Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 86 of 153
Found at i:27210908 original size:25 final size:24
Alignment explanation
Indices: 27210880--27210942 Score: 56
Period size: 26 Copynumber: 2.5 Consensus size: 24
27210870 AGAATTCTAA
27210880 AAAATATAAAAAAAAATTAAATCAT
1 AAAATATAAAAAAAAATTAAAT-AT
* *
27210905 AAAA-ATTCAATAAAAAATTATATAT
1 AAAATA-T-AAAAAAAAATTAAATAT
*
27210930 ATAAATTTAAAAA
1 A-AAATATAAAAA
27210943 CTAATAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
24 1 0.03
25 12 0.40
26 17 0.57
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAATATAAAAAAAAATTAAATAT
Found at i:27212539 original size:8 final size:8
Alignment explanation
Indices: 27212523--27212563 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
27212513 ATTAATTAAT
27212523 TTTATAAAA
1 TTTA-AAAA
27212532 TTTAAAAA
1 TTTAAAAA
*
27212540 TTCAAAAA
1 TTTAAAAA
27212548 TTTAAAAA
1 TTTAAAAA
*
27212556 TTCAAAAA
1 TTTAAAAA
27212564 AATATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
8 25 0.86
9 4 0.14
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (8 bp):
TTTAAAAA
Found at i:27212549 original size:16 final size:16
Alignment explanation
Indices: 27212528--27212563 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
27212518 TTAATTTTAT
27212528 AAAATTTAAAAATTCA
1 AAAATTTAAAAATTCA
27212544 AAAATTTAAAAATTCA
1 AAAATTTAAAAATTCA
27212560 AAAA
1 AAAA
27212564 AATATAAAAA
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:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATTTAAAAATTCA
Found at i:27214714 original size:21 final size:23
Alignment explanation
Indices: 27214672--27214714 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
27214662 TAATTAATCA
*
27214672 TAAACAGAAGCAAATCTCTTTTC
1 TAAACAGAAGCAAATATCTTTTC
*
27214695 TAAA-AGAAG-AAATATGTTTT
1 TAAACAGAAGCAAATATCTTTT
27214715 AAAAAATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
TAAACAGAAGCAAATATCTTTTC
Found at i:27219568 original size:24 final size:24
Alignment explanation
Indices: 27219541--27219594 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
27219531 TTCATTAAAG
* *
27219541 AAGGTTGAAAAGGATATAAATGAA
1 AAGGTCGAAAAGGATATAAACGAA
*
27219565 AAGGTCGAAAAGGATATCAACGAA
1 AAGGTCGAAAAGGATATAAACGAA
27219589 AAGGTC
1 AAGGTC
27219595 AGTATCTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.50, C:0.07, G:0.26, T:0.17
Consensus pattern (24 bp):
AAGGTCGAAAAGGATATAAACGAA
Found at i:27226830 original size:6 final size:6
Alignment explanation
Indices: 27226821--27226849 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
27226811 AAATAAAATT
27226821 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
27226850 GTCTAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:27226945 original size:9 final size:9
Alignment explanation
Indices: 27226931--27226977 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
27226921 GTAGTAATTC
27226931 AATTCGGTT
1 AATTCGGTT
*
27226940 AATTCGGGT
1 AATTCGGTT
**
27226949 AATTAAGTT
1 AATTCGGTT
27226958 AATTCGGTT
1 AATTCGGTT
*
27226967 AATTTGGTT
1 AATTCGGTT
27226976 AA
1 AA
27226978 ATTTTAACCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:27230733 original size:46 final size:45
Alignment explanation
Indices: 27230666--27231317 Score: 257
Period size: 46 Copynumber: 14.5 Consensus size: 45
27230656 TCGGTGAAGC
*
27230666 CACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATA
1 CACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGAT-AAAATA
** * * * * **
27230712 CACAAACCTTATCTCCCTGAAGTTGTAGTGAAGTAGGTTGAAGTTA
1 CACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGAT-AAAATA
* * * * **
27230758 C-CAATTCTTATCTCCTTGAAGTTCCAGCGGAGTA-GATCGAAGCTA
1 CACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGAT--AAAATA
* * * * ** **
27230803 CA-AATCTCTTATCAT---TGAAATTACATTGAAGCA-GATCGAAGC
1 CACAAT-TCTTATC-TCCCTGAAGTTGCAGTGGAGCAGGATAAAATA
* * * * *
27230845 CACAATCCTTATCTCACTGAAGTTGCAATAGAGCAAGATAAAAATA
1 CACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGAT-AAAATA
** * * **
27230891 CACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTA
1 CACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGAT-AAAATA
* * ** * **
27230937 C-CAATTCTTATCTCCGTGAAGTTCCAGCAGAGTA-GATCGAAGCTA
1 CACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGAT--AAAATA
* * * * * ** **
27230982 CA-AA-TCTCT-TCTTCCTGAAATTACATTGGAGCA-AATCGAAGC
1 CACAATTCT-TATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAATA
27231024 CACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATA
1 CACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGAT-AAAATA
** * * **
27231070 CACAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA
1 CACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGAT-AAAATA
** * * * * **
27231116 C-CAATTCTTATCTCATTGATGTTCCAGCGGAGTA-GATCGAAGCTA
1 CACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGAT--AAAATA
* * * ** *
27231161 CA-AA-TCTCT-TCTCCCTGAAATTACATTGGAGCA-GAT-CGATGC
1 CACAATTCT-TATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAT-A
* *
27231203 CACAATTCTTATCTCCCTGAAGTTGTAGTAGAGCAGGATAAAAATA
1 CACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGAT-AAAATA
* ** * * * * *
27231249 CCCAAACCTTATCTCCTTGAAGTTGTAGTAGAGCAGGTTGAAATTA
1 CACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGAT-AAAATA
*
27231295 C-CAATTCTTATCTCCTTGAAGTT
1 CACAATTCTTATCTCCCTGAAGTT
27231318 ACAGCTGAGT
Statistics
Matches: 450, Mismatches: 128, Indels: 57
0.71 0.20 0.09
Matches are distributed among these distances:
41 3 0.01
42 12 0.03
43 9 0.02
44 122 0.27
45 134 0.30
46 167 0.37
47 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (45 bp):
CACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAATA
Found at i:27230961 original size:179 final size:179
Alignment explanation
Indices: 27230661--27231379 Score: 1150
Period size: 179 Copynumber: 4.0 Consensus size: 179
27230651 ACATATCGGT
*
27230661 GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCT
1 GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCT
* *
27230726 CCCTGAAGTTGTAGTGAAGTAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGT
66 CCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGT
* ** * *
27230791 AGATCGAAGCTACAAATCTCTTATCATTGAAATTACATTGAAGCAGATC
131 AGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAAATC
* * *
27230840 GAAGCCACAATCCTTATCTCACTGAAGTTGCAATAGAGCAAGATAAAAATACACAAACCTTATCT
1 GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCT
* *
27230905 CCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCGTGAAGTTCCAGCAGAGT
66 CCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGT
*
27230970 AGATCGAAGCTACAAATCTCTTCTTCCTGAAATTACATTGGAGCAAATC
131 AGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAAATC
* *
27231019 GAAGCCACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAAATACACAAACCTTATCT
1 GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCT
* * * *
27231084 CTCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCATTGATGTTCCAGCGGAGT
66 CCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGT
*
27231149 AGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATC
131 AGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAAATC
* * * *
27231198 GATGCCACAATTCTTATCTCCCTGAAGTTGTAGTAGAGCAGGATAAAAATACCCAAACCTTATCT
1 GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCT
* * * * *
27231263 CCTTGAAGTTGTAGTAGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAAGTTACAGCTGAGT
66 CCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGT
* *
27231328 AGATCGAAGCTACAAGTCTTTTCTCCCTGAAATTACATTGGAGCAAATC
131 AGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAAATC
27231377 GAA
1 GAA
27231380 ACACCAATTC
Statistics
Matches: 496, Mismatches: 44, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
179 496 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (179 bp):
GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAAACCTTATCT
CCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGT
AGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAAATC
Found at i:27231043 original size:44 final size:44
Alignment explanation
Indices: 27230661--27231379 Score: 336
Period size: 44 Copynumber: 16.1 Consensus size: 44
27230651 ACATATCGGT
* *
27230661 GAAGCCACAATCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAA
1 GAAGCCACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCA-GAT-C
* ** ** * * * * *
27230707 AAATACACAAACCTTATCTCCCTGAAGTTGTAGTGAAGTAGGTT
1 GAAGCCACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
** * * * *
27230751 GAAGTTACCAATTCTTATCTCCTTGAAGTTCCAGCGGAGTAGATC
1 GAAGCCA-CAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * * *
27230796 GAAGCTACAAATCTCTTATCAT---TGAAATTACATTGAAGCAGATC
1 GAAGCCAC-AAT-TCTTATC-TCCCTGAAGTTGCAGTGGAGCAGATC
* * * * *
27230840 GAAGCCACAATCCTTATCTCACTGAAGTTGCAATAGAGCAAGATAA
1 GAAGCCACAATTCTTATCTCCCTGAAGTTGCAGTGGAGC-AGAT-C
* ** ** * * *
27230886 AAATACACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTT
1 GAAGCCACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
** * * ** *
27230930 GAAGTTACCAATTCTTATCTCCGTGAAGTTCCAGCAGAGTAGATC
1 GAAGCCA-CAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * * * * *
27230975 GAAGCTACAAATCTCT-TCTTCCTGAAATTACATTGGAGCAAATC
1 GAAGCCACAATTCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATC
*
27231019 GAAGCCACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGATAA
1 GAAGCCACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCA-GAT-C
* ** ** * * *
27231065 AAATACACAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTT
1 GAAGCCACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
** ** * * * *
27231109 GAAGTTACCAATTCTTATCTCATTGATGTTCCAGCGGAGTAGATC
1 GAAGCCA-CAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * * *
27231154 GAAGCTACAAATCTCT-TCTCCCTGAAATTACATTGGAGCAGATC
1 GAAGCCACAATTCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * *
27231198 GATGCCACAATTCTTATCTCCCTGAAGTTGTAGTAGAGCAGGATAA
1 GAAGCCACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCA-GAT-C
* * ** * * * * *
27231244 AAATACC-CAAACCTTATCTCCTTGAAGTTGTAGTAGAGCAGGTT
1 GAA-GCCACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
*** * * *
27231288 GAAATTACCAATTCTTATCTCCTTGAAGTTACAGCT-GAGTAGATC
1 GAAGCCA-CAATTCTTATCTCCCTGAAGTTGCAG-TGGAGCAGATC
* * * * * * *
27231333 GAAGCTACAAGTCTTTTCTCCCTGAAATTACATTGGAGCAAATC
1 GAAGCCACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
27231377 GAA
1 GAA
27231380 ACACCAATTC
Statistics
Matches: 501, Mismatches: 148, Indels: 50
0.72 0.21 0.07
Matches are distributed among these distances:
41 1 0.00
42 6 0.01
43 7 0.01
44 191 0.38
45 156 0.31
46 137 0.27
47 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (44 bp):
GAAGCCACAATTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
Found at i:27232959 original size:12 final size:12
Alignment explanation
Indices: 27232944--27232995 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
27232934 CTTGACTTTC
27232944 ATTGTTATTATT
1 ATTGTTATTATT
*
27232956 ATTGTTGTTATT
1 ATTGTTATTATT
*
27232968 ATTGTTATTTTT
1 ATTGTTATTATT
* *
27232980 ATGGTTTTTTATT
1 ATTG-TTATTATT
27232993 ATT
1 ATT
27232996 TCATTTATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 24 0.75
13 8 0.25
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (12 bp):
ATTGTTATTATT
Found at i:27234201 original size:39 final size:40
Alignment explanation
Indices: 27234119--27234208 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 40
27234109 CAAATGTGTA
* * *
27234119 GCTAACAGGAGCACTGTAGTGTTAACAAGAGCACATATGT
1 GCTATCAGGAGCACTGTAATGCTAACAAGAGCACATATGT
* *
27234159 GCTATCAGGAGCACTGTAATGCTAA-ATGAGCATGA-ATGT
1 GCTATCAGGAGCACTGTAATGCTAACAAGAGCA-CATATGT
*
27234198 GCTATAAGGAG
1 GCTATCAGGAG
27234209 TACAAAAGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
39 20 0.47
40 23 0.53
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (40 bp):
GCTATCAGGAGCACTGTAATGCTAACAAGAGCACATATGT
Found at i:27234335 original size:15 final size:15
Alignment explanation
Indices: 27234315--27234344 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27234305 AATAATCTAC
27234315 ACGAAGTTTAATTAT
1 ACGAAGTTTAATTAT
27234330 ACGAAGTTTAATTAT
1 ACGAAGTTTAATTAT
27234345 CTCATACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (15 bp):
ACGAAGTTTAATTAT
Found at i:27235594 original size:18 final size:18
Alignment explanation
Indices: 27235560--27235621 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
27235550 AAATTTTAAT
*
27235560 AAAAAAT-TTAAATATTA
1 AAAAAATATTAAAAATTA
**
27235577 AAAATGTATTAAAAATTA
1 AAAAAATATTAAAAATTA
*
27235595 GAAAAAATATAAAAATATTA
1 -AAAAAATATTAAAA-ATTA
27235615 AAAAAAT
1 AAAAAAT
27235622 GTAAAATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 5 0.14
18 9 0.25
19 18 0.50
20 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAAATATTAAAAATTA
Found at i:27235609 original size:19 final size:19
Alignment explanation
Indices: 27235569--27235627 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
27235559 TAAAAAATTT
** *
27235569 AAATATTAAAAATGTATTA
1 AAATATTAAAAAAATATAA
27235588 AAA-ATTAGAAAAAATATAA
1 AAATATTA-AAAAAATATAA
*
27235607 AAATATTAAAAAAATGTAA
1 AAATATTAAAAAAATATAA
27235626 AA
1 AA
27235628 TTTTATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.12
19 26 0.76
20 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
AAATATTAAAAAAATATAA
Found at i:27235627 original size:18 final size:18
Alignment explanation
Indices: 27235560--27235656 Score: 65
Period size: 18 Copynumber: 5.2 Consensus size: 18
27235550 AAATTTTAAT
*
27235560 AAAAAAT-TTAAATATT-
1 AAAAAATGTAAAATATTA
*
27235576 -AAAAATGTATTAAAAATTA
1 AAAAAATGTA--AAATATTA
*
27235595 GAAAAAATATAAAAATATTA
1 -AAAAAATGT-AAAATATTA
*
27235615 AAAAAATGTAAAATTTTA
1 AAAAAATGTAAAATATTA
* *
27235633 TAAAAATCGTAAAAAATTA
1 AAAAAAT-GTAAAATATTA
27235652 TAAAA
1 -AAAA
27235657 TTTTATAAAG
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
15 6 0.10
16 1 0.02
18 20 0.32
19 17 0.27
20 10 0.16
21 7 0.11
22 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
AAAAAATGTAAAATATTA
Found at i:27235637 original size:19 final size:19
Alignment explanation
Indices: 27235576--27235656 Score: 67
Period size: 19 Copynumber: 4.2 Consensus size: 19
27235566 TTTAAATATT
* *
27235576 AAAAATGTATTAAAAATTAGA
1 AAAAATGTA--AAATATTATA
*
27235597 AAAAATATAAAAATATTA-A
1 AAAAATGT-AAAATATTATA
*
27235616 AAAAATGTAAAATTTTAT-
1 AAAAATGTAAAATATTATA
*
27235634 AAAAATCGTAAAAAATTATA
1 AAAAAT-GTAAAATATTATA
27235654 AAA
1 AAA
27235657 TTTTATAAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
18 14 0.28
19 18 0.36
20 10 0.20
21 7 0.14
22 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.28
Consensus pattern (19 bp):
AAAAATGTAAAATATTATA
Found at i:27235638 original size:38 final size:35
Alignment explanation
Indices: 27235549--27235638 Score: 83
Period size: 38 Copynumber: 2.4 Consensus size: 35
27235539 TAAATATTAT
*
27235549 TAAATTTTAATAAAAAATTTAAATATTAAAAATGTA
1 TAAATTTT-ATAAAAAATTAAAATATTAAAAATGTA
** *
27235585 TTAAAAATTAGAAAAAATATAAAAATATTAAAAAAATGTA
1 -TAAATTTTATAAAAAAT-T-AAAATATT--AAAAATGTA
27235625 -AAATTTTATAAAAA
1 TAAATTTTATAAAAA
27235639 TCGTAAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
36 8 0.19
37 7 0.17
38 18 0.43
40 9 0.21
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (35 bp):
TAAATTTTATAAAAAATTAAAATATTAAAAATGTA
Found at i:27235677 original size:29 final size:29
Alignment explanation
Indices: 27235602--27235682 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
27235592 TTAGAAAAAA
** * *
27235602 TATAAAAATATTAAAAAAATGTAAAATTT
1 TATAAAAATCGTAAAAAATTATAAAATTT
27235631 TATAAAAATCGTAAAAAATTATAAAATTT
1 TATAAAAATCGTAAAAAATTATAAAATTT
*
27235660 TAT-AAAGTCGTAAGAAAATTATA
1 TATAAAAATCGTAA-AAAATTATA
27235683 CAAAATGTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 9 0.20
29 37 0.80
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.33
Consensus pattern (29 bp):
TATAAAAATCGTAAAAAATTATAAAATTT
Found at i:27235951 original size:19 final size:19
Alignment explanation
Indices: 27235908--27235953 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
27235898 TTTTTTTACG
27235908 ATTTTTATAATAAAATTCTA
1 ATTTTT-TAATAAAATTCTA
27235928 A-TTTTTAATAAAATT-TAA
1 ATTTTTTAATAAAATTCT-A
27235946 ATTTTTTA
1 ATTTTTTA
27235954 TATTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.04
18 12 0.50
19 10 0.42
20 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTTTAATAAAATTCTA
Found at i:27236146 original size:88 final size:87
Alignment explanation
Indices: 27236022--27236322 Score: 426
Period size: 88 Copynumber: 3.4 Consensus size: 87
27236012 AGAGCAGAGA
* *
27236022 CTTAATTGCTTTTTTGAAA-AATTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCA
1 CTTAATTGC-TTTTTCAAAGAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCA
*
27236086 ATTAAGTGAAAAAAAAGTAGGGG
65 ATTGAGTGAAAAAAAAGTAGGGG
* * * *
27236109 CTTTATTGCTTTTGTCAAAGAAGCTTGAGGGTCTTTTTGATGCATTTTAAAATTTCAAGTACCCA
1 CTTAATTGCTTTT-TCAAAGAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCA
27236174 ATTGAGTGAAAAAAAAGTAGGGG
65 ATTGAGTGAAAAAAAAGTAGGGG
* * *
27236197 CTTAATTGCTCTTTTCGAAGAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTGCTCA
1 CTTAATTGCT-TTTTCAAAGAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCA
* *
27236262 ATTGAGTGGAAAAAAAGGAGGGG
65 ATTGAGTGAAAAAAAAGTAGGGG
*
27236285 CTTAATTGCTTTTTCTGAAAAAAGTTTGAGGGT-TTTTT
1 CTTAATTGCTTTTTC--AAAGAAGTTTGAGGGTCTTTTT
27236323 ACACCATTAA
Statistics
Matches: 191, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
86 4 0.02
87 17 0.09
88 153 0.80
89 17 0.09
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (87 bp):
CTTAATTGCTTTTTCAAAGAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAA
TTGAGTGAAAAAAAAGTAGGGG
Found at i:27243013 original size:13 final size:13
Alignment explanation
Indices: 27242975--27243009 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
27242965 TGATATAATC
27242975 ACTTTTATTTATT
1 ACTTTTATTTATT
*
27242988 ACATTTATTTATT
1 ACTTTTATTTATT
27243001 A-TTTTATTT
1 ACTTTTATTT
27243010 TATTTTACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (13 bp):
ACTTTTATTTATT
Found at i:27243828 original size:31 final size:31
Alignment explanation
Indices: 27243762--27243828 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
27243752 TTAACAGTCT
*
27243762 AGTGACTTAAATAAAAAAATTCGAATAATTT
1 AGTGACTTAAATAAAAAAATTCGAATAATTC
* **
27243793 AGTGACTTAAATGAAAACTTTC-AGATAATTC
1 AGTGACTTAAATAAAAAAATTCGA-ATAATTC
27243824 AGTGA
1 AGTGA
27243829 TCATTTTGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.31
Consensus pattern (31 bp):
AGTGACTTAAATAAAAAAATTCGAATAATTC
Found at i:27257693 original size:69 final size:69
Alignment explanation
Indices: 27257562--27257864 Score: 186
Period size: 69 Copynumber: 4.4 Consensus size: 69
27257552 AACAGTGTAA
** * * * * *
27257562 CGAGAGCAAAGTTTTCAACTGTAAAAAACAAGGTTTGCATGTGATGAGCTACAGCCTCTAAAA-T
1 CGAGAGCAAAACTCTCAACTGT-AAAAACAAGGTTTGCAAGCGAAGAGCCACAGCCTCTAAAACT
27257626 AGTTAG
65 -GTTAG
* ** *
27257632 CGAGAGCAAAACTCTCAACTGTAAAAACAATGTTTGCAAGCGAAGAGCCGTAGCCTTTAAAACTG
1 CGAGAGCAAAACTCTCAACTGTAAAAACAAGGTTTGCAAGCGAAGAGCCACAGCCTCTAAAACTG
27257697 TTAG
66 TTAG
* * ** * * **
27257701 CGATAGCAAATCTCTCAGTTGTAAAAATAAGGTTCGC-AG-GTATAGAGCTGCAGCCTCTAAAAC
1 CGAGAGCAAAACTCTCAACTGTAAAAACAAGGTTTGCAAGCG-A-AGAGCCACAGCCTCTAAAAC
27257764 -GATTAG
64 TG-TTAG
** * * * * * * * * * * * * *
27257770 TAAAAGCAAAGCTCCCAATTGTGAAAACAATGTTCGTAGGCAAAGAGTCGCAGCCTCTAAAACAG
1 CGAGAGCAAAACTCTCAACTGTAAAAACAAGGTTTGCAAGCGAAGAGCCACAGCCTCTAAAACTG
27257835 TTAG
66 TTAG
*
