Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 608 of 770
Found at i:190389620 original size:28 final size:28
Alignment explanation
Indices: 190389551--190389651 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
190389541 GACAAGATTG
* * * *
190389551 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
190389581 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
190389609 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
190389638 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
190389652 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:190397764 original size:20 final size:20
Alignment explanation
Indices: 190397724--190397764 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
190397714 ACATTTTCTA
* *
190397724 TAAATTTCAAAATTTTTCAT
1 TAAATTTCAAAACTTTACAT
*
190397744 TAAATTTCACAACTTTACAT
1 TAAATTTCAAAACTTTACAT
190397764 T
1 T
190397765 TTAGTCCTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (20 bp):
TAAATTTCAAAACTTTACAT
Found at i:190399394 original size:27 final size:28
Alignment explanation
Indices: 190399355--190399578 Score: 207
Period size: 27 Copynumber: 8.3 Consensus size: 28
190399345 CGTACCTAAA
*
190399355 CCCTTATGAGATAAATTGACTG-TTTTG
1 CCCTTATGAGATAAAATGACTGATTTTG
* **
190399382 CCCTTATGTGATAAAAT-AAAGATTTTG
1 CCCTTATGAGATAAAATGACTGATTTTG
* *
190399409 CCCTTATGAGGTAAAATGAC-GATTTTA
1 CCCTTATGAGATAAAATGACTGATTTTG
** *
190399436 CCCTTAT-ATGGCAAAATGACT-ATTTTT
1 CCCTTATGA-GATAAAATGACTGATTTTG
*
190399463 CCCTTAT-ATGATAAAATGA-TGATTTTT
1 CCCTTATGA-GATAAAATGACTGATTTTG
190399490 CCCTTATGAGATAAAATGAC-GATTTTG
1 CCCTTATGAGATAAAATGACTGATTTTG
* *
190399517 CCCTTATGAGGTAAAATGGC-GATTTTG
1 CCCTTATGAGATAAAATGACTGATTTTG
** * *
190399544 CATTTATAAGGTAAAATGACTG-TTTTG
1 CCCTTATGAGATAAAATGACTGATTTTG
*
190399571 CCCCTATG
1 CCCTTATG
190399579 TGATGTATGT
Statistics
Matches: 166, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.02
27 159 0.96
28 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (28 bp):
CCCTTATGAGATAAAATGACTGATTTTG
Found at i:190399533 original size:81 final size:81
Alignment explanation
Indices: 190399354--190399544 Score: 249
Period size: 81 Copynumber: 2.4 Consensus size: 81
190399344 GCGTACCTAA
* * * *
190399354 ACCCTTATGAGATAAATTGACTGTTTTGCCCTTATGTGATAAAATAAAGATTTTGCCCTTATGAG
1 ACCCTTATGAGGTAAAATGACTATTTTGCCCTTATATGATAAAATAAAGATTTTGCCCTTATGAG
*
190399419 GTAAAATGACGATTTT
66 ATAAAATGACGATTTT
* * * * *
190399435 ACCCTTAT-ATGGCAAAATGACTATTTTTCCCTTATATGATAAAATGATGATTTTTCCCTTATGA
1 ACCCTTATGA-GGTAAAATGACTATTTTGCCCTTATATGATAAAATAAAGATTTTGCCCTTATGA
190399499 GATAAAATGACGATTTT
65 GATAAAATGACGATTTT
* * *
190399516 GCCCTTATGAGGTAAAATGGCGATTTTGC
1 ACCCTTATGAGGTAAAATGACTATTTTGC
190399545 ATTTATAAGG
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 91 0.98
82 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (81 bp):
ACCCTTATGAGGTAAAATGACTATTTTGCCCTTATATGATAAAATAAAGATTTTGCCCTTATGAG
ATAAAATGACGATTTT
Found at i:190399931 original size:18 final size:18
Alignment explanation
Indices: 190399904--190399957 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
190399894 AGGATTTGCA
* *
190399904 TACTGTTTACTGTTACTT
1 TACTGATTACTGTTACTG
190399922 TACTGATTACTGTTACTG
1 TACTGATTACTGTTACTG
190399940 TACT-ATTTACTGTTACTG
1 TACTGA-TTACTGTTACTG
190399958 CAATGGGCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (18 bp):
TACTGATTACTGTTACTG
Found at i:190399943 original size:5 final size:6
Alignment explanation
Indices: 190399904--190399957 Score: 58
Period size: 6 Copynumber: 8.8 Consensus size: 6
190399894 AGGATTTGCA
*
190399904 TACTGTT TACTGT TACT-T TACTGAT TACTGT TACTG- TACTATT TACTGT
1 TACTG-T TACTGT TACTGT TACTG-T TACTGT TACTGT TACT-GT TACTGT
190399953 TACTG
1 TACTG
190399958 CAATGGGCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
5 9 0.22
6 17 0.41
7 15 0.37
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:190402842 original size:27 final size:28
Alignment explanation
Indices: 190402805--190402879 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 28
190402795 AGAGTATGTC
*
190402805 ACAAAGGCATTCCCTTCAAACTTTTCCA
1 ACAAAAGCATTCCCTTCAAACTTTTCCA
* * *
190402833 A-AAATGCATT-CCTTCTAGAGTTTTCCA
1 ACAAAAGCATTCCCTTC-AAACTTTTCCA
* *
190402860 ACAAAACCATTCCTTTCAAA
1 ACAAAAGCATTCCCTTCAAA
190402880 GTTTGCCACA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
26 5 0.14
27 18 0.49
28 10 0.27
29 4 0.11
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.31
Consensus pattern (28 bp):
ACAAAAGCATTCCCTTCAAACTTTTCCA
Found at i:190402882 original size:28 final size:26
Alignment explanation
Indices: 190402812--190402883 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 26
190402802 GTCACAAAGG
* **
190402812 CATTCCCTTCAAACTTTTCCAAAAATG
1 CATT-CCTTCAAAGTTTTCCAAAAAAC
*
190402839 CATTCCTTCTAGAGTTTTCCAACAAAAC
1 CATTCCTTC-AAAGTTTTCCAA-AAAAC
190402867 CATTCCTTTCAAAGTTT
1 CATTCC-TTCAAAGTTT
190402884 GCCACAACGA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
26 5 0.14
27 14 0.38
28 15 0.41
29 3 0.08
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.36
Consensus pattern (26 bp):
CATTCCTTCAAAGTTTTCCAAAAAAC
Found at i:190402957 original size:28 final size:28
Alignment explanation
Indices: 190402912--190402996 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
190402902 TAAGAGTCTA
*
190402912 CCACAAAGGCATTTCTTTTCATATATTG
1 CCACAAAGGCATTCCTTTTCATATATTG
** * * *
190402940 GTACAAAGGTATTCCTTTTCACATATTT
1 CCACAAAGGCATTCCTTTTCATATATTG
* *
190402968 CCACGAAGCCATTCCTTTTCATATATTG
1 CCACAAAGGCATTCCTTTTCATATATTG
190402996 C
1 C
190402997 AATGAAGAAA
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.39
Consensus pattern (28 bp):
CCACAAAGGCATTCCTTTTCATATATTG
Found at i:190403003 original size:28 final size:28
Alignment explanation
Indices: 190402950--190403015 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
190402940 GTACAAAGGT
* * **
190402950 ATTCCTTTTCACATATTTCCACGAAGCC
1 ATTCCTTTTCACATATTGCAACGAAGAA
* *
190402978 ATTCCTTTTCATATATTGCAATGAAGAA
1 ATTCCTTTTCACATATTGCAACGAAGAA
190403006 ATTCCTTTTC
1 ATTCCTTTTC
190403016 TAACGTGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (28 bp):
ATTCCTTTTCACATATTGCAACGAAGAA
Found at i:190406102 original size:40 final size:40
Alignment explanation
Indices: 190406008--190406152 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
190405998 TACTCGAATG
*
190406008 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
190406049 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
190406089 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
190406129 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
190406153 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.68
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:190414125 original size:40 final size:40
Alignment explanation
Indices: 190414031--190414175 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
190414021 TACTCGAATG
*
190414031 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
190414072 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
190414112 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
190414152 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
190414176 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.68
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:190419207 original size:39 final size:40
Alignment explanation
Indices: 190419115--190419289 Score: 270
Period size: 40 Copynumber: 4.5 Consensus size: 40
190419105 CGGATGATAA
*
190419115 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
190419155 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
190419194 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
190419233 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
190419273 CC-GGCTAA-ACCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
190419290 TACTTGGTTG
Statistics
Matches: 128, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
38 24 0.19
39 51 0.40
40 53 0.41
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:190419245 original size:78 final size:80
Alignment explanation
Indices: 190419115--190419289 Score: 270
Period size: 78 Copynumber: 2.2 Consensus size: 80
190419105 CGGATGATAA
**
190419115 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
*
190419180 TGCGAGTTA-CTAT-T
66 AGCGAG-TAGCTATAT
190419194 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
190419258 AGCGAGTAGCTATAT
66 AGCGAGTAGCTATAT
*
190419273 CC-GGCTAA-ACCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
190419290 TACTTGGTTG
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
77 10 0.11
78 56 0.62
79 24 0.27
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGTAGCTATAT
Found at i:190428778 original size:40 final size:40
Alignment explanation
Indices: 190428723--190428932 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
190428713 AACATTGGAA
190428723 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
190428763 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
190428803 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
190428843 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
190428882 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
190428923 CTATATCCGG
1 ATATATCCGG
190428933 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:190436913 original size:40 final size:40
Alignment explanation
Indices: 190436858--190437067 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
190436848 AACATTGGAA
190436858 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
190436898 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
