTTTACAAACAATAA
1 TAATAAGAGTTTTTTACAAACAATAA
57501965 TAATAA
1 TAATAA
57501971 CTAACAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (26 bp):
TAATAAGAGTTTTTTACAAACAATAA
Found at i:57501978 original size:16 final size:16
Alignment explanation
Indices: 57501957--57502023 Score: 64
Period size: 16 Copynumber: 3.9 Consensus size: 16
57501947 GTTTTTTACA
57501957 AACAATAATAATAACT
1 AACAATAATAATAACT
57501973 AACAATAATAACTAAC-
1 AACAATAATAA-TAACT
* *
57501989 AACAAAAATCAATAAAAAT
1 AACAATAAT-AAT--AACT
57502008 CAACAATAATAATAAC
1 -AACAATAATAATAAC
57502024 AGCAAAAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
16 20 0.49
17 8 0.20
18 2 0.05
19 3 0.07
20 8 0.20
ACGTcount: A:0.66, C:0.15, G:0.00, T:0.19
Consensus pattern (16 bp):
AACAATAATAATAACT
Found at i:57501981 original size:13 final size:13
Alignment explanation
Indices: 57501963--57501990 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
57501953 TACAAACAAT
57501963 AATAATAACTAAC
1 AATAATAACTAAC
57501976 AATAATAACTAAC
1 AATAATAACTAAC
57501989 AA
1 AA
57501991 CAAAAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAATAACTAAC
Found at i:57502261 original size:17 final size:19
Alignment explanation
Indices: 57502230--57502272 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
57502220 TCCATTCCTT
*
57502230 TTTTTTTTCAATTTTT-TA
1 TTTTTTTTCAATTTTTAAA
*
57502248 TTTTTTTTC-GTTTTTAAA
1 TTTTTTTTCAATTTTTAAA
57502266 TTTTTTT
1 TTTTTTT
57502273 AATAGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTTTTCAATTTTTAAA
Found at i:57506143 original size:15 final size:15
Alignment explanation
Indices: 57506123--57506151 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57506113 GAAATAAAGG
57506123 AAAGAAACAGAATGA
1 AAAGAAACAGAATGA
57506138 AAAGAAACAGAATG
1 AAAGAAACAGAATG
57506152 TGGGAACGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.07, G:0.21, T:0.07
Consensus pattern (15 bp):
AAAGAAACAGAATGA
Found at i:57506580 original size:23 final size:21
Alignment explanation
Indices: 57506533--57506573 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
57506523 TTTGGTTAAA
57506533 AATTGAATAGAAATGAAGTATG
1 AATTGAATAGAAA-GAAGTATG
57506555 AATTGAGATAGAAA-AAGTA
1 AATTGA-ATAGAAAGAAGTA
57506574 AGTGAATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (21 bp):
AATTGAATAGAAAGAAGTATG
Found at i:57506872 original size:17 final size:17
Alignment explanation
Indices: 57506850--57506884 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
57506840 TATTTTTAAG
57506850 AAGTAAAGTGTGAATAT
1 AAGTAAAGTGTGAATAT
*
57506867 AAGTAAATTGTGAATAT
1 AAGTAAAGTGTGAATAT
57506884 A
1 A
57506885 TTGAAAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (17 bp):
AAGTAAAGTGTGAATAT
Found at i:57508226 original size:43 final size:44
Alignment explanation
Indices: 57508160--57508282 Score: 128
Period size: 44 Copynumber: 2.8 Consensus size: 44
57508150 AGCTCATACA
* *
57508160 ATGCCAACGTCCCAAAC-GTGGTCTTACATGTAATCAAC-TATCG
1 ATGCCAACATCCCAAACAG-GGTCTTACATGTAATCAACAAATCG
* *
57508203 ATGCC-ACTATCCCAGACAGGGTCTTACACGTAAATC-ACAAATCG
1 ATGCCAAC-ATCCCAAACAGGGTCTTACATGT-AATCAACAAATCG
* * *
57508247 ATGCCAACGTCCCAAACATGGTCTTACATGAAATCA
1 ATGCCAACATCCCAAACAGGGTCTTACATGTAATCA
57508283 CATATCAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.03
43 29 0.45
44 32 0.49
45 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (44 bp):
ATGCCAACATCCCAAACAGGGTCTTACATGTAATCAACAAATCG
Found at i:57510375 original size:14 final size:13
Alignment explanation
Indices: 57510340--57510377 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
57510330 TATATTTTTT
57510340 TAAAAA-TT-ATA
1 TAAAAAGTTAATA
57510351 TAAAAAGTTAATA
1 TAAAAAGTTAATA
57510364 TAAAAAGTTTAATA
1 TAAAAAG-TTAATA
57510378 CGAGCAGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.25
12 2 0.08
13 10 0.42
14 6 0.25
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (13 bp):
TAAAAAGTTAATA
Found at i:57515556 original size:21 final size:19
Alignment explanation
Indices: 57515527--57515584 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 19
57515517 TTTATATTAA
*
57515527 AAATGTTTAAATTAAATTATT
1 AAATTTTTAAATTAAA--ATT
57515548 AAATTTTTAAAGATTAAAATT
1 AAATTTTT-AA-ATTAAAATT
*
57515569 ATAATTTTTTAATTAA
1 A-AATTTTTAAATTAA
57515585 TTAAAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 5 0.16
21 12 0.38
22 9 0.28
23 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (19 bp):
AAATTTTTAAATTAAAATT
Found at i:57515587 original size:24 final size:23
Alignment explanation
Indices: 57515527--57515592 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
57515517 TTTATATTAA
*
57515527 AAATGTTT-AAATT-AAATTATT
1 AAATTTTTAAAATTAAAATTATT
57515548 AAATTTTTAAAGATTAAAATTA-T
1 AAATTTTTAAA-ATTAAAATTATT
*
57515571 AATTTTTTAATTAATTAAAATT
1 AAATTTTTAA--AATTAAAATT
57515593 TAAAAAACTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.18
22 2 0.05
23 13 0.34
24 15 0.39
