Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 63 of 182
Found at i:19266638 original size:129 final size:129
Alignment explanation
Indices: 19266238--19266594 Score: 633
Period size: 129 Copynumber: 2.8 Consensus size: 129
19266228 GATCTGCTCT
*
19266238 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACAGCAACTTCAGGGAGATAAGATTGG
1 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTGG
*
19266303 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGTA
66 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCA
** *
19266367 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTAAAAATTCAGGGAGATAAGATTGG
1 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTGG
* *
19266432 ATGGGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCA
66 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCA
*
19266496 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGGTAAGATTGG
1 ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTGG
*
19266561 ATGCGATCTGTTCTACTGCAACTTCAGAGAGATA
66 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATA
19266595 GGACTAGTAA
Statistics
Matches: 214, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 214 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (129 bp):
ACTTCAGGAAGATAGGACTAGTAACTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTGG
ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCACTCCACTGCA
Found at i:19266901 original size:45 final size:45
Alignment explanation
Indices: 19266852--19267116 Score: 150
Period size: 45 Copynumber: 5.9 Consensus size: 45
19266842 AACTGTGGTG
* * *
19266852 TCTTCGATCTGCTTCACTGTTAGTACAAGAAGGCAAGATTTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTA
* * * * * * * *
19266897 TCTTC-AGTTTGC-TCTGCTATTAGTACAAAAAGGCAAG-GCAGGTG
1 TCTTCGA-TCTGCTTC-GCTGTCAGTACAAGAAGGCAAGATCTGCTA
* * *
19266941 TCTTCGATCTGCTTCGCT-ACCGATACATA-AAGGCATGATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAG-TACA-AGAAGGCAAGATCTGCTA
* * * * * * * *
19266986 TCTTCAATCTGCTTCACTGTGAGTATAGGAAGGCAAG-GCTGGTG
1 TCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTA
* * * *
19267030 TCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAACATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTA
* * * *
19267075 TCTTC-AGTCTAC-TCTGCTGCCAGTACAGGAAGACAAGATCTG
1 TCTTCGA-TCTGCTTC-GCTGTCAGTACAAGAAGGCAAGATCTG
19267117 TAACTTTATT
Statistics
Matches: 167, Mismatches: 41, Indels: 24
0.72 0.18 0.10
Matches are distributed among these distances:
43 1 0.01
44 65 0.39
45 100 0.60
46 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGCTA
Found at i:19267060 original size:44 final size:44
Alignment explanation
Indices: 19266926--19267061 Score: 130
Period size: 44 Copynumber: 3.1 Consensus size: 44
19266916 TTAGTACAAA
* * **
19266926 AAGGCAAGGCAGGTGTCTTCGATCTGCTTCGCTACC-GATACATA
1 AAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAG-TACAGG
* * * * * * ** *
19266970 AAGGCATGATCTGCTATCTTCAATCTGCTTCACTGTGAGTATAGG
1 AAGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGG
19267015 AAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGG
1 AAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGG
19267059 AAG
1 AAG
19267062 ACAACATCTG
Statistics
Matches: 68, Mismatches: 22, Indels: 4
0.72 0.23 0.04
Matches are distributed among these distances:
44 38 0.56
45 29 0.43
46 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (44 bp):
AAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGG
Found at i:19267105 original size:89 final size:89
Alignment explanation
Indices: 19266847--19267111 Score: 284
Period size: 89 Copynumber: 3.0 Consensus size: 89
19266837 TTGCAAACTG
* ** * *
19266847 TGGTGTCTTCGATCTGCTTCACTGTTAGTACAAGAAGGCAAGATTTGCTATCTTCAGTTTGCTCT
1 TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCT
* * **
19266912 GCTATTAGTACAAAAAGGCAAGGC
66 GCTGTCAGTACAGGAAGGCAAGGC
* * * *
19266936 AGGTGTCTTCGATCTGCTTCGCTACC-GATACATA-AAGGCATGATCTGCTATCTTCAATCTGCT
1 TGGTGTCTTCGATCTGCTTCGCTGCCAG-TACA-AGAAGGCAAGATCTGCTATCTTCAGTCTGCT
* * *
19266999 -TCACTGTGAGTATAGGAAGGCAAGGC
64 CT-GCTGTCAGTACAGGAAGGCAAGGC
* * * *
19267025 TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAACATCTGCTATCTTCAGTCTACTCT
1 TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCT
* *
19267090 GCTGCCAGTACAGGAAGACAAG
66 GCTGTCAGTACAGGAAGGCAAG
19267112 ATCTGTAACT
Statistics
Matches: 142, Mismatches: 28, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
88 2 0.01
89 137 0.96
90 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (89 bp):
TGGTGTCTTCGATCTGCTTCGCTGCCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCT
GCTGTCAGTACAGGAAGGCAAGGC
Found at i:19268339 original size:6 final size:6
Alignment explanation
Indices: 19268328--19268389 Score: 56
Period size: 6 Copynumber: 10.0 Consensus size: 6
19268318 TTGGCCTTTC
* *
19268328 CTTTTT CTTTTT CTTTTCAT CTTATT CTTTGT -TTTTT CTTCTTT -TTCTTT
1 CTTTTT CTTTTT CTTTT--T CTTTTT CTTTTT CTTTTT CTT-TTT CTT-TTT
19268378 CTTTTT CTTTTT
1 CTTTTT CTTTTT
19268390 TCCCTTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
5 4 0.09
6 33 0.70
7 5 0.11
8 5 0.11
ACGTcount: A:0.03, C:0.18, G:0.02, T:0.77
Consensus pattern (6 bp):
CTTTTT
Found at i:19268357 original size:20 final size:20
Alignment explanation
Indices: 19268332--19268383 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
19268322 CCTTTCCTTT
19268332 TTCTTT-TTCTTTTCATCTTA
1 TTCTTTGTT-TTTTCATCTTA
* *
19268352 TTCTTTGTTTTTTCTTCTTT
1 TTCTTTGTTTTTTCATCTTA
*
19268372 TTCTTTCTTTTT
1 TTCTTTGTTTTT
19268384 CTTTTTTCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (20 bp):
TTCTTTGTTTTTTCATCTTA
Found at i:19268396 original size:19 final size:18
Alignment explanation
Indices: 19268330--19268400 Score: 54
Period size: 19 Copynumber: 3.7 Consensus size: 18
19268320 GGCCTTTCCT
* *
19268330 TTTTCTTTTTCTTTTCATC
1 TTTTCCTTTT-TTTTCTTC
*
19268349 TTATTCTTTGTTTTTTCTTC
1 TT-TTCCTT-TTTTTTCTTC
*
19268369 TTTTTCTTTCTTTTTCTT-
1 TTTTCCTTT-TTTTTCTTC
19268387 TTTTCCCTTTTTTT
1 TTTT-CCTTTTTTT
19268401 AAAATTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
18 9 0.20
19 18 0.41
20 15 0.34
21 2 0.05
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.77
Consensus pattern (18 bp):
TTTTCCTTTTTTTTCTTC
Found at i:19287119 original size:35 final size:35
Alignment explanation
Indices: 19287080--19287148 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
19287070 GTAGGGGTTG
*
19287080 ATATGAAGGATTTTATCGGTTTAGAGCTGGGTTTA
1 ATATGAAGGATTTTATCAGTTTAGAGCTGGGTTTA
* *
19287115 ATATGGAGGATTTTATCAGTTTAGAGTTGGGTTT
1 ATATGAAGGATTTTATCAGTTTAGAGCTGGGTTT
19287149 CCGCTATCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.25, C:0.04, G:0.29, T:0.42
Consensus pattern (35 bp):
ATATGAAGGATTTTATCAGTTTAGAGCTGGGTTTA
Found at i:19288968 original size:18 final size:19
Alignment explanation
Indices: 19288934--19288970 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
19288924 AGGGGTGTGC
19288934 AAAATTCGGTTAAAACCGAA
1 AAAATTCGGTT-AAACCGAA
19288954 AAAATTCGGTT-AACCGA
1 AAAATTCGGTTAAACCGA
19288971 CCGAATTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (19 bp):
AAAATTCGGTTAAACCGAA
Found at i:19290593 original size:17 final size:16
Alignment explanation
Indices: 19290571--19290624 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
19290561 TAGTGATTTA
19290571 AATCGGTTAAGTCAGTT