27257839 CGAGAAG-AAAGCT-TCTAACTGTAAAA
1 CGAG-AGCAAAACTCTC-AACTGTAAAA
27257865 CCAAAGCTCG
Statistics
Matches: 183, Mismatches: 41, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
67 1 0.01
68 5 0.03
69 152 0.83
70 25 0.14
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (69 bp):
CGAGAGCAAAACTCTCAACTGTAAAAACAAGGTTTGCAAGCGAAGAGCCACAGCCTCTAAAACTG
TTAG
Found at i:27259207 original size:25 final size:25
Alignment explanation
Indices: 27259164--27259221 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
27259154 TAGCTCGTGA
*
27259164 GAGCATACCGATCTTCAGCTCAAAT
1 GAGCATACCGATCTACAGCTCAAAT
**
27259189 GAGCATACCGAT-TCACAGCTCGTAT
1 GAGCATACCGATCT-ACAGCTCAAAT
27259214 GAGCATAC
1 GAGCATAC
27259222 ATGTACATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (25 bp):
GAGCATACCGATCTACAGCTCAAAT
Found at i:27263342 original size:20 final size:20
Alignment explanation
Indices: 27263304--27263342 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
27263294 TAAATTGTGT
27263304 ATATTTATATGTTTGAATTTA
1 ATATTTATATG-TTGAATTTA
27263325 ATATTGTATATG-TGAATT
1 ATATT-TATATGTTGAATT
27263343 GTATAAATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 5 0.29
22 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (20 bp):
ATATTTATATGTTGAATTTA
Found at i:27263674 original size:25 final size:25
Alignment explanation
Indices: 27263646--27263693 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
27263636 TAGCTCTTAT
*
27263646 GAGCATCCCG-TTATATGGCTCTTCG
1 GAGCATCCCGATTA-AAGGCTCTTCG
*
27263671 GAGCTTCCCGATTAAAGGCTCTT
1 GAGCATCCCGATTAAAGGCTCTT
27263694 TGTGAACTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (25 bp):
GAGCATCCCGATTAAAGGCTCTTCG
Found at i:27263897 original size:25 final size:24
Alignment explanation
Indices: 27263841--27263898 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
27263831 TATGGCTCTT
*
27263841 ATGAGCGTCCCGTTATACAGTCCGG
1 ATGAGCTTCCCGTTATACAGTCC-G
*
27263866 ATAAGCTTCCCGTTATACAGCTCAC-
1 ATGAGCTTCCCGTTATACAG-TC-CG
27263891 ATGAGCTT
1 ATGAGCTT
27263899 TTTGTTATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 25 0.89
26 2 0.07
27 1 0.04
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (24 bp):
ATGAGCTTCCCGTTATACAGTCCG
Found at i:27266495 original size:23 final size:23
Alignment explanation
Indices: 27266469--27266566 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
27266459 ATAAGTGCCA
27266469 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27266492 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
27266515 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
27266537 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
27266560 CACTGAT
1 CACTGAT
27266567 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:27266534 original size:45 final size:45
Alignment explanation
Indices: 27266476--27266564 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
27266466 CCACACTGAT
* *
27266476 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
27266521 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
27266565 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:27268794 original size:25 final size:25
Alignment explanation
Indices: 27268757--27268809 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
27268747 AGAATGTTCA
27268757 CCGTAAAGATAGTTCACTGAGGACC
1 CCGTAAAGATAGTTCACTGAGGACC
* ** *
27268782 CCGTAAAGTTAGTTGGCTGGGGACC
1 CCGTAAAGATAGTTCACTGAGGACC
27268807 CCG
1 CCG
27268810 CTGGGATGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.21
Consensus pattern (25 bp):
CCGTAAAGATAGTTCACTGAGGACC
Found at i:27270338 original size:17 final size:18
Alignment explanation
Indices: 27270316--27270349 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27270306 TTTAGTTATT
27270316 TTATATACATT-ATCTTA
1 TTATATACATTCATCTTA
*
27270333 TTATATATATTCATCTT
1 TTATATACATTCATCTT
27270350 GAGTTTTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATATACATTCATCTTA
Found at i:27271336 original size:2 final size:2
Alignment explanation
Indices: 27271331--27271357 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27271321 AGTTTTTTTA
27271331 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
27271358 AAGACAAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27276887 original size:20 final size:20
Alignment explanation
Indices: 27276845--27276885 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
27276835 TACAACACAA
*
27276845 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
27276865 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
27276884 TT
1 TT
27276886 TCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:27277981 original size:11 final size:10
Alignment explanation
Indices: 27277958--27278035 Score: 50
Period size: 11 Copynumber: 7.3 Consensus size: 10
27277948 AATTTTAACT
*
27277958 TTTTTTTATA
1 TTTTTTTAAA
27277968 TTTTTTTAGAA
1 TTTTTTTA-AA
*
27277979 TTTTTAT-AA
1 TTTTTTTAAA
*
27277988 TTTTTTAAAAA
1 TTTTTT-TAAA
*
27277999 TATAAATTTTAAA
1 T-T--TTTTTAAA
27278012 TTTTTTATAAA
1 TTTTTT-TAAA
*
27278023 TATTTTTAAA
1 TTTTTTTAAA
27278033 TTT
1 TTT
27278036 AAAAATTATT
Statistics
Matches: 52, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
9 7 0.13
10 17 0.33
11 19 0.37
12 2 0.04
13 4 0.08
14 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:27278016 original size:55 final size:54
Alignment explanation
Indices: 27277947--27278053 Score: 135
Period size: 55 Copynumber: 2.0 Consensus size: 54
27277937 AAAATTTTTA
* * * * * *
27277947 AAATTTTAACTTTTTTTTATATTTTTTTAGAATTTTTATAATT-TTTTAAAAATAT
1 AAATTTTAAATTTTTTATAAATATTTTTA-AA-TTTAAAAATTATTTTAAAAATAT
27278002 AAATTTTAAATTTTTTATAAATATTTTTAAATTTAAAAATTATTTTAAAAAT
1 AAATTTTAAATTTTTTATAAATATTTTTAAATTTAAAAATTATTTTAAAAAT
27278054 CTGAAAATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
53 8 0.18
54 12 0.27
55 25 0.56
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (54 bp):
AAATTTTAAATTTTTTATAAATATTTTTAAATTTAAAAATTATTTTAAAAATAT
Found at i:27278042 original size:36 final size:34
Alignment explanation
Indices: 27277971--27278042 Score: 83
Period size: 36 Copynumber: 2.1 Consensus size: 34
27277961 TTTTATATTT
*
27277971 TTTTAGAATTTTTATAATTTTTTAAAAATATAAA
1 TTTTAGAATTTTTATAATTTTTTAAAAATAAAAA
**
27278005 TTTTA-AATTTTTTATAAATATTTTTAAATTTAAAAA
1 TTTTAGAA-TTTTTAT-AAT-TTTTTAAAAATAAAAA
27278041 TT
1 TT
27278043 ATTTTAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 2 0.06
34 12 0.38
35 3 0.09
36 15 0.47
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (34 bp):
TTTTAGAATTTTTATAATTTTTTAAAAATAAAAA
Found at i:27278047 original size:19 final size:20
Alignment explanation
Indices: 27278030--27278067 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27278020 AAATATTTTT
*
27278030 AAATTTAAAAATTATTTTAA
1 AAATCTAAAAATTATTTTAA
*
27278050 AAATCTGAAAATTATTTT
1 AAATCTAAAAATTATTTT
27278068 GAGTTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
AAATCTAAAAATTATTTTAA
Found at i:27278859 original size:29 final size:29
Alignment explanation
Indices: 27278764--27278860 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 29
27278754 TTATTAGATT
* * *
27278764 ATTTAATACATTGTTAGTGGAATTTTTAG
1 ATTTAATACATTTTTAATGAAATTTTTAG
* * * * *
27278793 ATTTAAGGAATAAATATTTTTATTAAA-TTATAT
1 ATTT----AATACAT-TTTTAATGAAATTTTTAG
27278826 ATTTAATACATTTTTAATGAAATTTTTAG
1 ATTTAATACATTTTTAATGAAATTTTTAG
27278855 ATTTAA
1 ATTTAA
27278861 CGAGTAAAGT
Statistics
Matches: 49, Mismatches: 13, Indels: 12
0.66 0.18 0.16
Matches are distributed among these distances:
28 9 0.18
29 20 0.41
33 14 0.29
34 6 0.12
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.49
Consensus pattern (29 bp):
ATTTAATACATTTTTAATGAAATTTTTAG
Found at i:27284071 original size:25 final size:25
Alignment explanation
Indices: 27284037--27284089 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
27284027 TATGACAAGG
27284037 TTAGTACAATGTTTTCCATTTGAAA
1 TTAGTACAATGTTTTCCATTTGAAA
27284062 TTAGTACAATGTTTTCCATTTGAAA
1 TTAGTACAATGTTTTCCATTTGAAA
27284087 TTA
1 TTA
27284090 CTAAGAACGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (25 bp):
TTAGTACAATGTTTTCCATTTGAAA
Found at i:27284277 original size:13 final size:13
Alignment explanation
Indices: 27284259--27284284 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27284249 CTTAGGAAGT
27284259 TACTGATTTTTAG
1 TACTGATTTTTAG
27284272 TACTGATTTTTAG
1 TACTGATTTTTAG
27284285 GGATTGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
TACTGATTTTTAG
Found at i:27289012 original size:41 final size:41
Alignment explanation
Indices: 27288967--27289081 Score: 131
Period size: 41 Copynumber: 2.8 Consensus size: 41
27288957 TTTATTGTCA
* * * *
27288967 GTGAAATAATTCAGACTTTATGTCTAGCAGGCTTGATGCCG
1 GTGAAATAATTCAGACTATAAGTCTAACAGGCTTAATGCCG
*
27289008 GTGAAATTATTCAGACTATAAGTCTAACAGGCTTAATGCCG
1 GTGAAATAATTCAGACTATAAGTCTAACAGGCTTAATGCCG
* * * * * *
27289049 GTGATACATTTCGGACAATAAGTCTAGCAGGCT
1 GTGAAATAATTCAGACTATAAGTCTAACAGGCT
27289082 AAAATCCGGT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (41 bp):
GTGAAATAATTCAGACTATAAGTCTAACAGGCTTAATGCCG
Found at i:27304035 original size:16 final size:17
Alignment explanation
Indices: 27304002--27304034 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27303992 TAAAAATATA
27304002 AAAAAATTATATATTTT
1 AAAAAATTATATATTTT
27304019 AAAAAA-TATATTATTT
1 AAAAAATTATA-TATTT
27304035 ACTACTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAAAATTATATATTTT
Found at i:27304943 original size:17 final size:17
Alignment explanation
Indices: 27304906--27304943 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
27304896 TTATTTTTAT
*
27304906 TTTTTAATTTTAAAGAG
1 TTTTTAATTTTAAAGAA
27304923 TTTTTAATTTTCAAA-AA
1 TTTTTAATTTT-AAAGAA
27304940 TTTT
1 TTTT
27304944 ATAGTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTTTAATTTTAAAGAA
Found at i:27306139 original size:54 final size:54
Alignment explanation
Indices: 27306057--27306160 Score: 145
Period size: 54 Copynumber: 1.9 Consensus size: 54
27306047 TTACTTATTT
* * *
27306057 TTAAATAAAGAAAAAATATAATCAAAATCCTAGTACAGTATAATTGATATTGAA
1 TTAAATAAAGAAAAAATATAATCAAAATCATAGTACAATATAATCGATATTGAA
* * * *
27306111 TTAAATAAAGACAAGATATAATCCAAATCATATTACAATATAATCGATAT
1 TTAAATAAAGAAAAAATATAATCAAAATCATAGTACAATATAATCGATAT
27306161 CTAATAACAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.30
Consensus pattern (54 bp):
TTAAATAAAGAAAAAATATAATCAAAATCATAGTACAATATAATCGATATTGAA
Found at i:27307349 original size:21 final size:21
Alignment explanation
Indices: 27307323--27307378 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
27307313 AATAGCGGTG
*
27307323 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
27307344 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
27307365 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
27307379 AACAATGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:27310025 original size:21 final size:22
Alignment explanation
Indices: 27309997--27310048 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
27309987 ATTTTTTAAC
*
27309997 AAATATAAA-AA-CTATAAAAA
1 AAATATAAAGAATATATAAAAA
27310017 AAATCATAAAGAATATATAAAAA
1 AAAT-ATAAAGAATATATAAAAA
*
27310040 AAATTTAAA
1 AAATATAAA
27310049 ATTAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 4 0.15
21 5 0.19
22 6 0.22
23 12 0.44
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (22 bp):
AAATATAAAGAATATATAAAAA
Found at i:27311339 original size:9 final size:9
Alignment explanation
Indices: 27311310--27311367 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
27311300 ATTAATTTTT
27311310 AAATATAAA
1 AAATATAAA
*
27311319 AAATTCAAAAA
1 AAA-T-ATAAA
27311330 AAATATAAA
1 AAATATAAA
* *
27311339 AATTATTTAA
1 AAATA-TAAA
27311349 AAATATAAA
1 AAATATAAA
*
27311358 AATTATAAA
1 AAATATAAA
27311367 A
1 A
27311368 GAAATATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
9 23 0.59
10 9 0.23
11 7 0.18
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.28
Consensus pattern (9 bp):
AAATATAAA
Found at i:27311341 original size:19 final size:19
Alignment explanation
Indices: 27311310--27311374 Score: 78
Period size: 19 Copynumber: 3.3 Consensus size: 19
27311300 ATTAATTTTT
27311310 AAATATAAAAAATTCA-AAAA
1 AAATAT-AAAAATT-ATAAAA
**
27311330 AAATATAAAAATTATTTAA
1 AAATATAAAAATTATAAAA
27311349 AAATATAAAAATTATAAAA
1 AAATATAAAAATTATAAAA
27311368 GAAATAT
1 -AAATAT
27311375 TTTTAATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 1 0.03
19 26 0.67
20 12 0.31
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (19 bp):
AAATATAAAAATTATAAAA
Found at i:27311387 original size:39 final size:36
Alignment explanation
Indices: 27311300--27311393 Score: 93
Period size: 38 Copynumber: 2.5 Consensus size: 36
27311290 TTAATAATTA
*
27311300 ATTAATTTTTAAATATAAAAAATTCAAAAAAAATAT
1 ATTAATTTTTAAAAATAAAAAATTCAAAAAAAATAT
**
27311336 AAAAATTATTTAAAAATATAAAAATT-ATAAAAGAAATATT
1 ATTAATT-TTTAAAAATA-AAAAATTCA-AAAA-AAATA-T
*
27311376 TTTAATTTTT-AAAATAAA
1 ATTAATTTTTAAAAATAAA
27311394 TTAATTACTA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
36 5 0.11
37 12 0.26
38 17 0.36
39 8 0.17
40 5 0.11
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (36 bp):
ATTAATTTTTAAAAATAAAAAATTCAAAAAAAATAT
Found at i:27315206 original size:6 final size:6
Alignment explanation
Indices: 27315195--27315234 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
27315185 TAAAGCAAAT
* * *
27315195 AAATCA AAATCA AAATCA AAATTA AAATTA AAATTA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
27315235 AAGAGTATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (6 bp):
AAATCA
Found at i:27315212 original size:12 final size:12
Alignment explanation
Indices: 27315195--27315234 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
27315185 TAAAGCAAAT
*
27315195 AAATCAAAATCA
1 AAATCAAAATTA
27315207 AAATCAAAATTA
1 AAATCAAAATTA
*
27315219 AAATTAAAATTA
1 AAATCAAAATTA
27315231 AAAT
1 AAAT
27315235 AAGAGTATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (12 bp):
AAATCAAAATTA
Found at i:27317493 original size:22 final size:23
Alignment explanation
Indices: 27317466--27317508 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
27317456 CTTTTCAGTT
*
27317466 AAATTTGACC-TCAATCTTTTTC
1 AAATTTGACCATCAACCTTTTTC
27317488 AAATTTGACCATCAACCTTTT
1 AAATTTGACCATCAACCTTTT
27317509 GAAAAAGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (23 bp):
AAATTTGACCATCAACCTTTTTC
Found at i:27318182 original size:14 final size:13
Alignment explanation
Indices: 27318159--27318364 Score: 62
Period size: 14 Copynumber: 14.8 Consensus size: 13
27318149 GTTTAAAATC
*
27318159 AAACCCTAAACACT
1 AAACCATAAAC-CT
27318173 AAACCATAAACCCT
1 AAACCATAAA-CCT
* * *
27318187 AAGCCCCTAAGCTCCT
1 AA-ACCATAA--ACCT
**
27318203 AAACTTTAAACCAT
1 AAACCATAAACC-T
*
27318217 AAACCCTAAACTCT
1 AAACCATAAAC-CT
*
27318231 AATCTC-TAAACCAT
1 AAAC-CATAAACC-T
27318245 AAACCATAAACACT
1 AAACCATAAAC-CT
27318259 AAACCATAAACCT
1 AAACCATAAACCT
* * *
27318272 ACACCCTAAATCTT
1 AAACCATAAA-CCT
27318286 AAA-CACTAAACTCT
1 AAACCA-TAAAC-CT
* *
27318300 TAA-CACTAAATCAT
1 AAACCA-TAAA-CCT
27318314 AAATCC-TAAACCTT
1 AAA-CCATAAACC-T
*
27318328 AAACCATAAGCCAT
1 AAACCATAAACC-T
*
27318342 AAACC-TACACCCT
1 AAACCATA-AACCT
*
27318355 AAACCCTAAA
1 AAACCATAAA
27318365 TATATATTAC
Statistics
Matches: 146, Mismatches: 26, Indels: 41
0.69 0.12 0.19
Matches are distributed among these distances:
13 28 0.19
14 98 0.67
15 14 0.10
16 6 0.04
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.20
Consensus pattern (13 bp):
AAACCATAAACCT
Found at i:27318183 original size:21 final size:20
Alignment explanation
Indices: 27318159--27318364 Score: 96
Period size: 21 Copynumber: 10.5 Consensus size: 20
27318149 GTTTAAAATC
27318159 AAACCCTAAACACTAAACCAT
1 AAACCCTAAAC-CTAAACCAT
*
27318180 AAACCCTAAGCC----CC-T
1 AAACCCTAAACCTAAACCAT
* *
27318195 AAGCTCCTAAACTTTAAACCAT
1 AAAC-CCTAAAC-CTAAACCAT
27318217 AAACCCTAAA-CT----C-T
1 AAACCCTAAACCTAAACCAT
* *
27318231 AATCTCTAAACCATAAACCAT
1 AAACCCTAAACC-TAAACCAT
*
27318252 AAACACTAAACCATAAACC-T
1 AAACCCTAAACC-TAAACCAT
* *
27318272 ACACCCTAAATCTTAAA-CACT
1 AAACCCTAAA-CCTAAACCA-T
* * *
27318293 AAACTCTTAACACTAAATCAT
1 AAACCCTAAAC-CTAAACCAT
*
27318314 AAATCCTAAACCTTAAACCAT
1 AAACCCTAAACC-TAAACCAT
* * * *
27318335 AAGCCATAAACCTACACCCT
1 AAACCCTAAACCTAAACCAT
27318355 AAACCCTAAA
1 AAACCCTAAA
27318365 TATATATTAC
Statistics
Matches: 137, Mismatches: 28, Indels: 41
0.67 0.14 0.20
Matches are distributed among these distances:
14 9 0.07
15 6 0.04
16 9 0.07
19 2 0.01
20 31 0.23
21 74 0.54
22 6 0.04
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.20
Consensus pattern (20 bp):
AAACCCTAAACCTAAACCAT
Found at i:27318219 original size:7 final size:7
Alignment explanation
Indices: 27318209--27318364 Score: 69
Period size: 7 Copynumber: 22.6 Consensus size: 7
27318199 TCCTAAACTT
27318209 TAAACCA
1 TAAACCA
*
27318216 TAAACCC
1 TAAACCA
27318223 TAAACTC-
1 TAAAC-CA
*
27318230 TAATCTC-
1 TAAAC-CA
27318237 TAAACCA
1 TAAACCA
27318244 TAAACCA
1 TAAACCA
27318251 TAAA-CA
1 TAAACCA
27318257 CTAAACCA
1 -TAAACCA
27318265 TAAACC-
1 TAAACCA
* *
27318271 TACACCC
1 TAAACCA
* *
27318278 TAAATCT
1 TAAACCA
27318285 TAAA-CA
1 TAAACCA
27318291 CTAAACTC-
1 -TAAAC-CA
*
27318299 TTAA-CA
1 TAAACCA
*
27318305 CTAAATCA
1 -TAAACCA
27318313 TAAATCC-
1 TAAA-CCA
*
27318320 TAAACCT
1 TAAACCA
27318327 TAAACCA
1 TAAACCA
*
27318334 TAAGCCA
1 TAAACCA
27318341 TAAACC-
1 TAAACCA
* *
27318347 TACACCC
1 TAAACCA
*
27318354 TAAACCC
1 TAAACCA
27318361 TAAA
1 TAAA
27318365 TATATATTAC
Statistics
Matches: 119, Mismatches: 16, Indels: 28
0.73 0.10 0.17
Matches are distributed among these distances:
5 1 0.01
6 16 0.13
7 95 0.80
8 6 0.05
9 1 0.01
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:27318556 original size:14 final size:13
Alignment explanation
Indices: 27318537--27318580 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
27318527 AATAGACCCC
27318537 AAACCACAAACTCT
1 AAACCA-AAACTCT
*
27318551 AAACCATAAACCCT
1 AAACCA-AAACTCT
27318565 AAACTCAAAACTCT
1 AAAC-CAAAACTCT
27318579 AA
1 AA
27318581 TCCCAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 24 0.92
15 2 0.08
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (13 bp):
AAACCAAAACTCT
Found at i:27318860 original size:41 final size:39
Alignment explanation
Indices: 27318758--27318867 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 39
27318748 CAACTTTTTT
*
27318758 CGGCATTTTGCGAAAAGCGCCGCTAATGCTCGATCTATAG
1 CGGCATTTTTC-AAAAGCGCCGCTAATGCTCGATCTATAG
* * *
27318798 TGGCATTTTTCAATAAGCGCCGCTAATTCTCGATCTATTG
1 CGGCATTTTTCAA-AAGCGCCGCTAATGCTCGATCTATAG
**
27318838 CGGTGTTTTTTACAAAAGCGCCGCTAATGC
1 CGG-CATTTTT-CAAAAGCGCCGCTAATGC
27318868 CACTAAAGCT
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.03
40 35 0.59
41 19 0.32
42 3 0.05
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (39 bp):
CGGCATTTTTCAAAAGCGCCGCTAATGCTCGATCTATAG
Found at i:27318970 original size:154 final size:155
Alignment explanation
Indices: 27318689--27319145 Score: 613
Period size: 154 Copynumber: 3.0 Consensus size: 155
27318679 TTTTGTAGCG
* * *
27318689 TTTTTATCAAAAACGCTGCTAATGCCACTAAAGCTCAACAACAAATGACGTCGTTTT-CTCAACT
1 TTTTTA-CAAAAGCGCCGCTAATGCCACTAAAGCTCAACAACAAACGACGT-GTTTTGCTCAACT
* * * * * * * *
27318753 TTTTT-CGGCATTTTGCGAAAAGCGCCGCTAATGCTCGATCTATAGTGGCATTTTTCAATAAGCG
64 TTTTTGTGGCATTCTCCGAAAAGCGCCACTAATGCTCGATTTATAGCGGCGTTTTTCAACAAGCG
27318817 CCGCTAATTCTCGATCTATTGCGGTGT
129 CCGCTAATTCTCGATCTATTGCGGTGT
27318844 TTTTTACAAAAGCGCCGCTAATGCCACTAAAGCTCAACAACAAACGACGTGTTTTGCTCAA-TTT
1 TTTTTACAAAAGCGCCGCTAATGCCACTAAAGCTCAACAACAAACGACGTGTTTTGCTCAACTTT
* *