190436938 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
190436978 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
190437017 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
190437058 CTATATCCGG
1 ATATATCCGG
190437068 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:190445367 original size:29 final size:29
Alignment explanation
Indices: 190445325--190445406 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
190445315 ATTATTTTTT
190445325 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
190445354 TTTCCAGCATGCACACTTAGTGCCATATA
1 TTTCCAGCATGCACACTTAGTGCCATATA
*
190445383 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCATGCACACTTAGTGCC
190445407 TATCTCGTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCATGCACACTTAGTGCCATATA
Found at i:190454820 original size:28 final size:28
Alignment explanation
Indices: 190454751--190454851 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
190454741 GACAAGATTG
* * * *
190454751 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
190454781 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
190454809 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
190454838 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
190454852 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:190462751 original size:28 final size:28
Alignment explanation
Indices: 190462682--190462782 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
190462672 GACAAGATTG
* * * *
190462682 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
190462712 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
190462740 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
190462769 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
190462783 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:190476196 original size:47 final size:47
Alignment explanation
Indices: 190476142--190476430 Score: 398
Period size: 47 Copynumber: 6.1 Consensus size: 47
190476132 TTAGGATTTT
** * *
190476142 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
190476189 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--TATATAT--GTGATAAGGCCGAATGGCCA
** *
190476240 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
190476287 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * *
190476334 ATGTGATGAATGTGAACATGCATATATGAGATAGGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
190476381 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
190476428 ATG
1 ATG
190476431 CGAAATGTGT
Statistics
Matches: 217, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
47 169 0.78
49 11 0.05
51 37 0.17
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:190476540 original size:46 final size:46
Alignment explanation
Indices: 190476404--190476540 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
190476394 GAACATGTAT
* *
190476404 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
190476450 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
190476496 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
190476541 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:190478615 original size:68 final size:67
Alignment explanation
Indices: 190478478--190478634 Score: 165
Period size: 68 Copynumber: 2.3 Consensus size: 67
190478468 TTAACTGTGA
* * * * * *
190478478 AATC-AACAGATTCGGACTGCTACATTTACTAAATAAAACAGCATATATGGTAGTGCATCGAACA
1 AATCTAACACATTC-GACAGCTACATTTACCAAATAAAACAACATAAATGATAGTGCATCGAACA
190478542 ATG
65 ATG
* * * *
190478545 AATTTAACACATTCAGACAGCTACATTTACCAAATAAAACAACATAAATGAT-GATGCTTTGAAT
1 AATCTAACACATTC-GACAGCTACATTTACCAAATAAAACAACATAAATGATAG-TGCATCGAAC
*
190478609 AGTG
64 AATG
190478613 AATCTAACACATTCGAACAGCT
1 AATCTAACACATTCG-ACAGCT
190478635 TAATTTTAAG
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
67 5 0.07
68 69 0.93
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (67 bp):
AATCTAACACATTCGACAGCTACATTTACCAAATAAAACAACATAAATGATAGTGCATCGAACAA
TG
Found at i:190480989 original size:25 final size:25
Alignment explanation
Indices: 190480961--190481008 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
190480951 TTATACCATG
* * *
190480961 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
190480986 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
190481009 GTTTATGTAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:190481111 original size:20 final size:20
Alignment explanation
Indices: 190481051--190481111 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
190481041 ATAAATATGG
*
190481051 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
190481071 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
190481091 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
190481111 T
1 T
190481112 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:190481188 original size:24 final size:24
Alignment explanation
Indices: 190481161--190481302 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
190481151 GAGGAAGTGA
190481161 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
190481185 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
190481209 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
190481232 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* *
190481256 GAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
190481279 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
190481303 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
23 41 0.37
24 62 0.56
25 8 0.07
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:190481299 original size:71 final size:71
Alignment explanation
Indices: 190481161--190481303 Score: 218
Period size: 71 Copynumber: 2.0 Consensus size: 71
190481151 GAGGAAGTGA
*
190481161 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTAGGCCCC
190481226 AGTTAT
66 AGTTAT
** *
190481232 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTAGGCC-
190481295 CCAGTTAT
64 CCAGTTAT
190481303 A
1 A
190481304 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
70 22 0.33
71 44 0.67
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTAGGCCCC
AGTTAT
Found at i:190481551 original size:30 final size:31
Alignment explanation
Indices: 190481517--190481580 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
190481507 CAGTAGTAAT
190481517 AAAAGGCTTCGG-CCAGTAATATGAAATATG
1 AAAAGGCTTCGGCCCAGTAATATGAAATATG
*
190481547 AAAAGGCTTCGGCCCAGTATTATGAAATATG
1 AAAAGGCTTCGGCCCAGTAATATGAAATATG
190481578 AAA
1 AAA
190481581 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTAATATGAAATATG
Found at i:190481570 original size:24 final size:24
Alignment explanation
Indices: 190481494--190481573 Score: 65
Period size: 24 Copynumber: 3.1 Consensus size: 24
190481484 CGTTTACAGT
*
190481494 AAAGGCTTCGGCCCAGTAGTAAT-A
1 AAAGGCTTCGGCCCAGTA-TTATGA
190481518 AAAGGCTTCGG-CCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAG---TAT----TATGA
190481548 AAAGGCTTCGGCCCAGTATTATGA
1 AAAGGCTTCGGCCCAGTATTATGA
190481572 AA
1 AA
190481574 TATGAAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 18
0.71 0.02 0.28
Matches are distributed among these distances:
23 4 0.09
24 18 0.39
25 1 0.02
26 2 0.04
28 3 0.07
29 2 0.04
30 12 0.26
31 4 0.09
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (24 bp):
AAAGGCTTCGGCCCAGTATTATGA
Found at i:190487581 original size:25 final size:25
Alignment explanation
Indices: 190487553--190487600 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
190487543 TTATACCATG
* * *
190487553 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
190487578 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
190487601 GTTTATGTAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:190487669 original size:20 final size:19
Alignment explanation
Indices: 190487644--190487705 Score: 81
Period size: 20 Copynumber: 3.3 Consensus size: 19
190487634 TAAATATGGT
*
190487644 ATGTATGAGATGCACATGA
1 ATGTATGATATGCACATGA
*
190487663 CATGTATGATATGCACACGA
1 -ATGTATGATATGCACATGA
*
190487683 TTGTATGATATGCACATG-
1 ATGTATGATATGCACATGA
190487701 ATGTA
1 ATGTA
190487706 ATCATAACTG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 4 0.11
19 16 0.43
20 17 0.46
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (19 bp):
ATGTATGATATGCACATGA
Found at i:190487820 original size:23 final size:24
Alignment explanation
Indices: 190487752--190487891 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
190487742 GAGGAAGTGA
190487752 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
190487776 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
190487800 AAAAGGGCTTATG-CCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
190487822 AAAAGGGCTTAT-CCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* *
190487845 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATC
*
190487869 AAAAGGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCC-CCAGTTAT
190487892 ATGATAAAGC
Statistics
Matches: 107, Mismatches: 3, Indels: 12
0.88 0.02 0.10
Matches are distributed among these distances:
22 22 0.21
23 22 0.21
24 63 0.59
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:190490195 original size:28 final size:28
Alignment explanation
Indices: 190490163--190490232 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
190490153 AATGAGATTG
190490163 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
190490191 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
190490219 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
190490233 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:190493002 original size:26 final size:26
Alignment explanation
