Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 178 of 295
Found at i:61134049 original size:50 final size:49
Alignment explanation
Indices: 61133973--61134205 Score: 172
Period size: 47 Copynumber: 4.8 Consensus size: 49
61133963 CACGTTATAG
* * * *
61133973 GAACCAGTGAAGAGAACATGTATGGGACATGGCATCTGCGTAGATATGTGA
1 GAACCAGTGTA-AGAACATGTCTGGGACATGGCATCGGCGTAGAT-TATGA
* * * *
61134024 GAGCCAGTGTAAGATCATGTCTGGGACATGGCGTCGGCGTCGATTATGA
1 GAACCAGTGTAAGAACATGTCTGGGACATGGCATCGGCGTAGATTATGA
* ** * *
61134073 TAATTAGTGTAAGAACATGTCTGGGACATGGCATCGACTTA-ATGTATGA
1 GAACCAGTGTAAGAACATGTCTGGGACATGGCATCGGCGTAGAT-TATGA
* * * * ** *
61134122 G--CTAGTATAAGACCATGTCTGGGACATCGCATCAACTTA-ATGTATG-
1 GAACCAGTGTAAGAACATGTCTGGGACATGGCATCGGCGTAGAT-TATGA
* ** *
61134168 G-TCCACCGTAAGACCATGTCTGGGACATGGCATCGGCG
1 GAACCAGTGTAAGAACATGTCTGGGACATGGCATCGGCG
61134206 CTCTGCCCTA
Statistics
Matches: 149, Mismatches: 31, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
46 1 0.01
47 68 0.46
48 2 0.01
49 41 0.28
50 28 0.19
51 9 0.06
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (49 bp):
GAACCAGTGTAAGAACATGTCTGGGACATGGCATCGGCGTAGATTATGA
Found at i:61134154 original size:47 final size:47
Alignment explanation
Indices: 61134077--61134202 Score: 173
Period size: 47 Copynumber: 2.7 Consensus size: 47
61134067 TTATGATAAT
*
61134077 TAGTGTAAGAACATGTCTGGGACATGGCATCGACTTAATGTATGAG-C
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAATGTATG-GTC
* * *
61134124 TAGTATAAGACCATGTCTGGGACATCGCATCAACTTAATGTATGGTC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAATGTATGGTC
* **
61134171 CACCGTAAGACCATGTCTGGGACATGGCATCG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCG
61134203 GCGCTCTGCC
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 1 0.01
47 67 0.99
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (47 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAATGTATGGTC
Found at i:61143789 original size:27 final size:26
Alignment explanation
Indices: 61143737--61143796 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
61143727 ACATATATAT
*
61143737 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
61143763 ATATCTGTGTCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
61143790 ATATCTG
1 ATATCTG
61143797 GCATCCTCGC
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:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:61151612 original size:49 final size:47
Alignment explanation
Indices: 61151543--61151664 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 47
61151533 TTAGAGACAA
* ** * * *
61151543 TGTAAGACCATGTTTGGGACATGGCGTTAGCCTCGAT-TATGATAGTTAG
1 TGTAAGACCATGTCTGGGACATGGCACTA-ACTCAATGTATG--AGCTAG
* *
61151592 TGTAAGACCATGTCTAGGACATGGCACTAACTTAATGTATGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCACTAACTCAATGTATGAGCTAG
61151639 TGTAAGACCATGTCTGGGACATGGCA
1 TGTAAGACCATGTCTGGGACATGGCA
61151665 TCGGCACTCT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 30 0.48
48 4 0.06
49 29 0.46
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCACTAACTCAATGTATGAGCTAG
Found at i:61161256 original size:101 final size:99
Alignment explanation
Indices: 61161073--61161256 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 99
61161063 CTGGTACGCA
**
61161073 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAATAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAATAGCCTGCACTTA
* *
61161138 GTACTACACACGTGACCTAACCATCTGATACACG
66 ATACTACACACGCGACCTAACCATCTGATACACG
* * * * * *
61161172 TAGTAGCCTGCACTTAGTATTACACATGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACATAATAGCCTGCACT
*
61161237 TAATACTACACATGCGACCT
64 TAATACTACACACGCGACCT
61161257 CACAATAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 29 0.40
100 3 0.04
101 40 0.56
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAATAGCCTGCACTTA
ATACTACACACGCGACCTAACCATCTGATACACG
Found at i:61164097 original size:15 final size:15
Alignment explanation
Indices: 61164068--61164117 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
61164058 AACAGAGAAG
61164068 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
61164084 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
61164099 CCATGATACAAG-AAT
1 CCAAGATA-AAGAAAT
61164114 CCAA
1 CCAA
61164118 TTTACAGCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
15 23 0.74
16 8 0.26
ACGTcount: A:0.56, C:0.18, G:0.12, T:0.14
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:61166963 original size:50 final size:49
Alignment explanation
Indices: 61166849--61166974 Score: 182
Period size: 50 Copynumber: 2.6 Consensus size: 49
61166839 CTGGTATGCA
* * ** *
61166849 TAGTAGCCTACACTTAGTACTACACATGTGACCAATTATTCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATTCGATACATG
61166898 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA-TCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATTC-GATACATG
61166948 TAGTAGCCTGCACTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
61166975 ATGATCGAAG
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 33 0.47
50 37 0.53
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATTCGATACATG
Found at i:61167032 original size:101 final size:99
Alignment explanation
Indices: 61166849--61167032 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 99
61166839 CTGGTATGCA
** * **
61166849 TAGTAGCCTACACTTAGTACTACACATGTGACCAATTATTCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACACATGACCAATTATACGGTACACATAGTAGCCTGCACTTA
*
61166914 GTACTACACACGTGACCTAACCATCTGATACATG
66 GTACTACACACGCGACCTAACCATCTGATACATG
* * * *
61166948 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTATAGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACACATGA-CCAA-TTATACGGTACACATAGTAGCCTGCACT
*
61167013 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
61167033 CACAATAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 28 0.39
100 3 0.04
101 41 0.57
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTACACTTAGTACTACACACATGACCAATTATACGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACATG
Found at i:61172293 original size:22 final size:22
Alignment explanation
Indices: 61172267--61172308 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
61172257 GCTAAAAGCA
*
61172267 TATTAAATGATATTGTATTGAT
1 TATTAAAAGATATTGTATTGAT
61172289 TATTAAAAGATATTGTATTG
1 TATTAAAAGATATTGTATTG
61172309 TTCTGCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (22 bp):
TATTAAAAGATATTGTATTGAT
Found at i:61177000 original size:25 final size:24
Alignment explanation
Indices: 61176972--61177042 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 24
61176962 CTCTTTAAAT
61176972 AACTGGGACAAAGCCCTTTTCGATA
1 AACTGGG-CAAAGCCCTTTTCGATA
*
61176997 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACT-GGGCAAAGCCCTTTTCGATA
*
61177022 AACTAGGGCAAATCCCTTTTC
1 AACT-GGGCAAAGCCCTTTTC
61177043 CACATTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
25 39 0.93
26 3 0.07
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (24 bp):
AACTGGGCAAAGCCCTTTTCGATA
Found at i:61177112 original size:11 final size:11
Alignment explanation
Indices: 61177098--61177150 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
61177088 ATATATCATA
61177098 GCATATCATGT
1 GCATATCATGT
*
61177109 GCATATCAT-A
1 GCATATCATGT
*
61177119 ACATATCATGT
1 GCATATCATGT
61177130 GCATATCATGT
1 GCATATCATGT
*
61177141 -TATATCATGT
1 GCATATCATGT
61177151 ATATCAATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
10 17 0.47
11 19 0.53
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (11 bp):
GCATATCATGT
Found at i:61177112 original size:32 final size:32
Alignment explanation
Indices: 61177090--61177148 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
61177080 TATAGTGAAT
61177090 ATATCAT-AGCATATCATGTGCATATCATAAC
1 ATATCATGAGCATATCATGTGCATATCATAAC
* *
61177121 ATATCATGTGCATATCATGT-TATATCAT
1 ATATCATGAGCATATCATGTGCATATCAT
61177149 GTATATCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 14 0.56
32 11 0.44
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (32 bp):
ATATCATGAGCATATCATGTGCATATCATAAC
Found at i:61177150 original size:21 final size:21
Alignment explanation
Indices: 61177090--61177138 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
61177080 TATAGTGAAT
*
61177090 ATATCATAGCATATCATGTGC
1 ATATCATAACATATCATGTGC
61177111 ATATCATAACATATCATGTGC
1 ATATCATAACATATCATGTGC
61177132 ATATCAT
1 ATATCAT
61177139 GTTATATCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (21 bp):
ATATCATAACATATCATGTGC
Found at i:61178328 original size:13 final size:13
Alignment explanation
Indices: 61178310--61178334 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61178300 TCAGTTAGAT
61178310 AAAGAAAGAAAAA
1 AAAGAAAGAAAAA
61178323 AAAGAAAGAAAA
1 AAAGAAAGAAAA
61178335 GAATAATCCT
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAA
Found at i:61179691 original size:32 final size:32
Alignment explanation
Indices: 61179648--61179717 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
61179638 ATGAACACGA
*
61179648 CCGTGTAGCCTACCCGTGTGAGGAAGTCTAGG
1 CCGTGTAGCCTACCCGTGTGAGGAAGTCCAGG
* **
61179680 CCGTGTGGCCTACTTGTGTGAGGAAGTCCAGG
1 CCGTGTAGCCTACCCGTGTGAGGAAGTCCAGG
61179712 CCGTGT
1 CCGTGT
61179718 TGATTTCCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (32 bp):
CCGTGTAGCCTACCCGTGTGAGGAAGTCCAGG
Found at i:61188088 original size:40 final size:40
Alignment explanation
Indices: 61187994--61188218 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
61187984 TATTCGAATG
* * *
61187994 ATATCCGGGCTAAGTCTCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * ** *
61188035 ATAACCGGACTAAGATCCGAAGGCATTCATGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
61188075 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
61188115 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
61188155 ACATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
61188195 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
61188219 CTTGTGCAAG
Statistics
Matches: 156, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 128 0.82
41 27 0.17
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:61188208 original size:120 final size:120
Alignment explanation
Indices: 61187994--61188254 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
61187984 TATTCGAATG
* * * *
61187994 ATATCCGGGCTAAGTCTCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGTGACTACAACCGGACTAAGATCCGAAGGC
* * * *
61188059 ATTCATGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