25 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (23 bp):
AAATTTTTAAAATTAAAATTATT
Found at i:57516181 original size:29 final size:29
Alignment explanation
Indices: 57516127--57516217 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 29
57516117 GTGTTTTGCG
*
57516127 AAAATTAAATC-AAATTAAAATTTCATGTAT
1 AAAATTAAA-CAAAATCAAAA-TTCATGTAT
* *
57516157 AAAATTAAACAAAATCAAAGTTCATGTAC
1 AAAATTAAACAAAATCAAAATTCATGTAT
* * *
57516186 AACATTACACATTAGATCAAAATTCATGTAT
1 AAAATTAAACA--AAATCAAAATTCATGTAT
57516217 A
1 A
57516218 GTTTTGATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 18 0.36
30 16 0.32
31 16 0.32
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.31
Consensus pattern (29 bp):
AAAATTAAACAAAATCAAAATTCATGTAT
Found at i:57518799 original size:21 final size:20
Alignment explanation
Indices: 57518774--57518821 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
57518764 GTATGTTTGT
*
57518774 ATTTATTTTATATTTTTATTG
1 ATTTATTTT-TATTTTTAATG
*
57518795 ATTTATAATTTATTTTTAATG
1 ATTTAT-TTTTATTTTTAATG
57518816 -TTTATT
1 ATTTATT
57518822 GAAGTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 5 0.22
21 16 0.70
22 2 0.09
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
ATTTATTTTTATTTTTAATG
Found at i:57519074 original size:32 final size:32
Alignment explanation
Indices: 57519036--57519096 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
57519026 ATTATGAGTT
*
57519036 AAAAATTTATATCAACTTTTAAAATAACATAA
1 AAAAATTTATACCAACTTTTAAAATAACATAA
*
57519068 AAAAATTTATACCGACTTTTAAAATAACA
1 AAAAATTTATACCAACTTTTAAAATAACA
57519097 ATACATACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (32 bp):
AAAAATTTATACCAACTTTTAAAATAACATAA
Found at i:57519584 original size:3 final size:3
Alignment explanation
Indices: 57519576--57519622 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
57519566 CTTGCCGCCC
* *
57519576 TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TTT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
57519623 CATGGCAACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:57520751 original size:63 final size:63
Alignment explanation
Indices: 57520673--57520799 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
57520663 GCATTCTCAT
57520673 ATTCAACCAAGATTTACTTCAAAATTATAGCTCCATTTTCTGTTGCCTTTCCAAAAAGGAAAC
1 ATTCAACCAAGATTTACTTCAAAATTATAGCTCCATTTTCTGTTGCCTTTCCAAAAAGGAAAC
*
57520736 ATTCAACCAAGATTTACTTCAAAATTATAGCTTCATTTTCTGTTGCCTTTCCAAAAAGGAAAC
1 ATTCAACCAAGATTTACTTCAAAATTATAGCTCCATTTTCTGTTGCCTTTCCAAAAAGGAAAC
57520799 A
1 A
57520800 ATCATTTGCA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.34
Consensus pattern (63 bp):
ATTCAACCAAGATTTACTTCAAAATTATAGCTCCATTTTCTGTTGCCTTTCCAAAAAGGAAAC
Found at i:57526943 original size:28 final size:28
Alignment explanation
Indices: 57526907--57526985 Score: 97
Period size: 28 Copynumber: 2.8 Consensus size: 28
57526897 AGGTGTTAGG
* *
57526907 GGTTAAGGG-TTAAGGGTTAGTGATTCAT
1 GGTTTAGGGTTTAAGGATTAG-GATTCAT
* **
57526935 GGTTTAGGGTTTATGTTTTAGGATTCAT
1 GGTTTAGGGTTTAAGGATTAGGATTCAT
57526963 GGTTTAGGGTTTAAGGATTAGGA
1 GGTTTAGGGTTTAAGGATTAGGA
57526986 GTTTAGGGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 35 0.81
29 8 0.19
ACGTcount: A:0.23, C:0.03, G:0.34, T:0.41
Consensus pattern (28 bp):
GGTTTAGGGTTTAAGGATTAGGATTCAT
Found at i:57526947 original size:7 final size:7
Alignment explanation
Indices: 57526935--57526998 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
57526925 AGTGATTCAT
57526935 GGTTTAG
1 GGTTTAG
*
57526942 GGTTTAT
1 GGTTTAG
*
57526949 GTTTTAG
1 GGTTTAG
* * *
57526956 GATTCAT
1 GGTTTAG
57526963 GGTTTAG
1 GGTTTAG
*
57526970 GGTTTAA
1 GGTTTAG
*
57526977 GGATTAG
1 GGTTTAG
57526984 GAGTTTAG
1 G-GTTTAG
57526992 GGTTTAG
1 GGTTTAG
57526999 ATTAATTAGT
Statistics
Matches: 43, Mismatches: 13, Indels: 2
0.74 0.22 0.03
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:57526954 original size:14 final size:14
Alignment explanation
Indices: 57526933--57526998 Score: 69
Period size: 14 Copynumber: 4.6 Consensus size: 14
57526923 TTAGTGATTC
57526933 ATGGTTTAGGGTTT
1 ATGGTTTAGGGTTT
* * *
57526947 ATGTTTTAGGATTC
1 ATGGTTTAGGGTTT
57526961 ATGGTTTAGGGTTT
1 ATGGTTTAGGGTTT
* *
57526975 AAGGATTAGGAGTTT
1 ATGGTTTAGG-GTTT
*
57526990 AGGGTTTAG
1 ATGGTTTAG
57526999 ATTAATTAGT
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
14 30 0.73
15 11 0.27
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (14 bp):
ATGGTTTAGGGTTT
Found at i:57527107 original size:7 final size:7
Alignment explanation
Indices: 57527092--57527136 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
57527082 TTAATTATCA
*
57527092 TTATAGT
1 TTATGGT
57527099 TTATGGT
1 TTATGGT
57527106 TTATGGT
1 TTATGGT
*
57527113 TTAAGGT
1 TTATGGT
*
57527120 ATATGGT
1 TTATGGT
*
57527127 TTAGGGT
1 TTATGGT
57527134 TTA
1 TTA
57527137 AAGTGTATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (7 bp):
TTATGGT