27318908 TTTGTGGCATTCTCCGAAAAGTGTCACTAATGCTCGATTTATAGCGGCGTTTTTCAACAAGCGCC
66 TTTGTGGCATTCTCCGAAAAGCGCCACTAATGCTCGATTTATAGCGGCGTTTTTCAACAAGCGCC
*
27318973 GCTAATTCTCGATCTATTGTGGTGT
131 GCTAATTCTCGATCTATTGCGGTGT
* *
27318998 TTTTTACAAAAGAGCCTCTAATGCCACTAAAGCTCAAC-A-AAACGACGTGTTTTGCTCAACTTT
1 TTTTTACAAAAGCGCCGCTAATGCCACTAAAGCTCAACAACAAACGACGTGTTTTGCTCAACTTT
* * * * * **
27319061 TTTGTGGCGTTCTCCGAAAAGCGCCACT-ATGCTCGA-TTGTAGCGGTGTTTTTCGAGAAATGCC
66 TTTGTGGCATTCTCCGAAAAGCGCCACTAATGCTCGATTTATAGCGGCGTTTTTCAACAAGCGCC
* * *
27319124 GCTAATGCTTGATCTATAGCGG
131 GCTAATTCTCGATCTATTGCGG
27319146 CATTTTTCTA
Statistics
Matches: 270, Mismatches: 29, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
151 39 0.14
152 28 0.10
153 40 0.15
154 157 0.58
155 6 0.02
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (155 bp):
TTTTTACAAAAGCGCCGCTAATGCCACTAAAGCTCAACAACAAACGACGTGTTTTGCTCAACTTT
TTTGTGGCATTCTCCGAAAAGCGCCACTAATGCTCGATTTATAGCGGCGTTTTTCAACAAGCGCC
GCTAATTCTCGATCTATTGCGGTGT
Found at i:27319144 original size:40 final size:40
Alignment explanation
Indices: 27319078--27319272 Score: 168
Period size: 39 Copynumber: 4.9 Consensus size: 40
27319068 CGTTCTCCGA
* * * *
27319078 AAAGCGCCACT-ATGCTCGAT-TGTAGCGGTGTTTTTCGAG
1 AAAGCGCCGCTAATGCTTGATCTATAGCGGCGTTTTTC-AG
* *
27319117 AAA-TGCCGCTAATGCTTGATCTATAGCGGCATTTTTCTA-
1 AAAGCGCCGCTAATGCTTGATCTATAGCGGCGTTTTTC-AG
* * * *
27319156 AAAGGGCCGCCAATGCTTGATCTATAGTGGCG-TTTTCAA
1 AAAGCGCCGCTAATGCTTGATCTATAGCGGCGTTTTTCAG
* * *
27319195 AAAGCGCCGCTAATGCTTGACCTATAGTGACGTTTGTTTCAG
1 AAAGCGCCGCTAATGCTTGATCTATAGCGGCG-TT-TTTCAG
* * *
27319237 AAA-CGCCGCTAATGCTTGACCTTTTGCGGCGTTTTT
1 AAAGCGCCGCTAATGCTTGATCTATAGCGGCGTTTTT
27319273 GTTATAAATG
Statistics
Matches: 129, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
38 6 0.05
39 50 0.39
40 40 0.31
41 25 0.19
42 8 0.06
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.32
Consensus pattern (40 bp):
AAAGCGCCGCTAATGCTTGATCTATAGCGGCGTTTTTCAG
Found at i:27319288 original size:41 final size:41
Alignment explanation
Indices: 27319189--27319270 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
27319179 ATAGTGGCGT
* * * *
27319189 TTTCAAAAAGCGCCGCTAATGCTTGACCTATAGTGACGTTTG
1 TTTCAGAAA-CGCCGCTAATGCTTGACCTTTTGCGACGTTTG
*
27319231 TTTCAGAAACGCCGCTAATGCTTGACCTTTTGCGGCGTTT
1 TTTCAGAAACGCCGCTAATGCTTGACCTTTTGCGACGTTT
27319271 TTGTTATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
41 27 0.77
42 8 0.23
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTCAGAAACGCCGCTAATGCTTGACCTTTTGCGACGTTTG
Found at i:27322430 original size:20 final size:21
Alignment explanation
Indices: 27322392--27322430 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27322382 CCGGCAAGAC
27322392 CATTGTCATCAGCTGTAATTG
1 CATTGTCATCAGCTGTAATTG
27322413 CATTGT-ATCAAGCT-TAAT
1 CATTGTCATC-AGCTGTAAT
27322431 CCCTCATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (21 bp):
CATTGTCATCAGCTGTAATTG
Found at i:27328676 original size:33 final size:31
Alignment explanation
Indices: 27328632--27328726 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 31
27328622 TTTGGGTTGT
*
27328632 ATCCACCGCAGTATAACACTCCTCCTGGCCTGA
1 ATCCACTGCAGTAT-ACACTCCTCCTGGCC-GA
* * *
27328665 ATCCACTGCAGTACTCCACTCCTCCTAGGTCGT
1 ATCCACTGCAGTA-TACACTCCTCCT-GGCCGA
* *
27328698 ATCCACTGCAGTATGGCATTCCTCCTGGC
1 ATCCACTGCAGTAT-ACACTCCTCCTGGC
27328727 TCAAGTTCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
32 3 0.06
33 45 0.87
34 4 0.08
ACGTcount: A:0.20, C:0.38, G:0.17, T:0.25
Consensus pattern (31 bp):
ATCCACTGCAGTATACACTCCTCCTGGCCGA
Found at i:27329987 original size:443 final size:443
Alignment explanation
Indices: 27329161--27330049 Score: 1706
Period size: 443 Copynumber: 2.0 Consensus size: 443
27329151 ACAGGTTAGG
*
27329161 CAGGACGGGGAACTCATTCTCCCAAACACACAATGTGCGCTCGAGTGTGCACACATCATCGACAA
1 CAGGACGGGGAACTCATTCTCCCAAACACACAATGTGCGCTCGAGTGTGCACACATCATCAACAA
*
27329226 ATTGTTCAACATTGAACGAGACTTTAGCACACGTTTCCATGACATGCGCACATAGATAATGAAGC
66 ATTGTTCAACATTGAACAAGACTTTAGCACACGTTTCCATGACATGCGCACATAGATAATGAAGC
27329291 GTTTGGGACCTCCTGCAATCACACCGTCTGTTTCAGAGATCAACTCCATAGGACCTAGGTGGTAT
131 GTTTGGGACCTCCTGCAATCACACCGTCTGTTTCAGAGATCAACTCCATAGGACCTAGGTGGTAT
*
27329356 ACCGAGTCGACGACCGATGGTCTCCGTAACTCGAAACATTTCAAGACGTCATGAATCTACTTCTA
196 ACCGAGTCGACGACCGATAGTCTCCGTAACTCGAAACATTTCAAGACGTCATGAATCTACTTCTA
27329421 CATTCATCGACCTCGTCATTCGACGATTTGCAACCATTGCATCCCTGACATATTCGATAAACACG
261 CATTCATCGACCTCGTCATTCGACGATTTGCAACCATTGCATCCCTGACATATTCGATAAACACG
27329486 TGTCCCGCCTATATCTTGTTAGCTTGTTGCTAACTCATTCTTGGCATCAAGGTAGCCAACATGTA
326 TGTCCCGCCTATATCTTGTTAGCTTGTTGCTAACTCATTCTTGGCATCAAGGTAGCCAACATGTA
27329551 GAATGTAACATAGAAGACAGATGAAATTGGAAGATGTCGTGTTTTCAACAACA
391 GAATGTAACATAGAAGACAGATGAAATTGGAAGATGTCGTGTTTTCAACAACA
* * *
27329604 CAGGACGGGGAACTCATTCTCCCAGACACGCAATGTGCGCTCGAGTGTGTACACATCATCAACAA
1 CAGGACGGGGAACTCATTCTCCCAAACACACAATGTGCGCTCGAGTGTGCACACATCATCAACAA
27329669 ATTGTTCAACATTGAACAAGACTTTAGCACACGTTTCCATGACATGCGCACATAGATAATGAAGC
66 ATTGTTCAACATTGAACAAGACTTTAGCACACGTTTCCATGACATGCGCACATAGATAATGAAGC
* *
27329734 GTTTGGGGCCTCCTGCAATTACACCGTCTGTTTCAGAGATCAACTCCATAGGACCTAGGTGGTAT
131 GTTTGGGACCTCCTGCAATCACACCGTCTGTTTCAGAGATCAACTCCATAGGACCTAGGTGGTAT
27329799 ACCGAGTCGACGACCGATAGTCTCCGTAACTCGAAACATTTCAAGACGTCATGAATCTACTTCTA
196 ACCGAGTCGACGACCGATAGTCTCCGTAACTCGAAACATTTCAAGACGTCATGAATCTACTTCTA
27329864 CATTCATCGACCTCGTCATTCGACGATTTGCAACCATTGCATCCCTGACATATTCGATAAACACG
261 CATTCATCGACCTCGTCATTCGACGATTTGCAACCATTGCATCCCTGACATATTCGATAAACACG
27329929 TGTCCCGCCTATATCTTGTTAGCTTGTTGCTAACTCATTCTTGGCATCAAGGTAGCCAACATGTA
326 TGTCCCGCCTATATCTTGTTAGCTTGTTGCTAACTCATTCTTGGCATCAAGGTAGCCAACATGTA
27329994 GAATGTAACATAGAAGACAGATGAAATTGGAAGATGTCGTGTTTTCAACAACA
391 GAATGTAACATAGAAGACAGATGAAATTGGAAGATGTCGTGTTTTCAACAACA
27330047 CAG
1 CAG
27330050 TGTTGATCCC
Statistics
Matches: 438, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
443 438 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (443 bp):
CAGGACGGGGAACTCATTCTCCCAAACACACAATGTGCGCTCGAGTGTGCACACATCATCAACAA
ATTGTTCAACATTGAACAAGACTTTAGCACACGTTTCCATGACATGCGCACATAGATAATGAAGC
GTTTGGGACCTCCTGCAATCACACCGTCTGTTTCAGAGATCAACTCCATAGGACCTAGGTGGTAT
ACCGAGTCGACGACCGATAGTCTCCGTAACTCGAAACATTTCAAGACGTCATGAATCTACTTCTA
CATTCATCGACCTCGTCATTCGACGATTTGCAACCATTGCATCCCTGACATATTCGATAAACACG
TGTCCCGCCTATATCTTGTTAGCTTGTTGCTAACTCATTCTTGGCATCAAGGTAGCCAACATGTA
GAATGTAACATAGAAGACAGATGAAATTGGAAGATGTCGTGTTTTCAACAACA
Found at i:27331295 original size:5 final size:5
Alignment explanation
Indices: 27331285--27331356 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
27331275 TGTTAAAAAA
* *
27331285 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
27331331 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
27331357 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:27331338 original size:19 final size:19
Alignment explanation
Indices: 27331314--27331356 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
27331304 ATTATGTTTT
27331314 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
27331333 TATATTATATTATATTATA
1 TATATTATATTATATTATA
27331352 TATAT
1 TATAT
27331357 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:27331388 original size:17 final size:17
Alignment explanation
Indices: 27331366--27331399 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
27331356 TACATAAAAC
*
27331366 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
27331383 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
27331400 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:27331395 original size:9 final size:9
Alignment explanation
Indices: 27331366--27331399 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
27331356 TACATAAAAC
27331366 AAAAGAAAG
1 AAAAGAAAG
*
27331375 AATAGAAA-
1 AAAAGAAAG
27331383 AAAAGAAAG
1 AAAAGAAAG
27331392 AAAAGAAA
1 AAAAGAAA
27331400 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:27335054 original size:27 final size:27
Alignment explanation
Indices: 27335023--27335090 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
27335013 CTAGGTGTGT
* * *
27335023 CGCCTATTAGATAGACACCACTAGTGC
1 CGCCTATCAGATAGACACAACCAGTGC
* *
27335050 CGCCTATCAGATAGGCATAACCAGTGC
1 CGCCTATCAGATAGACACAACCAGTGC
27335077 CGCCTATCAGATAG
1 CGCCTATCAGATAG
27335091 GGGTAGGGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (27 bp):
CGCCTATCAGATAGACACAACCAGTGC
Found at i:27335501 original size:9 final size:9
Alignment explanation
Indices: 27335485--27335546 Score: 88
Period size: 9 Copynumber: 6.8 Consensus size: 9
27335475 GGTATTTTTC
27335485 GGTAATTCG
1 GGTAATTCG
*
27335494 GTTAATTCG
1 GGTAATTCG
*
27335503 GTTAATTCGG
1 GGTAATTC-G
27335513 GGTAATTCG
1 GGTAATTCG
27335522 GGTAATTCG
1 GGTAATTCG
*
27335531 AGTAATTCG
1 GGTAATTCG
27335540 GGTAATT
1 GGTAATT
27335547 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
9 40 0.83
10 8 0.17
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.37
Consensus pattern (9 bp):
GGTAATTCG
Found at i:27335516 original size:28 final size:27
Alignment explanation
Indices: 27335485--27335546 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 27
27335475 GGTATTTTTC
*
27335485 GGTAATTCGGTTAATTCG-GTTAATTCGG
1 GGTAATTCGGGTAATTCGAG-TAATTC-G
27335513 GGTAATTCGGGTAATTCGAGTAATTCG
1 GGTAATTCGGGTAATTCGAGTAATTCG
27335540 GGTAATT
1 GGTAATT
27335547 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 8 0.25
28 23 0.72
29 1 0.03
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.37
Consensus pattern (27 bp):
GGTAATTCGGGTAATTCGAGTAATTCG
Found at i:27335775 original size:27 final size:27
Alignment explanation
Indices: 27335743--27335803 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
27335733 GAACACCCCT
27335743 AGATAGGGGTCACTGGTG-CTGCCTATC
1 AGATAGGGGTCACTGGTGTC-GCCTATC