61188115 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GTGACTACATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGTGACTACAACCGGACTAAGAT-CCGAAGG
* * *
61188178 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
61188234 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
61188255 ATTACTTGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 58 0.48
121 30 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGTGACTACAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:61192350 original size:27 final size:28
Alignment explanation
Indices: 61192275--61192352 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 28
61192265 AATATTTTAG
* *
61192275 TTTACCAAATTACCAAAGTACCC-CTGA
1 TTTACAAAATTACCAAAATACCCTCTGA
* ***
61192302 TTTACAGAATTACCATTTTACCCTC-GA
1 TTTACAAAATTACCAAAATACCCTCTGA
61192329 -TTAGCAAAATTACCAAAATACCCT
1 TTTA-CAAAATTACCAAAATACCCT
61192353 TGTAGTGTTG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
26 3 0.08
27 36 0.90
28 1 0.03
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.29
Consensus pattern (28 bp):
TTTACAAAATTACCAAAATACCCTCTGA
Found at i:61192366 original size:27 final size:27
Alignment explanation
Indices: 61192344--61192530 Score: 239
Period size: 27 Copynumber: 6.9 Consensus size: 27
61192334 AAAATTACCA
* * *
61192344 AAATACCCTTGTAGTGTTGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
61192371 AAATACCCTTGTAGGGTAGAGTTACTA
1 AAATACCCCTGTAGGGTAGAATTACTG
61192398 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
61192425 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
61192452 AAATACCCTTGTAGTGTAGAAATACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
61192479 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * * * *
61192506 AGATAACCTTGTGGGGTAAAATTAC
1 AAATACCCCTGTAGGGTAGAATTAC
61192531 CATTTTGCCC
Statistics
Matches: 141, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:61192431 original size:81 final size:81
Alignment explanation
Indices: 61192336--61192530 Score: 273
Period size: 81 Copynumber: 2.4 Consensus size: 81
61192326 CGATTAGCAA
* * * **
61192336 AATTACCAAAATACCCTTGTAGTGTTGAATTACTGAAATACCCTTGTAGGGTAGAGTTACTAAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACTAAAA
61192401 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * * *
61192417 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGTGTAGAAATACTGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACTAAAA
61192482 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * * *
61192498 AATTACCGAGATAACCTTGTGGGGTAAAATTAC
1 AATTACCGAAATACCCTTGTAGGGTAGAATTAC
61192531 CATTTTGCCC
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 99 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (81 bp):
AATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACTAAAA
TACCCCTGTAGGGTAG
Found at i:61192770 original size:25 final size:25
Alignment explanation
Indices: 61192736--61192801 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
61192726 ATGAAGTGCT
*
61192736 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
61192761 AAAAGGGCTTTACCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
61192786 AAAAGGGCTTTGCCCC
1 AAAAGGGCTTTGCCCC
61192802 GGTTATTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:61196162 original size:26 final size:26
Alignment explanation
Indices: 61196147--61196199 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
61196137 TACTGCTGTG
61196147 AGCCTAACTCAAAATCAACTGAATTA
1 AGCCTAACTCAAAATCAACTGAATTA
61196173 AGCCTAACTCAAAATCAACTGAATTA
1 AGCCTAACTCAAAATCAACTGAATTA
61196199 A
1 A
61196200 CTCTGGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.23, G:0.08, T:0.23
Consensus pattern (26 bp):
AGCCTAACTCAAAATCAACTGAATTA
Found at i:61200742 original size:20 final size:21
Alignment explanation
Indices: 61200701--61200742 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
61200691 TAGATTATAC
*
61200701 ATTTCATATGCTCATTATCAT
1 ATTTCATATGCTCATCATCAT
*
61200722 ATTTCGTATGCT-ATCATCAT
1 ATTTCATATGCTCATCATCAT
61200742 A
1 A
61200743 CAGTTCAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.29, C:0.19, G:0.07, T:0.45
Consensus pattern (21 bp):
ATTTCATATGCTCATCATCAT
Found at i:61201866 original size:25 final size:25
Alignment explanation
Indices: 61201834--61201924 Score: 157
Period size: 25 Copynumber: 3.6 Consensus size: 25
61201824 TTTAATAACC
61201834 GGGGCAAAGCCCTTTTTGGTAAACT
1 GGGGCAAAGCCCTTTTTGGTAAACT
*
61201859 GGGGCAAAGCCCTTTTCGGTAAACT
1 GGGGCAAAGCCCTTTTTGGTAAACT
61201884 GGGGCAAAGCCCTTTTCT-GTAAACT
1 GGGGCAAAGCCCTTTT-TGGTAAACT
61201909 GGGGCAAAGCCCTTTT
1 GGGGCAAAGCCCTTTT
61201925 AGCACTTCCT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (25 bp):
GGGGCAAAGCCCTTTTTGGTAAACT
Found at i:61202161 original size:27 final size:26
Alignment explanation
Indices: 61202131--61202300 Score: 173
Period size: 27 Copynumber: 6.3 Consensus size: 26
61202121 GGCAAAATGG
* *
61202131 TAATTTTACCCCACAAGGGTATCTTGA
1 TAATTCTACCCTACAAGGGTAT-TTGA
* *
61202158 TAATTCTACCCTACAGGGGTATTTCA
1 TAATTCTACCCTACAAGGGTATTTGA
61202184 GTAATTCTACCCTACAAGGGTATTTCGA
1 -TAATTCTACCCTACAAGGGTATTT-GA
*
61202212 TAATTCTACCCTAC-AGGGTTATTTCA
1 TAATTCTACCCTACAAGGG-TATTTGA
* * *
61202238 GTAATTCTATCCTACAGGGGTATTTCA
1 -TAATTCTACCCTACAAGGGTATTTGA
*
61202265 GTAATTCTACCCTAC-AGAGGTATTTCAA
1 -TAATTCTACCCTACAAG-GGTATTT-GA
61202293 TAATTCTA
1 TAATTCTA
61202301 TAAATCCGGG
Statistics
Matches: 124, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
26 9 0.07
27 110 0.89
28 5 0.04
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (26 bp):
TAATTCTACCCTACAAGGGTATTTGA
Found at i:61202188 original size:54 final size:53
Alignment explanation
Indices: 61202130--61202300 Score: 243
Period size: 54 Copynumber: 3.2 Consensus size: 53
61202120 GGGCAAAATG
* *
61202130 GTAATTTTACCCCACAAGGGTATCTTGATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTAT-TTGATAATTCTACCCTACAGGGGTATTTCA
*
61202184 GTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGTTATTTCA
1 GTAATTCTACCCTACAAGGGTATTT-GATAATTCTACCCTACAGGGGTATTTCA
* * * *
61202238 GTAATTCTATCCTACAGGGGTATTTCAGTAATTCTACCCTACAGAGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTGA-TAATTCTACCCTACAGGGGTATTTCA
*
61202292 ATAATTCTA
1 GTAATTCTA
61202301 TAAATCCGGG
Statistics
Matches: 106, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
53 3 0.03
54 103 0.97
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (53 bp):
GTAATTCTACCCTACAAGGGTATTTGATAATTCTACCCTACAGGGGTATTTCA
Found at i:61202339 original size:27 final size:27
Alignment explanation
Indices: 61202283--61202717 Score: 240
Period size: 27 Copynumber: 16.1 Consensus size: 27
61202273 ACCCTACAGA
* * *
61202283 GGTATTTCAATAATTCTATAAATCCG-G
1 GGTATTTCAGTAATTTTACAAAT-CGAG
* * *
61202310 GGTACTTT-GGTATTTTTACAAGTCGAG
1 GGTA-TTTCAGTAATTTTACAAATCGAG
61202337 GGTATTTCAGTAATTTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* * *
61202364 GGTATTTCAGTAATTTTGCAAA-CTAAA
1 GGTATTTCAGTAATTTTACAAATC-GAG
* **
61202391 GGTATTTCAGTAATTTCACAAATTAAG
1 GGTATTTCAGTAATTTTACAAATCGAG
** *
61202418 GGTATTTTGGTAATTTTACAAA-CCAGG
1 GGTATTTCAGTAATTTTACAAATCGA-G
** ** * *
61202445 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTCAGTAATTTTACAAATCGAG
** * * *
61202472 GGTATTTTGGTAACTTTACAAGTCGAT
1 GGTATTTCAGTAATTTTACAAATCGAG
* * *
61202499 GGTATTTTAGTAATTTCACAAATCAAG
1 GGTATTTCAGTAATTTTACAAATCGAG
** * *
61202526 GGTATTTTGGTAATTTCACAAA-CTAAG
1 GGTATTTCAGTAATTTTACAAATC-GAG
** * *
61202553 GGTATTTTGGTAATTTTATAAA-CTAG
1 GGTATTTCAGTAATTTTACAAATCGAG
* * * *
61202579 AGG-A-TTCTAGCAATTTTATAAACCAAG
1 -GGTATTTC-AGTAATTTTACAAATCGAG
* *
61202606 GGTATTTTAGTAATTTTACAAA-CCAGG
1 GGTATTTCAGTAATTTTACAAATCGA-G
** **
61202633 GGTATTTTGGTAATTTTACTGATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
** ** *
61202660 GGTATTTTGGTAATTTTGTAAATCAAG
1 GGTATTTCAGTAATTTTACAAATCGAG
** *
61202687 GGTATTTCAGTAATTTTGTAAATTGAG
1 GGTATTTCAGTAATTTTACAAATCGAG
61202714 GGTA
1 GGTA
61202718 AAATGGTAAT
Statistics
Matches: 331, Mismatches: 62, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
25 2 0.01
26 27 0.08
27 293 0.89
28 9 0.03
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAG
Found at i:61202420 original size:81 final size:81
Alignment explanation
Indices: 61202309--61202704 Score: 409
Period size: 81 Copynumber: 4.9 Consensus size: 81
61202299 TATAAATCCG
* * * * * *
61202309 GGGTACTTTGGTATTTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTAG
*
61202374 TAATTTTGCAAACTAA
66 TAATTTTGCAAACCAA
* ** * ** * * * *
61202390 AGGTATTTCAGTAATTTCACAAATTAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTAG
*
61202455 TAATTTTGTAAACCAA
66 TAATTTTGCAAACCAA
* * * * *
61202471 GGGTATTTTGGTAACTTTACAAGTCGATGGTATTTTAGTAATTTCACAAATCAAGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTAG
** *
61202536 TAATTTCACAAACTAA
66 TAATTTTGCAAACCAA
* * * * * *
61202552 GGGTATTTTGGTAATTTTATAAA-CTAGAGG-ATTCTAGCAATTTTATAAACCAAGGGTATTTTA
1 GGGTATTTTGGTAATTTTACAAATCGAG-GGTATTTTAGTAATTTTACAAATCAAGGGTATTTTA
* *
61202615 GTAATTTTACAAACCAG
65 GTAATTTTGCAAACCAA
** * ** *
61202632 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTTCAG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTAG
61202697 TAATTTTG
66 TAATTTTG
61202705 TAAATTGAGG
Statistics
Matches: 252, Mismatches: 60, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
80 65 0.26
81 187 0.74
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTAG
TAATTTTGCAAACCAA
Found at i:61202717 original size:54 final size:54
Alignment explanation
Indices: 61202309--61202703 Score: 346
Period size: 54 Copynumber: 7.3 Consensus size: 54
61202299 TATAAATCCG
* * ** * *
61202309 GGGTACTTTGGTATTTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAATCAA
** * ** * * * *
61202363 GGGTATTTCAGTAATTTTGCAAACTAAAGGTATTTCAGTAATTTCACAAATTAA
1 GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAATCAA
* ** *
61202417 GGGTATTTTGGTAATTTTACAAACC-AGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCGA-GGGTATTTTAGTAATTTTACAAATCAA
* ** * *
61202471 GGGTATTTTGGTAACTTTACAAGTCGATGGTATTTTAGTAATTTCACAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAATCAA
* ** * * *
61202525 GGGTATTTTGGTAATTTCACAAACTAAGGGTATTTTGGTAATTTTATAAA-CTA
1 GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAATCAA
* * * * * * *
61202578 GAGG-ATTCTAGCAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
1 G-GGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAATCAA
** * * **
61202632 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAATCAA
**
61202686 GGGTATTTCAGTAATTTT