Found at i:57527124 original size:21 final size:21
Alignment explanation
Indices: 57527100--57527204 Score: 74
Period size: 21 Copynumber: 4.9 Consensus size: 21
57527090 CATTATAGTT
57527100 TATGGTTTATGGTTTAAGGTA
1 TATGGTTTATGGTTTAAGGTA
* * *
57527121 TATGGTTTAGGGTTTAAAGTG
1 TATGGTTTATGGTTTAAGGTA
*
57527142 TATGAGTTACTAT--TTTAAGGTT
1 TATG-GTT--TATGGTTTAAGGTA
57527164 TATGGATTATAT-GTTTAAGG-A
1 TATGG-TT-TATGGTTTAAGGTA
* *
57527185 TTATGGATTACGGTTTAAGG
1 -TATGGTTTATGGTTTAAGG
57527205 GTTGGGGTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
20 2 0.03
21 35 0.52
22 28 0.42
24 2 0.03
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.45
Consensus pattern (21 bp):
TATGGTTTATGGTTTAAGGTA
Found at i:57527167 original size:22 final size:22
Alignment explanation
Indices: 57527097--57527194 Score: 73
Period size: 22 Copynumber: 4.5 Consensus size: 22
57527087 TATCATTATA
57527097 GTTTATGG-TT-TATGGTTTAAG
1 GTTTATGGATTATAT-GTTTAAG
* * *
57527118 GTATATGG-TT-TAGGGTTTAAA
1 GTTTATGGATTATA-TGTTTAAG
*
57527139 GTGTAT-GAGTTACTAT-TTTAAG
1 GTTTATGGA-TTA-TATGTTTAAG
57527161 GTTTATGGATTATATGTTTAAG
1 GTTTATGGATTATATGTTTAAG
*
57527183 GATTATGGATTA
1 GTTTATGGATTA
57527195 CGGTTTAAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 13
0.75 0.10 0.16
Matches are distributed among these distances:
20 1 0.02
21 25 0.40
22 32 0.52
23 2 0.03
24 2 0.03
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.47
Consensus pattern (22 bp):
GTTTATGGATTATATGTTTAAG
Found at i:57533096 original size:42 final size:42
Alignment explanation
Indices: 57533049--57533142 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
57533039 ATAATTTTTT
** * *
57533049 TAAAGGTCATTTTTTTAACGGCGTTTTTGATAAAAGTGCCGC
1 TAAAGGTCATACTTTTAACGGCGTTTTAGATAAAAGCGCCGC
** *
57533091 TAAAGGTCATACTTTTAGTGGCGTTTTAGGTAAAAGCGCCGC
1 TAAAGGTCATACTTTTAACGGCGTTTTAGATAAAAGCGCCGC
*
57533133 AAAAGGTCAT
1 TAAAGGTCAT
57533143 GACCTTTAGC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (42 bp):
TAAAGGTCATACTTTTAACGGCGTTTTAGATAAAAGCGCCGC
Found at i:57533169 original size:42 final size:42
Alignment explanation
Indices: 57533123--57533243 Score: 179
Period size: 42 Copynumber: 2.9 Consensus size: 42
57533113 GTTTTAGGTA
57533123 AAAGCGCCGCAAAAGGTCATGACCTTTAGCGGTGTTTGTGGG
1 AAAGCGCCGCAAAAGGTCATGACCTTTAGCGGTGTTTGTGGG
** * **
57533165 AAAGCGTTGCGAAAGGTCATGACCTTTAGCGACGTTTGTGGG
1 AAAGCGCCGCAAAAGGTCATGACCTTTAGCGGTGTTTGTGGG
* *
57533207 AAAGCGGCGCTAAAGGTCATGACCTTTAGCGGTGTTT
1 AAAGCGCCGCAAAAGGTCATGACCTTTAGCGGTGTTT
57533244 TTTTCACATA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (42 bp):
AAAGCGCCGCAAAAGGTCATGACCTTTAGCGGTGTTTGTGGG
Found at i:57535331 original size:29 final size:29
Alignment explanation
Indices: 57535276--57535348 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 29
57535266 ATTTAATATG
*
57535276 TAATTTTATACATAAATTTTAATTTT-GT
1 TAATTTTATAAATAAATTTTAATTTTGGT
*
57535304 ATAATTTTATAAATGAAATTTTGA-TTTGGT
1 -TAATTTTATAAAT-AAATTTTAATTTTGGT
57535334 TCAATTCTTATAAAT
1 T-AATT-TTATAAAT
57535349 TATTAATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
29 16 0.42
30 14 0.37
31 8 0.21
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (29 bp):
TAATTTTATAAATAAATTTTAATTTTGGT
Found at i:57535347 original size:31 final size:29
Alignment explanation
Indices: 57535276--57535348 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
57535266 ATTTAATATG
* *
57535276 TAATTTTATACATAAATTTTAATTTTGTA
1 TAATTTTATAAATAAATTTTAATTTGGTA
*
57535305 TAATTTTATAAATGAAATTTTGATTTGGT-
1 TAATTTTATAAAT-AAATTTTAATTTGGTA
57535334 TCAATTCTTATAAAT
1 T-AATT-TTATAAAT
57535349 TATTAATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 13 0.34
30 17 0.45
31 8 0.21
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (29 bp):
TAATTTTATAAATAAATTTTAATTTGGTA
Found at i:57537204 original size:228 final size:228
Alignment explanation
Indices: 57536877--57537910 Score: 1296
Period size: 228 Copynumber: 4.5 Consensus size: 228
57536867 GATGAGCCTT
* * * * * * * * * *
57536877 TGCTGATCTGGAGGGATACCTTCCTTGTCCTGAATCTTCGCCTTCACATTATCAATTGTATCCGA
1 TGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACTTCACATTATCGATGGTGTCCGA
* * ** * * * * * * * * *
57536942 ACTTTCCACCTCCAATGTGATTGTTTTCCCAGTCAATGTCTTAACGAAAATCTGCATGCCTCCAC
66 ACTCTCCACCTCGAGGGTGATGGTCTTGCCAGTCAAGGTTTTGACGAAGATCTGCATACCCCCAC
* ** ** * * * * **
57537007 GAAGCCTCAAAACAAGGTGAAGGGTCGATTCCTTCTGGATGTTATAATCAGCCAAGGTCCTCCCA
131 GAAGACGGAGGACAAGGTGGAGGGTGGATTCCTTCTGGATGTTATAATCGGCCAAGGTACGGCCA
* * * * * * * *
57537072 TCCTCAAGCTGCTTCCCTGCAAAGATCAAACGT
196 TCCTCGAGCTGTTTGCCGGCGAAGATGAGACGC
* * * * * * *
57537105 TGTTGGTCTGGTGGGATCCCTTCCTTGTCTTGAATCTTCGCCTTTACATTGTCGATGGTGTCCGA
1 TGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACTTCACATTATCGATGGTGTCCGA
* * * * *
57537170 ACTCTCCACCTCTAAGGTGATGGTCTTGCCAGTCAAGGTTTTCACGAAGATCTGCATGCCCCCGC
66 ACTCTCCACCTCGAGGGTGATGGTCTTGCCAGTCAAGGTTTTGACGAAGATCTGCATACCCCCAC