Indices: 190492973--190493039 Score: 116
Period size: 26 Copynumber: 2.6 Consensus size: 26
190492963 AGTGTAAAAA
*
190492973 GCTTATGCCCTAGTTTACCGAAAAGG
1 GCTTATGCCCCAGTTTACCGAAAAGG
190492999 GCTTATGCCCCAGTTTACCGAAAAGG
1 GCTTATGCCCCAGTTTACCGAAAAGG
*
190493025 GCTTATACCCCAGTT
1 GCTTATGCCCCAGTT
190493040 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (26 bp):
GCTTATGCCCCAGTTTACCGAAAAGG
Found at i:190493330 original size:31 final size:32
Alignment explanation
Indices: 190493261--190493345 Score: 129
Period size: 32 Copynumber: 2.7 Consensus size: 32
190493251 CATTTACAGT
*
190493261 AAAGGTTTCGGCCCAGTAATATGAAATATGAA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGAA
*
190493293 AAAGGCTTCGGCCCAGTAATATGAGATATG-A
1 AAAGGCTTCGGCCCAGTAATATGAAATATGAA
*
190493324 AAAGGCTTCTGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTAATATG
190493346 TTGAGATTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
30 5 0.10
31 17 0.34
32 28 0.56
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (32 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGAA
Found at i:190494370 original size:2 final size:2
Alignment explanation
Indices: 190494363--190494389 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
190494353 TGATGCCTTG
190494363 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
190494390 CTAGATGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:190494702 original size:40 final size:40
Alignment explanation
Indices: 190494657--190494841 Score: 248
Period size: 40 Copynumber: 4.7 Consensus size: 40
190494647 ATGATGTGTA
* *
190494657 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTAGAATTG
1 TATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAATTG
* *
190494697 TATCCGGGTTTAAAGACCCACAGGCTATATGCTGGAGTTG
1 TATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAATTG
*
190494737 TATACGGGTTTAAAGACCCGCAGGCTATATGCTGGAATTG
1 TATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAATTG
* * * *
190494777 TATCCGGGTTTAAAGACCCACAGGCT-TCGTACTGGAATGG
1 TATCCGGGTTTAAAGACCCGCAGGCTAT-ATGCTGGAATTG
* *
190494817 AATCCGGG-TTAAAGACCCGTAGGCT
1 TATCCGGGTTTAAAGACCCGCAGGCT
190494842 CATGTTAGAA
Statistics
Matches: 129, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 16 0.12
40 113 0.88
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAATTG
Found at i:190502371 original size:40 final size:40
Alignment explanation
Indices: 190502327--190502469 Score: 243
Period size: 40 Copynumber: 3.6 Consensus size: 40
190502317 ATTTGATGTG
*
190502327 TGTATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
*
190502367 TGTATCCGGG-TTAAAGACCCGCAGGCTATATGCTGGAGT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
* *
190502406 TGTATCCGGATTTAAAGACCCGCAGACTATATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
190502446 TGTATCCGGGTTTAAAGACCCGCA
1 TGTATCCGGGTTTAAAGACCCGCA
190502470 AACTTCGTAC
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 37 0.38
40 60 0.62
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
Found at i:190502483 original size:40 final size:39
Alignment explanation
Indices: 190502327--190502504 Score: 223
Period size: 40 Copynumber: 4.5 Consensus size: 39
190502317 ATTTGATGTG
*
190502327 TGTATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAAT
1 TGTATCCGGG-TTAAAGACCCGCAGACTATATGCTGGAAT
* *
190502367 TGTATCCGGGTTAAAGACCCGCAGGCTATATGCTGGAGT
1 TGTATCCGGGTTAAAGACCCGCAGACTATATGCTGGAAT
*
190502406 TGTATCCGGATTTAAAGACCCGCAGACTATATGCTGGAAT
1 TGTATCCGG-GTTAAAGACCCGCAGACTATATGCTGGAAT
* * *
190502446 TGTATCCGGGTTTAAAGACCCGCAAACT-TCGTACTGGAAT
1 TGTATCCGGG-TTAAAGACCCGCAGACTAT-ATGCTGGAAT
* * *
190502486 GGAATCCGAGTTAAAGACC
1 TGTATCCGGGTTAAAGACC
190502505 TATAGGCTCG
Statistics
Matches: 124, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 47 0.38
40 77 0.62
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (39 bp):
TGTATCCGGGTTAAAGACCCGCAGACTATATGCTGGAAT
Found at i:190502500 original size:79 final size:79
Alignment explanation
Indices: 190502330--190502504 Score: 221
Period size: 79 Copynumber: 2.2 Consensus size: 79
190502320 TGATGTGTGT
* **
190502330 ATCCGG-GCTTAAAGACCCGCAGGCTATATGCTGGAATTGTATCCGGGTTAAAGACCCGCAGGCT
1 ATCCGGAG-TTAAAGACCCGCAGACTATATGCTGGAATTGTATCCGGGTTAAAGACCCGCAAACT
* * * *
190502394 ATATGCTGGAGTTGT
65 ATATACTGGAATGGA
*
190502409 ATCCGGATTTAAAGACCCGCAGACTATATGCTGGAATTGTATCCGGGTTTAAAGACCCGCAAACT
1 ATCCGGAGTTAAAGACCCGCAGACTATATGCTGGAATTGTATCCGGG-TTAAAGACCCGCAAACT
*
190502474 -TCGTACTGGAATGGA
65 AT-ATACTGGAATGGA
190502489 ATCC-GAGTTAAAGACC
1 ATCCGGAGTTAAAGACC
190502505 TATAGGCTCG
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 56 0.67
80 27 0.33
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
ATCCGGAGTTAAAGACCCGCAGACTATATGCTGGAATTGTATCCGGGTTAAAGACCCGCAAACTA
TATACTGGAATGGA
Found at i:190510262 original size:42 final size:42
Alignment explanation
Indices: 190510200--190510291 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
190510190 GAAATGGCTT
* * *
190510200 TGGCATCGATAAGTGATTTCGTATGAGACCATGTCTGGGACA
1 TGGCATCGATAAGAGATTTCGTATAAGACCATGTCTAGGACA
* * *
190510242 TGGCATCGATATGAGGTTTCGTATAAGACCATGTCTAGGCCA
1 TGGCATCGATAAGAGATTTCGTATAAGACCATGTCTAGGACA
190510284 TGGCATCG
1 TGGCATCG
190510292 GCACCAATTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (42 bp):
TGGCATCGATAAGAGATTTCGTATAAGACCATGTCTAGGACA
Found at i:190515168 original size:22 final size:22
Alignment explanation
Indices: 190515143--190515185 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
190515133 CACTAAGTCA
*
190515143 ACAGGATGGCTCAACGCTGTAG
1 ACAGGATGGCTAAACGCTGTAG
*
190515165 ACAGGATGGCTAAAGGCTGTA
1 ACAGGATGGCTAAACGCTGTA
190515186 ACTATCGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.19, G:0.33, T:0.19
Consensus pattern (22 bp):
ACAGGATGGCTAAACGCTGTAG
Found at i:190515245 original size:46 final size:46
Alignment explanation
Indices: 190515188--190515329 Score: 203
Period size: 46 Copynumber: 3.1 Consensus size: 46
190515178 AGGCTGTAAC
* * * * *
190515188 TATCGTAGCAACGCTGTCAGTTAATAGAACGGTTATAAGCCATAAG
1 TATCGCAGCAACGCTGCCAGTTAACAGAACAGCTATAAGCCATAAG
* **
190515234 TATCGCGGCAACGCTGCCAGTTAACAGAATTGCTATAAGCCATAAG
1 TATCGCAGCAACGCTGCCAGTTAACAGAACAGCTATAAGCCATAAG
*
190515280 TATCGCAGCAACGCTACCAGTTAACAGAACAGCTATAAGCCATAAG
1 TATCGCAGCAACGCTGCCAGTTAACAGAACAGCTATAAGCCATAAG
190515326 TATC
1 TATC
190515330 ACAGAAAGGC
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (46 bp):
TATCGCAGCAACGCTGCCAGTTAACAGAACAGCTATAAGCCATAAG
Found at i:190516791 original size:55 final size:53
Alignment explanation
Indices: 190516707--190516936 Score: 202
Period size: 55 Copynumber: 4.3 Consensus size: 53
190516697 AGAGTTTAAA
*
190516707 GATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGCAAG
* * * * * *
190516762 GATACCATGTAAGACAATGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAAT
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGG-CAAG
* * * * *
190516818 G-TCCCATGTATGACCATGCCAAGGCGTGGCATTGGTGAG-TTCATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGCAAG
* * * * *
190516870 GATACCATGTAAAACCATGTCGAGACATGGAAATGGTAAGTTTC-AA---AAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGCAAG
*
190516919 GATACCACGTAAGACCAT
1 GATACCATGTAAGACCAT
190516937 AACAAGTCAT
Statistics
Matches: 139, Mismatches: 30, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
49 19 0.14
52 6 0.04
53 36 0.26
54 11 0.08
55 64 0.46
56 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGCAAG
Found at i:190516910 original size:108 final size:110
Alignment explanation
Indices: 190516711--190516911 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
190516701 TTTAAAGATA
*
190516711 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAAA
* *
190516776 CAATGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAATGTC
66 CAATGTCAAGACATGGAAATGATAAGTTACTATAAGGAAAATGTC
* * *
190516821 CCATGTATGACCATGCCAAGGCGTGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAA
* * *
190516883 ACCATGTCGAGACATGGAAATGGTAAGTT
65 ACAATGTCAAGACATGGAAATGATAAGTT
190516912 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.57
109 7 0.09
110 25 0.31
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAAA
CAATGTCAAGACATGGAAATGATAAGTTACTATAAGGAAAATGTC
Found at i:190520650 original size:47 final size:47
Alignment explanation
Indices: 190520575--190520685 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
190520565 CCCCTCGGGA
* * *
190520575 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
190520622 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
190520669 CTTATCACATATATACA
1 CTTATCACTTATATACA
190520686 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:190520741 original size:46 final size:46
Alignment explanation
Indices: 190520689--190520916 Score: 429
Period size: 46 Copynumber: 5.0 Consensus size: 46
190520679 ATATACATCT
* * *
190520689 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
190520735 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
190520781 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
190520827 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
190520873 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
190520917 ATATTTAACT
Statistics
Matches: 179, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 179 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.34
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:190522696 original size:23 final size:23
Alignment explanation
Indices: 190522666--190522711 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
190522656 GATGAGAAGT
190522666 TTTTTTTTTTTTTTCTCATCACC