1 GGGTATTTTGGTAATTTT
61202704 GTAAATTGAG
Statistics
Matches: 266, Mismatches: 70, Indels: 10
0.77 0.20 0.03
Matches are distributed among these distances:
53 44 0.17
54 221 0.83
55 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTAATTTTACAAATCAA
Found at i:61202725 original size:81 final size:81
Alignment explanation
Indices: 61202640--61202960 Score: 277
Period size: 81 Copynumber: 4.0 Consensus size: 81
61202630 AGGGGTATTT
* *** * * *** *
61202640 TGGTAATTTTACTGA-TCGAGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTTCAGTAATTTT
1 TGGTAATTTT-CTAAGTCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCT
*
61202704 GTAAATTGAGGGTAAAA
65 GTAAATCGAGGGTAAAA
* * *
61202721 TGGTAATTTTGTAAGTCGAGGGTAAAATGGTAATTCTATAAATTAAGGGTAAAACGGTAATTCTG
1 TGGTAATTTTCTAAGTCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTG
61202786 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
** * * * * * * * * * *
61202802 CAGTAATTCTATAAATTGATGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAGCGGTAATTTTG
1 TGGTAATTTTCTAAGTCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTG
*
61202867 TAAATCAAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * * * * ** *
61202883 CT-GTAATTATGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGATGGTAAAATGGTAATTTT
1 -TGGTAATTTTCTAAGTCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCT
*
61202947 ATAAATCGAGGGTA
65 GTAAATCGAGGGTA
61202961 GAACGATAAT
Statistics
Matches: 199, Mismatches: 39, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
80 2 0.01
81 197 0.99
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (81 bp):
TGGTAATTTTCTAAGTCGAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTG
TAAATCGAGGGTAAAA
Found at i:61202726 original size:27 final size:27
Alignment explanation
Indices: 61202696--61202987 Score: 325
Period size: 27 Copynumber: 10.8 Consensus size: 27
61202686 GGGTATTTCA
* *
61202696 GTAATTTTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
61202723 GTAATTTTGTAAGTCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* ** *
61202750 GTAATTCTATAAATTAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
**
61202777 GTAATTCTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * *
61202804 GTAATTCTATAAATTGATGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
**
61202831 GTAATTCTGTAAATCGAGGGTAAAGCG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
61202858 GTAATTTTGTAAATCAAGGGTAAAACT-
1 GTAATTCTGTAAATCGAGGGTAAAA-TG
* *
61202885 GTAATTATGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
61202912 GTAATTCTATAAATCGATGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * * *
61202939 GTAATTTTATAAATCGAGGGTAGAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
61202966 ATAATTCTGTAAACCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
61202988 CTTTGGTAAT
Statistics
Matches: 223, Mismatches: 40, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 1 0.00
27 222 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:61202727 original size:161 final size:161
Alignment explanation
Indices: 61202309--61202730 Score: 418
Period size: 161 Copynumber: 2.6 Consensus size: 161
61202299 TATAAATCCG
* ** * * *
61202309 GGGTACTTTGGTATTTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAG
1 GGGTATTTTGGTAACTTTACAAGTCGAGGGTATTTTAGTAATTTCACAAATCAAGGGTATTTCAG
** * ** * * * * * * *
61202374 TAATTTTGCAAACTAAAGGT-ATTTCAGTAATTTCACAAATTA-AGGGTATTTTGGTAATTTTAC
66 TAATTTCACAAACTAAGGGTAAAAT-GGTAATTTTATAAACTAGA-GG-ATTCTAGCAATTTTAC
* * **
61202437 AAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
128 AAACCAAGGGTATTTTAGTAATTTTACAAACCAA
* **
61202471 GGGTATTTTGGTAACTTTACAAGTCGATGGTATTTTAGTAATTTCACAAATCAAGGGTATTTTGG
1 GGGTATTTTGGTAACTTTACAAGTCGAGGGTATTTTAGTAATTTCACAAATCAAGGGTATTTCAG
*** *
61202536 TAATTTCACAAACTAAGGGTATTTTGGTAATTTTATAAACTAGAGGATTCTAGCAATTTTATAAA
66 TAATTTCACAAACTAAGGGTAAAATGGTAATTTTATAAACTAGAGGATTCTAGCAATTTTACAAA
*
61202601 CCAAGGGTATTTTAGTAATTTTACAAACCAG
131 CCAAGGGTATTTTAGTAATTTTACAAACCAA
* * * ***
61202632 GGGTATTTTGGTAATTTTAC-TGATCGAGGGTATTTTGGTAATTTTGTAAATCAAGGGTATTTCA
1 GGGTATTTTGGTAACTTTACAAG-TCGAGGGTATTTTAGTAATTTCACAAATCAAGGGTATTTCA
*** * *
61202696 GTAATTTTGTAAATTGAGGGTAAAATGGTAATTTT
65 GTAATTTCACAAACTAAGGGTAAAATGGTAATTTT
61202731 GTAAGTCGAG
Statistics
Matches: 214, Mismatches: 43, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
160 1 0.00
161 121 0.57
162 88 0.41
163 4 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (161 bp):
GGGTATTTTGGTAACTTTACAAGTCGAGGGTATTTTAGTAATTTCACAAATCAAGGGTATTTCAG
TAATTTCACAAACTAAGGGTAAAATGGTAATTTTATAAACTAGAGGATTCTAGCAATTTTACAAA
CCAAGGGTATTTTAGTAATTTTACAAACCAA
Found at i:61202998 original size:81 final size:81
Alignment explanation
Indices: 61202696--61202987 Score: 363
Period size: 81 Copynumber: 3.6 Consensus size: 81
61202686 GGGTATTTCA
* * * * *
61202696 GTAATTTTGTAAATTGAGGGTAAAATGGTAATTTTGTAAGTCGAGGGTAAAATGGTAATTCTATA
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
**
61202761 AATTAAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * * * *
61202777 GTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTCTATAAATTGATGGTAAAATGGTAATTCTGT
1 GTAATTTTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTAT
*
61202841 AAATCGAGGGTAAAGCG
65 AAATCGAGGGTAAAACG
* * *
61202858 GTAATTTTGTAAATCAAGGGTAAAACTG-TAATTATGTAAATCGAGGGTAAAATAGTAATTCTAT
1 GTAATTTTGTAAATCGAGGGTAAAAC-GATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTAT
* *
61202922 AAATCGATGGTAAAATG
65 AAATCGAGGGTAAAACG
* * *
61202939 GTAATTTTATAAATCGAGGGTAGAACGATAATTCTGTAAACCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
61202988 CTTTGGTAAT
Statistics
Matches: 178, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 177 0.99
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
AATCGAGGGTAAAACG
Found at i:61203837 original size:25 final size:25
Alignment explanation
Indices: 61203809--61203903 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
61203799 CTCTTTTAAT
*
61203809 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
61203834 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
**
61203859 AACTGGGGCAAAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
61203884 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
61203904 AGCACTTCCT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 67 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:61204136 original size:27 final size:27
Alignment explanation
Indices: 61204107--61204277 Score: 191
Period size: 27 Copynumber: 6.3 Consensus size: 27
61204097 GGGGAAAAAT
* *
61204107 GGTAATTTTACCCCACAAGGGTATCTT-
1 GGTAATTCTACCCTACAAGGGTAT-TTC
*
61204134 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
**
61204161 AATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
61204188 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
61204215 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
61204242 GGTAATTGTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
**
61204269 AATAATTCT
1 GGTAATTCT
61204278 GTAAATCGAG
Statistics
Matches: 121, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
26 2 0.02
27 119 0.98
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:61204154 original size:54 final size:53
Alignment explanation
Indices: 61204108--61204277 Score: 241
Period size: 54 Copynumber: 3.2 Consensus size: 53
61204098 GGGAAAAATG
* *
61204108 GTAATTTTACCCCACAAGGGTATCTTGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTAT-TTGGTAATTCTACCCTACAGGGGTATTTCA
* * *
61204162 ATAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTT-GGTAATTCTACCCTACAGGGGTATTTCA
* *
61204216 GTAATTCTACCCTACAAGGGTATTTTGGTAATTGTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTA-TTTGGTAATTCTACCCTACAGGGGTATTTCA
*
61204270 ATAATTCT
1 GTAATTCT
61204278 GTAAATCGAG
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
53 2 0.02
54 98 0.95
55 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (53 bp):
GTAATTCTACCCTACAAGGGTATTTGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:61204336 original size:27 final size:26
Alignment explanation
Indices: 61204206--61204710 Score: 253
Period size: 27 Copynumber: 18.7 Consensus size: 26
61204196 TACCCTATAG
* * **
61204206 GGGTATTTCAGTAATTCTACCCTACAA
1 GGGTATTTTAGTAATTTTACAAT-CAA
* * ** *
61204233 GGGTATTTTGGTAATTGTACCTTACAG
1 GGGTATTTTAGTAATTTTACAAT-CAA
* * *
61204260 GGGTATTTCAATAATTCTGTA-AATCGA
1 GGGTATTTTAGTAATT-T-TACAATCAA
* * * *
61204287 GAGTACTTTGGTAATTTTTACAAGTCTA
1 GGGTATTTTAGTAA-TTTTACAA-TCAA
* *
61204315 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTTAGTAATTTTAC-AATCAA
* * * * *
61204342 GGGTATTTCAATAATTTTGCAAACTGA
1 GGGTATTTTAGTAATTTTACAATC-AA
* * **
61204369 TGGTATTTCAGTAATTGCACAAATCAA
1 GGGTATTTTAGTAATTTTAC-AATCAA
* * *
61204396 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTAC-AATCAA
* *
61204423 GGGTATTTTGGTAATTTTGTA-AACCAA
1 GGGTATTTTAGTAA-TTT-TACAATCAA
* *
61204450 GGGTATTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTAGTAATTTTACAA-TCAA
* * *
61204477 GGGTATTTCAATAATTTCATA-AATCAG
1 GGGTATTTTAGTAATTT--TACAATCAA
* * * *
61204504 GGGTATTTTGGTAATTTCACAAACTAG
1 GGGTATTTTAGTAATTTTACAATC-AA
* * *
61204531 GGGAATTTTAGTAATTTTACAAACCA
1 GGGTATTTTAGTAATTTTACAATCAA
* * * * *
61204557 GAGGTATTCTGGCAATTTTATAAACCAA
1 G-GGTATTTTAGTAATTTTA-CAATCAA
* *
61204585 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTAC-AATCAA
* *
61204612 GGGTATTTTAGTAATTTTACAAACCA
1 GGGTATTTTAGTAATTTTACAATCAA
* * *
61204638 GGGTTATTTTGGTAATTTTACTGATCGA
1 GGG-TATTTTAGTAATTTTAC-AATCAA
*
61204666 GGGTATTTTGGTAATTTTGTA-AATCAA
1 GGGTATTTTAGTAA-TTT-TACAATCAA
*
61204693 GGGTATTTCAGTAATTTT
1 GGGTATTTTAGTAATTTT
61204711 GTAAATCGAG
Statistics
Matches: 373, Mismatches: 82, Indels: 48
0.74 0.16 0.10
Matches are distributed among these distances:
25 4 0.01
26 23 0.06
27 298 0.80
28 40 0.11
29 8 0.02
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (26 bp):
GGGTATTTTAGTAATTTTACAATCAA
Found at i:61204411 original size:54 final size:54
Alignment explanation
Indices: 61204206--61204724 Score: 368
Period size: 54 Copynumber: 9.6 Consensus size: 54
61204196 TACCCTATAG
* ** * ** *
61204206 GGGTATTTCAGTAATTCTAC-CCTACAAGGGTATTTTGGTAATTGTACCTTAC-AG
1 GGGTATTTCAGTAATTTTACAAAT-CAAGGGTATTTTGGTAATTTTA-CAAACTAA
* * ** * * * *
61204260 GGGTATTTCAATAATTCTGTAAATCGAGAGTACTTTGGTAATTTTTACAAGTCT-A
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAA-TTTTACAA-ACTAA
* *** * *
61204315 GGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTTGCAAACTGA
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAA
* ** * *
61204369 TGGTATTTCAGTAATTGCACAAATCAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAA
** ** * * *
61204423 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTAC-AAGTCGA
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACT-AA
* * * * * *
61204477 GGGTATTTCAATAATTTCATAAATCAGGGGTATTTTGGTAATTTCACAAACTAG
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAA
* * * * * * *
61204531 GGGAATTTTAGTAATTTTACAAA-CCAGAGGTATTCTGGCAATTTTATAAACCAA
1 GGGTATTTCAGTAATTTTACAAATCAAG-GGTATTTTGGTAATTTTACAAACTAA
* * * * *
61204585 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAAC-CA
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAA
** ** * **
61204638 GGGTTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAA-TCAA
1 GGG-TATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACT-AA
** *
61204693 GGGTATTTCAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTCAGTAATTTTACAAATCAAGGGTA
61204725 AAACGGTAAT
Statistics
Matches: 358, Mismatches: 95, Indels: 24
0.75 0.20 0.05
Matches are distributed among these distances:
53 10 0.03
54 301 0.84
55 47 0.13
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAA
Found at i:61204418 original size:81 final size:80
Alignment explanation
Indices: 61204314--61204710 Score: 359
Period size: 81 Copynumber: 4.9 Consensus size: 80
61204304 TTACAAGTCT
** *** * * *
61204314 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAATAATTTTGCAAACTGATGGTATTTCA
1 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTGCAAACTAAGGGTATTTTA
** *
61204379 GTAATTGCACAAATCA
66 GTAATTTTACAAA-CC
* * *
61204395 AGGGTATTTTGGTAATTTTACAAA-CCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTGCAAACTAAGGGTATTTT
* * *
61204459 GGTAATTTTACAAGTCG
65 AGTAATTTTACAA-ACC
*** * * ** * *
61204476 AGGGTATTTCAATAATTTCATAAATC-AGGGGTATTTTGGTAATTTCACAAACTAGGGGAATTTT
1 AGGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTGCAAACTAAGGGTATTTT
61204540 AGTAATTTTACAAACC
65 AGTAATTTTACAAACC
* * * * * * * * *
61204556 AGAGGTATTCTGGCAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTT
1 AG-GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTGCAAACTAAGGGTATTTT
61204621 AGTAATTTTACAAACC
65 AGTAATTTTACAAACC
** *
61204637 AGGGTTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAA-TCAAGGGTATTT
1 AGGG-TATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTGCAAACT-AAGGGTATTT
*
61204701 CAGTAATTTT
64 TAGTAATTTT
61204711 GTAAATCGAG
Statistics
Matches: 255, Mismatches: 54, Indels: 14
0.79 0.17 0.04
Matches are distributed among these distances:
80 7 0.03
81 246 0.96
82 2 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTGCAAACTAAGGGTATTTTA
GTAATTTTACAAACC
Found at i:61204711 original size:27 final size:27
Alignment explanation
Indices: 61204297--61204724 Score: 324
Period size: 27 Copynumber: 15.8 Consensus size: 27
61204287 GAGTACTTTG
* * *
61204297 GTAATTTTTACAAGTCTAGGGTATTTCA
1 GTAA-TTTTACAAATCAAGGGTATTTTA
* *
61204325 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCAAGGGTATTTTA
* * * * *
61204352 ATAATTTTGCAAA-CTGATGGTATTTCA
1 GTAATTTTACAAATC-AAGGGTATTTTA
** *
61204379 GTAATTGCACAAATCAAGGGTATTTTG
1 GTAATTTTACAAATCAAGGGTATTTTA
* * *
61204406 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAATCAAGGGTATTTTA
** * *
61204433 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAATCAAGGGTATTTTA
* * *
61204460 GTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAATCAAGGGTATTTTA
* * * * *
61204487 ATAATTTCATAAATCAGGGGTATTTTG
1 GTAATTTTACAAATCAAGGGTATTTTA
* * *
61204514 GTAATTTCACAAA-CTAGGGGAATTTTA
1 GTAATTTTACAAATC-AAGGGTATTTTA
* * *
61204541 GTAATTTTACAAA-CCAGAGGTATTCTG
1 GTAATTTTACAAATCAAG-GGTATTTTA
* * *
61204568 GCAATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAATCAAGGGTATTTTA
* *
61204595 GTAATTTTACAAACCAGGGGTATTTTA
1 GTAATTTTACAAATCAAGGGTATTTTA
* *
61204622 GTAATTTTACAAA-CCAGGGTTATTTTG
1 GTAATTTTACAAATCAAGGG-TATTTTA
** * *
61204649 GTAATTTTACTGATCGAGGGTATTTTG
1 GTAATTTTACAAATCAAGGGTATTTTA
** *
61204676 GTAATTTTGTAAATCAAGGGTATTTCA
1 GTAATTTTACAAATCAAGGGTATTTTA
** *
61204703 GTAATTTTGTAAATCGAGGGTA
1 GTAATTTTACAAATCAAGGGTA
61204725 AAACGGTAAT
Statistics
Matches: 326, Mismatches: 67, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
26 7 0.02
27 306 0.94
28 13 0.04
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAATCAAGGGTATTTTA
Found at i:61204733 original size:27 final size:27
Alignment explanation
Indices: 61204675--61204913 Score: 271
Period size: 27 Copynumber: 8.9 Consensus size: 27
61204665 AGGGTATTTT
* * ***
61204675 GGTAATTTTGTAAATCAAGGGTATTTC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* *
61204702 AGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* * *
61204729 GGTAATTCTGTAAGTCGAGAGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* *
61204756 GGTAATTCTATAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
61204783 GGTAACTCCGTAAATCGAAGGCAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* *
61204810 GGTAATTCTATAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* *
61204837 GGTAATTCTATAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* *
61204864 GGTAATTCTATAAATCGAGGGTAGAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
*
61204891 GGTAATTCTGTAAATTGAGGGTA
1 GGTAATTCTGTAAATCGAGGGTA
61204914 CTTTGGTAAT
Statistics
Matches: 183, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 183 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (27 bp):
GGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:61204924 original size:27 final size:27
Alignment explanation
Indices: 61204703--61204913 Score: 278
Period size: 27 Copynumber: 7.8 Consensus size: 27
61204693 GGGTATTTCA
* * *
61204703 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
61204730 GTAATTCTGTAAGTCGAGAGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
61204757 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* ** * * *
61204784 GTAACTCCGTAAATCGAAGGCAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
61204811 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
61204838 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
61204865 GTAATTCTATAAATCGAGGGTAGAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
61204892 GTAATTCTGTAAATTGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
61204914 CTTTGGTAAT
Statistics
Matches: 161, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 161 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:61204938 original size:81 final size:81
Alignment explanation
Indices: 61204703--61204913 Score: 323
Period size: 81 Copynumber: 2.6 Consensus size: 81
61204693 GGGTATTTCA
* * *
61204703 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGAGTAAAATGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
61204768 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * * * *
61204784 GTAACTCCGTAAATCGAAGGCAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
61204849 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* * *
61204865 GTAATTCTATAAATCGAGGGTAGAACGGTAATTCTGTAAATTGAGGGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
61204914 CTTTGGTAAT
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 114 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.28
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
AATCGAGGGTAAAATG
Found at i:61206062 original size:4 final size:4
Alignment explanation
Indices: 61206053--61206082 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
61206043 TTCAATACAA
61206053 ATTC ATTC ATTC ATTC ATTC ATTTC ATTC A
1 ATTC ATTC ATTC ATTC ATTC A-TTC ATTC A
61206083 ATTTAATCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTC
Found at i:61218157 original size:128 final size:128
Alignment explanation
Indices: 61217929--61218184 Score: 485
Period size: 128 Copynumber: 2.0 Consensus size: 128
61217919 GTTTTGAGCA
*
61217929 AGAGATCCAACGGTAAGACGCTCTCGTTTCCCATAAAGTAGTCAATGAGCCAACATGAACGATCC
1 AGAGATCCAACGGTAAGACGCTCTCGTTTCCCACAAAGTAGTCAATGAGCCAACATGAACGATCC
* *
61217994 ACTTCATCGGTAGGATATTCAAGTAGAGCGAGAAGCTCCAAACGACATAATCAAAAGTCTTTT
66 ACTTCATCGGTAGGATATTCAAGTAGAGCGAGAAGCTACAAACGACATAATCAAAAGTATTTT
61218057 AGAGATCCAACGGTAAGACGCTCTCGTTTCCCACAAAGTAGTCAATGAGCCAACATGAACGATCC
1 AGAGATCCAACGGTAAGACGCTCTCGTTTCCCACAAAGTAGTCAATGAGCCAACATGAACGATCC
61218122 ACTTCATCGGTAGGATATTCAAGTAGAGCGAGAAGCTACAAACGACATAATCAAAAGTATTTT
66 ACTTCATCGGTAGGATATTCAAGTAGAGCGAGAAGCTACAAACGACATAATCAAAAGTATTTT
61218185 TCCCAAATGG
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 125 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (128 bp):
AGAGATCCAACGGTAAGACGCTCTCGTTTCCCACAAAGTAGTCAATGAGCCAACATGAACGATCC
ACTTCATCGGTAGGATATTCAAGTAGAGCGAGAAGCTACAAACGACATAATCAAAAGTATTTT
Found at i:61245487 original size:40 final size:40
Alignment explanation
Indices: 61245424--61245643 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
61245414 ATTCGGATTG
61245424 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
61245463 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * *
61245503 ATAACCGGGCCAAGTCCCGAAGGCAATTGTCCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
61245543 ATAA-CGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
61245582 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
61245622 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
61245644 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 65 0.40
40 97 0.60
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:61245617 original size:79 final size:80
Alignment explanation
Indices: 61245424--61245643 Score: 304
Period size: 79 Copynumber: 2.8 Consensus size: 80
61245414 ATTCGGATTG
*
61245424 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATACGGGCTAAGTCCCGAAGGCA
* *
61245488 TTTGTGTGAGTTACT
66 ATTGTGCGAGTTACT
* * * *
61245503 ATAACCGGGCCAAGTCCCGAAGGCAATTGTCCGAGTTATTATA-ACGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATACGGGCTAAGTCCCGAAGGCA
61245567 ATTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * **
61245582 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT-CCGGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATACGGGCTAAGTCCCGAAGG
61245644 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
78 2 0.02
79 96 0.78
80 25 0.20
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATACGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:61252614 original size:42 final size:42
Alignment explanation
Indices: 61252555--61252646 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