* *
57537235 GAAGACGGAGGACGAGGTGGAGGGTGGATTCCTTCTGGATATTATAATCGGCCAAGGTACGGCCA
131 GAAGACGGAGGACAAGGTGGAGGGTGGATTCCTTCTGGATGTTATAATCGGCCAAGGTACGGCCA
*
57537300 TCTTCGAGCTGTTTGCCGGCGAAGATGAGACGC
196 TCCTCGAGCTGTTTGCCGGCGAAGATGAGACGC
* * * *
57537333 TGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGGATTTTAGACTTGACATTGTCGATGGTGTCGGA
1 TGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACTTCACATTATCGATGGTGTCCGA
* * * * *
57537398 GCTCTCGACTTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTGACGAAGATCTGCATACCCCCAC
66 ACTCTCCACCTCGAGGGTGATGGTCTTGCCAGTCAAGGTTTTGACGAAGATCTGCATACCCCCAC
* *
57537463 GAAGACGTAGGACAAGGTGGAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAGGTACGGCCA
131 GAAGACGGAGGACAAGGTGGAGGGTGGATTCCTTCTGGATGTTATAATCGGCCAAGGTACGGCCA
* *
57537528 TCTTCGAGCTGTTTTCCGGCGAAGATGAGACGC
196 TCCTCGAGCTGTTTGCCGGCGAAGATGAGACGC
* *
57537561 TGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGGATTTTAGACTTCACATTATCGATGGTGTCGGA
1 TGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACTTCACATTATCGATGGTGTCCGA
* * * * *
57537626 GCTCTCGACTTCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTGACGAAGATCTGCATACCCCCAC
66 ACTCTCCACCTCGAGGGTGATGGTCTTGCCAGTCAAGGTTTTGACGAAGATCTGCATACCCCCAC
* * *
57537691 GAAGACGGAGGACAAGGTGGAGGGTGGATTCCTTCTGAATGTTGTAATCGGCCAAGGTACGGCCG
131 GAAGACGGAGGACAAGGTGGAGGGTGGATTCCTTCTGGATGTTATAATCGGCCAAGGTACGGCCA
57537756 TCCTCGAGCTGTTTGCCGGCGAAGATGAGACGC
196 TCCTCGAGCTGTTTGCCGGCGAAGATGAGACGC
* *
57537789 TGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACTTTACATTATCGATGGTGTCAGA
1 TGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACTTCACATTATCGATGGTGTCCGA
* *
57537854 ACTCTCAACCTCGAGGGTGATGGTCTTGCCGGT-AAGGGTTTTGACGAAGATCTGCAT
66 ACTCTCCACCTCGAGGGTGATGGTCTTGCCAGTCAA-GGTTTTGACGAAGATCTGCAT
57537911 CGTTTGAGAG
Statistics
Matches: 725, Mismatches: 80, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
227 2 0.00
228 723 1.00
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (228 bp):
TGCTGGTCTGGTGGGATGCCTTCCTTGTCTTGAATTTTAGACTTCACATTATCGATGGTGTCCGA
ACTCTCCACCTCGAGGGTGATGGTCTTGCCAGTCAAGGTTTTGACGAAGATCTGCATACCCCCAC
GAAGACGGAGGACAAGGTGGAGGGTGGATTCCTTCTGGATGTTATAATCGGCCAAGGTACGGCCA
TCCTCGAGCTGTTTGCCGGCGAAGATGAGACGC
Found at i:57540183 original size:23 final size:23
Alignment explanation
Indices: 57540153--57540199 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
57540143 TGTTGTCACG
*
57540153 TCATGACGTC-GTTTATCAACTTA
1 TCATGACGTCACTTTATC-ACTTA
57540176 TCATGACGTCACTTTATCACTTA
1 TCATGACGTCACTTTATCACTTA
57540199 T
1 T
57540200 AAAACTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (23 bp):
TCATGACGTCACTTTATCACTTA
Found at i:57543756 original size:16 final size:16
Alignment explanation
Indices: 57543737--57543791 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
57543727 GTTTGGTTCA
*
57543737 CTGTAATGAAATAGGG
1 CTGTAATGAAATAGAG
57543753 CTGTAATTG-AATAGAG
1 CTGTAA-TGAAATAGAG
*
57543769 TTGTAAT-AGAATAGAG
1 CTGTAATGA-AATAGAG
57543785 CTGTAAT
1 CTGTAAT
57543792 CATTAATTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.03
16 30 0.91
17 2 0.06
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.31
Consensus pattern (16 bp):
CTGTAATGAAATAGAG
Found at i:57543989 original size:26 final size:26
Alignment explanation
Indices: 57543960--57544055 Score: 90
Period size: 25 Copynumber: 3.7 Consensus size: 26
57543950 TTGTTATTAA
*
57543960 ATTTTAGTAAAATTAATATTAAATAT
1 ATTTTAATAAAATTAATATTAAATAT
* *
57543986 A-TTTAA-AAAATAAATAATTTAATCAT
1 ATTTTAATAAAATTAAT-ATTAAAT-AT
* * *
57544012 ATTTTAACATAATTATTATTAAATAT
1 ATTTTAATAAAATTAATATTAAATAT
*
57544038 AATTTAATAAAA-TAATAT
1 ATTTTAATAAAATTAATAT
57544056 ATAATTTAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
24 8 0.15
25 15 0.27
26 15 0.27
27 11 0.20
28 6 0.11
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (26 bp):
ATTTTAATAAAATTAATATTAAATAT
Found at i:57544038 original size:52 final size:58
Alignment explanation
Indices: 57543970--57544088 Score: 151
Period size: 52 Copynumber: 2.2 Consensus size: 58
57543960 ATTTTAGTAA
* * * *
57543970 AATTAATATTAAATAT-ATTTAA-AAAAT-A-A-ATAATTTAATCATAT-TTTAACAT
1 AATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAACATCCTTAACAT
*
57544022 AATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAACATCCTTAATAT
1 AATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAACATCCTTAACAT
57544080 AATTATTAT
1 AATTATTAT
57544089 ATGAATTAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
52 15 0.27
53 6 0.11
54 5 0.09
55 1 0.02
56 1 0.02
57 13 0.23
58 15 0.27
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (58 bp):
AATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAACATCCTTAACAT
Found at i:57544124 original size:23 final size:21
Alignment explanation
Indices: 57544093--57544135 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
57544083 TATTATATGA
