Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 68 of 199
Found at i:19163000 original size:5 final size:5
Alignment explanation
Indices: 19162990--19163016 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
19162980 TAACACATAT
19162990 ATTCA ATTCA ATTCA ATTCA ATTCA AT
1 ATTCA ATTCA ATTCA ATTCA ATTCA AT
19163017 CAACTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTCA
Found at i:19163812 original size:25 final size:28
Alignment explanation
Indices: 19163760--19163815 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
19163750 TCTTTTTTTT
*
19163760 ATTCATTTACTTATTTTAATTTATTATAC
1 ATTCATTTACTTATTATAA-TTATTATAC
19163789 ATTCATTTA-TTATTATAA-TATATATAC
1 ATTCATTTACTTATTATAATTAT-TATAC
19163816 TTAAATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 3 0.12
27 5 0.20
28 8 0.32
29 9 0.36
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (28 bp):
ATTCATTTACTTATTATAATTATTATAC
Found at i:19180866 original size:35 final size:34
Alignment explanation
Indices: 19180825--19180890 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
19180815 ATGTATAGAT
*
19180825 ATGTATATGTTATAATAATAAATAA-AATGAATCTA
1 ATGTATATATTATAAT-AT-AATAATAATGAATCTA
19180860 ATGTATATATTATAATATAATAATAATGAAT
1 ATGTATATATTATAATATAATAATAATGAAT
19180891 GAAATTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 5 0.17
34 9 0.31
35 15 0.52
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (34 bp):
ATGTATATATTATAATATAATAATAATGAATCTA
Found at i:19186443 original size:11 final size:11
Alignment explanation
Indices: 19186427--19186451 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19186417 TTGTTTCAAA
19186427 TTAAACTATTT
1 TTAAACTATTT
19186438 TTAAACTATTT
1 TTAAACTATTT
19186449 TTA
1 TTA
19186452 GGGTTCTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (11 bp):
TTAAACTATTT
Found at i:19187574 original size:79 final size:79
Alignment explanation
Indices: 19187443--19187591 Score: 235
Period size: 79 Copynumber: 1.9 Consensus size: 79
19187433 TGTGATGGTC
*
19187443 GAATATACCAATAGCATGTTTTGATCTGTTAACTATATGTACAATTAGTATGTTCTAATATGTTT
1 GAATATACCAATAGCATGTTTTGATCTGTTAACTATATGTACAACTAGTATGTTCTAATATGTTT
19187508 TATCTACATATGGG
66 TATCTACATATGGG
* * * * * *
19187522 GAATATGCCAATAGCATGTTTTGATTTGTTAATTATGTGTGCAACTAGTATGTTCTGATATGTTT
1 GAATATACCAATAGCATGTTTTGATCTGTTAACTATATGTACAACTAGTATGTTCTAATATGTTT
19187587 TATCT
66 TATCT
19187592 GTATATAAGC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 63 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.44
Consensus pattern (79 bp):
GAATATACCAATAGCATGTTTTGATCTGTTAACTATATGTACAACTAGTATGTTCTAATATGTTT
TATCTACATATGGG
Found at i:19188881 original size:22 final size:22
Alignment explanation
Indices: 19188856--19188898 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
19188846 ACACCAAAAC
*
19188856 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
19188878 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
19188899 AGCGCCGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:19189041 original size:43 final size:42
Alignment explanation
Indices: 19188994--19189441 Score: 277
Period size: 43 Copynumber: 10.3 Consensus size: 42
19188984 TTAAAAAAAT
*
19188994 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTAGCACAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTT-TACCACAAA
* **** * * **** *
19189037 CGCCGCTGAAGAGTAAGACCTTTAGCGGTGCTTTAGTGGAAG
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTACCACAAA
* *** *
19189079 CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTTTGGGACAAGCGC
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCG-CTTTACCACAA---A
* ** * * ** *
19189125 CGCTAACGCTAAAGATCAGGGTCTTTAGCGGCGTTTTTTTCTCAAA
1 CGC---CGCTAAAGACCCTGATCTTTAGCGGCG-CTTTACCACAAA
* * *
19189171 CGCCGCTAATAGACCCTGATCTATAGCGGCACTTTGACCAAAAA
1 CGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTT-ACCACAAA
* * * * * *
19189215 CGCCACGAAAGAACCTAATCTTTAGCGGCGCTTTCCCCTCAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTT-ACCACAAA
* * *
19189258 CGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGACAACAAAA
1 CGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTT-TACCAC-AAA
* * * *
19189302 CGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTT-ACCACAAA
* * *
19189345 CGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCACAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGC-TTTACCACAAA
* * *
19189388 CGCCGCTAAAGACCCTTATCTTTAGCGGCACTTTGACCAAAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTT-ACCACAAA
* *
19189431 TGCCACTAAAG
1 CGCCGCTAAAG
19189442 GCCAACACCT
Statistics
Matches: 306, Mismatches: 83, Indels: 32
0.73 0.20 0.08
Matches are distributed among these distances:
42 33 0.11
43 173 0.57
44 61 0.20
45 2 0.01
46 6 0.02
49 31 0.10
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (42 bp):
CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTACCACAAA
Found at i:19189256 original size:87 final size:87
Alignment explanation
Indices: 19189146--19189421 Score: 358
Period size: 87 Copynumber: 3.2 Consensus size: 87
19189136 AAGATCAGGG
* *** *
19189146 TCTTTAGCGGCGTTTTTTTCTCAAACGCCGCTAATAGACCCTGATCTATAGCGGCACTTTGACCA
1 TCTTTAGCGGCGCTTTCCCCTCAAACGCCGCTAATAGACCCTGATCTATAGCGGCGCTTTGACCA
*
19189211 AAAACGCCACGAAAGAACCTAA
66 AAAACGCCACTAAAGAACCTAA
* *
19189233 TCTTTAGCGGCGCTTTCCCCTCAAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGACAA
1 TCTTTAGCGGCGCTTTCCCCTCAAACGCCGCTAATAGACCCTGATCTATAGCGGCGCTTTGACCA
19189297 CAAAACGCCACTAAAGAACCTAA
66 -AAAACGCCACTAAAGAACCTAA
* * * * **
19189320 TCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAA-AGACCATGATCTTTAGTGGCGCTTTTTCCA
1 TCTTTAGCGGCGCTTTCCCCTCAAACGCCGCTAATAGACCCTGATCTATAGCGGCGCTTTGACCA
* * * *
19189384 CAAACGCCGCTAAAGACCCTTA
66 AAAACGCCACTAAAGAACCTAA
*
19189406 TCTTTAGCGGCACTTT
1 TCTTTAGCGGCGCTTT
19189422 GACCAAAAAT
Statistics
Matches: 166, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
86 63 0.38
87 101 0.61
88 2 0.01
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (87 bp):
TCTTTAGCGGCGCTTTCCCCTCAAACGCCGCTAATAGACCCTGATCTATAGCGGCGCTTTGACCA
AAAACGCCACTAAAGAACCTAA
Found at i:19189356 original size:130 final size:129
Alignment explanation
Indices: 19189168--19189441 Score: 309
Period size: 130 Copynumber: 2.1 Consensus size: 129
19189158 TTTTTTTCTC
* * * *
19189168 AAACGCCGCTAATAGACCCTGATCTATAGCGGCACTTTGACCAAAAACGCCACGAAAGAACC-TA
1 AAACGCCACTAA-AGAACCTAATCTATAGCGGCACTTTCACCAAAAACGCCACGAAAG-ACCATA
* *
19189232 ATCTTTAGCGGCGCTTTCCCCTCAAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGACA
64 ATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAA-AGACCCTGATCTATAGCGGCACTTCGACA
19189296 ACA
128 A-A
* * * * * * *
19189299 AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGAT
1 AAACGCCACTAAAGAACCTAATCTATAGCGGCACTTTCACCAAAAACGCCACGAAAGACCATAAT
* ** * * * *
19189364 CTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTTATCTTTAGCGGCACTTTGACCAA
66 CTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCCTGATCTATAGCGGCACTTCGACAAA
*
19189428 AAATGCCACTAAAG
1 AAACGCCACTAAAG
19189442 GCCAACACCT
Statistics
Matches: 120, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
129 17 0.14
130 90 0.75
131 13 0.11
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (129 bp):
AAACGCCACTAAAGAACCTAATCTATAGCGGCACTTTCACCAAAAACGCCACGAAAGACCATAAT
CTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCCTGATCTATAGCGGCACTTCGACAAA
Found at i:19189440 original size:86 final size:86
Alignment explanation
Indices: 19189212--19189466 Score: 215
Period size: 87 Copynumber: 3.0 Consensus size: 86
19189202 CTTTGACCAA
* * * ** * ***
19189212 AAACGCCACGAAAGAACCTAATCTTTAGCGGCGCTTTCCCCTCAAACGCCGC-AATAGACCCTGA
1 AAACGCCACTAAAGAACCTAATCTTTAGCGGCACTTTCACCAAAAACGCCACTAA-AGACCAACA
* * * *** *
19189276 TCTATAGCGGCGCTTCGACAAC
65 CCTTTAGTGGCGCTTTTTCCAC
* * * * **
19189298 AAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGA
1 -AAACGCCACTAAAGAACCTAATCTTTAGCGGCACTTTCACCAAAAACGCCACTAAAGACCAACA
*
19189363 TCTTTAGTGGCGCTTTTTCCAC
65 CCTTTAGTGGCGCTTTTTCCAC
* * * * * *
19189385 AAACGCCGCTAAAGACCCTTATCTTTAGCGGCACTTTGACCAAAAATGCCACTAAAGGCCAACAC
1 AAACGCCACTAAAGAACCTAATCTTTAGCGGCACTTTCACCAAAAACGCCACTAAAGACCAACAC
*
19189450 CTTTAGTGGCGTTTTTT
66 CTTTAGTGGCGCTTTTT
19189467 TAAAAACGCC
Statistics
Matches: 144, Mismatches: 23, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
86 68 0.47
87 74 0.51
88 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (86 bp):
AAACGCCACTAAAGAACCTAATCTTTAGCGGCACTTTCACCAAAAACGCCACTAAAGACCAACAC
CTTTAGTGGCGCTTTTTCCAC
Found at i:19189821 original size:21 final size:21
Alignment explanation
Indices: 19189795--19189849 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
19189785 ACGCTGCTCG
19189795 GCTTCCCTCGCTGTAGCCTCT
1 GCTTCCCTCGCTGTAGCCTCT
*
19189816 GCTTCCCTCGCTGTAGCCTGT
1 GCTTCCCTCGCTGTAGCCTCT
* *
19189837 ACTTCTCTCGCTG
1 GCTTCCCTCGCTG
19189850 CCGTCTCTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.05, C:0.40, G:0.20, T:0.35
Consensus pattern (21 bp):
GCTTCCCTCGCTGTAGCCTCT
Found at i:19189862 original size:21 final size:21
Alignment explanation
Indices: 19189838--19189882 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
19189828 GTAGCCTGTA
19189838 CTTCTCTCGCTGCCGTC-TCTG
1 CTTCTCTCGCTGCCG-CATCTG
* *
19189859 CTTCTCTTGTTGCCGCATCTG
1 CTTCTCTCGCTGCCGCATCTG
19189880 CTT
1 CTT
19189883 TAAGCTGCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.02, C:0.38, G:0.18, T:0.42
Consensus pattern (21 bp):
CTTCTCTCGCTGCCGCATCTG
Found at i:19189948 original size:66 final size:66
Alignment explanation
Indices: 19189874--19189999 Score: 184
Period size: 66 Copynumber: 1.9 Consensus size: 66
19189864 CTTGTTGCCG
*
19189874 CATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGCTG
1 CATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACCTCAACTTCTCTCGCTG
19189937 CTA
64 CTA
* * *
19189940 CATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTCAACTTCTCTCG
1 CATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTCAACTTCTCTCG
19190000 ATGTTGCCTC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
65 1 0.02
66 49 0.91
67 4 0.07
ACGTcount: A:0.16, C:0.27, G:0.17, T:0.40
Consensus pattern (66 bp):
CATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTCAACTTCTCTCGCTGCT
A
Found at i:19190015 original size:66 final size:66
Alignment explanation
Indices: 19189874--19190022 Score: 176
Period size: 66 Copynumber: 2.3 Consensus size: 66
19189864 CTTGTTGCCG
* * * *
19189874 CATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGC
1 CATCCGCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAACTTCTCTCGATGC
19189938 TA
65 TA
* * * *
19189940 CATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAACTTCTCTCGATGT
1 CATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAACTTCTCTCGATGC
*
19190004 TG
65 TA
*
19190006 CCTCCGCTTTAAGTTGT
1 CATCCGCTTTAAGTTGT
19190023 GTAATTTGCT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