61252545 TGGCCCTTAG
* ** *
61252555 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
61252597 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
61252639 GCCCATTT
1 GCCCATTT
61252647 AGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:61252820 original size:25 final size:26
Alignment explanation
Indices: 61252779--61252912 Score: 181
Period size: 25 Copynumber: 5.3 Consensus size: 26
61252769 CTGGAGGCCT
61252779 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
61252803 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
61252828 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
61252854 AGCCCTTTTCGGTAAACT-GGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
61252879 AG-CCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
61252904 AGCCCTTTT
1 AGCCCTTTT
61252913 GCACTTCCTC
Statistics
Matches: 97, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.05
24 18 0.19
25 51 0.53
26 23 0.24
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:61252862 original size:51 final size:51
Alignment explanation
Indices: 61252779--61252912 Score: 215
Period size: 50 Copynumber: 2.7 Consensus size: 51
61252769 CTGGAGGCCT
61252779 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACT-GGGCATA
61252828 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGCATA
61252879 AG-CCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
61252913 GCACTTCCTC
Statistics
Matches: 81, Mismatches: 0, Indels: 7
0.92 0.00 0.08
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 47 0.58
51 22 0.27
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGCATA
Found at i:61252986 original size:20 final size:20
Alignment explanation
Indices: 61252961--61253067 Score: 171
Period size: 20 Copynumber: 5.3 Consensus size: 20
61252951 TTATGAATAC
*
61252961 ATCATGTGGATTTCATACAT
1 ATCATGTGCATTTCATACAT
61252981 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
61253001 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
61253021 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
61253041 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
61253061 ATCATGT
1 ATCATGT
61253068 ATATCATATC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
20 80 0.98
21 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:61253054 original size:11 final size:11
Alignment explanation
Indices: 61252978--61253056 Score: 53
Period size: 11 Copynumber: 7.7 Consensus size: 11
61252968 GGATTTCATA
61252978 CATATCATGTG
1 CATATCATGTG
* *
61252989 CATTTCA--TA
1 CATATCATGTG
61252998 CATATCATGTG
1 CATATCATGTG
* *
61253009 CATTTCA--TA
1 CATATCATGTG
61253018 CATATCATGTG
1 CATATCATGTG
* * *
61253029 CAT-T-TTATA
1 CATATCATGTG
61253038 CATATCATGTG
1 CATATCATGTG
61253049 CATATCAT
1 CATATCAT
61253057 ATCAATCATG
Statistics
Matches: 48, Mismatches: 14, Indels: 12
0.65 0.19 0.16
Matches are distributed among these distances:
9 19 0.40
10 2 0.04
11 27 0.56
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (11 bp):
CATATCATGTG
Found at i:61253073 original size:9 final size:10
Alignment explanation
Indices: 61252978--61253074 Score: 51
Period size: 9 Copynumber: 9.8 Consensus size: 10
61252968 GGATTTCATA
61252978 CATATCATGT
1 CATATCATGT
* *
61252988 GCATTTCAT-A
1 -CATATCATGT
61252998 CATATCATGT
1 CATATCATGT
* *
61253008 GCATTTCAT-A
1 -CATATCATGT
61253018 CATATCATGT
1 CATATCATGT
* * *
61253028 GCATTTTAT-A
1 -CATATCATGT
61253038 CATATCATGT
1 CATATCATGT
*
61253048 GCATATCATAT
1 -CATATCATGT
61253059 CA-ATCATGT
1 CATATCATGT
61253068 -ATATCAT
1 CATATCAT
61253075 ATCCCGCGTA
Statistics
Matches: 63, Mismatches: 16, Indels: 16
0.66 0.17 0.17
Matches are distributed among these distances:
8 1 0.02
9 31 0.49
10 2 0.03
11 29 0.46
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (10 bp):
CATATCATGT
Found at i:61253446 original size:20 final size:21
Alignment explanation
Indices: 61253421--61253459 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
61253411 TGGGCCCGAA
61253421 AGCCCATTG-GGCCCAATTCT
1 AGCCCATTGAGGCCCAATTCT
61253441 AGCCCATTGAGGCCCAATT
1 AGCCCATTGAGGCCCAATT
61253460 TACCATCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (21 bp):
AGCCCATTGAGGCCCAATTCT
Found at i:61253809 original size:27 final size:26
Alignment explanation
Indices: 61253774--61253867 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
61253764 GGGCATATTC
*
61253774 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACC-TACAGGGGCT-TTACG
61253801 GTCACTTTAACCTACAGGGGCTTTACG
1 GTCACTTT-ACCTACAGGGGCTTTACG
61253828 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
**
61253855 GTCTTTTTACCTA
1 GTCACTTTACCTA
61253868 ATAGGGGTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
26 5 0.08
27 52 0.85
28 4 0.07
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:61253874 original size:27 final size:27
Alignment explanation
Indices: 61253774--61253857 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
61253764 GGGCATATTC
* *
61253774 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
61253801 GTCACTTTAACCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
61253828 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
61253855 GTC
1 GTC
61253858 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:61253949 original size:27 final size:27
Alignment explanation
Indices: 61253897--61254242 Score: 245
Period size: 27 Copynumber: 12.8 Consensus size: 27
61253887 TTCATCCTAC
* * *
61253897 AAGGGTGTTTTGGTAAATCTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
** ** *
61253924 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* *** * *
61253951 AATGGTATTTCCATAATTTTTAGAAAGT
1 AAGGGTATTTTGGTAA-TTTTACAAACT
*
61253979 CAAGGGTATTTCT-GTAACTTTGTA-AATC-
1 -AAGGGTATTT-TGGTAA-TTT-TACAAACT
* *
61254007 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
61254034 GAGGGTATTTCGATAATTTCACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
61254061 -AGTGGTATTTTGGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
* *
61254088 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
61254115 GAGGGTATTTCGATAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* * *
61254142 AGGGGTATTTTAGCAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
**
61254169 -AGGGTATTTTGGTAATTTTACTGA-T
1 AAGGGTATTTTGGTAATTTTACAAACT
* * ** *
61254194 CGAGGGTATTTTGGAAATTTTGTAAACC
1 -AAGGGTATTTTGGTAATTTTACAAACT
*
61254222 AAGGGTATTTTAGTAATTTTA
1 AAGGGTATTTTGGTAATTTTA
61254243 TAAATCGAGG
Statistics
Matches: 244, Mismatches: 63, Indels: 24
0.74 0.19 0.07
Matches are distributed among these distances:
25 3 0.01
26 27 0.11
27 187 0.77
28 8 0.03
29 17 0.07
30 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:61254103 original size:81 final size:81
Alignment explanation
Indices: 61254007--61254242 Score: 323
Period size: 81 Copynumber: 2.9 Consensus size: 81
61253997 TTTGTAAATC
* *
61254007 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACTAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAGGGGTATTTT
* *
61254072 GGTAATTTTACAAACT
66 AGCAATTTTACAAACT
*
61254088 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTTACAAACCAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAGGGGTATTTT
61254153 AGCAATTTTACAAACT
66 AGCAATTTTACAAACT
** * * *** *
61254169 A-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGA-AATTTTGTAAACCAAGGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA-TTTCGATAATTTCACAAACCAGGGGTATTT
*
61254232 TAGTAATTTTA
65 TAGCAATTTTA
61254243 TAAATCGAGG
Statistics
Matches: 141, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
80 59 0.42
81 82 0.58
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAGGGGTATTTT
AGCAATTTTACAAACT
Found at i:61254263 original size:27 final size:27
Alignment explanation
Indices: 61254233--61254363 Score: 172
Period size: 27 Copynumber: 4.9 Consensus size: 27
61254223 AGGGTATTTT
61254233 AGTAATTTTATAAATCGAGGGTAAAAC
1 AGTAATTTTATAAATCGAGGGTAAAAC
* * *
61254260 AGTAATTTTTTAAGTCAAGGGTAAAAC
1 AGTAATTTTATAAATCGAGGGTAAAAC
*
61254287 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTTTATAAATCGAGGGTAAAAC
* * **
61254314 GGTAATTCTATAAATCGAGAATAAAAC
1 AGTAATTTTATAAATCGAGGGTAAAAC
* *
61254341 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTTTATAAATCGAGGGTA
61254364 CTTTGGTAAT
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (27 bp):
AGTAATTTTATAAATCGAGGGTAAAAC
Found at i:61254267 original size:54 final size:54
Alignment explanation
Indices: 61254209--61254363 Score: 157
Period size: 54 Copynumber: 2.9 Consensus size: 54
61254199 GTATTTTGGA
****
61254209 AATTTTGTAAACCAAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACAGT
1 AATTTTGTAAACCAAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACAGT
* ** * *
61254263 AATTTTTTAAGTCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGT
1 AATTTTGTAAACCAAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACAGT
* * * * ** * *
61254317 AATTCTATAAATCGAGAATAAAACGGTAATTCTATAAATCGAGGGTA
1 AATTTTGTAAACCAAGGGTAAAACAGTAATTTTATAAATCGAGGGTA
61254364 CTTTGGTAAT
Statistics
Matches: 83, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 83 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (54 bp):
AATTTTGTAAACCAAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACAGT
Found at i:61265807 original size:29 final size:29
Alignment explanation
Indices: 61265772--61265845 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
61265762 GTTGTGAGAT
* *
61265772 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
61265801 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
61265830 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61265846 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:61274168 original size:29 final size:29
Alignment explanation
Indices: 61274133--61274206 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
61274123 GTTGTGAGAT
* *
61274133 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
61274162 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
61274191 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
61274207 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:61281810 original size:22 final size:22
Alignment explanation
Indices: 61281785--61281827 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
61281775 TAAGTCATCC
61281785 TGTCTACAACATTGAGCCGTCT
1 TGTCTACAACATTGAGCCGTCT
** *
61281807 TGTCTACGGCGTTGAGCCGTC
1 TGTCTACAACATTGAGCCGTC
61281828 CTATTGACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.16, C:0.28, G:0.26, T:0.30
Consensus pattern (22 bp):
TGTCTACAACATTGAGCCGTCT