1 AATCGGTTAA-TCAGTT
19290588 AATCGGTTAAAT-AGGTT
1 AATCGGTT-AATCA-GTT
*
19290605 AAATCGGTTAATCGGTT
1 -AATCGGTTAATCAGTT
19290622 AAT
1 AAT
19290625 TTTTAACCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
16 4 0.12
17 18 0.56
18 10 0.31
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.35
Consensus pattern (16 bp):
AATCGGTTAATCAGTT
Found at i:19290597 original size:26 final size:26
Alignment explanation
Indices: 19290568--19290623 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
19290558 ATATAGTGAT
* *
19290568 TTAAATCGGTTAAGTCAGTTAATCGG
1 TTAAATAGGTTAAATCAGTTAATCGG
*
19290594 TTAAATAGGTTAAATCGGTTAATCGG
1 TTAAATAGGTTAAATCAGTTAATCGG
19290620 TTAA
1 TTAA
19290624 TTTTTAACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (26 bp):
TTAAATAGGTTAAATCAGTTAATCGG
Found at i:19291768 original size:19 final size:19
Alignment explanation
Indices: 19291740--19291803 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
19291730 AATTTTCGAG
*
19291740 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19291759 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
19291778 GATATATGTAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
19291799 GATAT
1 GATAT
19291804 ATACAATCTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 23 0.56
21 18 0.44
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19291822 original size:19 final size:21
Alignment explanation
Indices: 19291741--19291816 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
19291731 ATTTTCGAGG
19291741 ATATACAATCTTAGATATG--
1 ATATACAATCTTAGATATGAT
*
19291760 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
**
19291781 ATATGTAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
19291802 ATATACAATCTTAGA
1 ATATACAATCTTAGA
19291817 AGATATGATT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.35
21 33 0.65
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:19294399 original size:25 final size:25
Alignment explanation
Indices: 19294351--19294399 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
19294341 CATAATTAAA
* * *
19294351 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
19294376 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
19294400 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:19294843 original size:43 final size:43
Alignment explanation
Indices: 19294795--19294880 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
19294785 TATCCAATTG
*
19294795 ATATTGAAATGGA-AAAGATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAAT-GACAAAGATGAGAAATGAATATGAGATCAGAAA
* *
19294838 ATATTGAAATGACAAATATGAGAAATGATTATGAGATCAGAAA
1 ATATTGAAATGACAAAGATGAGAAATGAATATGAGATCAGAAA
19294881 TGATGAATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
42 2 0.05
43 37 0.95
ACGTcount: A:0.52, C:0.02, G:0.22, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGACAAAGATGAGAAATGAATATGAGATCAGAAA
Found at i:19297080 original size:24 final size:23
Alignment explanation
Indices: 19297052--19297096 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
19297042 TAAGATTTTG
*
19297052 TTATTTTCTTTTCAATATGAATAA
1 TTATTTTATTTT-AATATGAATAA
*
19297076 TTATTTTATTTTAATGTGAAT
1 TTATTTTATTTTAATATGAAT
19297097 TTTATCTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.58
Consensus pattern (23 bp):
TTATTTTATTTTAATATGAATAA
Found at i:19301474 original size:21 final size:21
Alignment explanation
Indices: 19301450--19301490 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
19301440 ATTGTTTATT
19301450 TATTTATTTTATTATT-TTAAA
1 TATTTATTTT-TTATTCTTAAA
19301471 TATTTATTTTTTATTCTTAA
1 TATTTATTTTTTATTCTTAA
19301491 GTTTCTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTATTTTTTATTCTTAAA
Found at i:19314608 original size:20 final size:20
Alignment explanation
Indices: 19314579--19314620 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
19314569 ACACACCTGG
19314579 TTTAGCAGCCAACTCACAAA
1 TTTAGCAGCCAACTCACAAA
*
19314599 TTTAGTAGCCAACTCACAAA
1 TTTAGCAGCCAACTCACAAA
19314619 TT
1 TT
19314621 CCCCAACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26
Consensus pattern (20 bp):
TTTAGCAGCCAACTCACAAA
Found at i:19315110 original size:36 final size:35
Alignment explanation
Indices: 19315060--19315131 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 35
19315050 TCTAGGATTA
*
19315060 CATATCTCTAAAGATCACATTCTATATTTGTCAAG
1 CATATCTCTAAAGATCACATTCTATATTTGCCAAG
* * *
19315095 CATATCTTTAGAAGATCACTTTCTCTATTTGCCAAG
1 CATATCTCTA-AAGATCACATTCTATATTTGCCAAG
19315131 C
1 C
19315132 TCCGGAGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 9 0.28
36 23 0.72
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.38
Consensus pattern (35 bp):
CATATCTCTAAAGATCACATTCTATATTTGCCAAG
Found at i:19320139 original size:22 final size:24
Alignment explanation
Indices: 19320109--19320153 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
19320099 CTATCTAAAT
19320109 ATCGAATC-TCT-AAGATTACATA
1 ATCGAATCTTCTAAAGATTACATA
*
19320131 ATCGTATCTTCTAAAGATTACAT
1 ATCGAATCTTCTAAAGATTACAT
19320154 TTAATATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 3 0.15
24 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (24 bp):
ATCGAATCTTCTAAAGATTACATA
Found at i:19320222 original size:36 final size:35
Alignment explanation
Indices: 19320170--19320241 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 35
19320160 TCTAGGATCA
19320170 CATATCTCTAAAGATCACCTTCCATATTTGCCAAG
1 CATATCTCTAAAGATCACCTTCCATATTTGCCAAG
* * * *
19320205 CATATCTTTAGAAGATCACTTTCCTTATTTTCCAAG
1 CATATCTCTA-AAGATCACCTTCCATATTTGCCAAG
19320241 C
1 C
19320242 TCTGTAGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 9 0.28
36 23 0.72
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.36
Consensus pattern (35 bp):
CATATCTCTAAAGATCACCTTCCATATTTGCCAAG
Found at i:19332028 original size:35 final size:35
Alignment explanation
Indices: 19331982--19332186 Score: 166
Period size: 35 Copynumber: 5.7 Consensus size: 35
19331972 CATGAATTTT
*
19331982 TTTTTTTGAAAACAC-AAAAATTTCTGAAACAATAA
1 TTTTTTGGAAAACACGAAAAATTT-TGAAACAATAA
* * *
19332017 TTTTTTGGAAAACACGAAAAATTTTAAAACACGACAGTT
1 TTTTTTGGAAAACACGAAAAATTTTGAAACA--ATA--A
** * *
19332056 TTTTTTAAAAAACACGAGAATTTTTGAAACAATAA
1 TTTTTTGGAAAACACGAAAAATTTTGAAACAATAA
* * *
19332091 TTTTTTGGAAAACACGAAAAATTTTAAAACACGAGAG
1 TTTTTTGGAAAACACGAAAAATTTTGAAACA--ATAA
** * *
19332128 TTTTTT-GAAAATGCG-AAAATTTTTAAACACGAGAA
1 TTTTTTGGAAAACACGAAAAATTTTGAAACA--ATAA
19332163 TTTTTT-GAAAACACGAAAAATTTT
1 TTTTTTGGAAAACACGAAAAATTTT
19332187 TCATTCACTA
Statistics
Matches: 138, Mismatches: 24, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
35 77 0.56
36 23 0.17
37 12 0.09
39 26 0.19
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.33
Consensus pattern (35 bp):
TTTTTTGGAAAACACGAAAAATTTTGAAACAATAA
Found at i:19332046 original size:74 final size:74
Alignment explanation
Indices: 19331980--19332133 Score: 254
Period size: 74 Copynumber: 2.1 Consensus size: 74
19331970 AACATGAATT
**
19331980 TTTTTTTTTGAAAACACAAAAATTTCTGAAACAATAATTTTTTGGAAAACACGAAAAATTTTAAA
1 TTTTTTTTAAAAAACACAAAAATTTCTGAAACAATAATTTTTTGGAAAACACGAAAAATTTTAAA
19332045 ACACGACAG
66 ACACGACAG
* * *
19332054 TTTTTTTTAAAAAACACGAGAATTTTTGAAACAATAATTTTTTGGAAAACACGAAAAATTTTAAA
1 TTTTTTTTAAAAAACACAAAAATTTCTGAAACAATAATTTTTTGGAAAACACGAAAAATTTTAAA
*
19332119 ACACGAGAG