57544093 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
57544116 ATTATAAAAATAATATATAA
1 ATTAAAAAAATAATATATAA
57544136 GCTACTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:57552054 original size:40 final size:40
Alignment explanation
Indices: 57551551--57552045 Score: 837
Period size: 40 Copynumber: 12.4 Consensus size: 40
57551541 TGAGAGTTAT
*
57551551 ATATATCCGGGCTAAGTTCCGAAGAGCATTTGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
57551591 ATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
57551631 ATATATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
57551671 ATATATCCGGGCTAAGTTCCGAGGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
57551711 ATGTATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
57551751 ATATATCCGGGCTAAGTTCCGAGGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
57551791 ATGTATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
57551831 ATATATCCGGGCTAAGTTCCGAGGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
57551871 ATGTATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
57551911 ATATATCCGGGCTAAGTTCCGAGGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
57551951 ATGTATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
57551991 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
57552031 ATATATCCGTGCTAA
1 ATATATCCGGGCTAA
57552046 ACCTCGAAGG
Statistics
Matches: 423, Mismatches: 32, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 423 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
Found at i:57552163 original size:57 final size:57
Alignment explanation
Indices: 57552073--57552204 Score: 178
Period size: 57 Copynumber: 2.3 Consensus size: 57
57552063 GCTGGAATTA
* *
57552073 TGAGGCACTGTGTGTGCAAGCTCTTCAACCGAGCACTATGTGTGCCAGATCAGT-AG
1 TGAGGCACTGTGTGTGCGAGCTCTTCAACCGAGCACTATGTGTGCCAAATCAGTCAG
* * * *
57552129 TTGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAAATCAGTCAG
1 -TGAGGCACTGTGTGTGCGAGCTCTTCAACCGAGCACTATGTGTGCCAAATCAGTCAG
*
57552187 TG-GGCACTGTGTATGCGA
1 TGAGGCACTGTGTGTGCGA
57552205 AGTGTGTTTC
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
56 14 0.21
57 50 0.76
58 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (57 bp):
TGAGGCACTGTGTGTGCGAGCTCTTCAACCGAGCACTATGTGTGCCAAATCAGTCAG
Found at i:57552175 original size:28 final size:28
Alignment explanation
Indices: 57552077--57552176 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
57552067 GAATTATGAG
* * * *
57552077 GCACTGTGTGTGCAAGCTCTTCAACCGA
1 GCACTATGTGTGCGAGATCTTCAATCGA
* * * *
57552105 GCACTATGTGTGCCAGATCAGT-AGTTGA
1 GCACTATGTGTGCGAGATC-TTCAATCGA
*
57552133 GGCACTATGTGTGCGAGTTCTTCAATCGA
1 -GCACTATGTGTGCGAGATCTTCAATCGA
57552162 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
57552177 AATCAGTCAG
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
28 35 0.61
29 22 0.39
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCTTCAATCGA
Found at i:57552193 original size:28 final size:28
Alignment explanation
Indices: 57552105--57552205 Score: 80
Period size: 28 Copynumber: 3.6 Consensus size: 28
57552095 CTTCAACCGA
* *
57552105 GCACTATGTGTGCCAGATCAGT-AGTTGAG
1 GCACTATGTGTGCGAAATCAGTCAG-TG-G
** * * *
57552134 GCACTATGTGTGCGAGTTC-TTCAATCGA
1 GCACTATGTGTGCGAAATCAGTCAGT-GG
57552162 GCACTATGTGTGCGAAATCAGTCAGTGG
1 GCACTATGTGTGCGAAATCAGTCAGTGG
* *
57552190 GCACTGTGTATGCGAA
1 GCACTATGTGTGCGAA
57552206 GTGTGTTTCA
Statistics
Matches: 57, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
28 34 0.60
29 23 0.40
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.28
Consensus pattern (28 bp):
GCACTATGTGTGCGAAATCAGTCAGTGG
Found at i:57555192 original size:50 final size:50
Alignment explanation
Indices: 57555109--57555213 Score: 185
Period size: 50 Copynumber: 2.1 Consensus size: 50
57555099 GTATATCCAA
* *
57555109 TTGA-AGGTAAGTTATATTGAATTGGTGAAACATATAAGCCTATCTTGAG
1 TTGATAGGCAAGTTATATTGAATTGGTGAAACATATAAGCCTATATTGAG
57555158 TTGATAGGCAAGTTATATTGAATTGGTGAAACATATAAGCCTATATTGAG
1 TTGATAGGCAAGTTATATTGAATTGGTGAAACATATAAGCCTATATTGAG
57555208 TTGATA
1 TTGATA
57555214 TATTTGTTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
49 4 0.08
50 49 0.92
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (50 bp):
TTGATAGGCAAGTTATATTGAATTGGTGAAACATATAAGCCTATATTGAG
Found at i:57562370 original size:80 final size:80
Alignment explanation
Indices: 57562218--57562410 Score: 212
Period size: 80 Copynumber: 2.4 Consensus size: 80
57562208 CGGTTTTAGT
* * * * *
57562218 AACTCACACAATGCCTTCGGGACATAACCTGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
1 AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTT
*
57562283 AACCCGGATTTA-AC
66 AACCCGGATATATAC
* *
57562297 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCACAAAGGCCTTC-GGATC
1 AACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-C
** *
57562361 TTAGTCCGGATATATTC
64 TTAACCCGGATATATAC
* * *
57562378 -ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