1 TTTTTTTTTTTTTTCTCATCACC
190522689 TTTTTTTTTTTTTTCTCATCACC
1 TTTTTTTTTTTTTTCTCATCACC
190522712 CCCCCTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.22, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTTTTTTTTTTTCTCATCACC
Found at i:190522720 original size:23 final size:23
Alignment explanation
Indices: 190522671--190522720 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
190522661 GAAGTTTTTT
*****
190522671 TTTTTTTTTCTCATCACCTTTTT
1 TTTTTTTTTCTCATCACCCCCCC
190522694 TTTTTTTTTCTCATCACCCCCCC
1 TTTTTTTTTCTCATCACCCCCCC
190522717 TTTT
1 TTTT
190522721 CATTTCTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.08, C:0.30, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTTTTTTCTCATCACCCCCCC
Found at i:190523684 original size:40 final size:40
Alignment explanation
Indices: 190523626--190523734 Score: 98
Period size: 39 Copynumber: 2.8 Consensus size: 40
190523616 GGATATAGCG
* * * *
190523626 ACTCACTCGATTGTCTTCGGGACATAGCCCGG-TTATAGTG
1 ACTCACACAATTGCCTTCGGGACATAGCCCGGATT-TAGTA
*
190523666 ATTCACACAATTGCCTTC-GGA-ATTAGCCCGGATTTAGTA
1 ACTCACACAATTGCCTTCGGGACA-TAGCCCGGATTTAGTA
* ** *
190523705 ACTCGCACAAAAGCCTTCGGGACTTAGCCC
1 ACTCACACAATTGCCTTCGGGACATAGCCC
190523735 AGATACCATT
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
38 1 0.02
39 29 0.53
40 25 0.45
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
ACTCACACAATTGCCTTCGGGACATAGCCCGGATTTAGTA
Found at i:190526361 original size:29 final size:29
Alignment explanation
Indices: 190526328--190526401 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
190526318 GTGACGAGAT
190526328 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
190526357 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
190526386 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
190526402 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:190526417 original size:29 final size:29
Alignment explanation
Indices: 190526385--190526460 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
190526375 CTGGAAATAT
* *
190526385 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
190526414 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
190526443 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
190526461 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:190526428 original size:58 final size:58
Alignment explanation
Indices: 190526328--190526460 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
190526318 GTGACGAGAT
* * * * * *
190526328 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
190526386 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
190526444 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
190526461 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:190534228 original size:29 final size:29
Alignment explanation
Indices: 190534195--190534268 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
190534185 GTGACGAGAT
190534195 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
190534224 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
190534253 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
190534269 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:190534284 original size:29 final size:29
Alignment explanation
Indices: 190534252--190534327 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
190534242 CTGGAAATAT
* *
190534252 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
190534281 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
190534310 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
190534328 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:190534295 original size:58 final size:58
Alignment explanation
Indices: 190534195--190534327 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
190534185 GTGACGAGAT
* * * * * *
190534195 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
190534253 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
190534311 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
190534328 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:190538615 original size:27 final size:28
Alignment explanation
Indices: 190538581--190538649 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
190538571 TACTCGATCA
* *
190538581 CGCACACTTAGTGCCATATATTC-AGCT
1 CGCACACTTAGTGCCATATAATCAAACT
*
190538608 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCCATATAATCAAACT
190538636 CGCACACTTAGTGC
1 CGCACACTTAGTGC
190538650 TGTACAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATAATCAAACT
Found at i:190540020 original size:18 final size:18
Alignment explanation
Indices: 190539988--190540025 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
190539978 TCCACACCCA
190539988 TTTTTTTTCATCATTATCTT
1 TTTTTTTTCA-CATT-TCTT
190540008 TTTTTTTTC-CATTTCTT
1 TTTTTTTTCACATTTCTT
190540025 T
1 T
190540026 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
20 9 0.50
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTTCACATTTCTT
Found at i:190546616 original size:27 final size:28
Alignment explanation
Indices: 190546582--190546650 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
190546572 TACTCGATCA
* *
190546582 CGCACACTTAGTGCCATATATTC-AGCT
1 CGCACACTTAGTGCCATATAATCAAACT
*
190546609 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCCATATAATCAAACT
190546637 CGCACACTTAGTGC
1 CGCACACTTAGTGC
190546651 TGTACAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATAATCAAACT
Found at i:190548021 original size:18 final size:18
Alignment explanation
Indices: 190547989--190548026 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
190547979 TCCACACCCA
190547989 TTTTTTTTCATCATTATCTT
1 TTTTTTTTCA-CATT-TCTT
190548009 TTTTTTTTC-CATTTCTT
1 TTTTTTTTCACATTTCTT
190548026 T
1 T
190548027 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 4 0.22
20 9 0.50
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTTCACATTTCTT
Found at i:190554028 original size:38 final size:39
Alignment explanation
Indices: 190553949--190554092 Score: 148
Period size: 40 Copynumber: 3.7 Consensus size: 39
190553939 CCGCACCAAG
* * * * * *
190553949 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCAC-AAT
190553989 GCCTTC-GGTCTTAGCCCGGAT-TAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCAC-AAT
* * *
190554027 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAA-T
* *
190554067 GCCTTCGGGTCTTAACCCGGTTATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
190554093 TTTCCAGCAT
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
38 19 0.22
39 30 0.34
40 39 0.44
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAT
Found at i:190555943 original size:40 final size:39
Alignment explanation
Indices: 190555778--190555961 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
190555768 AAATTGAATG
* * *
190555778 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
190555818 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
190555858 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
190555898 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
190555937 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
190555962 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:190555986 original size:80 final size:81
Alignment explanation
Indices: 190555818--190556006 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
190555808 GCTGGAAATT
* * * *
190555818 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
190555883 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
190555899 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
190555962 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
190555978 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
190556007 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:190562190 original size:3 final size:3
Alignment explanation
Indices: 190562176--190562210 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
190562166 AGAAATATAC
*
190562176 AAT AAT ATAT AAT AAT AAT TAT AAT AAT AAT AAT A
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A
190562211 TGAAAATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:190563815 original size:109 final size:108
Alignment explanation
Indices: 190563623--190563836 Score: 322
Period size: 109 Copynumber: 2.0 Consensus size: 108
190563613 TCCACTATAT
* * *
190563623 CTTGTAGCTTTGGTTCAATCCACTGTACCTTCTGACATATGCCTTGCAGCTTCGATCTTCTCTAA
1 CTTGTAGCTTTGGTTCAATCCACTGTACCTTCTGACATATGCCTTGCAACTTCAATCTACTCTAA
**
190563688 TGTAACTTCACTTGTATGAGATTTTGGGGCTTCGATCTGCTTCA
66 TGTAACTTCACAGGTATGAGA-TTTGGGGCTTCGATCTGCTTCA
* *
190563732 CTTGTAGCTTTGGTTCAATCCACTGTATCTTCTGACATATGCCTTGTAACTTCAATCTACTCTAA
1 CTTGTAGCTTTGGTTCAATCCACTGTACCTTCTGACATATGCCTTGCAACTTCAATCTACTCTAA
* *
190563797 TGTAACTTC-CAGGATATGAGATTTGTGTCTTCGATCTGCT
66 TGTAACTTCACAGG-TATGAGATTTGGGGCTTCGATCTGCT
190563837 CTTTTATCAC
Statistics
Matches: 95, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
108 19 0.20
109 76 0.80
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (108 bp):
CTTGTAGCTTTGGTTCAATCCACTGTACCTTCTGACATATGCCTTGCAACTTCAATCTACTCTAA
TGTAACTTCACAGGTATGAGATTTGGGGCTTCGATCTGCTTCA
Found at i:190564487 original size:72 final size:71
Alignment explanation
Indices: 190564251--190564504 Score: 251
Period size: 72 Copynumber: 3.5 Consensus size: 71
190564241 CGAAAATTAA
* * * *
190564251 AGGCTCAACTCACCTCTCGCAATATGAATTGA-CTTTTGAAGATAGAATTTGAAAATACCTTAGC
1 AGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTGAACATA-AA-TTGAAATTACCTCAGC
* *
190564315 GTGCCGCA
64 GTGCCCCG
* * * *