65 1 0.01
66 66 0.93
67 4 0.06
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.41
Consensus pattern (66 bp):
CATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAACTTCTCTCGATGCT
A
Found at i:19195435 original size:9 final size:9
Alignment explanation
Indices: 19195421--19195787 Score: 132
Period size: 9 Copynumber: 42.9 Consensus size: 9
19195411 AAGATATACA
19195421 TTATGTAAG
1 TTATGTAAG
19195430 TTATGTAAG
1 TTATGTAAG
19195439 TTATGTAAG
1 TTATGTAAG
*
19195448 TTGTGTAAG
1 TTATGTAAG
**
19195457 TTGCGTAAG
1 TTATGTAAG
* *
19195466 ATGTGT-A-
1 TTATGTAAG
* *
19195473 TTATGAAAC
1 TTATGTAAG
19195482 TTATGTAAG
1 TTATGTAAG
*
19195491 TTATGTAAA
1 TTATGTAAG
*
19195500 ATATGT-A-
1 TTATGTAAG
*
19195507 TTATTTACA-
1 TTATGTA-AG
*
19195516 -CATGTAAG
1 TTATGTAAG
*
19195524 TTATGT--C
1 TTATGTAAG
19195531 TTATGTAAG
1 TTATGTAAG
**
19195540 TTGCGTAAG
1 TTATGTAAG
*
19195549 TTGTGT-A-
1 TTATGTAAG
*
19195556 TTATGAAAG
1 TTATGTAAG
*
19195565 TTATGT--C
1 TTATGTAAG
19195572 TTATGTAAG
1 TTATGTAAG
*
19195581 TTATGTAGG
1 TTATGTAAG
* *
19195590 GTATGT-AT
1 TTATGTAAG
*
19195598 TATATGTAAC
1 T-TATGTAAG
* *
19195608 TTATTTAAT
1 TTATGTAAG
*
19195617 TTATGTAGG
1 TTATGTAAG
* **
19195626 GTATGTATT
1 TTATGTAAG
*
19195635 TTATGTAAC
1 TTATGTAAG
* *
19195644 TTATTTAAT
1 TTATGTAAG
*
19195653 TTATGTAGG
1 TTATGTAAG
*
19195662 GTATGTAAG
1 TTATGTAAG
19195671 TTATGTAAG
1 TTATGTAAG
* *
19195680 CTCTGT-A-
1 TTATGTAAG
* *
19195687 TTATTTACG
1 TTATGTAAG
*
19195696 -CATGTAAG
1 TTATGTAAG
*
19195704 TTGTGT-A-
1 TTATGTAAG
19195711 TTATGTATTA-
1 TTATGTA--AG
* *
19195721 TTACGTAAC
1 TTATGTAAG
*
19195730 TTATTTAAG
1 TTATGTAAG
*
19195739 TTATGCAAG
1 TTATGTAAG
*
19195748 TTATAT-A-
1 TTATGTAAG
* *
19195755 TTAAGTAGG
1 TTATGTAAG
19195764 TTATGTAAG
1 TTATGTAAG
19195773 TTATGT--G
1 TTATGTAAG
19195780 TTATGTAA
1 TTATGTAA
19195788 ATGAATATAT
Statistics
Matches: 257, Mismatches: 76, Indels: 50
0.67 0.20 0.13
Matches are distributed among these distances:
7 43 0.17
8 18 0.07
9 187 0.73
10 9 0.04
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:19195538 original size:16 final size:16
Alignment explanation
Indices: 19195517--19195586 Score: 64
Period size: 16 Copynumber: 4.8 Consensus size: 16
19195507 TTATTTACAC
19195517 ATGTAAGTTATGTCTT
1 ATGTAAGTTATGTCTT
19195533 ATGTAAG-T-TG-C--
1 ATGTAAGTTATGTCTT
* *
19195544 --GTAAGTTGTGTATT
1 ATGTAAGTTATGTCTT
*
19195558 ATGAAAGTTATGTCTT
1 ATGTAAGTTATGTCTT
19195574 ATGTAAGTTATGT
1 ATGTAAGTTATGT
19195587 AGGGTATGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
9 5 0.12
10 1 0.02
11 2 0.05
13 1 0.02
14 2 0.05
15 1 0.02
16 30 0.71
ACGTcount: A:0.27, C:0.04, G:0.23, T:0.46
Consensus pattern (16 bp):
ATGTAAGTTATGTCTT
Found at i:19195559 original size:25 final size:25
Alignment explanation
Indices: 19195519--19195566 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19195509 ATTTACACAT
* *
19195519 GTAAGTTATGTCTTATGTAAGTTGC
1 GTAAGTTATGTATTATGAAAGTTGC
*
19195544 GTAAGTTGTGTATTATGAAAGTT
1 GTAAGTTATGTATTATGAAAGTT
19195567 ATGTCTTATG
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:0.27, C:0.04, G:0.25, T:0.44
Consensus pattern (25 bp):
GTAAGTTATGTATTATGAAAGTTGC
Found at i:19195597 original size:41 final size:41
Alignment explanation
Indices: 19195521--19195600 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
19195511 TTACACATGT
* * *
19195521 AAGTTATGTCTTATGTAAGTTGCGTAAGTTGTGTATTATGA
1 AAGTTATGTCTTATGTAAGTTACGTAAGGTATGTATTATGA
* *
19195562 AAGTTATGTCTTATGTAAGTTATGTAGGGTATGTATTAT
1 AAGTTATGTCTTATGTAAGTTACGTAAGGTATGTATTAT
19195601 ATGTAACTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.28, C:0.04, G:0.24, T:0.45
Consensus pattern (41 bp):
AAGTTATGTCTTATGTAAGTTACGTAAGGTATGTATTATGA
Found at i:19195621 original size:36 final size:36
Alignment explanation
Indices: 19195571--19195668 Score: 169
Period size: 36 Copynumber: 2.7 Consensus size: 36
19195561 AAAGTTATGT
* *
19195571 CTTATGTAAGTTATGTAGGGTATGTATTATATGTAA
1 CTTATTTAATTTATGTAGGGTATGTATTATATGTAA
*
19195607 CTTATTTAATTTATGTAGGGTATGTATTTTATGTAA
1 CTTATTTAATTTATGTAGGGTATGTATTATATGTAA
19195643 CTTATTTAATTTATGTAGGGTATGTA
1 CTTATTTAATTTATGTAGGGTATGTA
19195669 AGTTATGTAA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.49
Consensus pattern (36 bp):
CTTATTTAATTTATGTAGGGTATGTATTATATGTAA
Found at i:19195675 original size:36 final size:36
Alignment explanation
Indices: 19195557--19195678 Score: 160
Period size: 36 Copynumber: 3.4 Consensus size: 36
19195547 AGTTGTGTAT
* * *
19195557 TATGAAAGTTATGT--CTTATGTAAGTTATGTAGGG
1 TATGTAAGTTATGTAACTTATTTAATTTATGTAGGG
*
19195591 TATGT-ATTATATGTAACTTATTTAATTTATGTAGGG
1 TATGTAAGT-TATGTAACTTATTTAATTTATGTAGGG
**
19195627 TATGTATTTTATGTAACTTATTTAATTTATGTAGGG
1 TATGTAAGTTATGTAACTTATTTAATTTATGTAGGG
19195663 TATGTAAGTTATGTAA
1 TATGTAAGTTATGTAA
19195679 GCTCTGTATT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
33 2 0.03
34 9 0.12
36 64 0.83
37 2 0.03
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (36 bp):
TATGTAAGTTATGTAACTTATTTAATTTATGTAGGG
Found at i:19195840 original size:51 final size:51
Alignment explanation
Indices: 19195785--19196021 Score: 159
Period size: 48 Copynumber: 5.1 Consensus size: 51
19195775 ATGTGTTATG
19195785 TAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTA
1 TAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTA
* * * *
19195836 TAAAT-TAT-TAT-TAATAAAATT-TAAATATAGCT--TAC--A--TACG---
1 TAAATGAATATATGT-ATAATATTAAAAATATAG-TAATACTTATTTAAGTTA
*
19195876 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTA
1 TAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTA
** * *
19195927 TAAATTTAT-TAT-TAATAAAATT--AAATATAGCT--TAC--A--TACG---
1 TAAATGAATATATGT-ATAATATTAAAAATATAG-TAATACTTATTTAAGTTA
*
19195967 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTA
1 TAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTA
19196018 -AAAT
1 TAAAT
19196022 TTATATTAAT
Statistics
Matches: 137, Mismatches: 19, Indels: 61
0.63 0.09 0.28
Matches are distributed among these distances:
40 12 0.09
41 12 0.09
42 13 0.09
43 21 0.15
44 6 0.04
45 2 0.01
46 2 0.01
47 6 0.04
48 22 0.16
49 13 0.09
50 16 0.12
51 12 0.09
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.40
Consensus pattern (51 bp):
TAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTA
Found at i:19195883 original size:91 final size:90
Alignment explanation
Indices: 19195784--19196086 Score: 528
Period size: 91 Copynumber: 3.4 Consensus size: 90
19195774 TATGTGTTAT
*
19195784 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATAAATTATTATTA
1 GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTATTATTA
19195849 ATAAAATTTAAATATAGCTTACATAC
66 ATAAAA-TTAAATATAGCTTACATAC
19195875 GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAA-TTATTATT
19195940 AATAAAATTAAATATAGCTTACATAC
65 AATAAAATTAAATATAGCTTACATAC
19195966 GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTA-AAATT-TATATT
1 GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTAT-TATT
19196029 AAT-AAATTAAATATAGCTTACATAC
65 AATAAAATTAAATATAGCTTACATAC
19196054 GTAAATGAATATAT-TAT-A-ATTAAAAAAATAGTA
1 GTAAATGAATATATGTATAATATTAAAAAAATAGTA
19196087 TATATAAGTT
Statistics
Matches: 209, Mismatches: 1, Indels: 10
0.95 0.00 0.05
Matches are distributed among these distances:
85 15 0.07
86 1 0.00
87 3 0.01
88 37 0.18
89 9 0.04
90 3 0.01
91 126 0.60
92 15 0.07
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (90 bp):
GTAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTATTATTA
ATAAAATTAAATATAGCTTACATAC
Found at i:19195950 original size:50 final size:49
Alignment explanation
Indices: 19195891--19196039 Score: 124
Period size: 47 Copynumber: 3.2 Consensus size: 49
19195881 GAATATATGT
*
19195891 ATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
1 ATAAAATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTA-TATTA
* * ** *
19195941 ATAAAATT--AAATATAGCT--TACATACGTAA---ATGAA--TATATGT-
1 ATAAAATTAAAAAAATAG-TAATACTTATTTAAGTTATAAATTTATAT-TA
*
19195982 ATAATATTAAAAAAATAGTAATACTTATTTAAGTTA-AAATTTATATTA
1 ATAAAATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATATTA
19196030 AT-AAATTAAA
1 ATAAAATTAAA
19196040 TATAGCTTAC
Statistics
Matches: 74, Mismatches: 13, Indels: 27
0.65 0.11 0.24
Matches are distributed among these distances:
41 10 0.14
42 4 0.05
43 7 0.09
44 12 0.16
46 2 0.03
47 17 0.23
48 14 0.19
49 1 0.01
50 7 0.09
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (49 bp):
ATAAAATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATATTA
Found at i:19206790 original size:22 final size:22
Alignment explanation
Indices: 19206760--19206802 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
19206750 ACACCAAAAC
*
19206760 AGGCTTTTAGCAGCGCTTTTTT
1 AGGCCTTTAGCAGCGCTTTTTT
* *
19206782 AGGCCTTTAGCGGTGCTTTTT
1 AGGCCTTTAGCAGCGCTTTTT
19206803 AGCGCCGCAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.19, G:0.26, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCAGCGCTTTTTT
Found at i:19212524 original size:9 final size:9
Alignment explanation
Indices: 19212510--19212708 Score: 69
Period size: 9 Copynumber: 23.8 Consensus size: 9
19212500 CAAGTATACA
19212510 TTATGTAAG
1 TTATGTAAG
19212519 TTATGTAAG
1 TTATGTAAG
19212528 TTATGTAAG
1 TTATGTAAG
*
19212537 TTGTGTAAG
1 TTATGTAAG
**
19212546 TTGCGTAAG
1 TTATGTAAG
19212555 ATGT-TGT-A-
1 -T-TATGTAAG
* *
19212563 TTATGAAAC
1 TTATGTAAG
19212572 TTATGTAA-
1 TTATGTAAG
19212580 TTATGT-A-
1 TTATGTAAG
19212587 -TATGT-A-
1 TTATGTAAG
19212593 TTAT-TACA-
1 TTATGTA-AG
*
19212601 -CATGTAAG
1 TTATGTAAG
*
19212609 TTATGT--C
1 TTATGTAAG
19212616 TTATGTAAG
1 TTATGTAAG
**
19212625 TTGCGTAAG
1 TTATGTAAG
*
19212634 TTGTGT-A-
1 TTATGTAAG
*
19212641 TTATGAAAG
1 TTATGTAAG
*
19212650 TTATGT--C
1 TTATGTAAG
19212657 TTATGTAAG
1 TTATGTAAG
*
19212666 TTATGTAGG
1 TTATGTAAG
*
19212675 GTATGTATTA-
1 TTATGTA--AG
*
19212685 TTATGTAAC
1 TTATGTAAG
*
19212694 TTAT-TAAT
1 TTATGTAAG
19212702 TTATGTA
1 TTATGTA
19212709 GGTATGTATT
Statistics
Matches: 147, Mismatches: 22, Indels: 42
0.70 0.10 0.20
Matches are distributed among these distances:
6 8 0.05
7 26 0.18
8 20 0.14
9 83 0.56
10 9 0.06
11 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:19212621 original size:16 final size:16
Alignment explanation
Indices: 19212602--19212671 Score: 64
Period size: 16 Copynumber: 4.8 Consensus size: 16
19212592 ATTATTACAC
19212602 ATGTAAGTTATGTCTT
1 ATGTAAGTTATGTCTT
19212618 ATGTAAG-T-TG-C--
1 ATGTAAGTTATGTCTT
* *
19212629 --GTAAGTTGTGTATT
1 ATGTAAGTTATGTCTT
*
19212643 ATGAAAGTTATGTCTT
1 ATGTAAGTTATGTCTT
19212659 ATGTAAGTTATGT
1 ATGTAAGTTATGT
19212672 AGGGTATGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
9 5 0.12
10 1 0.02
11 2 0.05
13 1 0.02
14 2 0.05
15 1 0.02
16 30 0.71
ACGTcount: A:0.27, C:0.04, G:0.23, T:0.46
Consensus pattern (16 bp):
ATGTAAGTTATGTCTT
Found at i:19212644 original size:25 final size:25
Alignment explanation