27335770 AGATAGGGGTCACTGGTGTCGCCTATC
1 AGATAGGGGTCACTGGTGTCGCCTATC
27335797 AGATAGG
1 AGATAGG
27335804 CACCACACCC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.25
Consensus pattern (27 bp):
AGATAGGGGTCACTGGTGTCGCCTATC
Found at i:27348540 original size:12 final size:12
Alignment explanation
Indices: 27348523--27348548 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27348513 CAAAACAGGC
27348523 TTTTAGCGGCGT
1 TTTTAGCGGCGT
27348535 TTTTAGCGGCGT
1 TTTTAGCGGCGT
27348547 TT
1 TT
27348549 GTTTGCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:27348890 original size:113 final size:114
Alignment explanation
Indices: 27348607--27348969 Score: 552
Period size: 114 Copynumber: 3.2 Consensus size: 114
27348597 AAAATAATCA
* *
27348607 TTAGCGGCGTTTTTCAGAAAGCGCCGC--AAAAACCTAAGACCAACGACGCTGTTTTCGGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCTGTTTTCTGAGCTT
* *
27348670 TCGGGGATTTAGCGGCGTTTTTAAGAGAGCGCCACTAATACTCAAGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAGAGCGCCACTAATGCTCATGGCT
* * * *
27348719 TTAGCTGTGTTTTTGAGAAAGCACCGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCTGTTTTCTGAGCTT
27348784 TCGGGGATTTAGCGGCGTTTTTAAGAGAGCG-CACTAATGCTCATGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAGAGCGCCACTAATGCTCATGGCT
* * * *
27348832 TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAAACCTAAGACCGACGACGCCGTTTTCTGATCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCTGTTTTCTGAGCTT
* * * *
27348897 TTGGGGATTTAGCAGTGTTTTTAAGAGAGCGCCGCTAATGCTCATGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAGAGCGCCACTAATGCTCATGGCT
*
27348946 TTAGCGGCGTTTTTGAGGAAGCGC
1 TTAGCGGCGTTTTTGAGAAAGCGC
27348970 TTTCAACTTT
Statistics
Matches: 228, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
112 23 0.10
113 100 0.44
114 105 0.46
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGACCAACGACGCTGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAGAGCGCCACTAATGCTCATGGCT
Found at i:27349528 original size:21 final size:21
Alignment explanation
Indices: 27349498--27349548 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
27349488 CTACAACTTA
* * *
27349498 AAGCAAAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCAAGAG
*
27349519 AAGCAGAGGCTGCAGCAAGAG
1 AAGCAGAGGCGGCAGCAAGAG
27349540 AAGCAGAGG
1 AAGCAGAGG
27349549 TTCAAAAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.18, G:0.43, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCAAGAG
Found at i:27350048 original size:42 final size:43
Alignment explanation
Indices: 27349932--27350092 Score: 141
Period size: 42 Copynumber: 3.8 Consensus size: 43
27349922 GTTTTTGTAT
* * *
27349932 AAAAGTGCCCCTAAAGAACATGATCTTTAGCGGCGTTTGTAAA
1 AAAAGCGCCGCTAAAGATCATGATCTTTAGCGGCGTTTGTAAA
* * * **
27349975 AAAAGTGCCGCTAAAGATTATGATCTCTAGCGGCGTTT-TTTA
1 AAAAGCGCCGCTAAAGATCATGATCTTTAGCGGCGTTTGTAAA
* * * * *
27350017 CAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGC-TCTTAG-AAG
1 AAAAGCGCCGCTAAAGATCATGATCTTTAGCGGCGT-TT-GTAAA
* *
27350060 AAAA-CGCCGCTAAAGAACATGGTCTTTAGCGGC
1 AAAAGCGCCGCTAAAGATCATGATCTTTAGCGGC
27350093 TTTTTTATTT
Statistics
Matches: 94, Mismatches: 21, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
41 1 0.01
42 56 0.60
43 37 0.39
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGATCATGATCTTTAGCGGCGTTTGTAAA
Found at i:27361009 original size:23 final size:23
Alignment explanation
Indices: 27360979--27361025 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
27360969 CTGGTACACA
27360979 GGCTACCTAAATTAAGCTCCCAT
1 GGCTACCTAAATTAAGCTCCCAT
*
27361002 GGCTACCTTAATTAAGCTCCCAT
1 GGCTACCTAAATTAAGCTCCCAT
27361025 G
1 G
27361026 ACTTCAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (23 bp):
GGCTACCTAAATTAAGCTCCCAT
Found at i:27366071 original size:42 final size:43
Alignment explanation
Indices: 27365966--27366122 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 43
27365956 GGTGAGATCG
* * * * *
27365966 TGTAAGACCACGTCTGGGACGTTGGCATTG-AATTGAGAATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATT-CGAA-TACA
* * * ***
27366010 TATAAGATCATGTCTGGGACATTGGCATCG-TATAT-GATTTTG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTAT-TCGAATACA
* *
27366052 TGTAAGACCTTGTCTGGGACAGTGGCATCGTTATTCGAATACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTCGAATACA
*
27366095 TGTAAGACCACGTCTGGGACATTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
27366123 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
42 28 0.31
43 33 0.37
44 27 0.30
45 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATTCGAATACA
Found at i:27367749 original size:28 final size:31
Alignment explanation
Indices: 27367691--27367749 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
27367681 ATATATAGTT
27367691 TTTATATTATTTATAAAGGTTATAATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
* *
27367722 TTTATA-TA-TTAT-AATGTTATTATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
27367750 AAACAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 14 0.54
29 4 0.15
30 2 0.08
31 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (31 bp):
TTTATATTATTTATAAAGGTTATAATAATAA
Found at i:27368757 original size:2 final size:2
Alignment explanation
Indices: 27368745--27368814 Score: 61
Period size: 2 Copynumber: 35.5 Consensus size: 2
27368735 AAAGGTATGA
* * * * * * * *
27368745 AT AT GT AT AT AT AT AT TT AT AA AT AT TT AA AT AA AG AT AG A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27368786 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27368815 GTTTTTGAAT
Statistics
Matches: 53, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:27369499 original size:21 final size:21
Alignment explanation
Indices: 27369473--27369514 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
27369463 GCTAAGTGCC
27369473 GGTGAACTGAATCAGGCTATA
1 GGTGAACTGAATCAGGCTATA
27369494 GGTGAACTGAATCAGGCTATA
1 GGTGAACTGAATCAGGCTATA
27369515 AGCCTAGCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (21 bp):
GGTGAACTGAATCAGGCTATA
Found at i:27369541 original size:41 final size:41
Alignment explanation
Indices: 27369494--27369663 Score: 279
Period size: 41 Copynumber: 4.1 Consensus size: 41
27369484 TCAGGCTATA
27369494 GGTGAACTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGAACTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
*
27369535 GGTGAACTGAATCAGGCTATAAGTCTAGCAGGCTAAGTGCC
1 GGTGAACTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* *
27369576 AGTGAACTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGTC
1 GGTGAACTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
*
27369617 GCTGAACTGAATCAGGCTATAAGCCTAGCAGG-TGAAGTGCC
1 GGTGAACTGAATCAGGCTATAAGCCTAGCAGGCT-AAGTGCC
*
27369658 AGTGAA
1 GGTGAA
27369664 TCTGTTTAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 1 0.01
41 118 0.99
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.21
Consensus pattern (41 bp):
GGTGAACTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
Found at i:27372926 original size:14 final size:14
Alignment explanation
Indices: 27372907--27372945 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
27372897 TTGTTTCACT
27372907 GAAAATGACTTTC-G
1 GAAAATGA-TTTCTG
27372921 GAAAATGATTTCTG
1 GAAAATGATTTCTG
27372935 GAAAATGATTT
1 GAAAATGATTT
27372946 GCTTTTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (14 bp):
GAAAATGATTTCTG
Found at i:27376269 original size:19 final size:19
Alignment explanation
Indices: 27376245--27376281 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
27376235 CTGATAAAAA
27376245 TTTTT-AAGATTTATTTAAT
1 TTTTTAAAGATTT-TTTAAT
27376264 TTTTTAAAGATTTTTTAA
1 TTTTTAAAGATTTTTTAA
27376282 ATATATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTTAAAGATTTTTTAAT
Found at i:27393110 original size:18 final size:16
Alignment explanation
Indices: 27393079--27393112 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
27393069 ACTTTTTTAC
27393079 ATGTTTTGTTACTGTT
1 ATGTTTTGTTACTGTT
27393095 ATGTTGTTGTTTACTGTT
1 ATGTT-TTG-TTACTGTT
27393113 GTTATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 3 0.19
18 8 0.50
ACGTcount: A:0.12, C:0.06, G:0.21, T:0.62
Consensus pattern (16 bp):
ATGTTTTGTTACTGTT
Found at i:27396126 original size:15 final size:15
Alignment explanation
Indices: 27396086--27396127 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
27396076 ACTGTTGAAA
27396086 TCATCATCATCTTCT
1 TCATCATCATCTTCT
* *
27396101 TCCTCCTCATCTTCT
1 TCATCATCATCTTCT
*
27396116 TCATCAGCATCT
1 TCATCATCATCT
27396128 GAAAACTGAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.17, C:0.38, G:0.02, T:0.43
Consensus pattern (15 bp):
TCATCATCATCTTCT
Found at i:27401018 original size:49 final size:49
Alignment explanation
Indices: 27400883--27401065 Score: 145
Period size: 49 Copynumber: 3.8 Consensus size: 49
27400873 CGCCAGACTG
* * * * * * * * *
27400883 GTTAACAAATAACATGCCCTACTAG-AGACCATGCATATCTGTCATTATG
1 GTTAGCAACTAACATGCCCTACTAGCGGCCCAT-CTTATCTGCCAATCTA
* * * * * *
27400932 GTTAACAATTAACAT-CCCTACTAGTGGCCTATTTTATCTTCCAATCTA
1 GTTAGCAACTAACATGCCCTACTAGCGGCCCATCTTATCTGCCAATCTA
* *
27400980 GTTAGCAACTAACATGCCCTACTAGCGGCCCGTCTTATCTGCCAATCTT
1 GTTAGCAACTAACATGCCCTACTAGCGGCCCATCTTATCTGCCAATCTA
* * * * *
27401029 TTTAGCAACTAATATGCCTTACCAGCGGCCTATCTTA
1 GTTAGCAACTAACATGCCCTACTAGCGGCCCATCTTA
27401066 CTTTTTCGGG
Statistics
Matches: 107, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
48 31 0.29
49 76 0.71
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (49 bp):
GTTAGCAACTAACATGCCCTACTAGCGGCCCATCTTATCTGCCAATCTA
Found at i:27401717 original size:41 final size:41
Alignment explanation
Indices: 27401660--27402076 Score: 439
Period size: 41 Copynumber: 10.1 Consensus size: 41
27401650 CTTTCGGGGT
* *
27401660 TTTAGCGGCGTTTTTGAGAAAACGCCGCTAATGCTCAAGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