57562411 CAGCATTCAA
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
79 11 0.11
80 79 0.82
81 6 0.06
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTT
AACCCGGATATATAC
Found at i:57562371 original size:40 final size:40
Alignment explanation
Indices: 57562188--57562357 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
57562178 TCCTCGTTCA
* * * ** *
57562188 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* *
57562227 AATGCCTTCGGGACATAACCTGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
57562267 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * *
57562307 AATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
57562347 AAGGCCTTCGG
1 AATGCCTTCGG
57562358 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 33 0.28
40 85 0.72
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:57562419 original size:41 final size:41
Alignment explanation
Indices: 57562342--57562419 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
57562332 TTAATATCTC
* * *
57562342 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
57562383 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
57562420 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:57565396 original size:17 final size:19
Alignment explanation
Indices: 57565374--57565414 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
57565364 GGTTCATTAT
57565374 TGATTTATAT-TT-TAATA
1 TGATTTATATATTATAATA
*
57565391 TGATTTATATATTATATTA
1 TGATTTATATATTATAATA
57565410 TGATT
1 TGATT
57565415 AATAAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 2 0.10
19 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (19 bp):
TGATTTATATATTATAATA
Found at i:57573700 original size:17 final size:19
Alignment explanation
Indices: 57573674--57573718 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
57573664 GGTTCATTAT
57573674 TGATTAATAT-TT-TAATA
1 TGATTAATATATTATAATA
* *
57573691 TGATTTATATATTATATTA
1 TGATTAATATATTATAATA
57573710 TGATTAATA
1 TGATTAATA
57573719 AAATCATGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 2 0.09
19 12 0.52
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (19 bp):
TGATTAATATATTATAATA
Found at i:57574153 original size:42 final size:41
Alignment explanation
Indices: 57574063--57574171 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 41
57574053 TATCCCGGTC
*
57574063 TCGCACACTAAGTGCCATATGTATAGCCGATGTTATTCCAA
1 TCGCACACTAAGTGCCATATATATAGCCGATGTTATTCCAA
* * **
57574104 ACAGCACACTAAGTGCCATATATATAGCTGATGCTT-TCTTGAA
1 TC-GCACACTAAGTGCCATATATATAGCCGATG-TTAT-TCCAA
*
57574147 TCGCACACTAAGTGCCACATATATA
1 TCGCACACTAAGTGCCATATATATA
57574172 TTCGAATTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.02
42 51 0.88
43 6 0.10
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (41 bp):
TCGCACACTAAGTGCCATATATATAGCCGATGTTATTCCAA
Found at i:57581311 original size:119 final size:120
Alignment explanation
Indices: 57581135--57581350 Score: 296
Period size: 119 Copynumber: 1.8 Consensus size: 120
57581125 TACTCGTTCA
** * *
57581135 AATGCCTTCGGGACATAGCCCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
*
57581200 ATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCAGATTTGGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCAGATTTGGTAACTCGCACC
* *
57581255 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
* *
57581317 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
57581351 GCCCGGACAT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 3 0.04
119 59 0.70
120 22 0.26
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCAGATTTGGTAACTCGCACC
Found at i:57581341 original size:79 final size:79
Alignment explanation
Indices: 57581133--57581355 Score: 236
Period size: 79 Copynumber: 2.8 Consensus size: 79
57581123 GCTACTCGTT
* * * * * * * *
57581133 CAAATGCCTTCGGGACATAGCCCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCAGATATGGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGA
*
57581198 TTATAGTAACTCGCA
65 ATATAGTAACTCGCA
* * *
57581213 CAAATGCCTTCGGGACTTAACCCAGATTTGGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCAG
1 CAAATGCCTTCGGGACTTAACCCAGATATGGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCC-G
57581277 AAT-TAGTAACTCGCA
64 AATATAGTAACTCGCA
** * *
57581292 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCAGATATGGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
57581356 GACATCATTC
Statistics
Matches: 121, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.02
79 59 0.49
80 56 0.46
81 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCAGATATGGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGAA
TATAGTAACTCGCA
Found at i:57581357 original size:40 final size:40
Alignment explanation
Indices: 57581114--57581357 Score: 273
Period size: 40 Copynumber: 6.1 Consensus size: 40
57581104 CGGAATTTAA
** *
57581114 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
57581154 CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