66 ACACGACAG
19332128 TTTTTT
1 TTTTTT
19332134 GAAAATGCGA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.35
Consensus pattern (74 bp):
TTTTTTTTAAAAAACACAAAAATTTCTGAAACAATAATTTTTTGGAAAACACGAAAAATTTTAAA
ACACGACAG
Found at i:19332246 original size:16 final size:16
Alignment explanation
Indices: 19332100--19332252 Score: 92
Period size: 16 Copynumber: 8.9 Consensus size: 16
19332090 ATTTTTTGGA
*
19332100 AAACACGAAAAATTTTA
1 AAACACG-AAAATTTTG
**
19332117 AAACACGAGAGTTTTTTG
1 AAACACGA-A-AATTTTG
*
19332135 AAA-ATGCGAAAATTTTT
1 AAACA--CGAAAATTTTG
*
19332152 AAACACGAGAATTTTTTG
1 AAACACGA-AA-ATTTTG
*
19332170 AAAACACGAAAAATTTTTC
1 -AAACACG-AAAA-TTTTG
** * *
19332189 ATTCACTAGAATTTTTG
1 AAACACGA-AAATTTTG
*
19332206 AAACACGAAAATTTTT
1 AAACACGAAAATTTTG
19332222 AAACACGAAAATTTTG
1 AAACACGAAAATTTTG
*
19332238 AAACACGAATATTTT
1 AAACACGAAAATTTT
19332253 TTCGAAACAC
Statistics
Matches: 103, Mismatches: 22, Indels: 23
0.70 0.15 0.16
Matches are distributed among these distances:
16 39 0.38
17 28 0.27
18 19 0.18
19 16 0.16
20 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (16 bp):
AAACACGAAAATTTTG
Found at i:19332272 original size:19 final size:18
Alignment explanation
Indices: 19332200--19332273 Score: 68
Period size: 16 Copynumber: 4.3 Consensus size: 18
19332190 TTCACTAGAA
*
19332200 TTTTTGAAACACGAA-AA
1 TTTTTGAAACACGAATAC
19332217 TTTTT-AAACACGAA-A-
1 TTTTTGAAACACGAATAC
* *
19332232 ATTTTGAAACACGAATAT
1 TTTTTGAAACACGAATAC
19332250 TTTTTCGAAACACGAGAT-C
1 TTTTT-GAAACACGA-ATAC
19332269 TTTTT
1 TTTTT
19332274 TATTTTTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
15 4 0.08
16 19 0.39
17 6 0.12
18 4 0.08
19 14 0.29
20 2 0.04
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (18 bp):
TTTTTGAAACACGAATAC
Found at i:19332440 original size:16 final size:16
Alignment explanation
Indices: 19332417--19332453 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
19332407 AAATTTAAGA
19332417 AAATATAAATACAAAAAT
1 AAATA-AAATA-AAAAAT
19332435 AAATAAAATAAAAAAT
1 AAATAAAATAAAAAAT
19332451 AAA
1 AAA
19332454 AAACGGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 5 0.26
18 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AAATAAAATAAAAAAT
Found at i:19332970 original size:24 final size:25
Alignment explanation
Indices: 19332943--19332992 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
19332933 CAATGGCCTG
19332943 CTGTTG-GGCCTGCT-TTGTTTTTTT
1 CTGTTGAGGCCTGCTGTT-TTTTTTT
19332967 CTGTTGCAGGCCTGCTGTTTTTTTTT
1 CTGTTG-AGGCCTGCTGTTTTTTTTT
19332993 GTTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 6 0.26
26 15 0.65
27 2 0.09
ACGTcount: A:0.02, C:0.18, G:0.24, T:0.56
Consensus pattern (25 bp):
CTGTTGAGGCCTGCTGTTTTTTTTT
Found at i:19333053 original size:5 final size:5
Alignment explanation
Indices: 19333043--19333099 Score: 55
Period size: 5 Copynumber: 11.4 Consensus size: 5
19333033 TGCTGGAGCG
* * *
19333043 CGGGT CGGGT CGGGT CAGGT C-GGT -GAGT CGGGT CGAAGCT CGGGT CGGGT
1 CGGGT CGGGT CGGGT CGGGT CGGGT CGGGT CGGGT CG--GGT CGGGT CGGGT
19333093 CGGGT CG
1 CGGGT CG
19333100 ACCGACTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
4 5 0.12
5 34 0.79
7 4 0.09
ACGTcount: A:0.07, C:0.21, G:0.53, T:0.19
Consensus pattern (5 bp):
CGGGT
Found at i:19333129 original size:15 final size:15
Alignment explanation
Indices: 19333106--19333145 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
19333096 GTCGACCGAC
*
19333106 TTTTCTATTTTCTTT
1 TTTTTTATTTTCTTT
19333121 TTTTTTA-TTTCTTT
1 TTTTTTATTTTCTTT
19333135 TCTTTTTATTT
1 T-TTTTTATTT
19333146 CCCTTTCTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 12 0.55
16 2 0.09
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTATTTTCTTT
Found at i:19333156 original size:24 final size:26
Alignment explanation
Indices: 19333128--19333187 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 26
19333118 TTTTTTTTTA
19333128 TTTCTTTTCTTTTTATTTC-CCTTTC
1 TTTCTTTTCTTTTTATTTCTCCTTTC
* *
19333153 -TTC-TTTCTTTTTTTTTCTTCTTTC
1 TTTCTTTTCTTTTTATTTCTCCTTTC
*
19333177 TTTCTTCTCTT
1 TTTCTTTTCTT
19333188 CTTCTTCCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 13 0.45
24 8 0.28
25 3 0.10
26 5 0.17
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (26 bp):
TTTCTTTTCTTTTTATTTCTCCTTTC
Found at i:19333180 original size:11 final size:11
Alignment explanation
Indices: 19333153--19333194 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
19333143 TTTCCCTTTC
19333153 TTCTTTCTT-T
1 TTCTTTCTTCT
*
19333163 TTTTTTCTTCT
1 TTCTTTCTTCT
19333174 TTCTTTCTTCT
1 TTCTTTCTTCT
19333185 CTTC-TTCTTC
1 -TTCTTTCTTC
19333195 CTTCCCTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 8 0.29
11 17 0.61
12 3 0.11
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TTCTTTCTTCT
Found at i:19334370 original size:153 final size:149
Alignment explanation
Indices: 19334144--19334830 Score: 659
Period size: 149 Copynumber: 4.5 Consensus size: 149
19334134 TAAGTTGAGC
* * * * *
19334144 TTTGAAAAATAGAAATTGGAAAATACCTCAGCATATGA-ACCAAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAATAGAAATT-AAAAATACCTC-G-GTGTGAGCCCGAGGCTCAACTCACCTCTCGCAA
* *
19334208 TATAAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGTGTATAGCCCAAGACTCAACTCA
63 TATGAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGCGT-TAGCCCAAGACTCAACTCA
* *
19334273 CTTCTCGCATTATGAGTTGATTTT
127 CCTCTCGCAATATGAGTTGA-TTT
* * *
19334297 TTCTTAAAAAAAGAAATTAAAAATACCTCGGTGTGCAGCCCGAGGCTCAACTCACCTCTCACAAT
1 TT-TGAAAAATAGAAATTAAAAATACCTCGGTGTG-AGCCCGAGGCTCAACTCACCTCTCGCAAT
* * * * *
19334362 ATGAGTTGATTTTTTGAAAAACATAAATTGAAGAAAAAAACCTCAGTGTGT-GACCAAAGAGTCA
64 ATGAGTTGA-TTTTTGAAAAACAGAAATT----AAAAATACCTCAGCGT-TAG-CCCAAGACTCA
19334426 ACTCACCTCTCGCAATATGAGTTGATTT
122 ACTCACCTCTCGCAATATGAGTTGATTT
* * * *
19334454 TTTGGAAAATAGAAATTAAAATATACCTCAGCATGTGA-CCTGAGGCTCAACTCACTTCTCGCAA
1 TTTGAAAAATAGAAATTAAAA-ATACCTC-G-GTGTGAGCCCGAGGCTCAACTCACCTCTCGCAA
* * * * * *
19334518 TATGAGTTGATTTTTTTTGAAAAACACAAATTGAAAATACCTCGGCGTGA-CCCGAGGCTCAACT
63 TATGAGTTGA---TTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTTAGCCCAAGACTCAACT
19334582 CACCTCTCGCAATATGAGTTGATATT
125 CACCTCTCGCAATATGAGTTGAT-TT
** * * * * * * *
19334608 TTTGAAAAGCAGAAATTGAAAATACATCAGCGTG-GCCCGAGGCTCAACTCACTTCTCGTATTAT
1 TTTGAAAAATAGAAATTAAAAATACCTCGGTGTGAGCCCGAGGCTCAACTCACCTCTCGCAATAT
* ** * *
19334672 GAGTTGATTTTTGAAAAAGCAGAAATTGAAAATACCTCAGCG-TAGCCTGAGGCTCAACTCACTT
66 GAGTTGATTTTTGAAAAA-CAGAAATTAAAAATACCTCAGCGTTAGCCCAAGACTCAACTCACCT
* *
19334736 CTAGCATTATGAGTTGA-TT
130 CTCGCAATATGAGTTGATTT
* * ** * * * *
19334755 TTTGAAAAATAGAAATTGAGAAATACCTTGGAATGTGCCCAAGGCTCAACTCACCTCTTGCATTA
1 TTTGAAAAATAGAAATT-AAAAATACCTCGGTGTGAGCCCGAGGCTCAACTCACCTCTCGCAATA
19334820 TGAGTTGATTT
65 TGAGTTGATTT
19334831 AAAAAAAAAA
Statistics
Matches: 449, Mismatches: 64, Indels: 46
0.80 0.11 0.08
Matches are distributed among these distances:
147 17 0.04
148 22 0.05
149 89 0.20
151 39 0.09
152 2 0.00
153 83 0.18
154 50 0.11
155 12 0.03
156 16 0.04
157 46 0.10
158 50 0.11
159 23 0.05
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (149 bp):
TTTGAAAAATAGAAATTAAAAATACCTCGGTGTGAGCCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTTAGCCCAAGACTCAACTCACCTC
TCGCAATATGAGTTGATTT
Found at i:19334733 original size:149 final size:150
Alignment explanation