Indices: 19212604--19212651 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19212594 TATTACACAT
* *
19212604 GTAAGTTATGTCTTATGTAAGTTGC
1 GTAAGTTATGTATTATGAAAGTTGC
*
19212629 GTAAGTTGTGTATTATGAAAGTT
1 GTAAGTTATGTATTATGAAAGTT
19212652 ATGTCTTATG
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:0.27, C:0.04, G:0.25, T:0.44
Consensus pattern (25 bp):
GTAAGTTATGTATTATGAAAGTTGC
Found at i:19212682 original size:41 final size:41
Alignment explanation
Indices: 19212606--19212685 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
19212596 TTACACATGT
* * *
19212606 AAGTTATGTCTTATGTAAGTTGCGTAAGTTGTGTATTATGA
1 AAGTTATGTCTTATGTAAGTTACGTAAGGTATGTATTATGA
* *
19212647 AAGTTATGTCTTATGTAAGTTATGTAGGGTATGTATTAT
1 AAGTTATGTCTTATGTAAGTTACGTAAGGTATGTATTAT
19212686 TATGTAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.28, C:0.04, G:0.24, T:0.45
Consensus pattern (41 bp):
AAGTTATGTCTTATGTAAGTTACGTAAGGTATGTATTATGA
Found at i:19212690 original size:19 final size:18
Alignment explanation
Indices: 19212666--19212726 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
19212656 CTTATGTAAG
19212666 TTATGTAGGGTATGTATTA
1 TTATGTA-GGTATGTATTA
** *
19212685 TTATGTAACTTAT-TAAT-
1 TTATGT-AGGTATGTATTA
19212702 TTATGTAGGTATGTATTA
1 TTATGTAGGTATGTATTA
*
19212720 TTTTGTA
1 TTATGTA
19212727 ATTATTTAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
16 4 0.12
17 9 0.28
18 9 0.28
19 9 0.28
20 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.18, T:0.52
Consensus pattern (18 bp):
TTATGTAGGTATGTATTA
Found at i:19212713 original size:35 final size:35
Alignment explanation
Indices: 19212656--19212766 Score: 131
Period size: 35 Copynumber: 3.1 Consensus size: 35
19212646 AAAGTTATGT
*
19212656 CTTATGTAAGTTATGTAGGGTATGTATTATTATGTAA
1 CTTAT-TAATTTATGTA-GGTATGTATTATTATGTAA
*
19212693 CTTATTAATTTATGTAGGTATGTATTATTTTGTAA
1 CTTATTAATTTATGTAGGTATGTATTATTATGTAA
19212728 -TTATTTAATTTATTGTA-GTATGTA--ATTATAGTAA
1 CTTA-TTAATTTA-TGTAGGTATGTATTATTAT-GTAA
19212762 CTTAT
1 CTTAT
19212767 ATTATTTAGT
Statistics
Matches: 67, Mismatches: 3, Indels: 11
0.83 0.04 0.14
Matches are distributed among these distances:
33 4 0.06
34 8 0.12
35 36 0.54
36 14 0.21
37 5 0.07
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (35 bp):
CTTATTAATTTATGTAGGTATGTATTATTATGTAA
Found at i:19212939 original size:92 final size:90
Alignment explanation
Indices: 19212888--19213553 Score: 1095
Period size: 92 Copynumber: 7.4 Consensus size: 90
19212878 ATAAGTTTAT
19212888 TAAAT-AATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
1 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
19212952 ATAAAATTTAAATATAGCTTACATACG
66 ATAAAATTTAAATATAGCTT--ATACG
19212979 TAAATGAATATATGTATAATATTAAAAAAATAGT-A-ACTTATTTAAGTTATAAATTTATTATTA
1 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
19213042 ATAAAATTTAAATATAGCTTACATACG
66 ATAAAATTTAAATATAGCTT--ATACG
*
19213069 TAAATGAATATATGTATAATATTAAAAAAATAGTGATACTTATTTAAGTTATAAATTTATTATTA
1 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
19213134 ATAAAATTTAAATATAGCTTACATACG
66 ATAAAATTTAAATATAGCTT--ATACG
19213161 TAAATGAATATATGTATAATATT-AAAAAATAGTAATAC-TATTTAAGTTAT-AATTTATTATTA
1 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
19213223 AT-AAATTTAAATATAGCTTACATACG
66 ATAAAATTTAAATATAGCTT--ATACG
19213249 TAAATGAATATATGTATAATA-TAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
1 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
19213313 ATAAAATTTAAATATAGCTTACTACG
66 ATAAAATTTAAATATAGCTTA-TACG
19213339 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
1 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
19213404 ATAAAATTTAAATATAGCTTACATACG
66 ATAAAATTTAAATATAGCTT--ATACG
19213431 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
1 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
19213496 ATAAAATTTAAATATAGCTTACATACG
66 ATAAAATTTAAATATAGCTT--ATACG
19213523 T-AATGAA-ATGAATGCT-T-ATATTAAAAAAATA
1 TAAATGAATAT--ATG-TATAATATTAAAAAAATA
19213554 ATCTTCCACT
Statistics
Matches: 560, Mismatches: 1, Indels: 28
0.95 0.00 0.05
Matches are distributed among these distances:
87 1 0.00
88 60 0.11
89 27 0.05
90 142 0.25
91 121 0.22
92 207 0.37
93 2 0.00
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (90 bp):
TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
ATAAAATTTAAATATAGCTTATACG
Found at i:19213205 original size:182 final size:184
Alignment explanation
Indices: 19212888--19213553 Score: 1205
Period size: 182 Copynumber: 3.7 Consensus size: 184
19212878 ATAAGTTTAT
19212888 TAAAT-AATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
1 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
19212952 ATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAATAGT-A-A
66 ATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAATAGTAATA
19213015 CTTATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACG
131 CTTATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACG
*
19213069 TAAATGAATATATGTATAATATTAAAAAAATAGTGATACTTATTTAAGTTATAAATTTATTATTA
1 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
19213134 ATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATT-AAAAAATAGTAATA
66 ATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAATAGTAATA
19213198 C-TATTTAAGTTAT-AATTTATTATTAAT-AAATTTAAATATAGCTTACATACG
131 CTTATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACG
19213249 TAAATGAATATATGTATAATA-TAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
1 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
19213313 ATAAAATTTAAATATAGCTTAC-TACGTAAATGAATATATGTATAATATTAAAAAAATAGTAATA
66 ATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAATAGTAATA
19213377 CTTATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACG
131 CTTATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACG
19213431 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
1 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
19213496 ATAAAATTTAAATATAGCTTACATACGT-AATGAA-ATGAATGCT-T-ATATTAAAAAAATA
66 ATAAAATTTAAATATAGCTTACATACGTAAATGAATAT--ATG-TATAATATTAAAAAAATA
19213554 ATCTTCCACT
Statistics
Matches: 471, Mismatches: 2, Indels: 22
0.95 0.00 0.04
Matches are distributed among these distances:
178 27 0.06
179 79 0.17
180 57 0.12
181 43 0.09
182 168 0.36
183 87 0.18
184 9 0.02
185 1 0.00
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (184 bp):
TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
ATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAATAGTAATA
CTTATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACG
Found at i:19213394 original size:51 final size:51
Alignment explanation
Indices: 19213339--19213486 Score: 140
Period size: 51 Copynumber: 3.1 Consensus size: 51
19213329 GCTTACTACG
19213339 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTA
1 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTA
** * * * *
19213390 TAAATTTAT-TAT-TAATAAAATT-TAAATATAGCT--TAC--A--TACG---
1 TAAATGAATATATGT-ATAATATTAAAAAAATAG-TAATACTTATTTAAGTTA
19213431 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTA
1 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTA
19213482 TAAAT
1 TAAAT
19213487 TTATTATTAA
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
41 7 0.10
42 11 0.15
43 8 0.11
44 6 0.08
46 2 0.03
48 6 0.08
49 8 0.11
50 11 0.15
51 12 0.17
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (51 bp):
TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTA
Found at i:19213422 original size:270 final size:274
Alignment explanation
Indices: 19212888--19213553 Score: 1201
Period size: 270 Copynumber: 2.5 Consensus size: 274
19212878 ATAAGTTTAT
19212888 TAAAT-AATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
1 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
19212952 ATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAATAGTAACT
66 ATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAATAGTAACT
19213017 TATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATAT
131 TATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATAT
*
19213082 GTATAATATTAAAAAAATAGTGATACTTATTTAAGTTATAAATTTATTATTAATAAAATTTAAAT
196 GTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAAATTTAAAT
19213147 ATAGCTTACATACG
261 ATAGCTTACATACG
19213161 TAAATGAATATATGTATAATATT-AAAAAATAGTAATAC-TATTTAAGTTAT-AATTTATTATTA
1 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
19213223 AT-AAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATA-TAAAAAAATAGTAATA
66 ATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAATAGT-A-A
19213286 CTTATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTAC-TACGTAAATGAATAT
129 CTTATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATAT
19213350 ATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAAATTTAA
194 ATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAAATTTAA
19213415 ATATAGCTTACATACG
259 ATATAGCTTACATACG
19213431 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
1 TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
19213496 ATAAAATTTAAATATAGCTTACATACGT-AATGAA-ATGAATGCT-T-ATATTAAAAAAATA
66 ATAAAATTTAAATATAGCTTACATACGTAAATGAATAT--ATG-TATAATATTAAAAAAATA
19213554 ATCTTCCACT
Statistics
Matches: 381, Mismatches: 1, Indels: 21
0.95 0.00 0.05
Matches are distributed among these distances:
269 12 0.03
270 164 0.43
271 79 0.21
272 26 0.07
273 43 0.11
274 56 0.15
275 1 0.00
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (274 bp):
TAAATGAATATATGTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTA
ATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAATAGTAACT
TATTTAAGTTATAAATTTATTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATAT
GTATAATATTAAAAAAATAGTAATACTTATTTAAGTTATAAATTTATTATTAATAAAATTTAAAT
ATAGCTTACATACG
Found at i:19215534 original size:23 final size:23
Alignment explanation
Indices: 19215504--19215548 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19215494 CAATATTAAT
*
19215504 ATATATAT-GTTTCATAATATATA
1 ATATATATCGTTGCAT-ATATATA
19215527 ATATATATCGTTGCATATATAT
1 ATATATATCGTTGCATATATAT
19215549 CTTTTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (23 bp):
ATATATATCGTTGCATATATATA
Found at i:19230695 original size:24 final size:24
Alignment explanation
Indices: 19230667--19230715 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
19230657 GAGGGTATTA
19230667 TATGTGGAATTCACTAAATAAGTT
1 TATGTGGAATTCACTAAATAAGTT
19230691 TATGTGGAATTCACTAAATAAGTT
1 TATGTGGAATTCACTAAATAAGTT
19230715 T
1 T
19230716 TTTTTTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (24 bp):
TATGTGGAATTCACTAAATAAGTT
Found at i:19242076 original size:96 final size:90
Alignment explanation
Indices: 19241870--19242262 Score: 504
Period size: 96 Copynumber: 4.5 Consensus size: 90
19241860 NNNNNNNNNN
*
19241870 TTATTAATAAAATATTAAATATAGCTTACATACGT-AATGAATATATGTATAATAATAAAAAAAA
1 TTATTAATAAAAT-TTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAAA
19241934 TAGTAATACTTATTTAAGTTATAAATTTA
65 TAGTAATACTTA-TTAAGTTA-AAA-TTA