190564323 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTATAGATTT-AATAGAAATTGAAATTACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAATTGATT-T---TTTGAACATAAATTGAAATTACCTCA
190564387 GCGTGCCCCG
62 GCGTGCCCCG
* * * * *
190564397 AGGTTCAACTCACTTCTCGCGATATGAATTGATTTTTTGAAACATAAATTGAAATTACCTCAACA
1 AGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTG-AACATAAATTGAAATTACCTCAGCG
* **
190564462 TGTCTTG
65 TGCCCCG
**
190564469 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAATTGATTTT
190564505 CTTGGAAACA
Statistics
Matches: 151, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
70 3 0.02
72 86 0.57
73 1 0.01
74 52 0.34
75 2 0.01
76 4 0.03
77 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTGAACATAAATTGAAATTACCTCAGCGT
GCCCCG
Found at i:190564764 original size:70 final size:71
Alignment explanation
Indices: 190564530--190564944 Score: 621
Period size: 71 Copynumber: 5.9 Consensus size: 71
190564520 TAAAAAGCAG
* * *
190564530 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
190564595 AAACAT
66 AAACAT
*
190564601 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
190564665 ACAAACA-
66 --AAACAT
* * *
190564672 GAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACTTCTCGC-ATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
190564736 AAACAT
66 AAACAT
*
190564742 AAATTGAAATTACCTCAACGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
190564805 ACAAACA-
66 --AAACAT
* *
190564812 GAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
190564876 AAACAT
66 AAACAT
* *
190564882 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-TCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
190564945 CTTGGAAAAC
Statistics
Matches: 314, Mismatches: 19, Indels: 23
0.88 0.05 0.06
Matches are distributed among these distances:
69 37 0.12
70 126 0.40
71 142 0.45
72 9 0.03
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (71 bp):
AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
AAACAT
Found at i:190564811 original size:140 final size:141
Alignment explanation
Indices: 190564531--190565034 Score: 760
Period size: 140 Copynumber: 3.5 Consensus size: 141
190564521 AAAAAGCAGA
* *
190564531 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
190564596 AACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACATAAATTGAAATTACCTCAACGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
190564661 TTTGACAAACAG
130 TTTGACAAACAG
*
190564673 AATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACTTCTCGC-ATATGAGTTGATTTTTGA
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
190564737 AACATAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
66 AACATAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
190564802 TTGACAAACAG
131 TTGACAAACAG
190564813 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-A
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
* *
190564877 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
190564942 TTTCTTGGAAAACATGAATAAAAAGCAG
129 -TT-TT-G---AC--------AAA-CAG
* *
190564970 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 -AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
190565035 GAAAAAACAA
Statistics
Matches: 334, Mismatches: 8, Indels: 23
0.92 0.02 0.06
Matches are distributed among these distances:
140 123 0.37
141 94 0.28
142 43 0.13
143 2 0.01
144 2 0.01
145 1 0.00
148 2 0.01
156 3 0.01
157 3 0.01
158 61 0.18
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (141 bp):
AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTGACAAACAG
Found at i:190577265 original size:18 final size:19
Alignment explanation
Indices: 190577216--190577259 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
190577206 ATGTATTGAT
*
190577216 AATAAATGATAATAATATAA
1 AATAAATG-TAAAAATATAA
190577236 AATAAATGTAAAAATAT-A
1 AATAAATGTAAAAATATAA
190577254 AATAAA
1 AATAAA
190577260 ATTAAAGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
19 8 0.35
20 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
AATAAATGTAAAAATATAA
Found at i:190577920 original size:25 final size:25
Alignment explanation
Indices: 190577896--190577943 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
190577886 ATGTGGAATA
*
190577896 ATGTATAGAATACA-ATATTAAAAT
1 ATGTACAGAATACACATATTAAAAT
* *
190577920 ATTTACATAATACACATATTAAAA
1 ATGTACAGAATACACATATTAAAA
190577944 ATAACTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (25 bp):
ATGTACAGAATACACATATTAAAAT
Found at i:190577954 original size:25 final size:24
Alignment explanation
Indices: 190577904--190577956 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
190577894 TAATGTATAG
**
190577904 AATACAATATTAAAATATTTACAT
1 AATACAATATTAAAATAACTACAT
190577928 AATACACATATTAAAAATAACTA-AT
1 AATACA-ATATT-AAAATAACTACAT
190577953 AATA
1 AATA
190577957 ATATTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 11 0.44
26 8 0.32
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.32
Consensus pattern (24 bp):
AATACAATATTAAAATAACTACAT
Found at i:190579869 original size:13 final size:13
Alignment explanation
Indices: 190579851--190579875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
190579841 TTTGAAACAT
190579851 AGAAATTAAAAGC
1 AGAAATTAAAAGC
190579864 AGAAATTAAAAG
1 AGAAATTAAAAG
190579876 GCTCAACTCA
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:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAAGC
Found at i:190579952 original size:68 final size:66
Alignment explanation
Indices: 190579866--190580063 Score: 281
Period size: 67 Copynumber: 2.9 Consensus size: 66
190579856 TTAAAAGCAG
* *
190579866 AAATTAAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAA
1 AAATT-AAAGGCTCAACTCACCTCTCGCAATATGAGTTAAT--TTTGAAAAGTAGATTTTGAAAA
190579931 ACGA
63 ACGA
* *
190579935 AAATTAAAGGCTTAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTAGATTTTGAAAAAC
1 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAAT-TTTGAAAAGTAGATTTTGAAAAAC
190580000 GA
65 GA
* * *
190580002 AAATTAAAGGCTCAACTCACCTTTCGCAATATGAATTAACTTTTGAAAA-TAGAATTTGAAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAA-TTTTGAAAAGTAGATTTTGAAAA
190580064 TACCTTAGCG
Statistics
Matches: 118, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
66 12 0.10
67 68 0.58
68 33 0.28
69 5 0.04
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (66 bp):
AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTGAAAAGTAGATTTTGAAAAACG
A
Found at i:190580006 original size:67 final size:66
Alignment explanation
Indices: 190579822--190580063 Score: 274
Period size: 67 Copynumber: 3.6 Consensus size: 66
190579812 CAACATATTC
* * * *
190579822 CTCGCAATATGGGTTGATTTTTGAAACATAGAAATT-AAAAGC-AGAAATTAAAAGGCTCAACTC
1 CTCGCAATATGAGTTGATCTTTGAAA-ATAGAATTTGAAAAACGA-AAATT-AAAGGCTCAACTC
190579885 ACCT
63 ACCT
* * * * * *
190579889 CTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAAACGAAAATTAAAGGCTTAACTCA
1 CTCGCAATATGAGTTGAT-CTTTGAAAA-TAGAATTTGAAAAACGAAAATTAAAGGCTCAACTCA
190579954 CCT
64 CCT
*
190579957 CTCGCAATATGAGTTGATCTTTGAAAAGTAGATTTTGAAAAACGAAAATTAAAGGCTCAACTCAC
1 CTCGCAATATGAGTTGATCTTTGAAAA-TAGAATTTGAAAAACGAAAATTAAAGGCTCAACTCAC
190580022 CT
65 CT
* * *
190580024 TTCGCAATATGAATT-AACTTTTGAAAATAGAATTTGAAAA
1 CTCGCAATATGAGTTGATC-TTTGAAAATAGAATTTGAAAA
190580064 TACCTTAGCG
Statistics
Matches: 152, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
66 14 0.09
67 83 0.55
68 45 0.30
69 9 0.06
70 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (66 bp):
CTCGCAATATGAGTTGATCTTTGAAAATAGAATTTGAAAAACGAAAATTAAAGGCTCAACTCACC
T
Found at i:190580163 original size:74 final size:71
Alignment explanation
Indices: 190580009--190580261 Score: 287
Period size: 71 Copynumber: 3.5 Consensus size: 71
190579999 CGAAAATTAA
* * * *
190580009 AGGCTCAACTCACCTT-TCGCAATATGAATTAACTTTT-GAAAATAGAATTTGAAAATACCTTAG
1 AGGCTCAACTCA-CTTCTCGCAATATGAGTTGA-TTTTAGAAAATAGAA-TTGAAATTACCTCAG
* *
190580072 CGTGCCGCA
63 CGTGCCCCG
*
190580081 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGA--AAATA-GAATTGAAATTACCTCAG
190580146 CGTGCCCCG
63 CGTGCCCCG
* * * *
190580155 AGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA-AATTGAAATTACCTCAACG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGAAA-ATAGAATTGAAATTACCTCAGCG
* **
190580219 TGTCTTG
65 TGCCCCG
*
190580226 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
190580262 CTTGGAAACA
Statistics
Matches: 157, Mismatches: 18, Indels: 13
0.84 0.10 0.07
Matches are distributed among these distances:
71 62 0.39
72 29 0.18
73 3 0.02
74 60 0.38
75 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (71 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGAAAATAGAATTGAAATTACCTCAGCGT
GCCCCG
Found at i:190580245 original size:71 final size:71
Alignment explanation
Indices: 190580009--190580261 Score: 292
Period size: 74 Copynumber: 3.5 Consensus size: 71
190579999 CGAAAATTAA
* * * * * *
190580009 AGGCTCAACTCACCTTTCGCAATATGAATTAACTTTTGAAAATAGAATTTGAAAATACCTTAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAA-TTGAAATTACCTCAGCG
* *
190580074 TGCCGCA
65 TGCCCCG
* * *
190580081 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA--AAATA-GAATTGAAATTACCTCAG
190580146 CGTGCCCCG
63 CGTGCCCCG
* * * *
190580155 AGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATA-AATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ATAGAATTGAAATTACCTCAGCG
* **
190580219 TGTCTTG
65 TGCCCCG
190580226 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
190580262 CTTGGAAACA
Statistics
Matches: 155, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
71 55 0.35
72 34 0.22
73 3 0.02
74 60 0.39
75 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAGAATTGAAATTACCTCAGCGT
GCCCCG