Indices: 19334144--19334853 Score: 682
Period size: 153 Copynumber: 4.6 Consensus size: 150
19334134 TAAGTTGAGC
* * * *
19334144 TTTGAAAAATAGAAATTGGAAAATACCTCAGCAT-ATGAACCAAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAATAGAAATT-AAAAATACCTCAGCGTGA-G-CCCGAGGCTCAACTCACCTCTCGCAA
* * * * *
19334208 TATAAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGTGTATAGCCCAAGACTCAACTCA
63 TATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTAGA-CCCAAGGCTCAACTCA
* * *
19334273 CTTCTCGCATTATGAGTTGATTTT
127 CCTCTCGCAATATGAGTTGATATT
* * * * *
19334297 TTCTTAAAAAAAGAAATTAAAAATACCTCGGTGTGCAGCCCGAGGCTCAACTCACCTCTCACAAT
1 TT-TGAAAAATAGAAATTAAAAATACCTCAGCGTG-AGCCCGAGGCTCAACTCACCTCTCGCAAT
* * * * *
19334362 ATGAGTTGATTTTTTGAAAAACATAAATTGAAGAAAAAAACCTCAGTGTGTGACCAAAGAG-TCA
64 ATGAGTTGA-TTTTTGAAAAACAGAAATT---G-AAAATACCTCAGCGT-AGACCCAAG-GCTCA
19334426 ACTCACCTCTCGCAATATGAGTTGAT-TT
122 ACTCACCTCTCGCAATATGAGTTGATATT
* * *
19334454 TTTGGAAAATAGAAATTAAAATATACCTCAGCATGTGA-CCTGAGGCTCAACTCACTTCTCGCAA
1 TTTGAAAAATAGAAATTAAAA-ATACCTCAGC--GTGAGCCCGAGGCTCAACTCACCTCTCGCAA
* * *
19334518 TATGAGTTGATTTTTTTTGAAAAACACAAATTGAAAATACCTCGGCGT-GACCCGAGGCTCAACT
63 TATGAGTTGA---TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTAGACCCAAGGCTCAACT
19334582 CACCTCTCGCAATATGAGTTGATATT
125 CACCTCTCGCAATATGAGTTGATATT
** * * * * *
19334608 TTTGAAAAGCAGAAATTGAAAATACATCAGCGTG-GCCCGAGGCTCAACTCACTTCTCGTATTAT
1 TTTGAAAAATAGAAATTAAAAATACCTCAGCGTGAGCCCGAGGCTCAACTCACCTCTCGCAATAT
** *
19334672 GAGTTGATTTTTGAAAAAGCAGAAATTGAAAATACCTCAGCGTAG-CCTGAGGCTCAACTCACTT
66 GAGTTGATTTTTGAAAAA-CAGAAATTGAAAATACCTCAGCGTAGACCCAAGGCTCAACTCACCT
* *
19334736 CTAGCATTATGAGTTG--ATT
130 CTCGCAATATGAGTTGATATT
* ** ** * * * *
19334755 TTTGAAAAATAGAAATTGAGAAATACCTTGGAATGTGCCCAAGGCTCAACTCACCTCTTGCATTA
1 TTTGAAAAATAGAAATT-AAAAATACCTCAGCGTGAGCCCGAGGCTCAACTCACCTCTCGCAATA
***
19334820 TGAGTTGATTTAAAAAAAAAACAGAAATTGAAAA
65 TGAGTTGATTT--TTGAAAAACAGAAATTGAAAA
19334854 ATATTTCTTG
Statistics
Matches: 470, Mismatches: 63, Indels: 51
0.80 0.11 0.09
Matches are distributed among these distances:
147 18 0.04
148 21 0.04
149 89 0.19
150 14 0.03
151 41 0.09
152 1 0.00
153 90 0.19
154 51 0.11
155 13 0.03
156 17 0.04
157 45 0.10
158 47 0.10
159 23 0.05
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (150 bp):
TTTGAAAAATAGAAATTAAAAATACCTCAGCGTGAGCCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTAGACCCAAGGCTCAACTCACCTC
TCGCAATATGAGTTGATATT
Found at i:19334838 original size:75 final size:76
Alignment explanation
Indices: 19334144--19334856 Score: 664
Period size: 75 Copynumber: 9.3 Consensus size: 76
19334134 TAAGTTGAGC
* * * * *
19334144 TTTGAAAAATAGAAATTGGAAAATACCTCAGCATATGAACCAAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAAT
*
19334209 ATAAGTTGA-TT
65 ATGAGTTGATTT
** * * * * *
19334220 TTTGAAAAACAGAAATT-AAAAATACCTCAGTGTATAGCCCAAGACTCAACTCACTTCTCGCATT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCATGT-GCCCGAGGCTCAACTCACCTCTCGCAAT
19334284 ATGAGTTGATTTT
65 ATGAGTTGA-TTT
* * * ** * *
19334297 TTCTTAAAAAAAGAAATT-AAAAATACCTCGGTGTGCAGCCCGAGGCTCAACTCACCTCTCACAA
1 TT-TGAAAAACAGAAATTGAAAAATACCTCAGCATG-TGCCCGAGGCTCAACTCACCTCTCGCAA
19334361 TATGAGTTGATTT
64 TATGAGTTGATTT
* * ** **
19334374 TTTGAAAAACATAAATTGAAGAAAAAAACCTCAGTGTGTGACCAAAGAG-TCAACTCACCTCTCG
1 TTTGAAAAACAGAAATT---GAAAAATACCTCAGCATGTG-CCCGAG-GCTCAACTCACCTCTCG
19334438 CAATATGAGTTGATTT
61 CAATATGAGTTGATTT
* * * *
19334454 TTTGGAAAATAGAAATT-AAAATATACCTCAGCATGTGACCTGAGGCTCAACTCACTTCTCGCAA
1 TTTGAAAAACAGAAATTGAAAA-ATACCTCAGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAA
19334518 TATGAGTTGATTTTT
64 TATGAGTTGA--TTT
* *
19334533 TTTGAAAAACACAAATTG-AAAATACCTCGGC--GTGACCCGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAAT
19334595 ATGAGTTGATATT
65 ATGAGTTGAT-TT
* * * * * *
19334608 TTTGAAAAGCAGAAATTG-AAAATACATCAGCGTG-GCCCGAGGCTCAACTCACTTCTCGTATTA
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATA
19334671 TGAGTTGA-TT
66 TGAGTTGATTT
* * * *
19334681 TTTGAAAAAGCAGAAATTG-AAAATACCTCAGC--GTAGCCTGAGGCTCAACTCACTTCTAGCAT
1 TTTGAAAAA-CAGAAATTGAAAAATACCTCAGCATGT-GCCCGAGGCTCAACTCACCTCTCGCAA
19334743 TATGAGTTGA-TT
64 TATGAGTTGATTT
* * ** * * * *
19334755 TTTGAAAAATAGAAATTGAGAAATACCTTGGAATGTGCCCAAGGCTCAACTCACCTCTTGCATTA
1 TTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATA
19334820 TGAGTTGATTT
66 TGAGTTGATTT
****
19334831 AAAAAAAAAACAGAAATTGAAAAATA
1 -TTTGAAAAACAGAAATTGAAAAATA
19334857 TTTCTTGAAA
Statistics
Matches: 540, Mismatches: 70, Indels: 53
0.81 0.11 0.08
Matches are distributed among these distances:
72 1 0.00
73 18 0.03
74 76 0.14
75 141 0.26
76 77 0.14
77 73 0.14
78 69 0.13
79 21 0.04
80 63 0.12
81 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (76 bp):
TTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTT
Found at i:19335239 original size:37 final size:38
Alignment explanation
Indices: 19335184--19335256 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
19335174 CACTCTCTTG
19335184 CCCCCTGTTGAACTTTTTTCTTGCTTTGTGGCCCTTTC
1 CCCCCTGTTGAACTTTTTTCTTGCTTTGTGGCCCTTTC
19335222 CCCCCTGTTGAACTTTTTTCTTGCTTTGTGGCCCT
1 CCCCCTGTTGAACTTTTTTCTTGCTTTGTGGCCCT
19335257 CATACTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.05, C:0.32, G:0.16, T:0.47
Consensus pattern (38 bp):
CCCCCTGTTGAACTTTTTTCTTGCTTTGTGGCCCTTTC
Found at i:19335749 original size:21 final size:21
Alignment explanation
Indices: 19335725--19335781 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
19335715 CGGGTTTTCA
19335725 TCTTGATTTTTCT-TTTTCTTT
1 TCTTGATTTTT-TGTTTTCTTT
**
19335746 TCTTTCTTTTTTGTTTTCTTT
1 TCTTGATTTTTTGTTTTCTTT
*
19335767 T-TTG-TTTCTTGTTTT
1 TCTTGATTTTTTGTTTT
19335782 TTTAGGCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 10 0.32
20 3 0.10
21 18 0.58
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.79
Consensus pattern (21 bp):
TCTTGATTTTTTGTTTTCTTT
Found at i:19335762 original size:27 final size:27
Alignment explanation
Indices: 19335732--19335784 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
19335722 TCATCTTGAT
19335732 TTTTCTTTTTCT-TTTCTT-TCTTTTTTG
1 TTTTCTTTTT-TGTTTCTTGT-TTTTTTG
19335759 TTTTCTTTTTTGTTTCTTGTTTTTTT
1 TTTTCTTTTTTGTTTCTTGTTTTTTT
19335785 AGGCATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 1 0.04
27 22 0.92
28 1 0.04
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (27 bp):
TTTTCTTTTTTGTTTCTTGTTTTTTTG
Found at i:19335769 original size:12 final size:12
Alignment explanation
Indices: 19335748--19335773 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19335738 TTTTCTTTTC
19335748 TTTCTTTTTTGT
1 TTTCTTTTTTGT
19335760 TTTCTTTTTTGT
1 TTTCTTTTTTGT
19335772 TT
1 TT
19335774 CTTGTTTTTT
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:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTCTTTTTTGT
Found at i:19335781 original size:12 final size:11
Alignment explanation
Indices: 19335743--19335781 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
19335733 TTTCTTTTTC
*
19335743 TTTTCTTTCTT
1 TTTTGTTTCTT
19335754 TTTTGTTTTCTT
1 TTTTG-TTTCTT
19335766 TTTTGTTTCTT
1 TTTTGTTTCTT
19335777 GTTTT
1 -TTTT
19335782 TTTAGGCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.00, C:0.10, G:0.08, T:0.82
Consensus pattern (11 bp):
TTTTGTTTCTT
Found at i:19354816 original size:31 final size:31
Alignment explanation