Found at i:61287322 original size:20 final size:20
Alignment explanation
Indices: 61287294--61287345 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
61287284 AAATAATTCA
*
61287294 ACACAAGCGTGTCCCTAAGC
1 ACACGAGCGTGTCCCTAAGC
*
61287314 ACACGAGCGTGTCCCTAAGT
1 ACACGAGCGTGTCCCTAAGC
*
61287334 ACACGGGCGTGT
1 ACACGAGCGTGT
61287346 GCTTTACCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.31, G:0.27, T:0.17
Consensus pattern (20 bp):
ACACGAGCGTGTCCCTAAGC
Found at i:61303556 original size:65 final size:65
Alignment explanation
Indices: 61303452--61303584 Score: 257
Period size: 65 Copynumber: 2.0 Consensus size: 65
61303442 ACTCAAGGAA
61303452 AGAAAACTTTCGTCTCTGCCTCTAAAAAGAGAAAAGGAGTGGCATCCTCCTCGGGTCCCCTACCG
1 AGAAAACTTTCGTCTCTGCCTCTAAAAAGAGAAAAGGAGTGGCATCCTCCTCGGGTCCCCTACCG
*
61303517 AGAAAACTTTCGTCTCTGCCTCTAAAAAGCGAAAAGGAGTGGCATCCTCCTCGGGTCCCCTACCG
1 AGAAAACTTTCGTCTCTGCCTCTAAAAAGAGAAAAGGAGTGGCATCCTCCTCGGGTCCCCTACCG
61303582 AGA
1 AGA
61303585 TATGACACCC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (65 bp):
AGAAAACTTTCGTCTCTGCCTCTAAAAAGAGAAAAGGAGTGGCATCCTCCTCGGGTCCCCTACCG
Found at i:61304730 original size:17 final size:17
Alignment explanation
Indices: 61304707--61304745 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
61304697 AGTCCATTTA
*
61304707 ATTTTCAATTTGTTTTT
1 ATTTTCAATTTATTTTT
* *
61304724 CTTTTCATTTTATTTTT
1 ATTTTCAATTTATTTTT
61304741 ATTTT
1 ATTTT
61304746 AGCATTTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTCAATTTATTTTT
Found at i:61310308 original size:20 final size:20
Alignment explanation
Indices: 61310283--61310335 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
61310273 ACGGGTGGGA
61310283 CACACGGGCGTGTCCCTAAG
1 CACACGGGCGTGTCCCTAAG
61310303 CACACGGGCGTGTCCCTAAG
1 CACACGGGCGTGTCCCTAAG
61310323 CACACGGGCGTGT
1 CACACGGGCGTGT
61310336 GCTTTGCCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.19, C:0.34, G:0.32, T:0.15
Consensus pattern (20 bp):
CACACGGGCGTGTCCCTAAG
Found at i:61310758 original size:18 final size:18
Alignment explanation
Indices: 61310730--61310793 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
61310720 TGGCCCATTA
* *
61310730 CAGTGACAGTAATTAGTG
1 CAGTAACAGTAATCAGTG
*
61310748 CAATAACAGTAATCAGTG
1 CAGTAACAGTAATCAGTG
* * *
61310766 TAGTAAAAGTAATCAATG
1 CAGTAACAGTAATCAGTG
61310784 CAGTAACAGT
1 CAGTAACAGT
61310794 TTAAACAGTA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (18 bp):
CAGTAACAGTAATCAGTG
Found at i:61310855 original size:22 final size:23
Alignment explanation
Indices: 61310816--61310858 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
61310806 TAAGTCCTAC
*
61310816 CCATCCAGCCTCTACACTCCACT
1 CCATCCAACCTCTACACTCCACT
61310839 CCATCCAACC-CTACACTCCA
1 CCATCCAACCTCTACACTCCA
61310859 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.26, C:0.53, G:0.02, T:0.19
Consensus pattern (23 bp):
CCATCCAACCTCTACACTCCACT
Found at i:61314815 original size:47 final size:44
Alignment explanation
Indices: 61314747--61314911 Score: 136
Period size: 47 Copynumber: 3.5 Consensus size: 44
61314737 CGTGTGAGCT
*
61314747 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATTACGAAAGC
1 AGTGTAAGACATGTCTGGGACATGCAT-GGCCACATTACGAAAGC
* **
61314792 GAGTGTAAGACCATGTCTGGGACATGGCAT--CAACATTGAGACGAGTGC
1 -AGTGTAAGA-CATGTCTGGGACAT-GCATGGCCACATT---ACGAAAGC
* * *
61314840 TAGTGTAGGACATGTTTGGGACATGCATTGGCCACATTATGAAAGAC
1 -AGTGTAAGACATGTCTGGGACATGCA-TGGCCACATTACGAAAG-C
* *
61314887 AGGGTAAGACTTTGTCTGGGACATG
1 AGTGTAAGAC-ATGTCTGGGACATG
61314912 GCTTCGGCAT
Statistics
Matches: 94, Mismatches: 15, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
45 6 0.06
46 24 0.26
47 40 0.43
48 18 0.19
49 6 0.06
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATGGCCACATTACGAAAGC
Found at i:61314905 original size:94 final size:94
Alignment explanation
Indices: 61314744--61314959 Score: 317
Period size: 94 Copynumber: 2.3 Consensus size: 94
61314734 ACTCGTGTGA
*
61314744 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTACGAAAGCGAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTACGAAAGCGAGGGTAAGACCATGTC
61314809 TGGGACATGGCATCAACATTGAGACGAGT
66 TGGGACATGGCATCAACATTGAGACGAGT
* * * **
61314838 GCTAGTGTAGGACATGTTTGGGACATGCATTGGCCACATTATGAAAGAC-AGGGTAAGACTTTGT
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTACGAAAG-CGAGGGTAAGACCATGT
* **
61314902 CTGGGACATGGCTTCGGCATTGAGACGAGT
65 CTGGGACATGGCATCAACATTGAGACGAGT
* *
61314932 GCTAGTGTAAGACATGTCTAGGACATGC
1 GCTAGTGTAAGACATGTTTGGGACATGC
61314960 GTCGATTATG
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
94 108 0.99
95 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTACGAAAGCGAGGGTAAGACCATGTC
TGGGACATGGCATCAACATTGAGACGAGT
Found at i:61314950 original size:47 final size:47
Alignment explanation
Indices: 61314793--61314958 Score: 137
Period size: 47 Copynumber: 3.5 Consensus size: 47
61314783 TACGAAAGCG
* **
61314793 AGTGTAAGACCATGTCTGGGACATGGCATCAACATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCTTCGGCATTGAGACGAGTGCT
* * * *
61314841 AGTGTAGGACATGTTTGGGACAT-GCATT-GGCCACATT-ATGA-AAG-AC-
1 AGTGTAAGACATGTCTGGGACATGGC-TTCGG---CATTGA-GACGAGTGCT
* *
61314887 AGGGTAAGACTTTGTCTGGGACATGGCTTCGGCATTGAGACGAGTGCT
1 AGTGTAAGAC-ATGTCTGGGACATGGCTTCGGCATTGAGACGAGTGCT
*
61314935 AGTGTAAGACATGTCTAGGACATG
1 AGTGTAAGACATGTCTGGGACATG
61314959 CGTCGATTAT
Statistics
Matches: 90, Mismatches: 16, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
45 6 0.07
46 13 0.14
47 41 0.46
48 24 0.27
49 6 0.07
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCTTCGGCATTGAGACGAGTGCT
Found at i:61314997 original size:94 final size:94
Alignment explanation
Indices: 61314744--61315014 Score: 260
Period size: 94 Copynumber: 2.9 Consensus size: 94
61314734 ACTCGTGTGA
* * * * *
61314744 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTACGAAAG-CGAGTG-TAAGACCATG
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGACCACATCATGAAAGAC-AG-GATAAGACCATG
61314807 TCTGGGACATGGCATCAACATTGAGACGAGT
64 TCTGGGACATGGCATCAACATTGAGACGAGT
* * * * * * * **
61314838 GCTAGTGTAGGACATGTTTGGGACATGCATTGGCCACATTATGAAAGACAGGGTAAGACTTTGTC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGACCACATCATGAAAGACAGGATAAGACCATGTC
* **
61314903 TGGGACATGGCTTCGGCATTGAGACGAGT
66 TGGGACATGGCATCAACATTGAGACGAGT
* ** * * * *
61314932 GCTAGTGTAAGACATGTCTAGGACATGCGTCGATTATGA-CATGACAGTCAGTATAAGACCATGT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGACCA-CATCATGAAAGACAGGATAAGACCATGT
* *
61314996 CTGAGAGATGGCATCAACA
65 CTGGGACATGGCATCAACA
61315015 CCTTACCCTA
Statistics
Matches: 145, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
93 1 0.01
94 142 0.98
95 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGACCACATCATGAAAGACAGGATAAGACCATGTC
TGGGACATGGCATCAACATTGAGACGAGT
Found at i:61317836 original size:93 final size:93
Alignment explanation
Indices: 61317724--61317895 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
61317714 CTCCCATAAG
* *
61317724 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
61317789 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
* *
61317817 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCGTCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
61317882 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
61317896 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:61317892 original size:46 final size:46
Alignment explanation
Indices: 61317717--61317892 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
61317707 TGTAACCCTC
* * *
61317717 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCGT
* *
61317763 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC--G-T
* * *
61317809 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCGT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCGT
* *
61317856 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
61317893 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 2 0.02
46 67 0.61
47 30 0.28
48 3 0.03
49 3 0.03
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCGT
Found at i:61324294 original size:55 final size:56
Alignment explanation
Indices: 61324157--61324358 Score: 213
Period size: 55 Copynumber: 3.7 Consensus size: 56
61324147 CCTTTTGAAG
* * * **
61324157 CTTACCATTGTCATGTCTCGACATGGTCTTACATATTATCCTTT-CCTTAT-G-AA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCTTATAGAAA
* * *
61324210 CTCACCAATGCCATG-CTTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGTC-TTGACATGGTCTTACATGGTATCCTTTGCCTTATAGAAA
* *
61324265 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATATCC-TTGCC-T-TAGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCTTATAGAAA
* *
61324318 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTAT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTAT
61324359 TCTTAAACCC
Statistics
Matches: 124, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
52 6 0.05
53 40 0.32
54 9 0.07
55 66 0.53
56 3 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (56 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTTGCCTTATAGAAA
Found at i:61324733 original size:30 final size:30
Alignment explanation
Indices: 61324699--61324757 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
61324689 TCCTTGACTC
*
61324699 AAACTTTGGCAAAATTACATTTTTACCCCT
1 AAACTTTGACAAAATTACATTTTTACCCCT
* * *
61324729 AAACTTTTACATATTTACATTTTTACCCC
1 AAACTTTGACAAAATTACATTTTTACCCC
61324758 AAGGCTCGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AAACTTTGACAAAATTACATTTTTACCCCT
Found at i:61328321 original size:46 final size:46
Alignment explanation
Indices: 61328271--61328399 Score: 168
Period size: 46 Copynumber: 2.8 Consensus size: 46
61328261 TGGTTGAGCA
* * *
61328271 TCCGAACTCGTTAAGTTGAGTTCGAGTTCACTTATGGATGCAAATT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACT
* *
61328317 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACT
* * * **
61328363 CCCGAGCTCGTTGACTTGAGTCCGAGTTTGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61328400 GCAGGTTACA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACT
Found at i:61333529 original size:22 final size:22
Alignment explanation
Indices: 61333481--61333529 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
61333471 GATTCATGCT
61333481 AAGA-GTTAGCACAACGCATAG
1 AAGAGGTTAGCACAACGCATAG
* * * *
61333502 ATGAGGTTTGCACAATGCATGG
1 AAGAGGTTAGCACAACGCATAG
61333524 AAGAGG
1 AAGAGG
61333530 ATGAAGATAG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.37, C:0.14, G:0.31, T:0.18
Consensus pattern (22 bp):