** * * *
27401701 TTTAGCATCGTTTTTGAGGAAGCGCCGCTGATGCTTAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * *
27401742 TTCAGCGGCGTTTTTGAGAAAGCGCCGTTAATGATCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * *
27401783 TTTAGCGGCATTTTTGAGGAAGCGCCGCTAATGATCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* *
27401824 TTTAGCGGGGTTTTCGAGAAAGCGCCGCTAATGCTCAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
*
27401865 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTTAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* * * * *
27401906 TTTAGCGACGTTTTTGTGGAAGCGCCGCTAACCTAATGATCAAGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCG-----CTAATGCTCAGGGC
* * *
27401952 TTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATG-ACAGGGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* ** **
27401992 TTTAGCGGCGTTTTTGA-AGTAGCATCGCTAATGCTCTA--TT
1 TTTAGCGGCGTTTTTGAGA-AAGCGCCGCTAATGCTC-AGGGC
* * *
27402032 TTTAGCGGCGTGTTCT-AAAAAGCGCCGCTAATGCTCAGGGA
1 TTTAGCGGCGT-TTTTGAGAAAGCGCCGCTAATGCTCAGGGC
27402073 TTTA
1 TTTA
27402077 AAATATTTGT
Statistics
Matches: 312, Mismatches: 52, Indels: 24
0.80 0.13 0.06
Matches are distributed among these distances:
39 1 0.00
40 58 0.19
41 217 0.70
42 1 0.00
46 35 0.11
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:27403071 original size:7 final size:7
Alignment explanation
Indices: 27403061--27403101 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
27403051 GGTTTAAGGT
27403061 TTAGGGG
1 TTAGGGG
**
27403068 TTAGATG
1 TTAGGGG
27403075 TTAGGGG
1 TTAGGGG
*
27403082 TTAAGGG
1 TTAGGGG
27403089 TTAGGGG
1 TTAGGGG
27403096 TTAGGG
1 TTAGGG
27403102 TTTATATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.49, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:27403098 original size:14 final size:14
Alignment explanation
Indices: 27403040--27403103 Score: 71
Period size: 14 Copynumber: 4.6 Consensus size: 14
27403030 GGTTTGTGGT
27403040 TTAAGGGTT-GGGG
1 TTAAGGGTTAGGGG
*
27403053 TTTAAGGTTTAGGGG
1 -TTAAGGGTTAGGGG
*
27403068 TT-AGATGTTAGGGG
1 TTAAG-GGTTAGGGG
27403082 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
27403096 TT-AGGGTT
1 TTAAGGGTT
27403104 TATATTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
13 8 0.19
14 29 0.67
15 6 0.14
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.36
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:27403585 original size:6 final size:6
Alignment explanation
Indices: 27403574--27403601 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
27403564 TTTTAAAATT
27403574 TTTTTG TTTTTG TTTTTG TTTTTG TTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTT
27403602 CTTACATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTTG
Found at i:27407785 original size:43 final size:43
Alignment explanation
Indices: 27407706--27407824 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
27407696 GCGTTTTTCT
* * *
27407706 ATAAA-CGCCGCTAAAGA--ACGTACTTTTAGCGACGTTTGT-G
1 ATAAAGCGCCGCTAAAGATCATGTTC-TTTAGCGGCGTTTGTGG
*
27407746 ATAAAAGCGCCGGTAAAGATCATGTTCTTTAGCGGCGTTTGTGG
1 AT-AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGG
*
27407790 GTAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGC
1 ATAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGC
27407825 ATTTTTTCAC
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
40 2 0.03
41 3 0.04
42 11 0.16
43 46 0.68
44 6 0.09
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
ATAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGG
Found at i:27416628 original size:21 final size:21
Alignment explanation
Indices: 27416587--27416629 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
27416577 TTAATCTCTA
* *
27416587 AATTTTTATTTTTAGATATTT
1 AATTTTTATTTTTAAAAATTT
27416608 AATTTTT-TTATTTAAAAATTT
1 AATTTTTATT-TTTAAAAATTT
27416629 A
1 A
27416630 GATCTATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
AATTTTTATTTTTAAAAATTT
Found at i:27418024 original size:43 final size:43
Alignment explanation
Indices: 27417937--27418045 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 43
27417927 TTGCGGCGTT
* * * **
27417937 TTTACCCACAAGCGCCGCTAAAGACCACGACCTTTAGCGGCGC
1 TTTACCAACAAACGCCGCTAAAGACCACGACCTTTAACAACGC
* *
27417980 TTTACCAACAAACGCTGCTAAAGACCATGACCTTTAACAACGC
1 TTTACCAACAAACGCCGCTAAAGACCACGACCTTTAACAACGC
* *
27418023 TTTTATC-ACAAACGCCACTAAAG
1 -TTTACCAACAAACGCCGCTAAAG
27418046 CTCATGAGAC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 50 0.91
44 5 0.09
ACGTcount: A:0.33, C:0.32, G:0.15, T:0.20
Consensus pattern (43 bp):
TTTACCAACAAACGCCGCTAAAGACCACGACCTTTAACAACGC
Found at i:27420708 original size:19 final size:18
Alignment explanation
Indices: 27420657--27420710 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
27420647 ATTGCTAATG
* *
27420657 TATTAAATAATAAAAGTAT
1 TATTAAATAATAATA-TAA
27420676 TATTAAAT-ATAATATAA
1 TATTAAATAATAATATAA
27420693 TATTAAAATAATAATATA
1 TATT-AAATAATAATATA
27420711 GTAAACATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 6 0.19
18 9 0.29
19 16 0.52
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
TATTAAATAATAATATAA
Found at i:27422319 original size:19 final size:19
Alignment explanation
Indices: 27422295--27422342 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
27422285 TAAAATTATA
*
27422295 ATTTTTATTTTTTTATTTC
1 ATTTTTATTTTTGTATTTC
*
27422314 ATTTTTATTTTTGTATTTT
1 ATTTTTATTTTTGTATTTC
*
27422333 AATTTTATTT
1 ATTTTTATTT
27422343 CTTATAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (19 bp):
ATTTTTATTTTTGTATTTC
Found at i:27422332 original size:25 final size:26
Alignment explanation
Indices: 27422295--27422347 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
27422285 TAAAATTATA
* *
27422295 ATTTTTATTTTTTTATTTCATTT-TT
1 ATTTTTATATTTTAATTTCATTTCTT
* *
27422320 ATTTTTGTATTTTAATTTTATTTCTT
1 ATTTTTATATTTTAATTTCATTTCTT
27422346 AT
1 AT
27422348 AATTTGGTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (26 bp):
ATTTTTATATTTTAATTTCATTTCTT
Found at i:27422827 original size:15 final size:15
Alignment explanation
Indices: 27422804--27422840 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
27422794 TAAACTATAT
27422804 TCCCT-AATCCATAA
1 TCCCTAAATCCATAA
*
27422818 TCCCTAAATCCATAC
1 TCCCTAAATCCATAA
27422833 TCCCTAAA
1 TCCCTAAA
27422841 CCTTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.27
Consensus pattern (15 bp):
TCCCTAAATCCATAA
Found at i:27423136 original size:15 final size:15
Alignment explanation
Indices: 27423090--27423136 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
27423080 TTCCAACCTT
27423090 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
27423104 T-AATCCATAATCCT
1 TAAATCCATAATCCC
* *
27423118 TAAATTCATACTCCC
1 TAAATCCATAATCCC
27423133 TAAA
1 TAAA
27423137 CCTTAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.41
15 14 0.52
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:27423419 original size:41 final size:41
Alignment explanation
Indices: 27423362--27423708 Score: 451
Period size: 41 Copynumber: 8.4 Consensus size: 41
27423352 ATAGTATTTT
* * *
27423362 GCATTAGCGGGGCTTTTGCAAAAACCCCGCTAAAGACCAGA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGA
* * *
27423403 GCATTAGCGGTGCTTTTCCAAAAAACACCGCTAAAGGCCAGA
1 GCATTAGCGGCGCTTTTCC-AAAAACGCCGCTAAAGACCAGA
* ** *
27423445 TCATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCAGA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGA
* * *
27423486 GCATTAGTGGCGCTTATCCAAAAACACCGCTAAAGACCAGA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGA
*
27423527 GCATTAGCGGCGCTTTGCCAAAAACGCCGCTAAAGACCAGA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGA
* * * * *
27423568 GCATTTGCGGCGCTTTTTCGAAAACGCCACTAAATACCAGA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGA
*
27423609 GCATTAGCGTCGCTTTTCCAAAAACGCCGCTAAAGACCAGA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGA
* * *
27423650 GCATTAGCGGCGTTTTTCTAAAAACGCCGCCAAAGACCAGA
1 GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGA
* * *
27423691 TCATTAGTGGCGTTTTTC
1 GCATTAGCGGCGCTTTTC
27423709 TAATCCAAAA
Statistics
Matches: 267, Mismatches: 38, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
41 232 0.87
42 35 0.13
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.21
Consensus pattern (41 bp):
GCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGA
Found at i:27446199 original size:16 final size:16
Alignment explanation
Indices: 27446178--27446229 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
27446168 TTTGGTTCGC
27446178 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
27446194 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
27446210 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
27446226 TGTA
1 TGTA
27446230 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:27446276 original size:45 final size:44
Alignment explanation
Indices: 27446210--27446304 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
27446200 GGATTAGAGG
* * *
27446210 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
27446255 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
27446299 TGTAAT
1 TGTAAT
27446305 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:27446487 original size:18 final size:17
Alignment explanation
Indices: 27446466--27446500 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27446456 TTATTATTTA
*
27446466 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
27446484 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27446501 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27446494 original size:28 final size:27
Alignment explanation
Indices: 27446424--27446496 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
27446414 TTTATTATCA
*
27446424 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