Indices: 19354778--19354839 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
19354768 TAAATTGTAC
19354778 CAATCGCTAAGAAGACAGAAAAAGAAATATA
1 CAATCGCTAAGAAGACAGAAAAAGAAATATA
19354809 CAATCGCTAAGAAGACAGAAAAAGAAATATA
1 CAATCGCTAAGAAGACAGAAAAAGAAATATA
19354840 TCTTACAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.58, C:0.13, G:0.16, T:0.13
Consensus pattern (31 bp):
CAATCGCTAAGAAGACAGAAAAAGAAATATA
Found at i:19356123 original size:34 final size:34
Alignment explanation
Indices: 19356040--19356130 Score: 137
Period size: 34 Copynumber: 2.7 Consensus size: 34
19356030 TAGACTCTGG
* * * *
19356040 AGTAAACCATCAATCATTAACAACTTTCCTTCAG
1 AGTAAACCATCACTCATTCACAACTTTCCTCCAC
19356074 AGTAAACCATCACTCATTCACAACTTTCCTCCAC
1 AGTAAACCATCACTCATTCACAACTTTCCTCCAC
*
19356108 AGTAAACCATTACTCATTCACAA
1 AGTAAACCATCACTCATTCACAA
19356131 GTTCCTAAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.27
Consensus pattern (34 bp):
AGTAAACCATCACTCATTCACAACTTTCCTCCAC
Found at i:19359007 original size:48 final size:48
Alignment explanation
Indices: 19358936--19359032 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
19358926 TAAATTTAAT
19358936 AGAATGTATTTAATTACTATATGGATCAAGACACAAGTCATAAAGACA
1 AGAATGTATTTAATTACTATATGGATCAAGACACAAGTCATAAAGACA
19358984 AGAATGTATTTAATTACTATATGGATCAAGACACAAGTCATAAAGACA
1 AGAATGTATTTAATTACTATATGGATCAAGACACAAGTCATAAAGACA
19359032 A
1 A
19359033 TAACCAAGGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.27
Consensus pattern (48 bp):
AGAATGTATTTAATTACTATATGGATCAAGACACAAGTCATAAAGACA
Found at i:19373466 original size:132 final size:132
Alignment explanation
Indices: 19373301--19373597 Score: 400
Period size: 132 Copynumber: 2.2 Consensus size: 132
19373291 GTGGCAAAGC
* * * *
19373301 AGATCAAAGA-AACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCAGAGATACCAGATCAT
1 AGATCAAAGATAGCAGATCTTGTCTTCACATACTGGCATGAAATAGATCAAAGATACCAGATCAT
* * * *
19373365 GTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCCCCA-TACTGGTGGTGG
66 GTCTTCCCATACCGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCCCCAGTACTAG-CGTGA
19373429 AGT
130 AGT
** ** *
19373432 AGATCAAAGATAGCAGATCTTGTCTTCATGTACTGGCATGAAATAGATCAAAGATAGTAGATCTT
1 AGATCAAAGATAGCAGATCTTGTCTTCACATACTGGCATGAAATAGATCAAAGATACCAGATCAT
* **
19373497 GTCTTCCCATACCGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTAGCGTGA
66 GTCTTCCCATACCGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCCCCA-GTACTAGCGTGA
19373562 AGT
130 AGT
* *
19373565 AGATCAAAGATAGTAGATCTTGTCTTCCCATAC
1 AGATCAAAGATAGCAGATCTTGTCTTCACATAC
19373598 CGGTGGCGAA
Statistics
Matches: 143, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
131 10 0.07
132 93 0.65
133 35 0.24
134 5 0.03
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (132 bp):
AGATCAAAGATAGCAGATCTTGTCTTCACATACTGGCATGAAATAGATCAAAGATACCAGATCAT
GTCTTCCCATACCGGTGGCGAAGCAGATCGAAGAAAACAGATCTTGTCCCCAGTACTAGCGTGAA
GT
Found at i:19373538 original size:89 final size:88
Alignment explanation
Indices: 19373403--19373706 Score: 439
Period size: 89 Copynumber: 3.4 Consensus size: 88
19373393 CGAAGAAAAC
* * * * * *
19373403 AGATCTTGTC-CCCATACTGGTGGTGGAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTG
1 AGATCTTGTCTCCCATACCGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
* *
19373467 GCATGAAATAGATCAAAGATAGT
66 GCGTGAAGTAGATCAAAGATAGT
19373490 AGATCTTGTCTTCCCATACCGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
1 AGATCTTGTC-TCCCATACCGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
*
19373555 AGCGTGAAGTAGATCAAAGATAGT
65 GGCGTGAAGTAGATCAAAGATAGT
19373579 AGATCTTGTCTTCCCATACCGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
1 AGATCTTGTC-TCCCATACCGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
19373644 GGCGTGAAGTAGATCAAAGATAGT
65 GGCGTGAAGTAGATCAAAGATAGT
* * * * * *
19373668 AGGTCCTGTCTCCCTATATCAGTAGCGAAGTGGATCGAA
1 AGATCTTGTCTCCC-ATACCGGTGGCGAAGTAGATCGAA
19373707 TATACATATT
Statistics
Matches: 198, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
87 10 0.05
88 4 0.02
89 184 0.93
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (88 bp):
AGATCTTGTCTCCCATACCGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
GCGTGAAGTAGATCAAAGATAGT
Found at i:19373678 original size:44 final size:44
Alignment explanation
Indices: 19373223--19373666 Score: 311
Period size: 44 Copynumber: 10.0 Consensus size: 44
19373213 TGAAAAGAAA
** * *
19373223 AGCAGATCTTGTCTTCATGTACTAACGTGAAGTAGATCATAGCT
1 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAT
* * * *** * * *
19373267 ACCAGATCCTGCCTTCCCATATTGGTG-GCAAAGCAGATCAAAGA-
1 AGCAGATCTTGTCTTCATGTACTGGCGTG--AAGTAGATCAAAGAT
* ** *
19373311 AACAGATCTTGTCTTCACATACTGGCGTGAAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAT
* * *** * * * * *
19373355 ACCAGATCATGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGAT
* ** * *
19373400 AACAGATCTTGTCCCCA--TACTGGTGGTGGAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGAT
* *
19373443 AGCAGATCTTGTCTTCATGTACTGGCATGAAATAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAT
* *** * * * * *
19373487 AGTAGATCTTGTCTTCCCATACCGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGAT
* *
19373532 AACAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAT
* *** * * * * *
19373576 AGTAGATCTTGTCTTCCCATACCGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGAT
*
19373621 AACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAT
19373665 AG
1 AG
19373667 TAGGTCCTGT
Statistics
Matches: 300, Mismatches: 91, Indels: 18
0.73 0.22 0.04
Matches are distributed among these distances:
43 48 0.16
44 144 0.48
45 108 0.36
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAT
Found at i:19382453 original size:10 final size:10
Alignment explanation
Indices: 19382415--19382455 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
19382405 ATATATTTGG
19382415 ATTATAAAAT
1 ATTATAAAAT
19382425 ATT-TAAAA-
1 ATTATAAAAT
*
19382433 ACTATAAAAAT
1 ATTAT-AAAAT
19382444 ATTATAAAAT
1 ATTATAAAAT
19382454 AT
1 AT
19382456 AAATATATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
8 2 0.08
9 6 0.23
10 14 0.54
11 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTATAAAAT
Found at i:19382463 original size:18 final size:18
Alignment explanation
Indices: 19382421--19382463 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
19382411 TTGGATTATA
19382421 AAATAT-TTAAAAACTAT
1 AAATATATTAAAAACTAT
*
19382438 AAAAATATTATAAAA-TAT
1 AAATATATTA-AAAACTAT
19382456 AAATATAT
1 AAATATAT
19382464 GTACGTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 13 0.59
19 4 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATATATTAAAAACTAT
Found at i:19385305 original size:12 final size:12
Alignment explanation
Indices: 19385279--19385321 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
19385269 AAATTTAGAT
* *
19385279 TTATTATTATAG
1 TTATTATTGTTG
*
19385291 TTATTGTTGTTG
1 TTATTATTGTTG
*
19385303 TTATTATTGTTA
1 TTATTATTGTTG
19385315 TTATTAT
1 TTATTAT
19385322 ATTGTCATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (12 bp):
TTATTATTGTTG
Found at i:19385892 original size:12 final size:12
Alignment explanation
Indices: 19385877--19385902 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19385867 TAATCAACTA
19385877 GGTACCAATTTT
1 GGTACCAATTTT
19385889 GGTACCAATTTT
1 GGTACCAATTTT
19385901 GG