AAGAGGTTAGCACAACGCATAG
Found at i:61336060 original size:23 final size:24
Alignment explanation
Indices: 61336034--61336078 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
61336024 TTATTATGCC
61336034 AATTT-TATAAATAAAAAACAACA
1 AATTTATATAAATAAAAAACAACA
61336057 AATTTATATAAATAAAAAACAA
1 AATTTATATAAATAAAAAACAA
61336079 AATAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (24 bp):
AATTTATATAAATAAAAAACAACA
Found at i:61336090 original size:20 final size:24
Alignment explanation
Indices: 61336039--61336087 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
61336029 ATGCCAATTT
*
61336039 TATAAATAAAAAACAACAAATTTA
1 TATAAATAAAAAACAACAAATTAA
*
61336063 TATAAATAAAAAACAAAATAATTAA
1 TATAAATAAAAAACAACA-AATTAA
61336088 ATAGTATCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.24
Consensus pattern (24 bp):
TATAAATAAAAAACAACAAATTAA
Found at i:61354478 original size:33 final size:34
Alignment explanation
Indices: 61354436--61354508 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
61354426 GTATGCATTT
61354436 CTGATACTG-TACTAAAATGGGCTAAGGCCTACA
1 CTGATACTGTTACTAAAATGGGCTAAGGCCTACA
** * *
61354469 CTGATACTGTTACTGTATTGGGCTAAGGCTTACA
1 CTGATACTGTTACTAAAATGGGCTAAGGCCTACA
61354503 CTGATA
1 CTGATA
61354509 TTGCGACAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
33 9 0.26
34 26 0.74
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (34 bp):
CTGATACTGTTACTAAAATGGGCTAAGGCCTACA
Found at i:61354525 original size:34 final size:33
Alignment explanation
Indices: 61354452--61354532 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
61354442 CTGTACTAAA
** *
61354452 ATGGGCTAAGGCCTACACTGATACTGTTACTGT
1 ATGGGCTAAGGCCTACACTGATACTGCGACAGT
* *
61354485 ATTGGGCTAAGGCTTACACTGATATTGCGACAGAT
1 A-TGGGCTAAGGCCTACACTGATACTGCGACAG-T
*
61354520 ATGGGCTTAGGCC
1 ATGGGCTAAGGCC
61354533 CAGACTGTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
33 1 0.03
34 36 0.92
35 2 0.05
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (33 bp):
ATGGGCTAAGGCCTACACTGATACTGCGACAGT
Found at i:61355594 original size:22 final size:23
Alignment explanation
Indices: 61355569--61355628 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
61355559 TGGACTGAAT
61355569 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
61355591 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
61355613 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
61355629 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:61355596 original size:4 final size:4
Alignment explanation
Indices: 61355578--61355611 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
61355568 TATAAAAATT
61355578 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
61355612 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:61362064 original size:22 final size:23
Alignment explanation
Indices: 61362039--61362098 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
61362029 TGGACTGAAT
61362039 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
61362061 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
61362083 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
61362099 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:61362066 original size:4 final size:4
Alignment explanation
Indices: 61362048--61362081 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
61362038 TATAAAAATT
61362048 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
61362082 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:61363405 original size:42 final size:42
Alignment explanation
Indices: 61363358--61363449 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
61363348 TGACCCTTAG
* ** *
61363358 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
61363400 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
61363442 GCCCATTT
1 GCCCATTT
61363450 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:61363638 original size:26 final size:26
Alignment explanation
Indices: 61363594--61363717 Score: 198
Period size: 26 Copynumber: 4.8 Consensus size: 26
61363584 CCTCTTTAAT
*
61363594 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
61363619 AACTGGGGCATAAGCCCTTTTTC-GTA
1 AACTGGGGCATAAGCCC-TTTTCGGTA
**
61363645 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
61363671 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
61363697 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
61363718 GCACTTCCTC
Statistics
Matches: 92, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
25 14 0.15
26 73 0.79
27 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:61364601 original size:27 final size:27
Alignment explanation
Indices: 61364520--61364603 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
61364510 GGGCATATCC
* *
61364520 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
61364547 ATCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
*
61364574 GTCACTTTACCCTAGAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
61364601 GTC
1 GTC
61364604 TTTTTGCCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 50 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:61364695 original size:27 final size:27
Alignment explanation
Indices: 61364665--61364750 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
61364655 GTAAATCTAC
61364665 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
61364692 AAACCAATGGTATTTCCA-TAATTTT-T
1 AAACCAAGGGTATTT-CAGTAATTTTGT
* * *
61364718 AGAAAGTCAAGGGTATTTCTGTAACTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
61364748 AAA
1 AAA
61364751 TTAGGGGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.02
27 21 0.44
28 9 0.19
29 16 0.33
30 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:61364768 original size:27 final size:27
Alignment explanation
Indices: 61364752--61364858 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 27
61364742 CTTTGTAAAT
61364752 TAGGGGTATTTTGGTAATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * * *
61364778 TTGAGGGTATTTCGATAATTTCACAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* *
61364806 CAGTGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
61364833 TAGGGGTATTTTGGTAATTTTACAAA
1 TAGGGGTATTTTGGTAATTTTACAAA
61364859 TTGAGGGCAT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
26 2 0.03
27 64 0.96
28 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:61364870 original size:27 final size:27
Alignment explanation
Indices: 61364755--61364879 Score: 137
Period size: 27 Copynumber: 4.6 Consensus size: 27
61364745 TGTAAATTAG
61364755 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAATTGA
* * * **
61364782 GGGTATTTCGATAATTTCACAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATTGA
*
61364808 GTGGTATTTTGGTAATTTTACAAACT-A
1 G-GGTATTTTGGTAATTTTACAAATTGA
61364835 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTTACAAATTGA
* **
61364863 GGGCATTTCAGTAATTT
1 GGGTATTTTGGTAATTT
61364880 GGTAAACTAA
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.02
27 77 0.95
28 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATTGA
Found at i:61375299 original size:22 final size:21
Alignment explanation
Indices: 61375276--61375317 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
61375266 CAATGAAAGA
*
61375276 AAAAGGTGGACACCAATTTTG
1 AAAAGATGGACACCAATTTTG
*
61375297 -AAAGATGGGCACCAATTTTG
1 AAAAGATGGACACCAATTTTG
61375317 A
1 A
61375318 CTTATTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (21 bp):
AAAAGATGGACACCAATTTTG
Found at i:61379417 original size:18 final size:18
Alignment explanation
Indices: 61379394--61379431 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
61379384 CAGAGTACTG
61379394 TGATATTTTCAAAATTAA
1 TGATATTTTCAAAATTAA
61379412 TGATATTTTCAAAATTAA
1 TGATATTTTCAAAATTAA
61379430 TG
1 TG
61379432 GTGTTTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (18 bp):
TGATATTTTCAAAATTAA
Found at i:61385363 original size:28 final size:28
Alignment explanation
Indices: 61385284--61385364 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 28
61385274 CCCAATCTCT
* * *
61385284 TTCATATGGCCTATGAGGCCTAAATTACA
1 TTCATATGGCC-ATTAGGCCCAAATAACA
*
61385313 TTTATATGGCCCATTAGGCCCAAATAACA
1 TTCATATGG-CCATTAGGCCCAAATAACA
61385342 TTCATATGGCCATTAGGCCCAAA
1 TTCATATGGCCATTAGGCCCAAA
61385365 ACACATTTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 14 0.30
29 30 0.65
30 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (28 bp):
TTCATATGGCCATTAGGCCCAAATAACA
Found at i:61388180 original size:24 final size:22
Alignment explanation
Indices: 61388109--61388188 Score: 62
Period size: 24 Copynumber: 3.5 Consensus size: 22
61388099 AGTCCATCTC
61388109 TTTTATTTTCATTTC--A-TTTT
1 TTTTATTTT-ATTTCTTACTTTT
61388129 TTTTATTTT-TATTCTTACTTTCT
1 TTTTATTTTAT-TTCTTACTTT-T
61388152 TTTTAGTTTTATTTC-TATCTTTT
1 TTTTA-TTTTATTTCTTA-CTTTT
61388175 TGTTTATTGTTATT
1 T-TTTATT-TTATT
61388189 AAACTTCTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
18 1 0.02
19 3 0.06
20 9 0.18
21 1 0.02
22 3 0.06
23 12 0.24
24 20 0.40
25 1 0.02
ACGTcount: A:0.14, C:0.09, G:0.04, T:0.74
Consensus pattern (22 bp):
TTTTATTTTATTTCTTACTTTT
Found at i:61389657 original size:31 final size:31
Alignment explanation
Indices: 61389622--61389684 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
61389612 CCTTTTCATA
61389622 TTTCATATCTCATAACACTGGGCCGAAGCCT
1 TTTCATATCTCATAACACTGGGCCGAAGCCT
* * **
61389653 TTTCATGTTTCATATTACTGGGCCGAAGCCT
1 TTTCATATCTCATAACACTGGGCCGAAGCCT
61389684 T
1 T
61389685 CACTGTAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (31 bp):
TTTCATATCTCATAACACTGGGCCGAAGCCT
Found at i:61389921 original size:24 final size:25
Alignment explanation
Indices: 61389894--61389976 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 25
61389884 CTGGAGGCCT
*
61389894 AGCCTCTTTTAAT-AATTGGGGC-AA
1 AGCC-CTTTTAATAAACTGGGGCAAA
*
61389918 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTAATAAACTGGGGCAAA
** *
61389943 AGCCCTTTTCGGTAAACTGGGGC-AT
1 AGCCCTTTT-AATAAACTGGGGCAAA
61389968 AGCCCTTTT
1 AGCCCTTTT
61389977 TGCACTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 7 0.13
24 12 0.23
25 21 0.40
26 12 0.23
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCAAA
Found at i:61389949 original size:25 final size:25
Alignment explanation
Indices: 61389910--61389976 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
61389900 TTTTAATAAT
61389910 TGGGGCAAAGCCCTTTT-GATAAAC
1 TGGGGCAAAGCCCTTTTCGATAAAC
*
61389934 TGGGGCAAAAGCCCTTTTCGGTAAAC
1 TGGGGC-AAAGCCCTTTTCGATAAAC
*
61389960 TGGGGCATAGCCCTTTT
1 TGGGGCAAAGCCCTTTT