Found at i:190580403 original size:71 final size:71
Alignment explanation
Indices: 190580287--190580580 Score: 228
Period size: 71 Copynumber: 3.9 Consensus size: 71
190580277 TAAAAAGCAG
* * *
190580287 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
190580352 AAACAT
66 AAACAT
* * *
190580358 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTT-T
190580423 TGGAAAACAT
64 T-G-AAACAT
* * ** * ** * * * * *
190580433 GAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATA
1 AAATTGAAAA-T---ACCTCAACGTGCC-CTGAG-G--CTCA-ACTC-A--C-C-TCTCGCAATA
*
190580498 TGAGTTGATTTTTGAAACAT
52 TGAGCTGATTTTTGAAACAT
* * *
190580518 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
190580581 CTTGGAAAAC
Statistics
Matches: 167, Mismatches: 38, Indels: 36
0.69 0.16 0.15
Matches are distributed among these distances:
71 74 0.44
72 4 0.02
73 3 0.02
74 1 0.01
75 14 0.08
76 4 0.02
77 3 0.02
79 7 0.04
80 4 0.02
81 7 0.04
83 3 0.02
84 4 0.02
85 14 0.08
86 1 0.01
87 3 0.02
88 4 0.02
89 17 0.10
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:190580521 original size:160 final size:160
Alignment explanation
Indices: 190580129--190580671 Score: 1007
Period size: 160 Copynumber: 3.4 Consensus size: 160
190580119 ATTTAATAGG
* * * *
190580129 AATTGAAATTACCTCAGCGTGCCCCGAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
190580194 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
* *
190580259 TTTCTTGG-AAACATGAACTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGTAGA
190580288 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
190580353 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
190580418 TTTCTTGGAAAACATGAATTAAAAAGTAGA
131 TTTCTTGGAAAACATGAATTAAAAAGTAGA
190580448 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
190580513 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
190580578 TTTCTTGGAAAACATGAATTAAAAAGTAGA
131 TTTCTTGGAAAACATGAATTAAAAAGTAGA
*
190580608 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCGATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
190580672 GAAAAAACAA
Statistics
Matches: 375, Mismatches: 8, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
159 133 0.35
160 242 0.65
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (160 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAATTAAAAAGTAGA
Found at i:190593325 original size:2 final size:2
Alignment explanation
Indices: 190593318--190593355 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
190593308 CACATTGGAA
*
190593318 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
190593356 ACACTCAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:190593522 original size:25 final size:25
Alignment explanation
Indices: 190593498--190593545 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
190593488 ATGTGGAATA
*
190593498 ATGTATAGAATACA-ATATTAAAAT
1 ATGTACAGAATACACATATTAAAAT
* *
190593522 ATTTACATAATACACATATTAAAA
1 ATGTACAGAATACACATATTAAAA
190593546 ATAACTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (25 bp):
ATGTACAGAATACACATATTAAAAT
Found at i:190593556 original size:25 final size:24
Alignment explanation
Indices: 190593506--190593558 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
190593496 TAATGTATAG
**
190593506 AATACAATATTAAAATATTTACAT
1 AATACAATATTAAAATAACTACAT
190593530 AATACACATATTAAAAATAACTA-AT
1 AATACA-ATATT-AAAATAACTACAT
190593555 AATA
1 AATA
190593559 ATATTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 11 0.44
26 8 0.32
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.32
Consensus pattern (24 bp):
AATACAATATTAAAATAACTACAT
Found at i:190594340 original size:25 final size:25
Alignment explanation
Indices: 190594292--190594340 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
190594282 AAAGGTAATT
* * *
190594292 TTTTTATTTTTTTCTCTTTTTTTGC
1 TTTTTATTTCTTTATCTTTATTTGC
*
190594317 TTTTTATTTCTTTATGTTTATTTG
1 TTTTTATTTCTTTATCTTTATTTG
190594341 TAAATGTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.08, C:0.08, G:0.06, T:0.78
Consensus pattern (25 bp):
TTTTTATTTCTTTATCTTTATTTGC
Found at i:190595158 original size:3 final size:3
Alignment explanation
Indices: 190595152--190595199 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
190595142 AAAAAATTAC
* * *
190595152 TAA TAA TAG TAA TAA TAA TAC TAA TAA TAA TAGA T-A TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
190595197 TAA
1 TAA
190595200 GAACGTATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:190598040 original size:40 final size:40
Alignment explanation
Indices: 190597940--190598129 Score: 287
Period size: 39 Copynumber: 4.8 Consensus size: 40
190597930 CGGATGATAA
* *
190597940 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
190597980 TCGGGCTAAG-CCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
190598019 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
190598059 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
190598098 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
190598130 AGTTATATCC
Statistics
Matches: 137, Mismatches: 10, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
39 70 0.51
40 67 0.49
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:190598074 original size:79 final size:79
Alignment explanation
Indices: 190597936--190598122 Score: 304
Period size: 79 Copynumber: 2.4 Consensus size: 79
190597926 TATTCGGATG
* *
190597936 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
190598001 TCGTGCGAGTTACT
66 TCGTGCGAGTTACT
* * *
190598015 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATATCCGGGCTAAGTCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAAT-TCCGGGCTAAGCCCGAAGGCA
*
190598079 TTTGTGCGAGTTACT
65 TTCGTGCGAGTTACT
190598094 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
190598123 AGCGAGTAGT
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
78 2 0.02
79 98 0.98
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
TCGTGCGAGTTACT
Found at i:190606273 original size:40 final size:40
Alignment explanation
Indices: 190606173--190606363 Score: 287
Period size: 40 Copynumber: 4.8 Consensus size: 40
190606163 CGGATGATAA
* *
190606173 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
190606213 TCGGGCTAAG-CCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
190606252 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
190606292 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
190606332 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
190606364 AGTTATATCC
Statistics
Matches: 137, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 33 0.24
40 104 0.76
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:190612107 original size:29 final size:29
Alignment explanation
Indices: 190612043--190612108 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
190612033 ATTTCATTTA
* *
190612043 TTTCACAATTTAACCTCTCAATTTACACT
1 TTTCTCAATTTAACCTCTCAATATACACT
*
190612072 TTTCTCAATTTAATCC-CT-AATATACATT
1 TTTCTCAATTTAA-CCTCTCAATATACACT
190612100 TTTACTCAA
1 TTT-CTCAA
190612109 AATCACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 11 0.34
29 19 0.59
30 2 0.06
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (29 bp):
TTTCTCAATTTAACCTCTCAATATACACT
Found at i:190617720 original size:29 final size:29
Alignment explanation
Indices: 190617550--190617708 Score: 207
Period size: 29 Copynumber: 5.5 Consensus size: 29
190617540 GACAAGATTG
* * * * *
190617550 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
* *
190617580 GCACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATATATA
190617608 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
190617637 GCACTAAGT-TGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
190617666 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
190617695 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
190617709 GATTCACTAT
Statistics
Matches: 117, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 33 0.28
29 52 0.44
30 28 0.24
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:190625492 original size:30 final size:30
Alignment explanation
Indices: 190625456--190625615 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
190625446 GACAAGATTG
* * * * *
190625456 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
190625486 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
190625514 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
190625543 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
190625573 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
190625602 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
190625616 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:190625583 original size:59 final size:57
Alignment explanation
Indices: 190625456--190625615 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
190625446 GACAAGATTG
* * * * * *
190625456 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
190625514 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
190625573 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
190625616 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:190629015 original size:29 final size:29
Alignment explanation
Indices: 190628973--190629056 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 29
190628963 TGCCGTATTT
**
190628973 TTTCCAGCTTGCACACTTAGTGCCAAATA
1 TTTCCAGCACGCACACTTAGTGCCAAATA
*
190629002 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCAAATA
190629031 TTTCCAGCACGCACACTTAGTGCCAA
1 TTTCCAGCACGCACACTTAGTGCCAA
190629057 TCTCGACACC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.27
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCAAATA
Found at i:190635426 original size:40 final size:40
Alignment explanation
Indices: 190635353--190635535 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
190635343 CCGCACCAAG
* * * * *
190635353 GCCTACGGGACTTA-CCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
190635392 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
190635432 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
190635472 GCCTTCGGGTCTTAACCCGGATAT-A-AA-TTTCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCA-CA-AA-T
* *
190635512 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
190635536 CATTCAATTT
Statistics
Matches: 118, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 13 0.11
40 99 0.84
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:190637640 original size:48 final size:48
Alignment explanation
Indices: 190637557--190637793 Score: 271
Period size: 48 Copynumber: 4.9 Consensus size: 48
190637547 ACATTTGGGT
* * * * *
190637557 GATATGTGTGCCAGTGTAAGTCCATGTCTGGGACATGGCATCAGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
* * *
190637605 GATAGGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
* * *
190637653 -ATTATGAGAGCCAGTGTAAGACCATCTCTGGGACATGGCATCGG-CATT
1 GA-TATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-C
* * * *
190637701 GAGACGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
* * * *
190637749 AACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGC
190637794 AATTCACCCT
Statistics
Matches: 158, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
47 3 0.02
48 153 0.97
49 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
Found at i:190637730 original size:96 final size:95
Alignment explanation
Indices: 190637566--190637794 Score: 323
Period size: 96 Copynumber: 2.4 Consensus size: 95
190637556 TGATATGTGT
* * * *
190637566 GCCAGTGTAAGTCCATGTCTGGGACATGGCATCAGCCACGATAGGAGAGCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCACGAGACGAGAGCTAGTGTAAGACCATG
* **
190637631 TTTGGGACATGGCATTGGCCACATTATGAGA
65 TTTGGGACATGGCATCGGCCACAACATGAGA
* *
190637662 GCCAGTGTAAGACCATCTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGAGACGAGAGCTAGTGTAAGACCATG
* *
190637727 TTTGGGACATGGCATCGGCCTCAACATGTGA
65 TTTGGGACATGGCATCGGCCACAACATGAGA
* *
190637758 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
190637795 ATTCACCCTC
Statistics
Matches: 118, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
95 3 0.03
96 115 0.97
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (95 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAGACGAGAGCTAGTGTAAGACCATGT
TTGGGACATGGCATCGGCCACAACATGAGA
Found at i:190641340 original size:46 final size:45
Alignment explanation
Indices: 190641287--190641462 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
190641277 TATTTGGGCA
190641287 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
190641333 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
190641380 TCCTAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
190641426 CCCGAGCTTGTTGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
190641463 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.62
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:190641442 original size:93 final size:93
Alignment explanation
Indices: 190641283--190641454 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
190641273 AGGATATTTG
* *
190641283 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
190641348 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
* * * * *
190641376 GGCATCCTAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
190641441 TTGAGTCCAAGTTC
66 TTGAGTCCAAGTTC
190641455 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:190649394 original size:20 final size:21
Alignment explanation
Indices: 190649328--190649396 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
190649318 TCACTTCGTT
190649328 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
190649349 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
190649370 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
190649391 -CTTTTT
1 TCTTTTT
190649397 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:190651795 original size:18 final size:18
Alignment explanation
Indices: 190651762--190651855 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
190651752 AAGGTTTTCT
190651762 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
190651777 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
190651795 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
190651813 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
190651831 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
190651849 TATTGAT
1 TATTGAT
190651856 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:190654235 original size:41 final size:41
Alignment explanation
Indices: 190654175--190654369 Score: 278
Period size: 41 Copynumber: 4.9 Consensus size: 41
190654165 TTCGCCCTAT
* * *
190654175 GAGCATTAGCGGCGTTTTCTGTAAAACACCGCTAAAAGCCA
1 GAGCATTAGCGGCGCTTTCAGTAAAACGCCGCTAAAAGCCA
* *
190654216 GAGCATTAGCGGCGCTTTCTGTAAAACGCCGCTAAAAGCAA
1 GAGCATTAGCGGCGCTTTCAGTAAAACGCCGCTAAAAGCCA
190654257 GAGCATTAGCGGCGCTTTCAGTAAAACGCCGCT--AA---A
1 GAGCATTAGCGGCGCTTTCAGTAAAACGCCGCTAAAAGCCA
*
190654293 -AGCATTAGCGGCACTTT-AGGTAAAACGCCGCTAAAAGCCA
1 GAGCATTAGCGGCGCTTTCA-GTAAAACGCCGCTAAAAGCCA
190654333 GAGCATTAGCGGCGCTTTCAGTAAAACGCCGCTAAAA
1 GAGCATTAGCGGCGCTTTCAGTAAAACGCCGCTAAAA
190654370 ATCTCATAAC
Statistics
Matches: 140, Mismatches: 6, Indels: 16
0.86 0.04 0.10
Matches are distributed among these distances:
34 1 0.01
35 29 0.21
36 1 0.01
37 2 0.01
39 2 0.01
40 1 0.01
41 103 0.74
42 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTTCAGTAAAACGCCGCTAAAAGCCA
Found at i:190654336 original size:76 final size:76
Alignment explanation
Indices: 190654175--190654369 Score: 273
Period size: 76 Copynumber: 2.5 Consensus size: 76
190654165 TTCGCCCTAT
* * * * **
190654175 GAGCATTAGCGGCGTTTTCTGTAAAACACCGCTAAAAGCCAGAGCATTAGCGGCGCTTTCTGTAA
1 GAGCATTAGCGGCGCTTTCAGTAAAACGCCGCT--AA---A-AGCATTAGCGGCACTTTAGGTAA
190654240 AACGCCGCTAAAAGCAA
60 AACGCCGCTAAAAGCAA
190654257 GAGCATTAGCGGCGCTTTCAGTAAAACGCCGCTAAAAGCATTAGCGGCACTTTAGGTAAAACGCC
1 GAGCATTAGCGGCGCTTTCAGTAAAACGCCGCTAAAAGCATTAGCGGCACTTTAGGTAAAACGCC
*
190654322 GCTAAAAGCCA
66 GCTAAAAGCAA
190654333 GAGCATTAGCGGCGCTTTCAGTAAAACGCCGCTAAAA
1 GAGCATTAGCGGCGCTTTCAGTAAAACGCCGCTAAAA
190654370 ATCTCATAAC
Statistics
Matches: 106, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
76 73 0.69
77 1 0.01
80 2 0.02
82 30 0.28
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (76 bp):
GAGCATTAGCGGCGCTTTCAGTAAAACGCCGCTAAAAGCATTAGCGGCACTTTAGGTAAAACGCC
GCTAAAAGCAA
Found at i:190655407 original size:15 final size:15
Alignment explanation
Indices: 190655389--190655420 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
190655379 ATTAATTTAG
*
190655389 AAGATAAATGTATAT
1 AAGATAAATATATAT
190655404 AAGATAAATATATAT
1 AAGATAAATATATAT
190655419 AA
1 AA
190655421 AATATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:190655459 original size:24 final size:24
Alignment explanation
Indices: 190655392--190655459 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
190655382 AATTTAGAAG
* *
190655392 ATAAATGTATATAAGATAAATATAT
1 ATAAATATATATATGA-AAATATAT
* *
190655417 ATAAA-ATATTATTTTAAAATATAT
1 ATAAATATA-TATATGAAAATATAT
190655441 ATAAATATATATATGAAAA
1 ATAAATATATATATGAAAA
190655460 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAAATATATATATGAAAATATAT
Found at i:190659992 original size:15 final size:15
Alignment explanation
Indices: 190659948--190660003 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
190659938 AACGACATGT
*
190659948 ATATTACTTAATTAAA
1 ATATTATTTAATT-AA
190659964 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
190659977 ATATTATTTAATTAA
1 ATATTATTTAATTAA
190659992 ATATTATTTAAT
1 ATATTATTTAAT
190660004 CCCGCTACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 3 0.09
13 7 0.20
14 2 0.06
15 16 0.46
16 4 0.11
17 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:190660138 original size:27 final size:27
Alignment explanation
Indices: 190660108--190660325 Score: 222
Period size: 27 Copynumber: 7.9 Consensus size: 27
190660098 TATTTGATAT
* * *
190660108 CATAATTTATATAACTTACAAAACGTA
1 CATAACTTATATAACTTACATAACTTA
*
190660135 CATAACTTATATAACTTATATAACTTA
1 CATAACTTATATAACTTACATAACTTA
* *
190660162 CATAACTTATATAACATATATAACTTA
1 CATAACTTATATAACTTACATAACTTA
*
190660189 CATAACTTATATAACATACATAACTTA
1 CATAACTTATATAACTTACATAACTTA
* * *
190660216 TATAACTTATATAACTTAGATAA-ATA
1 CATAACTTATATAACTTACATAACTTA
* *
190660242 TATAACTTACATAACTTACATAATACTTA
1 CATAACTTATATAACTTACAT-A-ACTTA
* * *
190660271 AATATATTTTATATCATAATTTACATAACTTA
1 CATA-A--CT-TAT-ATAACTTACATAACTTA
*
190660303 CATAACTTATATAACTTAGATAA
1 CATAACTTATATAACTTACATAA
190660326 ATATATAATT
Statistics
Matches: 162, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
26 21 0.13
27 107 0.66
28 4 0.02
29 6 0.04
30 1 0.01
31 1 0.01
32 9 0.06
33 3 0.02
34 10 0.06
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.38
Consensus pattern (27 bp):
CATAACTTATATAACTTACATAACTTA
Found at i:190660148 original size:9 final size:9
Alignment explanation
Indices: 190660109--190660325 Score: 184
Period size: 9 Copynumber: 23.4 Consensus size: 9
190660099 ATTTGATATC
*
190660109 ATAATTTAT
1 ATAACTTAT
*
190660118 ATAACTTAC
1 ATAACTTAT
* * *
190660127 AAAACGTAC
1 ATAACTTAT
190660136 ATAACTTAT
1 ATAACTTAT
190660145 ATAACTTAT
1 ATAACTTAT
*
190660154 ATAACTTAC
1 ATAACTTAT
190660163 ATAACTTAT
1 ATAACTTAT
*
190660172 ATAACATAT