1 GG
19385903 GCGCATCAAG
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:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (12 bp):
GGTACCAATTTT
Found at i:19392816 original size:19 final size:19
Alignment explanation
Indices: 19392791--19392838 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
19392781 ATTCGTGAAA
*
19392791 ATAAAAATATATATA-TAT
1 ATAAAAATATATATACAAT
*
19392809 ATTAAAAAAAT-TATACAAT
1 A-TAAAAATATATATACAAT
19392828 ATAAAAATATA
1 ATAAAAATATA
19392839 CCTAAGTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAAAATATATATACAAT
Found at i:19393543 original size:9 final size:10
Alignment explanation
Indices: 19393516--19393555 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
19393506 ATAAAACTAA
19393516 TAATAATGA-
1 TAATAATGAT
19393525 TAATAAT-AT
1 TAATAATGAT
19393534 TAATAAT-AT
1 TAATAATGAT
19393543 TAA-AATGAT
1 TAATAATGAT
19393552 TAAT
1 TAAT
19393556 TTAAACAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 4 0.14
9 24 0.86
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (10 bp):
TAATAATGAT
Found at i:19394267 original size:12 final size:12
Alignment explanation
Indices: 19394250--19394284 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
19394240 TTCGTTTATA
19394250 AAAAAATAAAAT
1 AAAAAATAAAAT
19394262 AAAAAATAAAAT
1 AAAAAATAAAAT
* *
19394274 AGATAATAAAA
1 AAAAAATAAAA
19394285 AGAAGATCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:19398397 original size:27 final size:27
Alignment explanation
Indices: 19398356--19398414 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
19398346 AACTAATGTT
* *
19398356 GGAAGCCCGTCAGGACTATCTACTATG
1 GGAAGCCCGTCAGGACCATCTAATATG
* *
19398383 GGAAGCCCGTTAGGACCATCTAATGTG
1 GGAAGCCCGTCAGGACCATCTAATATG
19398410 GGAAG
1 GGAAG
19398415 TTTGTTAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (27 bp):
GGAAGCCCGTCAGGACCATCTAATATG
Found at i:19404369 original size:23 final size:22
Alignment explanation
Indices: 19404314--19404370 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
19404304 AATTTTGAAG
19404314 CACGAAA-TTTTTTTTTAAAAA
1 CACGAAATTTTTTTTTTAAAAA
*
19404335 -ATGAAAGTTTTTTTTTTTAAAAA
1 CACGAAA--TTTTTTTTTTAAAAA
19404358 CACGAGAATTTTT
1 CACGA-AATTTTT
19404371 AAACACGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
20 5 0.17
23 19 0.66
24 3 0.10
25 2 0.07
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (22 bp):
CACGAAATTTTTTTTTTAAAAA
Found at i:19404393 original size:17 final size:17
Alignment explanation
Indices: 19404348--19404437 Score: 110
Period size: 17 Copynumber: 5.3 Consensus size: 17
19404338 AAAGTTTTTT
*
19404348 TTTTTAAAAACACGAGAA
1 TTTTT-AAAACACGAAAA
*
19404366 TTTTT-AAACACGGAAA
1 TTTTTAAAACACGAAAA
**
19404382 TTTCAAAAACACGAAAA
1 TTTTTAAAACACGAAAA
19404399 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
19404416 TTTTTGAAACACGGAAA
1 TTTTTAAAACACGAAAA
19404433 TTTTT
1 TTTTT
19404438 TAGAAAACGA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
16 12 0.19
17 45 0.73
18 5 0.08
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:19407392 original size:193 final size:193
Alignment explanation
Indices: 19407045--19407493 Score: 754
Period size: 193 Copynumber: 2.3 Consensus size: 193
19407035 NNNACAACAG
* * ** * * *
19407045 AAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGA
1 AAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTGA
19407110 AAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAA
66 AAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAA
* *****
19407175 AATACCTCGGCATGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTTTAA
131 AATACCTCGGCATGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAA
* *
19407238 AATTTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGA
1 AAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTGA
19407303 AAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAA
66 AAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAA
*
19407368 AATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAA
131 AATACCTCGGCATGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAA
19407431 AAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 AAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
19407494 CCTTGGAAAG
Statistics
Matches: 238, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
193 238 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (193 bp):
AAATTAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTGA
AAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAA
AATACCTCGGCATGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAA
Found at i:19407461 original size:71 final size:71
Alignment explanation
Indices: 19407318--19407493 Score: 214
Period size: 71 Copynumber: 2.5 Consensus size: 71
19407308 AAAAATTAAA
* * * * * * **
19407318 AGGCTTAACTCACCTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATACCTCGGCGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAAAAACTAAAAATACCTCAACGT
19407381 GCCCCG
66 GCCCCG
*
19407387 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAAAAACTAAAAATACCTCAACGT
* **
19407452 GTCTTG
66 GCCCCG
19407458 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
19407494 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 26 0.28
70 3 0.03
71 63 0.68
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (71 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAAAAACTAAAAATACCTCAACGT
GCCCCG
Found at i:19416066 original size:36 final size:37
Alignment explanation
Indices: 19415813--19416164 Score: 206
Period size: 36 Copynumber: 9.8 Consensus size: 37
19415803 AATACGAGAA
* **
19415813 TTTTT-AAAACACGAAAATTTTTAAAACACGA--AAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGATGATT
*
19415847 TTTTTG-AAACACGGAAATTTTTTAGAAA-ACGAT--TT
1 TTTTTGAAAACAC-GAAAATTTTT-GAAACACGATGATT
* * **
19415882 TTTTT-AAAATCACCG-GAGTTTTTGAAAACACGA--AAA
1 TTTTTGAAAA-CA-CGAAAATTTTTG-AAACACGATGATT
* *
19415918 TCTTTG-AAACACCG-AAATTTTTGAAAACACGAAGA--
1 TTTTTGAAAACA-CGAAAATTTTTG-AAACACGATGATT
* *
19415953 TTTTTG-AAACACGAAAATTTTTTGAAAATACGAAGATT
1 TTTTTGAAAACACGAAAA-TTTTTG-AAACACGATGATT
** * * *
19415991 TTTTT-TTAACACGGAAATTTTTGAAACACGGTCATTT
1 TTTTTGAAAACACGAAAATTTTTGAAACACGATGA-TT
*
19416028 TTTTTGAAAACACGAAAATTTTTGAAAGAC-ATGATT
1 TTTTTGAAAACACGAAAATTTTTGAAACACGATGATT
* * * * **
19416064 TTTTTGAAAATACGGAAATTTATAAAACACGAAAATT
1 TTTTTGAAAACACGAAAATTTTTGAAACACGATGATT
* *
19416101 TTTTCTGAAAACAAGAAAATTTTTGAAACACTA-GA--
1 TTTT-TGAAAACACGAAAATTTTTGAAACACGATGATT
* *
19416136 ATTTTGAAAACACGAAGATTTTTGAAACA
1 TTTTTGAAAACACGAAAATTTTTGAAACA
19416165 TGAGAATTTT
Statistics
Matches: 254, Mismatches: 42, Indels: 44
0.75 0.12 0.13
Matches are distributed among these distances:
34 37 0.15
35 67 0.26
36 68 0.27
37 26 0.10
38 56 0.22
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (37 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGATGATT
Found at i:19416067 original size:38 final size:37
Alignment explanation
Indices: 19415813--19416162 Score: 150
Period size: 35 Copynumber: 9.7 Consensus size: 37
19415803 AATACGAGAA
* ***
19415813 TTTTT-AAAACACGAAAATTTTT-AAAAC-ACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAAACGATGATTT
*
19415847 TTTTTG-AAACACGGAAATTTTTTAGAAAAC---GATTT
1 TTTTTGAAAACAC-GAAAATTTTT-GAAAACGATGATTT
* * * ***
19415882 TTTTT-AAAATCACCG-GAGTTTTTGAAAAC-ACGAAAA