61389977 TGCACTTCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
24 6 0.15
25 21 0.54
26 12 0.31
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (25 bp):
TGGGGCAAAGCCCTTTTCGATAAAC
Found at i:61397812 original size:22 final size:22
Alignment explanation
Indices: 61397775--61397835 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
61397765 GATTCAAGCT
*
61397775 AAGA-GTTCACACAATGCATAG
1 AAGAGGTTCGCACAATGCATAG
* * *
61397796 ATGAGGTTTGCACAATGCATGG
1 AAGAGGTTCGCACAATGCATAG
61397818 AAGAGGTTCGCAC-ATGCA
1 AAGAGGTTCGCACAATGCA
61397836 CATGTTCAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 8 0.24
22 25 0.76
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.21
Consensus pattern (22 bp):
AAGAGGTTCGCACAATGCATAG
Found at i:61404421 original size:17 final size:18
Alignment explanation
Indices: 61404390--61404423 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
61404380 AATTGTTTTA
61404390 CTATATTACTTTATTTGT
1 CTATATTACTTTATTTGT
61404408 CTATATTA-TTTATTTG
1 CTATATTACTTTATTTG
61404424 AGATTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.62
Consensus pattern (18 bp):
CTATATTACTTTATTTGT
Found at i:61418371 original size:26 final size:27
Alignment explanation
Indices: 61418303--61418389 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
61418293 AAAACTATCG
* *
61418303 AAATACCCTCGATCTGTAAAATTACCA
1 AAATACCCTAGATTTGTAAAATTACCA
*
61418330 AAATACCCTTGATTTGTAAAATTACCA
1 AAATACCCTAGATTTGTAAAATTACCA
*
61418357 AAA-ACCCCTAG-TTTGTAAAATTACCG
1 AAATA-CCCTAGATTTGTAAAATTACCA
61418383 AAATACC
1 AAATACC
61418390 ATTATAGTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 20 0.37
27 34 0.63
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AAATACCCTAGATTTGTAAAATTACCA
Found at i:61418428 original size:53 final size:53
Alignment explanation
Indices: 61418318--61418430 Score: 122
Period size: 53 Copynumber: 2.1 Consensus size: 53
61418308 CCCTCGATCT
* * **
61418318 GTAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAAAACCCCTAGTTT
1 GTAAAATTACCAAAATACCATTGATGTGTAAAATTACCAAAAACCCCTAGTAG
* * * *
61418371 GTAAAATTACCGAAATACCATT-ATAGTGTAAAATTATCGACATACCCCT-GTAG
1 GTAAAATTACCAAAATACCATTGAT-GTGTAAAATTA-CCAAAAACCCCTAGTAG
61418424 GTAAAAT
1 GTAAAAT
61418431 GACTATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.04
53 39 0.78
54 9 0.18
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.29
Consensus pattern (53 bp):
GTAAAATTACCAAAATACCATTGATGTGTAAAATTACCAAAAACCCCTAGTAG
Found at i:61430742 original size:15 final size:16
Alignment explanation
Indices: 61430715--61430744 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
61430705 AGAGTACGAG
61430715 ATATGAGAATGTATAT
1 ATATGAGAATGTATAT
61430731 ATATGA-AATGTATA
1 ATATGAGAATGTATA
61430745 ATCTTTCCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (16 bp):
ATATGAGAATGTATAT
Found at i:61440003 original size:16 final size:17
Alignment explanation
Indices: 61439984--61440018 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
61439974 TTATTATGCC
61439984 AATTT-TATAAATAAAA
1 AATTTATATAAATAAAA
61440000 AATTTATATAAATAAAA
1 AATTTATATAAATAAAA
61440017 AA
1 AA
61440019 CAAATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AATTTATATAAATAAAA
Found at i:61440292 original size:15 final size:15
Alignment explanation
Indices: 61440269--61440307 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
61440259 ATTAAGCGGT
*
61440269 CGGGGTAGGTTTTGC
1 CGGGATAGGTTTTGC
61440284 CGGGATAGGTTTTGC
1 CGGGATAGGTTTTGC
61440299 CGGGATAGG
1 CGGGATAGG
61440308 GGCAGAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.46, T:0.28
Consensus pattern (15 bp):
CGGGATAGGTTTTGC
Found at i:61447214 original size:17 final size:17
Alignment explanation
Indices: 61447192--61447232 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
61447182 TTTTGAAATG
61447192 AAGAAA-GAGTAAAAAAA
1 AAGAAATGAGT-AAAAAA
*
61447209 AAGAAATTAGTAAAAAA
1 AAGAAATGAGTAAAAAA
61447226 AAGAAAT
1 AAGAAAT
61447233 TAAAACATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (17 bp):
AAGAAATGAGTAAAAAA
Found at i:61449619 original size:39 final size:40
Alignment explanation
Indices: 61449574--61449741 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
61449564 CGGGGTTTAG
* * *
61449574 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
61449613 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
61449653 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
61449693 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
61449734 CCGGATAT
1 CCGGATAT
61449742 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:61449724 original size:41 final size:40
Alignment explanation
Indices: 61449597--61449741 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
61449587 CTCGCACAAG
* * * * *
61449597 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
61449637 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
61449677 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
61449718 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
61449742 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:61457609 original size:39 final size:40
Alignment explanation
Indices: 61457564--61457731 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
61457554 CGGGGTTTAG
* * *
61457564 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
61457603 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
61457643 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
61457683 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
61457724 CCGGATAT
1 CCGGATAT
61457732 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:61457714 original size:41 final size:40
Alignment explanation
Indices: 61457587--61457731 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
61457577 CTCGCACAAG
* * * * *
61457587 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
61457627 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
61457667 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
61457708 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
61457732 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:61460755 original size:47 final size:47
Alignment explanation
Indices: 61460681--61460834 Score: 263
Period size: 47 Copynumber: 3.3 Consensus size: 47
61460671 TCCTTCGGGA
* *
61460681 CTTATCACATATATACACTTTCCCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
** *
61460728 CTTATCACATATATACACTTTCACATTCATCACATTTGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
61460775 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
61460822 CTTATCACATATA
1 CTTATCACATATA
61460835 CATATCTTGT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.30, C:0.30, G:0.06, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
Found at i:61462695 original size:13 final size:13
Alignment explanation
Indices: 61462677--61462701 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61462667 TACTAAATTT
61462677 TCATGGATTCAAA
1 TCATGGATTCAAA
61462690 TCATGGATTCAA
1 TCATGGATTCAA
61462702 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:61469785 original size:36 final size:36
Alignment explanation
Indices: 61469738--61469809 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
61469728 CTCAATTTTT
61469738 CCTTAAAACTCTCGATAATATTGAAGAATCTTGAAA
1 CCTTAAAACTCTCGATAATATTGAAGAATCTTGAAA
61469774 CCTTAAAACTCTCGATAATATTGAAGAATCTTGAAA
1 CCTTAAAACTCTCGATAATATTGAAGAATCTTGAAA
61469810 TTCATTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.31
Consensus pattern (36 bp):
CCTTAAAACTCTCGATAATATTGAAGAATCTTGAAA
Found at i:61481131 original size:25 final size:25
Alignment explanation
Indices: 61481103--61481150 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61481093 TTATAATATG
* *
61481103 AAAACGACCATTTTCCCCCTAGGTA
1 AAAACGACCATTATACCCCTAGGTA
*
61481128 AAAATGACCATTATACCCCTAGG
1 AAAACGACCATTATACCCCTAGG
61481151 GTTTATATAT
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:0.35, C:0.29, G:0.12, T:0.23
Consensus pattern (25 bp):
AAAACGACCATTATACCCCTAGGTA
Found at i:61481218 original size:16 final size:16
Alignment explanation
Indices: 61481197--61481229 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
61481187 ACATGGTATG
61481197 TATGATATGCACATGA
1 TATGATATGCACATGA
61481213 TATGATATGCACATGA
1 TATGATATGCACATGA
61481229 T
1 T
61481230 GTATTCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.33
Consensus pattern (16 bp):
TATGATATGCACATGA
Found at i:61481305 original size:24 final size:24
Alignment explanation
Indices: 61481278--61481447 Score: 243
Period size: 24 Copynumber: 7.0 Consensus size: 24
61481268 AGAGGAAGTG
61481278 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
61481302 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* **
61481326 TAAAAGGGCTTATGCCCCAACTATT
1 CAAAAGGGCTTATGCCCCAGTTA-T
*
61481351 AAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
61481375 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
61481399 CAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
61481423 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
61481448 ATGATAAAGC
Statistics
Matches: 132, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
24 100 0.76
25 32 0.24
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:61481369 original size:49 final size:48
Alignment explanation
Indices: 61481279--61481447 Score: 250
Period size: 49 Copynumber: 3.5 Consensus size: 48
61481269 GAGGAAGTGC
61481279 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** * *
61481327 AAAAGGGCTTATGCCCCAACTATTAAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTA-TCAAAAGGGCTTATGCCCCAGTTATT
*
61481376 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
61481424 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
61481448 ATGATAAAGC
Statistics
Matches: 108, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
48 53 0.49
49 55 0.51
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:61481398 original size:73 final size:73
Alignment explanation
Indices: 61481279--61481427 Score: 262
Period size: 73 Copynumber: 2.0 Consensus size: 73
61481269 GAGGAAGTGC
*
61481279 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
61481344 AACTATTA
66 AACTATTA
*
61481352 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTTGCCCC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
**
61481417 AGTTATTA
66 AACTATTA
61481425 AAA
1 AAA
61481428 GAGGCTAGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (73 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AACTATTA
Done.