27446452 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
27446479 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
27446497 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:27447233 original size:13 final size:13
Alignment explanation
Indices: 27447215--27447241 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27447205 TAATTATCTC
27447215 ATACTTTAAATCA
1 ATACTTTAAATCA
27447228 ATACTTTAAATCA
1 ATACTTTAAATCA
27447241 A
1 A
27447242 CTTGATCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
ATACTTTAAATCA
Found at i:27448752 original size:15 final size:16
Alignment explanation
Indices: 27448728--27448762 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
27448718 TTCGTTTTGC
*
27448728 TTCTCGTTTCT-TTCT
1 TTCTCATTTCTATTCT
27448743 TTCTCATTTCTATTCT
1 TTCTCATTTCTATTCT
27448759 TTCT
1 TTCT
27448763 TTTGTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.06, C:0.26, G:0.03, T:0.66
Consensus pattern (16 bp):
TTCTCATTTCTATTCT
Found at i:27448800 original size:5 final size:5
Alignment explanation
Indices: 27448770--27448865 Score: 60
Period size: 5 Copynumber: 18.8 Consensus size: 5
27448760 TCTTTTGTTT
27448770 TATATA TATATA TATTAA TAATAA TATAA TATAA TAT-A T-TAA TAATAA
1 TATA-A TATA-A TA-TAA T-ATAA TATAA TATAA TATAA TATAA T-ATAA
* *
27448818 TATAA TATAA -A-AA CATACT TATTAA T-TAA GTA-AA TATAA TATAA
1 TATAA TATAA TATAA TATA-A TA-TAA TATAA -TATAA TATAA TATAA
27448862 TATA
1 TATA
27448866 TATTTTAAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 25
0.73 0.03 0.24
Matches are distributed among these distances:
3 3 0.04
4 11 0.15
5 36 0.48
6 20 0.27
7 5 0.07
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:27448806 original size:24 final size:24
Alignment explanation
Indices: 27448773--27448827 Score: 101
Period size: 24 Copynumber: 2.2 Consensus size: 24
27448763 TTTGTTTTAT
27448773 ATATATATATATTAATAATAATATA
1 ATATA-ATATATTAATAATAATATA
27448798 ATATAATATATTAATAATAATATA
1 ATATAATATATTAATAATAATATA
27448822 ATATAA
1 ATATAA
27448828 AAACATACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATATAATATATTAATAATAATATA
Found at i:27448817 original size:19 final size:18
Alignment explanation
Indices: 27448791--27448826 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
27448781 ATATTAATAA
27448791 TAATATAATATAATATAT
1 TAATATAATATAATATAT
27448809 TAATAATAATATAATATA
1 TAAT-ATAATATAATATA
27448827 AAAACATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATATAATATAATATAT
Found at i:27449675 original size:227 final size:227
Alignment explanation
Indices: 27449280--27449733 Score: 908
Period size: 227 Copynumber: 2.0 Consensus size: 227
27449270 TCGATACCTC
27449280 GTTTTTGACCCAATTTACCTAATAATTTCTTTTAAATAATAAAATTCACTAAAATTTTGAAATAT
1 GTTTTTGACCCAATTTACCTAATAATTTCTTTTAAATAATAAAATTCACTAAAATTTTGAAATAT
27449345 TTCTAAAATCACGCTTAACTTAAAATTATTAATTAATAAATTTTCTAAATTTTTCATCGGATTTA
66 TTCTAAAATCACGCTTAACTTAAAATTATTAATTAATAAATTTTCTAAATTTTTCATCGGATTTA
27449410 GTGATTTCAAATCACTGTTCTAACACTACTAAAAATTGGGCTGTTACATTACGTGAAAACACTTT
131 GTGATTTCAAATCACTGTTCTAACACTACTAAAAATTGGGCTGTTACATTACGTGAAAACACTTT
27449475 TGAGAAAAATCACGGGCAGAGGAGAAGAAAAT
196 TGAGAAAAATCACGGGCAGAGGAGAAGAAAAT
27449507 GTTTTTGACCCAATTTACCTAATAATTTCTTTTAAATAATAAAATTCACTAAAATTTTGAAATAT
1 GTTTTTGACCCAATTTACCTAATAATTTCTTTTAAATAATAAAATTCACTAAAATTTTGAAATAT
27449572 TTCTAAAATCACGCTTAACTTAAAATTATTAATTAATAAATTTTCTAAATTTTTCATCGGATTTA
66 TTCTAAAATCACGCTTAACTTAAAATTATTAATTAATAAATTTTCTAAATTTTTCATCGGATTTA
27449637 GTGATTTCAAATCACTGTTCTAACACTACTAAAAATTGGGCTGTTACATTACGTGAAAACACTTT
131 GTGATTTCAAATCACTGTTCTAACACTACTAAAAATTGGGCTGTTACATTACGTGAAAACACTTT
27449702 TGAGAAAAATCACGGGCAGAGGAGAAGAAAAT
196 TGAGAAAAATCACGGGCAGAGGAGAAGAAAAT
27449734 TCACTAATGT
Statistics
Matches: 227, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
227 227 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (227 bp):
GTTTTTGACCCAATTTACCTAATAATTTCTTTTAAATAATAAAATTCACTAAAATTTTGAAATAT
TTCTAAAATCACGCTTAACTTAAAATTATTAATTAATAAATTTTCTAAATTTTTCATCGGATTTA
GTGATTTCAAATCACTGTTCTAACACTACTAAAAATTGGGCTGTTACATTACGTGAAAACACTTT
TGAGAAAAATCACGGGCAGAGGAGAAGAAAAT
Found at i:27457212 original size:78 final size:78
Alignment explanation
Indices: 27457081--27457233 Score: 288
Period size: 78 Copynumber: 2.0 Consensus size: 78
27457071 AGTCTTCTGA
*
27457081 TTGTTGAGGTTGCTCCTCCAGGTCTGACTCTTTGGACTGTACCAGGGTTGAGTCCTTATTTTCTT
1 TTGTTGAGGTTGCTCCTCCAGGTCTGACTCTTTGGACTGTACCAGGGTCGAGTCCTTATTTTCTT
27457146 TGGCTTGCACCGC
66 TGGCTTGCACCGC
*
27457159 TTGTTGAGGTTGCTCCTCCAGGTCTGACTCTTTGGACTGTACCGGGGTCGAGTCCTTATTTTCTT
1 TTGTTGAGGTTGCTCCTCCAGGTCTGACTCTTTGGACTGTACCAGGGTCGAGTCCTTATTTTCTT
27457224 TGGCTTGCAC
66 TGGCTTGCAC
27457234 AAAATTGGTT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.11, C:0.24, G:0.26, T:0.39
Consensus pattern (78 bp):
TTGTTGAGGTTGCTCCTCCAGGTCTGACTCTTTGGACTGTACCAGGGTCGAGTCCTTATTTTCTT
TGGCTTGCACCGC
Found at i:27457623 original size:20 final size:18
Alignment explanation
Indices: 27457582--27457624 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
27457572 GAACAATAAT
*
27457582 TATATGCAAAAACTATTT
1 TATATGCAAAAACTATTC
*
27457600 TATATGACAAAAACTCTTAC
1 TATATG-CAAAAACTATT-C
27457620 TATAT
1 TATAT
27457625 ATATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (18 bp):
TATATGCAAAAACTATTC
Found at i:27458337 original size:3 final size:3
Alignment explanation
Indices: 27458329--27458378 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
27458319 TAAAGGGGCC
27458329 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
27458377 AT
1 AT
27458379 CTATTAATAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:27458559 original size:16 final size:16
Alignment explanation
Indices: 27458538--27458569 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27458528 GTAAAAGAAA
*
27458538 ATATTTTAAAATATAT
1 ATATTTTAAAAAATAT
27458554 ATATTTTAAAAAATAT
1 ATATTTTAAAAAATAT
27458570 CCAATTATTA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTTTAAAAAATAT
Found at i:27458787 original size:3 final size:3
Alignment explanation
Indices: 27458781--27458806 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
27458771 TAAAAGTGTC
27458781 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
27458807 TTAAAAGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:27458916 original size:64 final size:61
Alignment explanation
Indices: 27458792--27458915 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
27458782 TAATAATAAT
*
27458792 AATAATAATAATAATTTAAAAGATGATATTTTTATAATTTCATAATTGAGTTGAAAAAAAA
1 AATAATAATAATAATTTAAAAGACGATATTTTTATAATTTCATAATTGAGTTGAAAAAAAA
27458853 AATAATAATAATAATTTAAAAGACGATATTTTTATAATTTCATAATTGAGTTGAAAAAAAA
1 AATAATAATAATAATTTAAAAGACGATATTTTTATAATTTCATAATTGAGTTGAAAAAAAA
27458914 AA
1 AA
27458916 ACACTTTTAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.36
Consensus pattern (61 bp):
AATAATAATAATAATTTAAAAGACGATATTTTTATAATTTCATAATTGAGTTGAAAAAAAA
Found at i:27462724 original size:47 final size:47
Alignment explanation
Indices: 27462651--27463148 Score: 798
Period size: 47 Copynumber: 10.5 Consensus size: 47
27462641 GTGTGTATAC
27462651 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
27462700 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
27462747 GTGAAAGTGTATATATATGCGATAAGGCCTAACGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
27462796 GTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGAAGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
27462843 GCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
27462890 GCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
27462937 GCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
27462984 GCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
27463031 GCGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * *
27463078 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* *
27463125 ATGAAAGTGTATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
27463149 TCCCAAAGGG
Statistics
Matches: 426, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
47 372 0.87
49 54 0.13
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:27463336 original size:37 final size:37
Alignment explanation
Indices: 27463267--27463345 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
27463257 CCGAGCTCTA
* *
27463267 AAGACCCGATGACTACGCGTGGGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGCGTGGGAATTATGTCCGGGT
* *
27463304 AAGACCCGATAACTTCGTGT-GGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGCGTGGGA-ATTATGTCCGGGT
27463341 AAGAC
1 AAGAC
27463346 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 3 0.08
37 34 0.92
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGCGTGGGAATTATGTCCGGGT
Found at i:27464107 original size:22 final size:22
Alignment explanation
Indices: 27464079--27464122 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
27464069 TCCGGCGACG
27464079 GTTACGGGATAGGGGTGTTACA
1 GTTACGGGATAGGGGTGTTACA
27464101 GTTACGGGATAGGGGTGTTACA
1 GTTACGGGATAGGGGTGTTACA
27464123 CAATTTGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.41, T:0.27
Consensus pattern (22 bp):
GTTACGGGATAGGGGTGTTACA
Found at i:27472487 original size:38 final size:38
Alignment explanation
Indices: 27472400--27472556 Score: 172
Period size: 38 Copynumber: 4.0 Consensus size: 38
27472390 AAACTCGAAC
* * * *
27472400 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* * *
27472440 ATAATACCAGCACTAGGCTTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
27472478 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
* * *
27472516 ATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGAT
27472556 A
1 A
27472557 CACATCAAAT
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.01
38 63 0.62
39 8 0.08
40 29 0.29
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Done.