1 TTTTTGAAAA-CA-CGAAAATTTTTGAAAACGATGATTT
* * ***
19415918 TCTTTG-AAACACCG-AAATTTTTGAAAAC-ACGAAGA
1 TTTTTGAAAACA-CGAAAATTTTTGAAAACGATGATTT
*
19415953 TTTTTG-AAACACGAAAATTTTTTGAAAATACGAAGATTT
1 TTTTTGAAAACACGAAAA-TTTTTG-AAA-ACGATGATTT
* * * *
19415992 TTTTT--TAACACGGAAATTTTTGAAACACGGTCATTT
1 TTTTTGAAAACACGAAAATTTTTGAAA-ACGATGATTT
19416028 TTTTTGAAAACACGAAAATTTTTGAAAGAC-ATGA-TT
1 TTTTTGAAAACACGAAAATTTTTGAAA-ACGATGATTT
* * * * **
19416064 TTTTTGAAAATACGGAAATTTATAAAACACGAAAATTT
1 TTTTTGAAAACACGAAAATTTTTGAAA-ACGATGATTT
* * *
19416102 TTTCTGAAAACAAGAAAATTTTTGAAACACTA-GA---
1 TTTTTGAAAACACGAAAATTTTTGAAA-ACGATGATTT
* *
19416136 ATTTTGAAAACACGAAGATTTTTGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAA
19416163 CATGAGAATT
Statistics
Matches: 249, Mismatches: 48, Indels: 38
0.74 0.14 0.11
Matches are distributed among these distances:
34 42 0.17
35 61 0.24
36 60 0.24
37 20 0.08
38 58 0.23
39 8 0.03
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (37 bp):
TTTTTGAAAACACGAAAATTTTTGAAAACGATGATTT
Found at i:19416092 original size:74 final size:74
Alignment explanation
Indices: 19415813--19416128 Score: 205
Period size: 71 Copynumber: 4.4 Consensus size: 74
19415803 AATACGAGAA
* * * * *
19415813 TTTTT-AAAACACGAAAATTTTTAAAACACGAA-A-ATTTTTGAAACACGGAAATTTTTTAGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAAGACGAAGATTTTTTTAAAACACGGAAA-TTTATA-AAA
19415875 -ACG---ATTT
64 CACGAAAATTT
* * * * * * * *
19415882 TTTTT-AAAATCACCG-GAGTTTTTGAAAACACGAA-A-ATCTTTGAAACACCGAAATTTTTGAA
1 TTTTTGAAAA-CA-CGAAAATTTTTG-AAAGACGAAGATTTTTTTAAAACACGGAAATTTAT-AA
*
19415943 AACACGAAGA---
62 AACACGAAAATTT
* ** * *
19415953 TTTTTG-AAACACGAAAATTTTTTGAAAATACGAAGATTTTTTTTTAACACGGAAATTTTTGAAA
1 TTTTTGAAAACACGAAAA-TTTTTG-AAAGACGAAGATTTTTTTAAAACACGGAAATTTATAAAA
***
19416017 CACGGTCATTT
64 CACGAAAATTT
* *
19416028 TTTTTGAAAACACGAAAATTTTTGAAAGAC-ATGATTTTTTTGAAAATACGGAAATTTATAAAAC
1 TTTTTGAAAACACGAAAATTTTTGAAAGACGAAGATTTTTTT-AAAACACGGAAATTTATAAAAC
19416092 ACGAAAATTT
65 ACGAAAATTT
* *
19416102 TTTCTGAAAACAAGAAAATTTTTGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAA
19416129 CACTAGAATT
Statistics
Matches: 200, Mismatches: 29, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
69 11 0.05
70 19 0.09
71 55 0.28
72 9 0.05
73 28 0.14
74 55 0.28
75 12 0.06
76 11 0.05
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.34
Consensus pattern (74 bp):
TTTTTGAAAACACGAAAATTTTTGAAAGACGAAGATTTTTTTAAAACACGGAAATTTATAAAACA
CGAAAATTT
Found at i:19416142 original size:16 final size:16
Alignment explanation
Indices: 19416121--19416174 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
19416111 ACAAGAAAAT
19416121 TTTTGAAACACTAGAA
1 TTTTGAAACACTAGAA
* *
19416137 TTTTGAAAACACGAAGAT
1 TTTTG-AAACAC-TAGAA
19416155 TTTTGAAACA-TGAGAA
1 TTTTGAAACACT-AGAA
19416171 TTTT
1 TTTT
19416175 TAAATGCACG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 12 0.39
17 11 0.35
18 8 0.26
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (16 bp):
TTTTGAAACACTAGAA
Found at i:19416160 original size:18 final size:18
Alignment explanation
Indices: 19415665--19416175 Score: 270
Period size: 17 Copynumber: 29.3 Consensus size: 18
19415655 TGAAAGGTTT
* *
19415665 TTTTTTAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
19415683 TTTTT--AAACACGGAAA
1 TTTTTGAAAACACGAAAA
**
19415699 -TTTCAAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
19415716 TTTTT-AAAACACGACAT
1 TTTTTGAAAACACGAAAA
*
19415733 TTTTTG-AAACACGAGAA
1 TTTTTGAAAACACGAAAA
* * *
19415750 TTTTT-AAAACAAGACAT
1 TTTTTGAAAACACGAAAA
**
19415767 TTTTTG-AAACAC-AATT
1 TTTTTGAAAACACGAAAA
***
19415783 TTTTTCTTAA-A--AAAA
1 TTTTTGAAAACACGAAAA
* *
19415798 --TTT-AAAATACGAGAA
1 TTTTTGAAAACACGAAAA
19415813 TTTTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
19415830 TTTTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
19415847 TTTTTG-AAACACGGAAA
1 TTTTTGAAAACACGAAAA
* **
19415864 TTTTTTAGAAA-ACG-ATT
1 TTTTTGA-AAACACGAAAA
* * *
19415881 TTTTTTAAAATCACCG-GAG
1 TTTTTGAAAA-CA-CGAAAA
19415900 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
19415918 TCTTTG-AAACACCG-AAA
1 TTTTTGAAAACA-CGAAAA
*
19415935 TTTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
19415953 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
19415970 TTTTTTGAAAATACGAAGAT
1 -TTTTTGAAAACACGAA-AA
*** *
19415990 TTTTTTTTAACACGGAAA
1 TTTTTGAAAACACGAAAA
***
19416008 TTTTTG-AAACACGGTCATTT
1 TTTTTGAAAACAC-G--AAAA
19416028 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* **
19416046 TTTTTGAAAGACATG-ATT
1 TTTTTGAAA-ACACGAAAA
* *
19416064 TTTTTGAAAATACGGAAA
1 TTTTTGAAAACACGAAAA
*
19416082 TTTAT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
19416099 TTTTTTCTGAAAACAAGAAAA
1 --TTTT-TGAAAACACGAAAA
* *
19416120 TTTTTG-AAACACTAGAA
1 TTTTTGAAAACACGAAAA
*
19416137 -TTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
* *
19416154 TTTTTG-AAACATGAGAA
1 TTTTTGAAAACACGAAAA
19416171 TTTTT
1 TTTTT
19416176 AAATGCACGA
Statistics
Matches: 380, Mismatches: 76, Indels: 75
0.72 0.14 0.14
Matches are distributed among these distances:
12 2 0.01
13 4 0.01
15 8 0.02
16 25 0.07
17 191 0.50
18 80 0.21
19 44 0.12
20 9 0.02
21 17 0.04
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:19416372 original size:17 final size:16
Alignment explanation
Indices: 19416338--19416388 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
19416328 AAAATTATTT
19416338 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
* *
19416354 AAAATCAAATTAAATTA
1 AAAAT-AAAATAAAATA
19416371 AAAATATAAATATAAATA
1 AAAATA-AAATA-AAATA
19416389 TGCATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.21
17 18 0.64
18 4 0.14
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:19416530 original size:10 final size:10
Alignment explanation
Indices: 19416515--19416585 Score: 70
Period size: 10 Copynumber: 6.5 Consensus size: 10
19416505 GAATTGAACC
19416515 TCTCTTTTTT
1 TCTCTTTTTT
19416525 TCTCTTTTTT
1 TCTCTTTTTT
19416535 TCCTTCTTTTTCCT
1 T-C-TCTTTTT--T
19416549 TCTCTTTTTCT
1 TCTCTTTTT-T
*
19416560 TCTTTTTCTTT
1 TCTCTTT-TTT
*
19416571 TCTTTTTTTT
1 TCTCTTTTTT
19416581 TCTCT
1 TCTCT
19416586 GCTGGGCCAA
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
10 18 0.33
11 17 0.31
12 16 0.30
13 1 0.02
14 2 0.04
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
TCTCTTTTTT
Found at i:19416574 original size:32 final size:28
Alignment explanation
Indices: 19416522--19416583 Score: 54
Period size: 31 Copynumber: 2.0 Consensus size: 28
19416512 ACCTCTCTTT
*
19416522 TTTTCTCTTTTTTTCCTTCTTTTTCCTTCTC
1 TTTT-TCTTTTTTT-CTTCTTTTTTCTT-TC
19416553 TTTTTCTTCTTTTTCTTTTCTTTTTT-TTTC
1 TTTTTCTT-TTTTTC--TTCTTTTTTCTTTC
19416583 T
1 T
19416584 CTGCTGGGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
30 8 0.30
31 11 0.41
32 8 0.30
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTTCTTTTTTTCTTCTTTTTTCTTTC
Found at i:19416577 original size:21 final size:21
Alignment explanation
Indices: 19416517--19416583 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
19416507 ATTGAACCTC
19416517 TCTT-TTTTTCTCTT-TTTTT
1 TCTTCTTTTTCTCTTCTTTTT
*
19416536 CCTTCTTTTTC-CTTCTCTTTT
1 TCTTCTTTTTCTCTTCT-TTTT
*
19416557 TCTTCTTTTTCTTTTCTTTTT
1 TCTTCTTTTTCTCTTCTTTTT
*
19416578 TTTTCT
1 TCTTCT
19416584 CTGCTGGGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 6 0.15