57581194 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
57581234 CCAGATTTGGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
57581273 CCAGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
57581313 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
57581353 CCGGA
1 CCGGA
57581358 CATCATTCAA
Statistics
Matches: 176, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.18
40 130 0.74
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:57589492 original size:40 final size:40
Alignment explanation
Indices: 57589249--57589492 Score: 255
Period size: 40 Copynumber: 6.1 Consensus size: 40
57589239 CGGAATTTAA
** *
57589249 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* ** *
57589289 CCGGTTATAGTGCCTCGCACAAATGCCTTCGGGACTCAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
57589329 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGATTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
57589369 CCGGATTTAGTAACTCGCACCAATGCCTTCAGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
57589408 CCGGA-ATTAGTAACTCGCACAAATGCTTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
57589448 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
57589488 CCGGA
1 CCGGA
57589493 CATCATTCAA
Statistics
Matches: 171, Mismatches: 26, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.01
39 31 0.18
40 126 0.74
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:57594233 original size:19 final size:19
Alignment explanation
Indices: 57594209--57594246 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
57594199 ACCTGTTCGA
57594209 AGAAAAT-AAATAAAGAATT
1 AGAAAATAAAATAAA-AATT
57594228 AGAAAATAAAATAAAAATT
1 AGAAAATAAAATAAAAATT
57594247 TAAATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (19 bp):
AGAAAATAAAATAAAAATT
Found at i:57600297 original size:50 final size:50
Alignment explanation
Indices: 57600231--57600331 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
57600221 ATATGCACAA
*
57600231 ATTTTCAATATCATACTTACTTCACATTACCAACCCTTTTATTCATACAC
1 ATTTTCAATATCATACTTACTTCACATTACCAACCCTTATATTCATACAC
*
57600281 ATTTTCAATATCATACTTACTTCACATTACCAACCCTTATGTTCATACAC
1 ATTTTCAATATCATACTTACTTCACATTACCAACCCTTATATTCATACAC
57600331 A
1 A
57600332 AAAGATCAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.33, C:0.28, G:0.01, T:0.39
Consensus pattern (50 bp):
ATTTTCAATATCATACTTACTTCACATTACCAACCCTTATATTCATACAC
Found at i:57600571 original size:40 final size:40
Alignment explanation
Indices: 57600534--57600758 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
57600524 GCTACTCGTT
*
57600534 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
57600574 CAAATACCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
57600614 CAAATGCCTTCGGGACTT-GACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGATTTAGTAACTCGCA
* * *
57600654 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
57600693 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
57600734 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57600759 CATCATTCAA
Statistics
Matches: 159, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 113 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:57600718 original size:119 final size:120
Alignment explanation
Indices: 57600536--57600758 Score: 285
Period size: 119 Copynumber: 1.9 Consensus size: 120
57600526 TACTCGTTCA
*
57600536 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATACCTTCGAGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGAGACTTAACCCGGAT
* *
57600601 TTAGTAAC-TCGCACAAATGCCTTCGGGACTT-GACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAG-CCCGGATTTAGTAACTCGCACC
* * * **
57600656 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCG-GATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGAGA-CTTAACCCGG
* *
57600718 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
57600759 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
118 3 0.03
119 65 0.73
120 21 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGAGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
Found at i:57603661 original size:44 final size:44
Alignment explanation
Indices: 57603602--57603711 Score: 168
Period size: 44 Copynumber: 2.5 Consensus size: 44
57603592 CTCAAAGAAC
*
57603602 ACCCATCCCGGCTAGAT-CTTTCTTATATTTGAGATCAACAGATT
1 ACCCATCCGGGCTAGATCCTTTC-TATATTTGAGATCAACAGATT
*
57603646 ACCCGTCCGGGCTAGATCCTTTCTATATTTGAGATCAACAGATT
1 ACCCATCCGGGCTAGATCCTTTCTATATTTGAGATCAACAGATT
* *
57603690 ACCCATCCGGGCCAAATCCTTT
1 ACCCATCCGGGCTAGATCCTTT
57603712 TCTGCAACAC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 55 0.92
45 5 0.08
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.31
Consensus pattern (44 bp):
ACCCATCCGGGCTAGATCCTTTCTATATTTGAGATCAACAGATT
Found at i:57610023 original size:27 final size:26
Alignment explanation
Indices: 57609982--57610066 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