19241963 TTATTAATAAAATTTTAAATATAGCTTACATACGTAAATGAAATATATGTATAATATTAAAAAAA
1 TTATTAATAAAA-TTTAAATATAGCTTACATACGTAAATG-AATATATGTATAATATT-AAAAAA
19242028 AATAGTAATACTTATTTAAGTTAATAAATTTA
63 AATAGTAATACTTA-TTAAGTT-A-AAA-TTA
19242060 TTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATA-T-AAAAAAAT
1 TTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAAAT
*
19242123 A-TAAATTAATTATTAAGTTAAAATTA
66 AGT-AA-TACTTATTAAGTTAAAATTA
19242149 -TA--AATAAAA-TTAAATA-AGC-TACATACGTAAATG--TATATGTATAATATT--AAAAAAT
1 TTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAAAT
19242204 AGTAATAC-TA-TAAGTTAAAA--A
66 AGTAATACTTATTAAGTTAAAATTA
19242225 -TATTAATAAAA-TT-AATATAGCTTACATACGTAAATGAA
1 TTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAA
19242263 ATGCTTTTAA
Statistics
Matches: 282, Mismatches: 3, Indels: 42
0.86 0.01 0.13
Matches are distributed among these distances:
76 3 0.01
77 4 0.01
78 22 0.08
79 16 0.06
80 2 0.01
81 23 0.08
82 2 0.01
83 14 0.05
84 3 0.01
85 7 0.02
86 7 0.02
88 2 0.01
89 3 0.01
90 3 0.01
91 2 0.01
92 18 0.06
93 38 0.13
94 6 0.02
95 31 0.11
96 55 0.20
97 21 0.07
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.37
Consensus pattern (90 bp):
TTATTAATAAAATTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATTAAAAAAAAT
AGTAATACTTATTAAGTTAAAATTA
Found at i:19242124 original size:44 final size:44
Alignment explanation
Indices: 19241886--19242204 Score: 139
Period size: 47 Copynumber: 7.1 Consensus size: 44
19241876 ATAAAATATT
19241886 AAATATAGCTTACATACGT-AATGAATATATGTATAATAATAAAA
1 AAATATAGCTTACATACGTAAATGAATATATGTATAAT-ATAAAA
* ** * * *
19241930 AAA-ATAG-TAATACTTATTTAAGTTATAAATTTAT-TATTAATA-AAATTTT
1 AAATATAGCT--TACATACGTAA---ATGAATATATGTA-TAATATAAA---A
19241979 AAATATAGCTTACATACGTAAATGAAATATATGTATAATATTAAAA
1 AAATATAGCTTACATACGTAAATG-AATATATGTATAATA-TAAAA
* * ** * * * * *
19242025 AAAAATAG-TAATACTTATTTAAGTTAATAAATTTATTATTAATAAAA
1 AAATATAGCT--TACATACGTAAATGAATATATGTA-TAAT-ATAAAA
19242072 TTTAAATATAGCTTACATACGTAAATGAATATATGTATAATATAAAA
1 ---AAATATAGCTTACATACGTAAATGAATATATGTATAATATAAAA
** * * *
19242119 AAATATAAATTA-ATTA-TTAAGTTAA-A-AT-TATAA-ATAAAA
1 AAATATAGCTTACA-TACGTAAATGAATATATGTATAATATAAAA
*
19242158 TTAAATA-AGC-TACATACGTAAATG--TATATGTATAATATTAAA
1 --AAATATAGCTTACATACGTAAATGAATATATGTATAATATAAAA
19242200 AAATA
1 AAATA
19242205 GTAATACTAT
Statistics
Matches: 201, Mismatches: 41, Indels: 70
0.64 0.13 0.22
Matches are distributed among these distances:
39 11 0.05
40 18 0.09
41 12 0.06
42 7 0.03
43 11 0.05
44 21 0.10
45 2 0.01
46 20 0.10
47 37 0.18
48 18 0.09
49 31 0.15
50 11 0.05
51 2 0.01
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (44 bp):
AAATATAGCTTACATACGTAAATGAATATATGTATAATATAAAA
Found at i:19244257 original size:24 final size:24
Alignment explanation
Indices: 19244210--19244262 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
19244200 TAACTAACAC
*
19244210 AATAT-TAATATATATATGTTCAT
1 AATATATAATATATATACGTTCAT
19244233 AATATATAATATATAT-CGTTGCAT
1 AATATATAATATATATACGTT-CAT
19244257 -ATATAT
1 AATATAT
19244263 CTTTTTCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (24 bp):
AATATATAATATATATACGTTCAT
Found at i:19251366 original size:17 final size:18
Alignment explanation
Indices: 19251344--19251382 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19251334 ATGATTGTTT
19251344 ATTA-TTTAAAAAAATTA
1 ATTATTTTAAAAAAATTA
* *
19251361 ATTATTTTAAATAATTTA
1 ATTATTTTAAAAAAATTA
19251379 ATTA
1 ATTA
19251383 AAGTTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTATTTTAAAAAAATTA
Found at i:19259375 original size:24 final size:24
Alignment explanation
Indices: 19259345--19259392 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
19259335 AGGTATTATC
19259345 ATGTGGAATTCACTAAATAAGTTT
1 ATGTGGAATTCACTAAATAAGTTT
19259369 ATGTGGAATTCACTAAATAAGTTT
1 ATGTGGAATTCACTAAATAAGTTT
19259393 TCTTTTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (24 bp):
ATGTGGAATTCACTAAATAAGTTT
Found at i:19265915 original size:30 final size:29
Alignment explanation
Indices: 19265830--19265999 Score: 177
Period size: 29 Copynumber: 6.0 Consensus size: 29
19265820 TCAAAGACAC
* * *
19265830 CCTTTTAACAGAGATCGCCACAAGGGCTT
1 CCTTTTAATAGAGATTGCCACAAAGGCTT
* * **
19265859 CC-TTTAACAAAGATAACCACAAAGGCTT
1 CCTTTTAATAGAGATTGCCACAAAGGCTT
*
19265887 CCTTTTAATAGAGATTTCCACAAAAGGCTT
1 CCTTTTAATAGAGATTGCCAC-AAAGGCTT
19265917 CCTTTTAATAGAGATTGCCACAAAGGCTT
1 CCTTTTAATAGAGATTGCCACAAAGGCTT
** * *
19265946 CCTTTTAATAGAGATTATCATAAAGGCGT
1 CCTTTTAATAGAGATTGCCACAAAGGCTT
* *
19265975 CC-TTT--CAGAGATAGCCACAAAGGCT
1 CCTTTTAATAGAGATTGCCACAAAGGCT
19266000 CATTTTTACG
Statistics
Matches: 120, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
26 14 0.12
28 27 0.22
29 51 0.43
30 28 0.23
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (29 bp):
CCTTTTAATAGAGATTGCCACAAAGGCTT
Found at i:19265948 original size:59 final size:57
Alignment explanation
Indices: 19265830--19265999 Score: 182
Period size: 59 Copynumber: 3.0 Consensus size: 57
19265820 TCAAAGACAC
* * *
19265830 CCTTTTAACAGAGATCGCCACAAGGGCTTCCTTTAACAAAGATAACCACAAAGGCTT
1 CCTTTTAATAGAGATTGCCACAAAGGCTTCCTTTAACAAAGATAACCACAAAGGCTT
* * * **
19265887 CCTTTTAATAGAGATTTCCACAAAAGGCTTCCTTTTAATAGAGATTGCCACAAAGGCTT
1 CCTTTTAATAGAGATTGCCAC-AAAGGCTTCC-TTTAACAAAGATAACCACAAAGGCTT
** * * * *
19265946 CCTTTTAATAGAGATTATCATAAAGGCGTCCTTT--CAGAGATAGCCACAAAGGCT
1 CCTTTTAATAGAGATTGCCACAAAGGCTTCCTTTAACAAAGATAACCACAAAGGCT
19266000 CATTTTTACG
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
55 18 0.19
57 21 0.22
58 18 0.19
59 40 0.41
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (57 bp):
CCTTTTAATAGAGATTGCCACAAAGGCTTCCTTTAACAAAGATAACCACAAAGGCTT
Found at i:19267819 original size:9 final size:9
Alignment explanation
Indices: 19267798--19267834 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
19267788 TATTTTAGGA
19267798 TTTAGGG-T
1 TTTAGGGTT
19267806 TTTAGGGTT
1 TTTAGGGTT
*
19267815 TTTAGGATT
1 TTTAGGGTT
19267824 TTTAGGGTT
1 TTTAGGGTT
19267833 TT
1 TT
19267835 GGAGAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (9 bp):
TTTAGGGTT
Found at i:19273838 original size:25 final size:25
Alignment explanation
Indices: 19273807--19273887 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 25
19273797 TAGATAACCC
19273807 AATAAGATAATTGCATGTGAAAAAT
1 AATAAGATAATTGCATGTGAAAAAT
* ***
19273832 AATAAGATACTT--A---GATAACCC
1 AATAAGATAATTGCATGTGA-AAAAT
19273853 AATAAGATAATTGCATGTGAAAAAT
1 AATAAGATAATTGCATGTGAAAAAT
19273878 AATAAGATAA
1 AATAAGATAA
19273888 ATAAATAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
20 2 0.05
21 13 0.31
23 2 0.05
25 23 0.55
26 2 0.05
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (25 bp):
AATAAGATAATTGCATGTGAAAAAT
Found at i:19273860 original size:46 final size:46
Alignment explanation
Indices: 19273793--19273886 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
19273783 TTTAATTTAT
19273793 TACTTAGATAACCCAATAAGATAATTGCATGTGAAAAATAATAAGA
1 TACTTAGATAACCCAATAAGATAATTGCATGTGAAAAATAATAAGA
19273839 TACTTAGATAACCCAATAAGATAATTGCATGTGAAAAATAATAAGA
1 TACTTAGATAACCCAATAAGATAATTGCATGTGAAAAATAATAAGA
19273885 TA
1 TA
19273887 AATAAATAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.27
Consensus pattern (46 bp):
TACTTAGATAACCCAATAAGATAATTGCATGTGAAAAATAATAAGA
Found at i:19275435 original size:32 final size:34
Alignment explanation
Indices: 19275372--19275435 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
19275362 TCTAATAATT
* *
19275372 TCACTATTATAAAACTATTTTCCTTAAAAGAATG
1 TCACTATTATAAAACCATTCTCCTTAAAAGAATG
19275406 TCAC-ATTATAAAACCATTCT-CTTAAAAGAA
1 TCACTATTATAAAACCATTCTCCTTAAAAGAA
19275436 AATCGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.36
33 14 0.50
34 4 0.14
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (34 bp):
TCACTATTATAAAACCATTCTCCTTAAAAGAATG
Found at i:19276231 original size:22 final size:21
Alignment explanation
Indices: 19276217--19276273 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 21
19276207 TTGTATTGAT
19276217 ATTGTTCTTGATTTGTTCTGAA
1 ATTGTT-TTGATTTGTTCTGAA
19276239 ATTGTTTTGA-TTGTCTGCTGGAA
1 ATTGTTTTGATTTGT-T-CT-GAA
19276262 ATTGTTTTGATT
1 ATTGTTTTGATT
19276274 GTCTGCTGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.13
21 5 0.16
22 8 0.26
23 13 0.42
24 1 0.03
ACGTcount: A:0.18, C:0.07, G:0.21, T:0.54
Consensus pattern (21 bp):
ATTGTTTTGATTTGTTCTGAA
Found at i:19276264 original size:23 final size:23
Alignment explanation
Indices: 19276236--19276288 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
19276226 GATTTGTTCT
19276236 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
19276259 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
19276282 GAAATTG
1 GAAATTG
19276289 AATTTGTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.45
Consensus pattern (23 bp):
GAAATTGTTTTGATTGTCTGCTG
Found at i:19277529 original size:48 final size:48
Alignment explanation
Indices: 19277474--19277800 Score: 618
Period size: 48 Copynumber: 6.8 Consensus size: 48
19277464 AAATAATTAC
*
19277474 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
19277522 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
19277570 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
19277618 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
19277666 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
19277714 ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
19277762 ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
19277801 ATCAAGAAAT
Statistics
Matches: 275, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 275 1.00
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.36
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:19281859 original size:24 final size:25
Alignment explanation
Indices: 19281832--19281879 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
19281822 TTATGAAATT
19281832 TAAT-ATTAATTA-TTAAATTATATG
1 TAATAATT-ATTATTTAAATTATATG
19281856 TAATAATTATTATTTTAAATTATA
1 TAATAATTATTA-TTTAAATTATA
19281880 GAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATAATTATTATTTAAATTATATG
Found at i:19281872 original size:93 final size:91
Alignment explanation
Indices: 19281695--19281904 Score: 262
Period size: 93 Copynumber: 2.3 Consensus size: 91
19281685 TTGATTTTAG
* * * *
19281695 TAAATTGATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
19281760 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATATTAATTATTTTAAATTATA
*
19281787 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTTATGAAATT-TAATATTAATTATTAAATT
1 TAAATTCATATAAGAAAATTTATTATCAAGAA-TTTTATGAAATTAT-ATA-TAACTATTAAATT
19281851 ATATGTAATAATT-ATTATTTTAAATTATA
63 ATATGTAAT-ATTAATTATTTTAAATTATA
* * * *
19281880 GAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
19281905 GTTATAATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
91 15 0.15
92 30 0.29
93 55 0.53
94 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATATTAATTATTTTAAATTATA
Found at i:19282033 original size:66 final size:63
Alignment explanation
Indices: 19281958--19282168 Score: 183
Period size: 66 Copynumber: 3.4 Consensus size: 63
19281948 AAATATATTT
19281958 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
19282023 A
63 A
* * * * **
19282024 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAA
*
19282078 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
*
19282142 AG
62 AA
*
19282144 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
19282169 AAATTATATA
Statistics
Matches: 113, Mismatches: 15, Indels: 35
0.69 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 9 0.08
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAA
Found at i:19282049 original size:120 final size:120
Alignment explanation
Indices: 19281920--19282212 Score: 493
Period size: 120 Copynumber: 2.4 Consensus size: 120
19281910 AATTATTTTA
* * *
19281920 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
19281982 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAG
19282040 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
19282105 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAG
19282160 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
19282213 TAAATATGAT
Statistics
Matches: 165, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
119 6 0.04
120 157 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAG
Found at i:19282057 original size:59 final size:59
Alignment explanation
Indices: 19281994--19282177 Score: 164
Period size: 59 Copynumber: 3.1 Consensus size: 59
19281984 TATAGTATCA
19281994 TATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAAAT
* * * * * * * * *
19282053 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-CAGTAT
1 TATATTATGATTTGAGTA-AAT-TCATATAAAAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
19282112 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAAAT
19282173 TATAT
1 TATAT
19282178 ATTTTAATTA
Statistics
Matches: 93, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
56 6 0.06
57 11 0.12
58 9 0.10
59 19 0.20
60 8 0.09
61 14 0.15
62 9 0.10
63 11 0.12
64 6 0.06
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.48
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAAAT
Found at i:19282080 original size:15 final size:15
Alignment explanation
Indices: 19282045--19282096 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
19282035 TTAAGAATTT
*
19282045 TATTAAATTAT-ATA
1 TATTTAATTATAATA
19282059 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
19282073 TATTTAATAATAAT-
1 TATTTAATTATAATA
19282087 TATGTTAATT
1 TAT-TTAATT
19282097 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:19282165 original size:61 final size:61
Alignment explanation
Indices: 19281982--19282167 Score: 179
Period size: 61 Copynumber: 3.1 Consensus size: 61
19281972 CAAATTTTCA
19281982 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAAT
1 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAAT
* * * * * * * * *
19282043 TTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TA
1 TTTA-TAGTATCATATATTATGATTTGAGTAAAT-TCATATAAAAAT-ATTA-ATT-ATTAAGAA
19282101 T
61 T
* *
19282102 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
1 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAAT
19282163 TTTAT
1 TTTAT
19282168 TAAATTATAT
Statistics
Matches: 93, Mismatches: 20, Indels: 24
0.68 0.15 0.18
Matches are distributed among these distances:
57 11 0.12
58 7 0.08
59 18 0.19
60 16 0.17
61 22 0.24
62 8 0.09
63 11 0.12
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAAT
Found at i:19282195 original size:16 final size:16
Alignment explanation
Indices: 19282174--19282215 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
19282164 TTATTAAATT
*
19282174 ATATATTTTAATTATA
1 ATATATTTTAATAATA
19282190 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
19282205 AT-TATGTTTAA
1 ATATAT-TTTAA
19282216 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:19282200 original size:15 final size:15
Alignment explanation
Indices: 19282165--19282206 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19282155 TTAAGAATTT
*
19282165 TATTAAATTAT-ATA
1 TATTTAATTATAATA
19282179 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
19282193 TATTTAATAATAAT
1 TATTTAATTATAAT
19282207 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:19282322 original size:154 final size:155
Alignment explanation
Indices: 19282149--19282455 Score: 553
Period size: 154 Copynumber: 2.0 Consensus size: 155
19282139 ATAAGAATAT
*
19282149 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
19282214 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAAT-AATA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAAATA
19282278 ATAATTTACCAAAACAAATTTCTGC
131 ATAATTTACCAAAACAAATTTCTGC
19282303 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
19282368 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAAT-A-AA
*
19282433 TAATCATTTACCAAAACAAATTT
129 TAATAATTTACCAAAACAAATTT
19282456 ATGCAAAACA
Statistics
Matches: 146, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
154 122 0.84
157 24 0.16
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (155 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAAATA
ATAATTTACCAAAACAAATTTCTGC
Found at i:19282343 original size:18 final size:17
Alignment explanation
Indices: 19282315--19282349 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19282305 ATTATTAAGA
*
19282315 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
19282332 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
19282350 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:19282464 original size:15 final size:15
Alignment explanation
Indices: 19282444--19282474 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
19282434 AATCATTTAC
19282444 CAAAACAAATTTATG
1 CAAAACAAATTTATG
19282459 CAAAACAAATTTATG
1 CAAAACAAATTTATG
19282474 C
1 C
19282475 TAAGGGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.16, G:0.06, T:0.26
Consensus pattern (15 bp):
CAAAACAAATTTATG
Found at i:19282621 original size:16 final size:16
Alignment explanation
Indices: 19282600--19282635 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
19282590 GATTTGCTAT
19282600 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
19282616 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
19282632 TACA
1 TACA
19282636 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:19287552 original size:33 final size:32
Alignment explanation
Indices: 19287507--19287605 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 32
19287497 GGATGTTCTG
19287507 TCACCGACTGTACATTTGTCTCCTGTCCCAAAT
1 TCACCGACTGTACATTTGTCTCCT-TCCCAAAT
*
19287540 TCACCGAATGTACATTTGTCTCCTTTCCCAAAT
1 TCACCGACTGTACATTTGTCTCC-TTCCCAAAT
* * *
19287573 TCACCGGCTGTACATCTGTCTCCTTCTCAAAT
1 TCACCGACTGTACATTTGTCTCCTTCCCAAAT
19287605 T
1 T
19287606 TTGATCGATC
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
32 9 0.15
33 50 0.83
34 1 0.02
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.35
Consensus pattern (32 bp):
TCACCGACTGTACATTTGTCTCCTTCCCAAAT
Found at i:19296791 original size:21 final size:21
Alignment explanation
Indices: 19296765--19296808 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
19296755 CAAACCTAAG
* *
19296765 CCACACTTGAGACAATGAATA
1 CCACACCTGAGACAATAAATA
19296786 CCACACCTGAGACAATAAATA
1 CCACACCTGAGACAATAAATA
19296807 CC
1 CC
19296809 CTGACCATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.30, G:0.11, T:0.16
Consensus pattern (21 bp):
CCACACCTGAGACAATAAATA
Found at i:19308864 original size:25 final size:25
Alignment explanation
Indices: 19308819--19308868 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
19308809 TCTGTATTTT
*
19308819 TTTTTTGAAAATTTATTATTTTTAA
1 TTTTTTGAAAATTTATAATTTTTAA
*
19308844 TTTTTT-ATAATTTATAAATTTTTAA
1 TTTTTTGAAAATTTAT-AATTTTTAA
19308869 AACTGTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTTTTGAAAATTTATAATTTTTAA
Found at i:19331001 original size:28 final size:27
Alignment explanation
Indices: 19330969--19331035 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 27
19330959 TTATAAATTT
19330969 AGAGGATTTTAAAAGAATTAGAGGTTAA
1 AGAGG-TTTTAAAAGAATTAGAGGTTAA
*
19330997 AGAGGTTTTTGAAAGAATTAGAGGTTAA
1 AGAGG-TTTTAAAAGAATTAGAGGTTAA
19331025 AGAGGTTTTAA
1 AGAGGTTTTAA
19331036 GTAATGGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 5 0.14
28 31 0.86
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (27 bp):
AGAGGTTTTAAAAGAATTAGAGGTTAA
Found at i:19333852 original size:16 final size:16
Alignment explanation
Indices: 19333831--19333861 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19333821 CTATGCATGT
*
19333831 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
19333847 AAAATACAAAAGACA
1 AAAATACAAAAGACA
19333862 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:19339474 original size:50 final size:50
Alignment explanation
Indices: 19339407--19339509 Score: 206
Period size: 50 Copynumber: 2.1 Consensus size: 50
19339397 TGCATTGAGA
19339407 AAGGTATGTGCCCATAAGTGCATTGGTAAGGAAGCCTGAGCAAGAAATGT
1 AAGGTATGTGCCCATAAGTGCATTGGTAAGGAAGCCTGAGCAAGAAATGT
19339457 AAGGTATGTGCCCATAAGTGCATTGGTAAGGAAGCCTGAGCAAGAAATGT
1 AAGGTATGTGCCCATAAGTGCATTGGTAAGGAAGCCTGAGCAAGAAATGT
19339507 AAG
1 AAG
19339510 ACCGATTTCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.21
Consensus pattern (50 bp):
AAGGTATGTGCCCATAAGTGCATTGGTAAGGAAGCCTGAGCAAGAAATGT
Found at i:19350918 original size:17 final size:16
Alignment explanation
Indices: 19350889--19350922 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
19350879 GCACTAAGAT
*
19350889 TAACATGCGATGACAA
1 TAACATGCAATGACAA
19350905 TAACAATGCAATGACAA
1 TAAC-ATGCAATGACAA
19350922 T
1 T
19350923 GTTCAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.21
Consensus pattern (16 bp):
TAACATGCAATGACAA
Found at i:19369188 original size:25 final size:25
Alignment explanation
Indices: 19369136--19369188 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
19369126 ATAAAATAAC
* * * *
19369136 TTAAATACTAAAATGGATAGAAAAA
1 TTAAATACCAAAATGAAAACAAAAA
*
19369161 TTAAATACCAAAATGAAAACAAATA
1 TTAAATACCAAAATGAAAACAAAAA
19369186 TTA
1 TTA
19369189 TTCAATGGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.25
Consensus pattern (25 bp):
TTAAATACCAAAATGAAAACAAAAA
Found at i:19373013 original size:210 final size:209
Alignment explanation
Indices: 19372428--19373054 Score: 968
Period size: 211 Copynumber: 3.0 Consensus size: 209
19372418 TATATGAAAA
* *
19372428 ACTTAGAAAGGTTTAGCATATCAGGGTTGGACAAATGTCAGCATCCAAGATTGACTTGAGCCTGG
1 ACTTAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGA-TCACTTGAGCCTGG
* * * *
19372493 GTAACATACCTCATACTGAATGAAGTAAAGAAAAAAAATTGAAAAACCACATTCAATGGGAAATA
65 GTAACATAGCTCATACCGAATGAAGTAATGAAAACAAATTGAAAAACCACATTCAATGGGAAATA
*
19372558 AAGTACATGAAAGAATTGAAGATCATTCTTTTTGCAACCTTGGATTCAACCCAAGCAGTGAAGCA
130 AAGTACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGCA
19372623 AACAAATAAAAGATTC
195 AACAAAT-AAAGATTC
* * * *
19372639 ACCTAGAAAGGTTTAGCATACCAGTGTTGGACAAAAGTCAGCATCCAAGAGTCACTTGAGCGTGG
1 ACTTAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGA-TCACTTGAGCCTGG
* *
19372704 CTAACATAGCTCATACCAAATGAAGTAATGAAAACAAATTGAAAAAACCACATTCAATGGGAAAT
65 GTAACATAGCTCATACCGAATGAAGTAATGAAAACAAATTG-AAAAACCACATTCAATGGGAAAT
* * *
19372769 AAAGTACATGAGAGAACTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGACGC
129 AAAGTACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGC
19372834 AAACAAATAAAGATTC
194 AAACAAATAAAGATTC
* * * *
19372850 ACTTCGAAAGGTTTACCATATCAGTGTTAGACAAATGTCAGCAACCAAGATCCAC-TGAGCCTGG
1 ACTTAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGAT-CACTTGAGCCTGG
* *
19372914 GTAACATAGCTCATACCGAATGATGCAATGAAAACAAATTGAAAAAGCCACATTCAATGGGAAAT
65 GTAACATAGCTCATACCGAATGAAGTAATGAAAACAAATTGAAAAA-CCACATTCAATGGGAAAT
* * *
19372979 AAAGTACATGAAAGGATTGAATATCATCCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGC
129 AAAGTACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGC
19373044 AAACAAATAAA
194 AAACAAATAAA
19373055 AGCTTCTCAT
Statistics
Matches: 378, Mismatches: 35, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
209 5 0.01
210 134 0.35
211 147 0.39
212 92 0.24
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (209 bp):
ACTTAGAAAGGTTTAGCATATCAGTGTTGGACAAATGTCAGCATCCAAGATCACTTGAGCCTGGG
TAACATAGCTCATACCGAATGAAGTAATGAAAACAAATTGAAAAACCACATTCAATGGGAAATAA
AGTACATGAAAGAATTGAAGATCATTCTTTTTGCAACATTGGATTCAACCCAAGCAGTGAAGCAA
ACAAATAAAGATTC
Found at i:19375744 original size:22 final size:22
Alignment explanation
Indices: 19375719--19375762 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19375709 ATTTTAAAAT
19375719 TTAAAAATTTAAAAATAAAGTA
1 TTAAAAATTTAAAAATAAAGTA
** *
19375741 TTAAATCTTTGAAAATAAAGTA
1 TTAAAAATTTAAAAATAAAGTA
19375763 GGGACTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (22 bp):
TTAAAAATTTAAAAATAAAGTA
Found at i:19377217 original size:77 final size:77
Alignment explanation
Indices: 19376980--19377196 Score: 391
Period size: 77 Copynumber: 2.8 Consensus size: 77
19376970 AATTCATCTC
19376980 TTATCCTTCTTC-AAAATTCAAATAGAAATAGAATTCTATATCTTTTTATCTTCTTATCCTAATT
1 TTATCCTTCTTCAAAAATTCAAATAGAAATAGAATTCTATATCTTTTTATCTTCTTATCCTAATT
19377044 TGAAATCATATA
66 TGAAATCATATA
19377056 TTATCCTTCTTCAAAAATTCAAATAGAAATAGAATTCTATATCTTTTTATCTTCTTATCCTAATT
1 TTATCCTTCTTCAAAAATTCAAATAGAAATAGAATTCTATATCTTTTTATCTTCTTATCCTAATT
19377121 TGAAATCATATA
66 TGAAATCATATA
* * *
19377133 TTATCCTTCTTCAAAAATTCAAATAGAAATAGAAATCCATATCTTCTTTATCATCTTATCCTAA
1 TTATCCTTCTTCAAAAATTCAAATAGAAATAGAATTCTATATCTT-TTTATCTTCTTATCCTAA
19377197 CTAGAATTCA
Statistics
Matches: 136, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
76 12 0.09
77 107 0.79
78 17 0.12
ACGTcount: A:0.36, C:0.17, G:0.04, T:0.43
Consensus pattern (77 bp):
TTATCCTTCTTCAAAAATTCAAATAGAAATAGAATTCTATATCTTTTTATCTTCTTATCCTAATT
TGAAATCATATA
Found at i:19378854 original size:3 final size:3
Alignment explanation
Indices: 19378846--19378923 Score: 106
Period size: 3 Copynumber: 26.3 Consensus size: 3
19378836 TTTACTTAAG
* *
19378846 ATT ATT ATT ATT AATT -CT ATT ATT ATT ATT ATT AAT -TT ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
19378890 ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
19378924 CTGTTTACTT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
2 2 0.03
3 61 0.92
4 3 0.05
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:19380071 original size:76 final size:76
Alignment explanation
Indices: 19379919--19380063 Score: 227
Period size: 76 Copynumber: 1.9 Consensus size: 76
19379909 CACTCTCCCC
*
19379919 TATCTTACATTATATACAATATCTTTACATAAAAATCCCTAAACAATAAGTGTCTAAATACACCC
1 TATCTTACATTACATACAATATCTTTACATAAAAATCCCTAAACAATAAGTGTCTAAATACACCC
19379984 CAAACAACTAA
66 CAAACAACTAA
* * * * * *
19379995 TATCTTGCATTACATATAATATCTTTACATAAAAATCCCTAAATAATGAGTGTTTAAATGCACCC
1 TATCTTACATTACATACAATATCTTTACATAAAAATCCCTAAACAATAAGTGTCTAAATACACCC
19380060 CAAA
66 CAAA
19380064 TGGCTAATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (76 bp):
TATCTTACATTACATACAATATCTTTACATAAAAATCCCTAAACAATAAGTGTCTAAATACACCC
CAAACAACTAA
Found at i:19382490 original size:15 final size:14
Alignment explanation
Indices: 19382469--19382504 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
19382459 ATAATCCTTA
*
19382469 ATAATTATCTTAAT
1 ATAATTATCCTAAT
19382483 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
19382498 ATAATTA
1 ATAATTA
19382505 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:19383328 original size:91 final size:89
Alignment explanation
Indices: 19383116--19383328 Score: 239
Period size: 89 Copynumber: 2.4 Consensus size: 89
19383106 ATCGGATTGT
* * *
19383116 TCATAAGAGCTTTCCAA-TCGATAACATGCCAGATGCACATAGGGAAAAACTCATATGCTAAACA
1 TCATAAGAGCTTTCCAACT-GATAACATGCCAGATGCACATAGGGAAAAACCCATAGGCCAAACA
* * *
19383180 TTTTCCCTGATAACATGCTAGTTTC
65 TTCTCCCCGATAACACGCTAGTTTC
* * ** * * * *
19383205 TCATAAGAGCTTTCCAACCGATAATAAACCAGATGCACATAGTGCAAAGCCCGTAGGCCAAACAT
1 TCATAAGAGCTTTCCAACTGATAACATGCCAGATGCACATAGGGAAAAACCCATAGGCCAAACAT
* *
19383270 TCTCCCACGGTAACACGTTAGTTTGC
66 TCTCCC-CGATAACACGCTAGTTT-C
*
19383296 TCATAAAAGCTTTCCAACTGATAACATGCCAGA
1 TCATAAGAGCTTTCCAACTGATAACATGCCAGA
19383329 ATATTCAAAG
Statistics
Matches: 100, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
89 58 0.58
90 13 0.13
91 29 0.29
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (89 bp):
TCATAAGAGCTTTCCAACTGATAACATGCCAGATGCACATAGGGAAAAACCCATAGGCCAAACAT
TCTCCCCGATAACACGCTAGTTTC
Found at i:19384676 original size:62 final size:60
Alignment explanation
Indices: 19384581--19384700 Score: 213
Period size: 62 Copynumber: 2.0 Consensus size: 60
19384571 CACAGGGGCG
19384581 TGTGACTAGCCTGTGTCTCACACGGGTGTGTGCCCAGCTCGTGTGGAAATGCTTAGGCCA
1 TGTGACTAGCCTGTGTCTCACACGGGTGTGTGCCCAGCTCGTGTGGAAATGCTTAGGCCA
*
19384641 TGTGACTAGCCTGTGTGTCTTACACGGGTGTGTGCCCAGCTCGTGTGGAAATGCTTAGGC
1 TGTGACTAGCC--TGTGTCTCACACGGGTGTGTGCCCAGCTCGTGTGGAAATGCTTAGGC
19384701 TGTGTGGATC
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
60 11 0.19
62 46 0.81
ACGTcount: A:0.16, C:0.23, G:0.33, T:0.28
Consensus pattern (60 bp):
TGTGACTAGCCTGTGTCTCACACGGGTGTGTGCCCAGCTCGTGTGGAAATGCTTAGGCCA
Found at i:19384705 original size:32 final size:32
Alignment explanation
Indices: 19384607--19384706 Score: 77
Period size: 32 Copynumber: 3.2 Consensus size: 32
19384597 CTCACACGGG
19384607 TGTGTGCCCAGCTCGTGTGGAAATGCTTAGGC
1 TGTGTGCCCAGCTCGTGTGGAAATGCTTAGGC
** * * *
19384639 CATGTGACTAGC-C-TGT-G---TGTCTTACACGGG
1 TGTGTGCCCAGCTCGTGTGGAAATG-CTT--A-GGC
19384669 TGTGTGCCCAGCTCGTGTGGAAATGCTTAGGC
1 TGTGTGCCCAGCTCGTGTGGAAATGCTTAGGC
19384701 TGTGTG
1 TGTGTG
19384707 GATCCTGAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 20
0.62 0.13 0.26
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
29 2 0.04
30 13 0.27
31 2 0.04
32 19 0.40
33 2 0.04
35 3 0.06
36 2 0.04
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.30
Consensus pattern (32 bp):
TGTGTGCCCAGCTCGTGTGGAAATGCTTAGGC
Found at i:19394862 original size:24 final size:24
Alignment explanation
Indices: 19394830--19394881 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
19394820 TCTTTGGAAT
19394830 TGCCCCTGATGCCGTTACTTATAA
1 TGCCCCTGATGCCGTTACTTATAA
19394854 TGCCCCTGATGCCGTTACTTATAA
1 TGCCCCTGATGCCGTTACTTATAA
19394878 TGCC
1 TGCC
19394882 TTCATGAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (24 bp):
TGCCCCTGATGCCGTTACTTATAA
Found at i:19409139 original size:27 final size:27
Alignment explanation
Indices: 19409119--19409531 Score: 392
Period size: 27 Copynumber: 15.4 Consensus size: 27
19409109 GGGGTATAAT
19409119 AGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* * *
19409146 GGTCATTCTACCTTAT-GGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* * *
19409172 GGTCATTCTACCTTAT-GGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
*
19409198 AGTCATTCTACCCTAT-GGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* * *
19409224 -GATCATTCTACCATATAGGGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTC
* * * * *
19409251 GGCCAGTTTACCATATGAGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* * *
19409278 AGTCATTCTATCTTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
*
19409305 AGTCATTTTATCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* * *
19409332 AGTCATTGTACCCTATAGGGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTC
* *
19409359 AGTTATTTTACCCTATAGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
*
19409386 -GATCATTTTAACCTATGGGGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTC
* *
19409413 GGTCATTTTATCCTAT-GGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* * *
19409439 -GATCATTCTATCTTATGGGGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTC
* * *
19409466 -GATCATTTTATCCTATGAGGGTATTTT
1 AG-TCATTTTACCCTATGGGGGTATTTC
* * * *
19409493 GGTCATTCTATCCTATGGGGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTC
*
19409520 GGTCATTTTACC
1 AGTCATTTTACC
19409532 TATTTTAGGG
Statistics
Matches: 337, Mismatches: 41, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
25 2 0.01
26 96 0.28
27 236 0.70
28 3 0.01
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGGGGTATTTC
Found at i:19420130 original size:19 final size:19
Alignment explanation
Indices: 19420108--19420145 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
19420098 CCACTGTCAC
*
19420108 CCACCGTAATTAAATTTGT
1 CCACCGTAATCAAATTTGT
19420127 CCACCGTAATCAAATTTGT
1 CCACCGTAATCAAATTTGT
19420146 TATTAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CCACCGTAATCAAATTTGT
Found at i:19427515 original size:19 final size:19
Alignment explanation
Indices: 19427491--19427531 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
19427481 ACCACCATAT
19427491 GTTATGATTCAAACTCTTC
1 GTTATGATTCAAACTCTTC
19427510 GTTATGATTCAAACTCTTC
1 GTTATGATTCAAACTCTTC
19427529 GTT
1 GTT
19427532 GGATGGTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (19 bp):
GTTATGATTCAAACTCTTC
Found at i:19431096 original size:22 final size:22
Alignment explanation
Indices: 19431067--19431108 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19431057 AAAAAAGTTC
*
19431067 TAATGTTGTACGT-AATTTTCA
1 TAATGTTGCACGTAAATTTTCA
19431088 TAATAGTTGCACGTAAATTTT
1 TAAT-GTTGCACGTAAATTTT
19431109 TATTTAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 8 0.44
23 6 0.33
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (22 bp):
TAATGTTGCACGTAAATTTTCA
Found at i:19435127 original size:4 final size:4
Alignment explanation
Indices: 19435120--19435169 Score: 52
Period size: 4 Copynumber: 13.0 Consensus size: 4
19435110 ATTAGAAATT
**
19435120 AGAA AGAA AG-A A-AA AGAA AGAA A-AA TAGAA AGAA AGAA AGGG AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA -AGAA AGAA AGAA AGAA AGAA
19435166 AGAA
1 AGAA
19435170 GAGACGCACG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
3 6 0.16