1 ATAACTTAT
*
190660181 ATAACTTAC
1 ATAACTTAT
190660190 ATAACTTAT
1 ATAACTTAT
* *
190660199 ATAACATAC
1 ATAACTTAT
190660208 ATAACTTAT
1 ATAACTTAT
190660217 ATAACTTAT
1 ATAACTTAT
*
190660226 ATAACTTAG
1 ATAACTTAT
*
190660235 ATAA-ATAT
1 ATAACTTAT
*
190660243 ATAACTTAC
1 ATAACTTAT
*
190660252 ATAACTTAC
1 ATAACTTAT
190660261 ATAATACTTAAAT
1 AT-A-ACTT--AT
**
190660274 ATATTTTATAT
1 ATA-ACT-TAT
* *
190660285 CATAATTTAC
1 -ATAACTTAT
*
190660295 ATAACTTAC
1 ATAACTTAT
190660304 ATAACTTAT
1 ATAACTTAT
*
190660313 ATAACTTAG
1 ATAACTTAT
190660322 ATAA
1 ATAA
190660326 ATATATAATT
Statistics
Matches: 171, Mismatches: 30, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
8 6 0.04
9 144 0.84
10 3 0.02
11 8 0.05
12 6 0.04
13 4 0.02
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
ATAACTTAT
Found at i:190666511 original size:42 final size:42
Alignment explanation
Indices: 190666421--190666661 Score: 439
Period size: 43 Copynumber: 5.7 Consensus size: 42
190666411 GTAAAAAAAG
190666421 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGC-TTTCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCACAAA
190666462 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCACAAA
190666504 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT-CCACAAA
190666547 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTTCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGC-TTTTCCACAAA
190666590 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT-CCACAAA
*
190666633 CGCTGCTAAAAGCCTTGACCTTTAGCGGC
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGC
190666662 ATTTTTTTCC
Statistics
Matches: 195, Mismatches: 1, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
41 31 0.16
42 49 0.25
43 111 0.57
44 4 0.02
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (42 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCACAAA
Found at i:190668712 original size:46 final size:46
Alignment explanation
Indices: 190668659--190668834 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
190668649 TATTTGGGCA
190668659 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
190668705 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
190668752 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
190668798 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
190668835 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:190668814 original size:93 final size:93
Alignment explanation
Indices: 190668655--190668826 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
190668645 GGGATATTTG
* *
190668655 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
190668720 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
190668748 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
190668813 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
190668827 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:190671781 original size:15 final size:15
Alignment explanation
Indices: 190671742--190671820 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
190671732 GTATCTTGGG
*
190671742 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
190671757 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
190671772 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
190671786 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
190671801 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
190671815 TTTCTT
1 TTTCTT
190671821 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:190671805 original size:29 final size:29
Alignment explanation
Indices: 190671733--190671819 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
190671723 CATAGTATCG
* * * *
190671733 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
190671763 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
190671792 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
190671820 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:190674255 original size:46 final size:46
Alignment explanation
Indices: 190674202--190674377 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
190674192 TATTTGGGCA
190674202 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
190674248 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
190674295 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
190674341 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
190674378 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:190674357 original size:93 final size:93
Alignment explanation
Indices: 190674198--190674369 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
190674188 GGGATATTTG
* *
190674198 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
190674263 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
190674291 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
190674356 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
190674370 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:190677367 original size:30 final size:29
Alignment explanation
Indices: 190677331--190677431 Score: 116
Period size: 28 Copynumber: 3.5 Consensus size: 29
190677321 GACAAGATTG
* *
190677331 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATT-TATA
*
190677361 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATT-TATA
* * *
190677389 GCACTAAGTGTGCGAGCTGAAAATTCATA
1 GCACTAAGTGTGCGAGTTTAAAATTTATA
190677418 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
190677432 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 17 0.28
30 21 0.34
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAAATTTATA
Found at i:190697937 original size:21 final size:22
Alignment explanation
Indices: 190697897--190697937 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
190697887 TTTGAAATGT
190697897 CACACGGGCGTGTGGCCCCTCC
1 CACACGGGCGTGTGGCCCCTCC
190697919 CACACGGGCGTGT-GCCCCT
1 CACACGGGCGTGTGGCCCCT
190697938 GTGTTAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.10, C:0.44, G:0.32, T:0.15
Consensus pattern (22 bp):
CACACGGGCGTGTGGCCCCTCC
Found at i:190699442 original size:41 final size:41
Alignment explanation
Indices: 190699397--190699514 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
190699387 TGAAAGATAA
190699397 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
190699438 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
190699468 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
190699509 ATGTAG
1 ATGTAG
190699515 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:190699453 original size:71 final size:71
Alignment explanation
Indices: 190699365--190699528 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
190699355 GAGATGTATC
190699365 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
190699430 AGGACA
66 AGGACA
190699436 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
190699501 AGGACA
66 AGGACA
190699507 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
190699529 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:190710784 original size:40 final size:40
Alignment explanation
Indices: 190710691--190710947 Score: 349
Period size: 40 Copynumber: 6.5 Consensus size: 40
190710681 AAGCCAAGTA
* * * *
190710691 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATA-ATAACTCGCACAAATG
* * *
190710729 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
* *
190710769 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
* *
190710809 CCCTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
* *
190710849 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
* *
190710889 CCTTCGGGACTTAGCCCGGATGTAATAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
190710929 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
190710948 TTGTCATCCG
Statistics
Matches: 200, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
38 12 0.06
39 16 0.08
40 172 0.86
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATG
Found at i:190713366 original size:25 final size:25
Alignment explanation
Indices: 190713338--190713385 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
190713328 TTATACCATG
* * *
190713338 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
190713363 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
190713386 GTTTATGTAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:190713454 original size:20 final size:20
Alignment explanation
Indices: 190713429--190713487 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
190713419 TAAATATGGT
190713429 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
190713449 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
190713469 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
190713488 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:190713469 original size:11 final size:11
Alignment explanation
Indices: 190713433--190713487 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
190713423 TATGGTATGT
190713433 ATGATATGCAC
1 ATGATATGCAC
* *
190713444 ATGAAATG--T
1 ATGATATGCAC
190713453 ATGATATGCAC
1 ATGATATGCAC
*
190713464 ATGATATG--T
1 ATGATATGCAC
190713473 ATGATATGCAC
1 ATGATATGCAC
190713484 ATGA
1 ATGA
190713488 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:190713606 original size:47 final size:49
Alignment explanation
Indices: 190713539--190713632 Score: 140
Period size: 47 Copynumber: 2.0 Consensus size: 49
190713529 AGGAAGTGAA
*
190713539 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
*
190713586 AAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
190713633 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 20 0.48
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Done.