57609972 AGGAAGCGTC
*
57609982 CTGGTGGCTAC-GCCACAATTATCTGAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGTT
57610009 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
57610036 CTGGTGGCTTTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
57610063 CTGG
1 CTGG
57610067 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
26 3 0.06
27 48 0.91
28 2 0.04
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:57610833 original size:22 final size:22
Alignment explanation
Indices: 57610803--57610850 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
57610793 CGATGGACTC
57610803 ACCTCCTCTTTCCCGGTTTCCT
1 ACCTCCTCTTTCCCGGTTTCCT
*
57610825 ACCTGCTCTTTCCCGGTTTCCT
1 ACCTCCTCTTTCCCGGTTTCCT
57610847 ACCT
1 ACCT
57610851 AGTGCACAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.06, C:0.44, G:0.10, T:0.40
Consensus pattern (22 bp):
ACCTCCTCTTTCCCGGTTTCCT
Found at i:57615330 original size:28 final size:26
Alignment explanation
Indices: 57615263--57615348 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 26
57615253 TCTGATTTGA
57615263 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAT-TATCTGT
57615290 TCTGGTGGCTCTGCCACGATTATCTGT
1 TCTGGTGGCTCTGCCAC-ATTATCTGT
* * *
57615317 ATCTGGTGACTCTGTCACATTATTTGT
1 -TCTGGTGGCTCTGCCACATTATCTGT
57615344 TCTGG
1 TCTGG
57615349 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.09
27 32 0.59
28 17 0.31
ACGTcount: A:0.14, C:0.23, G:0.23, T:0.40
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACATTATCTGT
Found at i:57625446 original size:27 final size:26
Alignment explanation
Indices: 57625394--57625453 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
57625384 ATATATATAT
*
57625394 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
57625420 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
57625447 ATATCTG
1 ATATCTG
57625454 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:57628298 original size:37 final size:37
Alignment explanation
Indices: 57628248--57628326 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
57628238 TTATTACGAA
* * *
57628248 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
57628285 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
57628322 GTCTT
1 GTCTT
57628327 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:57628540 original size:47 final size:47
Alignment explanation
Indices: 57628445--57628967 Score: 776
Period size: 47 Copynumber: 11.1 Consensus size: 47
57628435 CCTTTCGGGA
* * * * * * * * *
57628445 CTTATCACATTTATGCACTTCCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57628492 CTTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
57628539 CTTATCACACACATACACTTTCACATTCATCACGTCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57628586 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57628633 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57628680 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57628727 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
57628774 CTTATCACACACATACACTTTCACATTCATCACGTCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57628821 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57628868 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57628915 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57628964 CTTA
1 CTTA
57628968 CTATCATTTC
Statistics
Matches: 437, Mismatches: 37, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
47 396 0.91
49 41 0.09
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57630914 original size:29 final size:28
Alignment explanation
Indices: 57630882--57630938 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
57630872 GCGTGATAAA
*
57630882 CTGATTTGGCTTCGGGCCATGCATATCAG
1 CTGATTTGGCTTCAGGCCATG-ATATCAG
57630911 CTGATTTGGCTTCAGGCCATGATATCAG
1 CTGATTTGGCTTCAGGCCATGATATCAG
57630939 TATTTCAGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (28 bp):
CTGATTTGGCTTCAGGCCATGATATCAG
Found at i:57632054 original size:29 final size:28
Alignment explanation
Indices: 57631998--57632056 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
57631988 AAGTGATTTT
* *
57631998 TTGACAAAAATGTCAATTACGGATTAAA
1 TTGACAAAAATGTAAATTAAGGATTAAA
* *
57632026 TTGAGAAAAATGTAAATTGAAGGGTTAAA
1 TTGACAAAAATGTAAATT-AAGGATTAAA
57632055 TT
1 TT
57632057 CTGAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.31
Consensus pattern (28 bp):
TTGACAAAAATGTAAATTAAGGATTAAA
Found at i:57632062 original size:29 final size:28
Alignment explanation
Indices: 57632003--57632062 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
57631993 ATTTTTTGAC
* * *
57632003 AAAAATGTCAATTACGGATTAAATTGAG
1 AAAAATGTAAATTAAGGATTAAATTCAG
* *
57632031 AAAAATGTAAATTGAAGGGTTAAATTCTG
1 AAAAATGTAAATT-AAGGATTAAATTCAG
57632060 AAA
1 AAA
57632063 TAAATGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.28
Consensus pattern (28 bp):
AAAAATGTAAATTAAGGATTAAATTCAG
Done.