4 30 0.79
5 2 0.05
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (4 bp):
AGAA
Found at i:19435608 original size:7 final size:7
Alignment explanation
Indices: 19435596--19435621 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19435586 TAAAAATTTA
19435596 AATATTC
1 AATATTC
19435603 AATATTC
1 AATATTC
19435610 AATATTC
1 AATATTC
19435617 AATAT
1 AATAT
19435622 GAAATTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATTC
Found at i:19437198 original size:21 final size:21
Alignment explanation
Indices: 19437174--19437213 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19437164 CTAGGATGAT
*
19437174 TGTTTTAGCATGTTTTGAATA
1 TGTTTGAGCATGTTTTGAATA
* *
19437195 TGTTTGATCGTGTTTTGAA
1 TGTTTGAGCATGTTTTGAA
19437214 CAGATTAAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.05, G:0.23, T:0.53
Consensus pattern (21 bp):
TGTTTGAGCATGTTTTGAATA
Found at i:19438549 original size:27 final size:27
Alignment explanation
Indices: 19438505--19438566 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
19438495 ATATATTTTT
***
19438505 AAATATATGTGCCCATCAAGTTCATGC
1 AAATATATGTGAAAATCAAGTTCATGC
19438532 AAATATATGTGAAAATCAAGTTCATGC
1 AAATATATGTGAAAATCAAGTTCATGC
19438559 AAATATAT
1 AAATATAT
19438567 ATAAATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.31
Consensus pattern (27 bp):
AAATATATGTGAAAATCAAGTTCATGC
Found at i:19454769 original size:27 final size:28
Alignment explanation
Indices: 19454709--19454763 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
19454699 CTCTTTTGAG
*
19454709 TCAATAAATTTTCTTTGAGTTTTTCTTT
1 TCAAGAAATTTTCTTTGAGTTTTTCTTT
19454737 TCAAGAAATTTTC-TTGAG-TTTTCTTT
1 TCAAGAAATTTTCTTTGAGTTTTTCTTT
19454763 T
1 T
19454764 AGAAGAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 9 0.35
27 5 0.19
28 12 0.46
ACGTcount: A:0.22, C:0.11, G:0.09, T:0.58
Consensus pattern (28 bp):
TCAAGAAATTTTCTTTGAGTTTTTCTTT
Found at i:19466944 original size:31 final size:31
Alignment explanation
Indices: 19466906--19466965 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
19466896 AGTTACTAAT
* *
19466906 GTTTTAGATTATTTTTATTTTGGTCACTCAC
1 GTTTTAGATCATTTATATTTTGGTCACTCAC
*
19466937 GTTTTAGATCGTTTATATTTTGGTCACTC
1 GTTTTAGATCATTTATATTTTGGTCACTC
19466966 TCCATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.18, C:0.13, G:0.15, T:0.53
Consensus pattern (31 bp):
GTTTTAGATCATTTATATTTTGGTCACTCAC
Found at i:19469755 original size:20 final size:18
Alignment explanation
Indices: 19469732--19469776 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
19469722 TGTATTTTTG
19469732 TTTTTTTTTTCAACTCAAAT
1 TTTTTTTTTTCAA-T-AAAT
*
19469752 TTTTTATTTTTCTATAAAT
1 TTTTT-TTTTTCAATAAAT
19469771 TTTTTT
1 TTTTTT
19469777 GAAGTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 1 0.04
19 9 0.39
20 6 0.26
21 7 0.30
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTTTTTCAATAAAT
Found at i:19470370 original size:20 final size:19
Alignment explanation
Indices: 19470316--19470378 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 19
19470306 CGTTGAAAAA
*
19470316 TTATTAAAAAATATATTAT
1 TTATTAAAAAATAAATTAT
* *
19470335 TT-TTACAAAGTAAATTAT
1 TTATTAAAAAATAAATTAT
*
19470353 GTTATTATAAAATAAATT-T
1 -TTATTAAAAAATAAATTAT
19470372 TT-TTAAA
1 TTATTAAA
19470379 TGTTTTTATA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
17 4 0.11
18 15 0.42
19 5 0.14
20 12 0.33
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (19 bp):
TTATTAAAAAATAAATTAT
Found at i:19470969 original size:21 final size:22
Alignment explanation
Indices: 19470945--19470990 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
19470935 TCCCTTTCTC
19470945 CTTTCTCTTCTAAGC-AATCTT
1 CTTTCTCTTCTAAGCAAATCTT
19470966 CTTTCTCTTCTAAGCAAATCTT
1 CTTTCTCTTCTAAGCAAATCTT
19470988 CTT
1 CTT
19470991 CCACATCCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.20, C:0.28, G:0.04, T:0.48
Consensus pattern (22 bp):
CTTTCTCTTCTAAGCAAATCTT
Found at i:19473251 original size:18 final size:18
Alignment explanation
Indices: 19473228--19473263 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
19473218 CAATTAAACC
19473228 ATTTGATTGATATATTTA
1 ATTTGATTGATATATTTA
* *
19473246 ATTTGATTTATTTATTTA
1 ATTTGATTGATATATTTA
19473264 TAAATAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (18 bp):
ATTTGATTGATATATTTA
Found at i:19473343 original size:20 final size:20
Alignment explanation
Indices: 19473279--19473355 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
19473269 AAATCATTGC
19473279 AATATATGTAAAAATAATTT
1 AATATATGTAAAAATAATTT
* * *
19473299 AA-A-ATATAAAAATTTATTA
1 AATATATGTAAAAA-TAATTT
19473318 ATATATATGTAAAAATAATTT
1 A-ATATATGTAAAAATAATTT
19473339 AATATATGTAAAAATAA
1 AATATATGTAAAAATAA
19473356 CTTTTCCGGA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.17
19 6 0.13
20 19 0.40
21 6 0.13
22 8 0.17
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (20 bp):
AATATATGTAAAAATAATTT
Found at i:19473448 original size:14 final size:15
Alignment explanation
Indices: 19473426--19473502 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
19473416 CAATCAAACA
19473426 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
19473440 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
**
19473455 ATAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
19473475 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
19473489 CCAGAAAA-CATTTT
1 CCAGAAAATCATTTT
19473503 ACAGCCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 13 0.26
16 1 0.02
18 1 0.02
19 3 0.06
20 8 0.16
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:19473480 original size:20 final size:20
Alignment explanation
Indices: 19473442--19473481 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19473432 AATATTTTCC
* *
19473442 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
19473462 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
19473482 TCATTTTCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:19473495 original size:34 final size:35
Alignment explanation
Indices: 19473430--19473496 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
19473420 CAAACACCAG
* *
19473430 AAAATATTTTCCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
19473465 AAAACATTTTCCAG-AAATCATTTTCCAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
19473497 CATTTTACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:19476187 original size:47 final size:47
Alignment explanation
Indices: 19476113--19476378 Score: 153
Period size: 47 Copynumber: 5.7 Consensus size: 47
19476103 ACAATTTAGG
* * *
19476113 CAGCATATATACAACATATT-GAGCAGCATTTTTGCACCAAAATTGGA
1 CAGCTTATATACAACAAATTGGA-CAGCATTTTTACACCAAAATTGGA
* * *
19476160 CAGCTTATACACAACAAATTGGACAGCA--ATTACACAACAAATT-GA
1 CAGCTTATATACAACAAATTGGACAGCATTTTTACACCA-AAATTGGA
* * * * * *
19476205 GCAGCATT-TTTACACCAAAAATTGGACAGC-TTATATAAAAC-TAATTGG-
1 -CAGC-TTATATACA--ACAAATTGGACAGCATT-TTTACACCAAAATTGGA
**
19476253 CAGCAAATATACAACAAATT-GAGCAGCATTTTTACACCAAAAATTGGA
1 CAGCTTATATACAACAAATTGGA-CAGCATTTTTACACC-AAAATTGGA
** * *
19476301 CAGCTTATATACAACAAATTGG-CAGCAAATATACAAC-AAATT-GA
1 CAGCTTATATACAACAAATTGGACAGCATTTTTACACCAAAATTGGA
*
19476345 GCAGCATATATATACAAGAAATTGTG-CAGCATTT
1 -CAGC-T-TATATACAACAAATTG-GACAGCATTT
19476379 AAGCATAAAA
Statistics
Matches: 166, Mismatches: 32, Indels: 41
0.69 0.13 0.17
Matches are distributed among these distances:
44 4 0.02
45 32 0.19
46 16 0.10
47 65 0.39
48 44 0.27
49 2 0.01
50 3 0.02
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (47 bp):
CAGCTTATATACAACAAATTGGACAGCATTTTTACACCAAAATTGGA
Found at i:19476355 original size:23 final size:22
Alignment explanation
Indices: 19476085--19476376 Score: 208
Period size: 23 Copynumber: 12.5 Consensus size: 22
19476075 ACACCAAATT
*
19476085 TTGGACAGCATATATACAACAAT
1 TTGG-CAGCATATATACAACAAA
*
19476108 TTAGGCAGCATATATACAACATA
1 TT-GGCAGCATATATACAACAAA
* * * *
19476131 TTGAGCAGCATTTTTGCACCAAAA
1 TTG-GCAGCATATATACAAC-AAA
* *
19476155 TTGGACAGCTTATACACAACAAA
1 TTGG-CAGCATATATACAACAAA
*
19476178 TTGGACAGCA-ATTACACAACAAA
1 TTGG-CAGCATA-TATACAACAAA
* * *
19476201 TTGAGCAGCATTTTTACACCAAAAA
1 TTG-GCAGCATATATACA--ACAAA
* * *
19476226 TTGGACAGCTTATATAAAACTAA
1 TTGG-CAGCATATATACAACAAA
*
19476249 TTGGCAGCAAATATACAACAAA
1 TTGGCAGCATATATACAACAAA
* * *
19476271 TTGAGCAGCATTTTTACACCAAAAA
1 TTG-GCAGCATATATACA--ACAAA
*
19476296 TTGGACAGCTTATATACAACAAA
1 TTGG-CAGCATATATACAACAAA
*
19476319 TTGGCAGCAAATATACAACAAA
1 TTGGCAGCATATATACAACAAA
*
19476341 TTGAGCAGCATATATATACAAGAAA
1 TTG-GCAGC--ATATATACAACAAA
19476366 TTGTGCAGCAT
1 TTG-GCAGCAT
19476377 TTAAGCATAA
Statistics
Matches: 211, Mismatches: 41, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
22 38 0.18
23 101 0.48
24 19 0.09
25 53 0.25
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (22 bp):
TTGGCAGCATATATACAACAAA
Found at i:19476368 original size:70 final size:70
Alignment explanation
Indices: 19476065--19476351 Score: 423
Period size: 70 Copynumber: 4.1 Consensus size: 70
19476055 CCAAACTAAA
* * ** * * * *
19476065 CAGCAATTTCACACCAAATTTTGGACAGCATATATACAACAATTTAGGCAGCATATATACAACAT
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATT-GGCAGCAAATATACAACAA
19476130 ATTGAG
65 ATTGAG
* * * *
19476136 CAGCATTTTTGCACC-AAAATTGGACAGCTTATACACAACAAATTGGACAGCAATTACACAACAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGG-CAGCAAATATACAACAA
19476200 ATTGAG
65 ATTGAG
* *
19476206 CAGCATTTTTACACCAAAAATTGGACAGCTTATATAAAACTAATTGGCAGCAAATATACAACAAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
19476271 TTGAG
66 TTGAG
19476276 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
1 CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
19476341 TTGAG
66 TTGAG
19476346 CAGCAT
1 CAGCAT
19476352 ATATATACAA
Statistics
Matches: 194, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
69 2 0.01
70 152 0.78
71 40 0.21
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.25
Consensus pattern (70 bp):
CAGCATTTTTACACCAAAAATTGGACAGCTTATATACAACAAATTGGCAGCAAATATACAACAAA
TTGAG
Found at i:19477125 original size:28 final size:27
Alignment explanation
Indices: 19477093--19477190 Score: 115
Period size: 28 Copynumber: 3.5 Consensus size: 27
19477083 TTTAATAAGT
* * *
19477093 TCGCACACTTAGTTCTCAATAATCAAAC
1 TCGCACACTTAGTGCT-TATAATTAAAC
* *
19477121 TCGCACACTTAGTGCTTTTCCATTAAAC
1 TCGCACACTTAGTGCTTAT-AATTAAAC
*
19477149 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGC-TTATAATTAAAC
19477177 TCGCACACTTAGTG
1 TCGCACACTTAGTG
19477191 TCGAAAGTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.02
28 57 0.95
29 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.32
Consensus pattern (27 bp):
TCGCACACTTAGTGCTTATAATTAAAC
Found at i:19478718 original size:104 final size:104
Alignment explanation
Indices: 19478538--19478747 Score: 420
Period size: 104 Copynumber: 2.0 Consensus size: 104
19478528 CATTTGGCAC
19478538 ATCATTCGGCTCATTTAGATCATTAATTTCATCATTCTCATGGACATGCAAACTTTCATTTGATT
1 ATCATTCGGCTCATTTAGATCATTAATTTCATCATTCTCATGGACATGCAAACTTTCATTTGATT
19478603 GATCCAAATTTTCATTAAAAACTACTTTTTTAAAAATAA
66 GATCCAAATTTTCATTAAAAACTACTTTTTTAAAAATAA
19478642 ATCATTCGGCTCATTTAGATCATTAATTTCATCATTCTCATGGACATGCAAACTTTCATTTGATT
1 ATCATTCGGCTCATTTAGATCATTAATTTCATCATTCTCATGGACATGCAAACTTTCATTTGATT
19478707 GATCCAAATTTTCATTAAAAACTACTTTTTTAAAAATAA
66 GATCCAAATTTTCATTAAAAACTACTTTTTTAAAAATAA
19478746 AT
1 AT
19478748 TTATCAATAG
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 106 1.00
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (104 bp):
ATCATTCGGCTCATTTAGATCATTAATTTCATCATTCTCATGGACATGCAAACTTTCATTTGATT
GATCCAAATTTTCATTAAAAACTACTTTTTTAAAAATAA
Found at i:19479806 original size:13 final size:13
Alignment explanation
Indices: 19479788--19479812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19479778 ATTGAAAACA
19479788 CTTTTATTTTCTG
1 CTTTTATTTTCTG
19479801 CTTTTATTTTCT
1 CTTTTATTTTCT
19479813 TGCCTATTAT
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:0.08, C:0.16, G:0.04, T:0.72
Consensus pattern (13 bp):
CTTTTATTTTCTG
Found at i:19482681 original size:50 final size:49
Alignment explanation
Indices: 19482627--19482812 Score: 193
Period size: 50 Copynumber: 3.7 Consensus size: 49
19482617 AATGGTCACG
*
19482627 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTTGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACC-GAATGATAGGTTGCA
* *
19482677 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCG---GATAGCTTCGATCA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGATAGGTT-G--CA
* **
19482726 CGTGTGTAGTACTATGTGCA-GCTACTATGTGTATCGGATAGTGAT-GGTCACA
1 --TGTGTAGTACTATGTGCAGGCTACTATGTGTA-CCGA-A-TGATAGGTTGCA
*
19482778 TGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCG
19482813 GTATCATTAA
Statistics
Matches: 114, Mismatches: 10, Indels: 24
0.77 0.07 0.16
Matches are distributed among these distances:
46 7 0.06
47 1 0.01
49 3 0.03
50 64 0.56
51 32 0.28
52 2 0.02
55 2 0.02
56 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGATAGGTTGCA
Found at i:19482737 original size:101 final size:101
Alignment explanation
Indices: 19482622--19482805 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
19482612 AAAGTAATGG
**
19482622 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TGATAGGTTGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCA-GCTACTACGTGTACCAGATAGTGAT-GGTCACATGTGTAGT
19482685 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
64 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
* * *
19482723 TCACGTGTGTAGTACTATGTGCAGCTACTATGTGTATCGGATAGTGATGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTAC
19482788 TATGTGCAGGCTACTATG
66 TATGTGCAGGCTACTATG
19482806 TGAACCGGTA
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
100 15 0.20
101 57 0.75
102 4 0.05
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:19482756 original size:25 final size:26
Alignment explanation
Indices: 19482728--19482807 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 26
19482718 TTCGATCACG
19482728 TGTGTAGTACTATGTGCA-GCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
*
19482753 TGTGTA-T-CGGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
19482778 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
19482804 TGTG
1 TGTG
19482808 AACCGGTATC
Statistics
Matches: 43, Mismatches: 2, Indels: 19
0.67 0.03 0.30
Matches are distributed among these distances:
23 1 0.02
24 4 0.09
25 24 0.56
26 13 0.30
27 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:19483052 original size:16 final size:16
Alignment explanation
Indices: 19483031--19483062 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19483021 TGATTGAAAG
*
19483031 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
19483047 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
19483063 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:19495702 original size:18 final size:17
Alignment explanation
Indices: 19495679--19495713 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
19495669 CGTGGGCCAA
19495679 AATGGGCCGTGTGGGCTC
1 AATGGG-CGTGTGGGCTC
*
19495697 AATGGGCTTGTGGGCTC
1 AATGGGCGTGTGGGCTC
19495714 CACACAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.11, C:0.20, G:0.43, T:0.26
Consensus pattern (17 bp):
AATGGGCGTGTGGGCTC
Found at i:19495970 original size:27 final size:27
Alignment explanation
Indices: 19495940--19496006 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
19495930 ATACCCTAAA
* * * *
19495940 AGGGTTAAATGACCTTAACTCCCTTGT
1 AGGGTAAAATGACCGTAACTCCCCTAT
* *
19495967 AGGGTAAAATGATCGTAATTCCCCTAT
1 AGGGTAAAATGACCGTAACTCCCCTAT
19495994 AGGGTAAAATGAC
1 AGGGTAAAATGAC
19496007 TATTTTACCC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAACTCCCCTAT
Found at i:19496055 original size:24 final size:24
Alignment explanation
Indices: 19496025--19496157 Score: 149
Period size: 24 Copynumber: 5.5 Consensus size: 24
19496015 CCCTCAGGGT
* *
19496025 TAAATGATTGATTTGCCTGTGATG
1 TAAATGACTGATTTGTCTGTGATG
* * *
19496049 TAAATGAATGATTTGTTTGAGATG
1 TAAATGACTGATTTGTCTGTGATG
* *
19496073 TAAATGACTGATTTGTCTATGATT
1 TAAATGACTGATTTGTCTGTGATG
*
19496097 TAAATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATG
* * *
19496121 TAAATGATTGATTTGTTTGTGATT
1 TAAATGACTGATTTGTCTGTGATG
**
19496145 TGTATGACTGATT
1 TAAATGACTGATT
19496158 CCGTGCATAG
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 94 1.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTGTGATG
Found at i:19496103 original size:72 final size:72
Alignment explanation
Indices: 19496024--19496157 Score: 196
Period size: 72 Copynumber: 1.9 Consensus size: 72
19496014 CCCCTCAGGG
*
19496024 TTAAATGATTGATTTGCCTGTGATGTAAATGAATGATTTGTTTGAGATGTAAATGACTGATTTGT
1 TTAAATGACTGATTTGCCTGTGATGTAAATGAATGATTTGTTTGAGATGTAAATGACTGATTTGT
19496089 CTATGAT
66 CTATGAT
* * * * * **
19496096 TTAAATGACTGATTTGTCTGTGATTTAAATGATTGATTTGTTTGTGATTTGTATGACTGATT
1 TTAAATGACTGATTTGCCTGTGATGTAAATGAATGATTTGTTTGAGATGTAAATGACTGATT
19496158 CCGTGCATAG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 54 1.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (72 bp):
TTAAATGACTGATTTGCCTGTGATGTAAATGAATGATTTGTTTGAGATGTAAATGACTGATTTGT
CTATGAT
Found at i:19496136 original size:48 final size:48
Alignment explanation
Indices: 19496024--19496157 Score: 169
Period size: 48 Copynumber: 2.8 Consensus size: 48
19496014 CCCCTCAGGG
* * * *
19496024 TTAAATGATTGATTTGCCTGTGATGTAAATGAATGATTTGTTTGAGAT
1 TTAAATGATTGATTTGTCTGTGATTTAAATGACTGATTTGTCTGAGAT
* * * *
19496072 GTAAATGACTGATTTGTCTATGATTTAAATGACTGATTTGTCTGTGAT
1 TTAAATGATTGATTTGTCTGTGATTTAAATGACTGATTTGTCTGAGAT
* **
19496120 TTAAATGATTGATTTGTTTGTGATTTGTATGACTGATT
1 TTAAATGATTGATTTGTCTGTGATTTAAATGACTGATT
19496158 CCGTGCATAG
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (48 bp):
TTAAATGATTGATTTGTCTGTGATTTAAATGACTGATTTGTCTGAGAT
Found at i:19496277 original size:26 final size:26
Alignment explanation
Indices: 19496248--19496299 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
19496238 TGCCACAATC
*
19496248 ACTGTTACTGGTAGCTTTGCTGCGAT
1 ACTGTTACTGGTAACTTTGCTGCGAT
*
19496274 ACTGTTGCTGGTAACTTTGCTGCGAT
1 ACTGTTACTGGTAACTTTGCTGCGAT
19496300 GCTACTAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.19, G:0.27, T:0.38
Consensus pattern (26 bp):
ACTGTTACTGGTAACTTTGCTGCGAT
Found at i:19496348 original size:32 final size:32
Alignment explanation
Indices: 19496302--19496548 Score: 241
Period size: 32 Copynumber: 7.7 Consensus size: 32
19496292 GCTGCGATGC
*
19496302 TACTAATGGCTTTGTGCCGATCATAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* *
19496334 TACTGATGGCTTTGTGTCGATCATAGTATCGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* * * *
19496366 TACTGATGGTTTTGTACCGATCATATTACAGT
1 TACTGATGGCTTTGTGCCGATCATAGTACCGT
* * * **
19496398 TACTGATGACTGTGTGCCGATCAT-TTCACTAT
1 TACTGATGGCTTTGTGCCGATCATAGT-ACCGT
* * * *
19496430 TACTGATGGCTGTGTGCCAATCATA-TCACTGC
1 TACTGATGGCTTTGTGCCGATCATAGT-ACCGT
19496462 TACTGATGGCTTTGTGCCGATCAT-GTTACCGT
1 TACTGATGGCTTTGTGCCGATCATAG-TACCGT
** * *
19496494 TACTGATGG-TTGTGTGCCGATCATAACACTGC
1 TACTGATGGCTT-TGTGCCGATCATAGTACCGT
*
19496526 TACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTGCCGATCA
19496549 CATTATTGTA
Statistics
Matches: 180, Mismatches: 28, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
31 4 0.02
32 173 0.96
33 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAGTACCGT
Found at i:19496482 original size:96 final size:96
Alignment explanation
Indices: 19496366--19496548 Score: 267
Period size: 96 Copynumber: 1.9 Consensus size: 96
19496356 ATAGTATCGT
* ** *
19496366 TACTGATGGTTTTGTACCGATCATATTACAGTTACTGATGACTGTGTGCCGATCATTTCACTATT
1 TACTGATGGCTTTGTACCGATCATATTACAGTTACTGATGACTGTGTGCCGATCATAACACTACT
19496431 ACTGATGGCTGTGTGCCAATCATATCACTGC
66 ACTGATGGCTGTGTGCCAATCATATCACTGC
* * * ** *
19496462 TACTGATGGCTTTGTGCCGATCATGTTACCGTTACTGATGGTTGTGTGCCGATCATAACACTGCT
1 TACTGATGGCTTTGTACCGATCATATTACAGTTACTGATGACTGTGTGCCGATCATAACACTACT
*
19496527 ACTGATGGCTTTGTGCCAATCA
66 ACTGATGGCTGTGTGCCAATCA
19496549 CATTATTGTA
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (96 bp):
TACTGATGGCTTTGTACCGATCATATTACAGTTACTGATGACTGTGTGCCGATCATAACACTACT
ACTGATGGCTGTGTGCCAATCATATCACTGC
Found at i:19496822 original size:28 final size:26
Alignment explanation
Indices: 19496791--19496883 Score: 105
Period size: 28 Copynumber: 3.4 Consensus size: 26
19496781 TATCGGGCTT
19496791 AGGCCCACACTGTTTCTGTATTGGTTTA
1 AGGCCCACACTGTTTCTGTATTGG--TA
*
19496819 AGGCCCACACTATTTCTGTATTGGGCTA
1 AGGCCCACACTGTTTCTGTATT-GG-TA
* * * *
19496847 AGGCCTACTCTGTTTCTATATTGGGA
1 AGGCCCACACTGTTTCTGTATTGGTA
19496873 AGGCCCACACT
1 AGGCCCACACT
19496884 ATACTGTTAC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 10 0.18
27 2 0.04
28 41 0.75
29 2 0.04
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (26 bp):
AGGCCCACACTGTTTCTGTATTGGTA
Found at i:19496869 original size:56 final size:54
Alignment explanation
Indices: 19496779--19496885 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 54
19496769 ATATTGATAT
* * *
19496779 TGTATCGGGCTTAGGCCCACACTGTTTCTGTATTGGTTTAAGGCCCACACTATTTC
1 TGTATCGGGCTAAGGCCCACACTGTTTCTATATTGG--GAAGGCCCACACTATTTC
* * *
19496835 TGTATTGGGCTAAGGCCTACTCTGTTTCTATATTGGGAAGGCCCACACTAT
1 TGTATCGGGCTAAGGCCCACACTGTTTCTATATTGGGAAGGCCCACACTAT
19496886 ACTGTTACTG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 14 0.31
56 31 0.69
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (54 bp):
TGTATCGGGCTAAGGCCCACACTGTTTCTATATTGGGAAGGCCCACACTATTTC
Found at i:19497696 original size:21 final size:21
Alignment explanation
Indices: 19497670--19497710 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19497660 TTCTACCTTA
19497670 ATGTCTCAAAACAACAAGAAC
1 ATGTCTCAAAACAACAAGAAC
* *
19497691 ATGTCTCGATACAACAAGAA
1 ATGTCTCAAAACAACAAGAA
19497711 AAATTTTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.22, G:0.12, T:0.17
Consensus pattern (21 bp):
ATGTCTCAAAACAACAAGAAC
Done.