20 7 0.17
21 23 0.57
22 4 0.10
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (21 bp):
TCTTCTTTTTCTCTTCTTTTT
Found at i:19416584 original size:32 final size:33
Alignment explanation
Indices: 19416515--19416585 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 33
19416505 GAATTGAACC
19416515 TCTCTTTTTTTCTCTTTTTTTCCTTCTTTTTCCT
1 TCTCTTTTTTTCTCTTTTTTTCCTTCTTTTT-CT
*
19416549 TCTCTTTTTCTTCT-TTTTCTTTTCTT-TTTTT-T
1 TCTCTTTTT-TTCTCTTTT-TTTCCTTCTTTTTCT
19416581 TCTCT
1 TCTCT
19416586 GCTGGGCCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
32 6 0.18
34 18 0.53
35 10 0.29
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (33 bp):
TCTCTTTTTTTCTCTTTTTTTCCTTCTTTTTCT
Found at i:19416726 original size:13 final size:13
Alignment explanation
Indices: 19416708--19416733 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19416698 CTAAGAAATG
19416708 GCCTGCTCTTCTT
1 GCCTGCTCTTCTT
19416721 GCCTGCTCTTCTT
1 GCCTGCTCTTCTT
19416734 TTTTTCGGGC
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:0.00, C:0.38, G:0.15, T:0.46
Consensus pattern (13 bp):
GCCTGCTCTTCTT
Found at i:19416862 original size:11 final size:12
Alignment explanation
Indices: 19416846--19416891 Score: 53
Period size: 11 Copynumber: 3.9 Consensus size: 12
19416836 TTTTTTATTA
19416846 TTTCTTTTCTT-
1 TTTCTTTTCTTC
19416857 TTTCTTTT-TTC
1 TTTCTTTTCTTC
19416868 TTT-TTTTCTTC
1 TTTCTTTTCTTC
19416879 TTCCTCTTTTCTT
1 TT--TCTTTTCTT
19416892 AGAGGGTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 6 0.20
11 16 0.53
13 1 0.03
14 7 0.23
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTCTTTTCTTC
Found at i:19416867 original size:18 final size:18
Alignment explanation
Indices: 19416846--19416880 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
19416836 TTTTTTATTA
19416846 TTTCTTTTCTTT-TTCTTT
1 TTTCTTTT-TTTCTTCTTT
19416864 TTTCTTTTTTTCTTCTT
1 TTTCTTTTTTTCTTCTT
19416881 CCTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTCTTTTTTTCTTCTTT
Found at i:19417061 original size:45 final size:45
Alignment explanation
Indices: 19417010--19417099 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
19417000 TCTGGGAAGT
19417010 GGGTGCCCCAAATCACGTAACCTGTCTGAAGGACCAAATCACAAA
1 GGGTGCCCCAAATCACGTAACCTGTCTGAAGGACCAAATCACAAA
*
19417055 GGGTGCCCCAAATCACGTAATCTGTCTGAAGGACCAAATCACAAA
1 GGGTGCCCCAAATCACGTAACCTGTCTGAAGGACCAAATCACAAA
19417100 TGCAGCAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.36, C:0.28, G:0.20, T:0.17
Consensus pattern (45 bp):
GGGTGCCCCAAATCACGTAACCTGTCTGAAGGACCAAATCACAAA
Found at i:19417174 original size:30 final size:29
Alignment explanation
Indices: 19417134--19417251 Score: 96
Period size: 30 Copynumber: 3.9 Consensus size: 29
19417124 TGTAATTTTT
* *
19417134 AGAAAATTTAGGATTAAAATGAAAATTTAA
1 AGAAAGTTTAGGGTTAAAATG-AAATTTAA
* *
19417164 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAGTTTA-GGGT-TAAAATGAAATTTAA
*
19417194 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTT-AGGGTTAAAATGAAATTTAA
* * *
19417223 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AG-AAAGTTTA-GGGTTAAAATGAAATTT
19417252 TTATTTTTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
29 3 0.04
30 61 0.84
31 8 0.11
32 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAGTTTAGGGTTAAAATGAAATTTAA
Found at i:19419832 original size:71 final size:71
Alignment explanation
Indices: 19419731--19419941 Score: 368
Period size: 71 Copynumber: 3.0 Consensus size: 71
19419721 TCTTTTCAAA
* * *
19419731 CTCAAGTTTTAAACGATCTCGGGAATTAAGAGAAGATCGTGTCCTAACTTACTGGGCACGATCCT
1 CTCAAGTTTTAAACGATCTCGGAAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCACGATCCT
19419796 TTTTTT
66 TTTTTT
*
19419802 CTCAAGTTTTAAACGATCTCGGAAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCACGAACCT
1 CTCAAGTTTTAAACGATCTCGGAAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCACGATCCT
19419867 TTTTTT
66 TTTTTT
* *
19419873 CTCAAGTTTTAAACGATCTCGGAAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCA
1 CTCAAGTTTTAAACGATCTCGGAAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCACGATCCT
19419938 TTTT
66 TTTT
19419942 CTAAACTTGA
Statistics
Matches: 133, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 133 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (71 bp):
CTCAAGTTTTAAACGATCTCGGAAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCACGATCCT
TTTTTT
Found at i:19424178 original size:17 final size:18
Alignment explanation
Indices: 19424140--19424180 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
19424130 AAGGAAAAAA
* *
19424140 ATTAATTTATTTAATATT
1 ATTAATTTAATAAATATT
19424158 -TTAATTTAATAAAT-TT
1 ATTAATTTAATAAATATT
19424174 ATTAATT
1 ATTAATT
19424181 AGAAGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTAATTTAATAAATATT
Found at i:19425020 original size:19 final size:20
Alignment explanation
Indices: 19424996--19425043 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 20
19424986 AAAGTATAAG
19424996 AAATT-ATTAAAATTA-TTAA
1 AAATTAATT-AAATTATTTAA
19425015 AAATTAATTAAATTATTTAAA
1 AAATTAATTAAATTATTT-AA
19425036 AAATTAAT
1 AAATTAAT
19425044 CTTAATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 11 0.42
20 5 0.19
21 10 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATTAATTAAATTATTTAA
Found at i:19427564 original size:18 final size:19
Alignment explanation
Indices: 19427535--19427633 Score: 91
Period size: 19 Copynumber: 5.3 Consensus size: 19
19427525 AAAATGTTAT
*
19427535 TAAAATATTATAAAAATT-
1 TAAAAAATTATAAAAATTA
* *
19427553 TAGAAAATTATAAAAGTTA
1 TAAAAAATTATAAAAATTA
*
19427572 TAAAAAACTATAAAAA-TA
1 TAAAAAATTATAAAAATTA
19427590 -AAAAAA-TATAAAAAATATA
1 TAAAAAATTAT-AAAAAT-TA
*
19427609 AAAAAAAGTTATAAAAA-TA
1 TAAAAAA-TTATAAAAATTA
19427628 TAAAAA
1 TAAAAA
19427634 CAACCATAGA
Statistics
Matches: 67, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
16 3 0.04
17 11 0.16
18 17 0.25
19 22 0.33
20 6 0.09
21 5 0.07
22 3 0.04
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (19 bp):
TAAAAAATTATAAAAATTA
Found at i:19427586 original size:8 final size:8
Alignment explanation
Indices: 19427543--19427633 Score: 62
Period size: 8 Copynumber: 11.0 Consensus size: 8
19427533 ATTAAAATAT
19427543 TATAAAAA
1 TATAAAAA
*
19427551 TTTAGAAAA
1 TATA-AAAA
*
19427560 TTATAAAAGT
1 -TATAAAA-A
19427570 TATAAAAAA
1 TAT-AAAAA
19427579 CTATAAAAA
1 -TATAAAAA
*
19427588 TAAAAAAA
1 TATAAAAA
19427596 TATAAAAA
1 TATAAAAA
19427604 -ATATAAAA
1 TATA-AAAA
**
19427612 -A-AAAGT
1 TATAAAAA
19427618 TATAAAAA
1 TATAAAAA
19427626 TATAAAAA
1 TATAAAAA
19427634 CAACCATAGA
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
6 2 0.03
7 5 0.08
8 33 0.51
9 15 0.23
10 10 0.15
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.25
Consensus pattern (8 bp):
TATAAAAA
Found at i:19427593 original size:17 final size:18
Alignment explanation
Indices: 19427536--19427633 Score: 74
Period size: 21 Copynumber: 5.2 Consensus size: 18
19427526 AAATGTTATT
*
19427536 AAAATATTATAAAAATTTAGA
1 AAAATA-TA-AAAAATATA-A
* **
19427557 AAATTATAAAAGTTATAA
1 AAAATATAAAAAATATAA
19427575 AAAACTAT-AAAAATA-AA
1 AAAA-TATAAAAAATATAA
19427592 AAAATATAAAAAATATAA
1 AAAATATAAAAAATATAA
*
19427610 AAAAAAGTTATAAAAATATAA
1 AAAATA--TA-AAAAATATAA
19427631 AAA
1 AAA
19427634 CAACCATAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
16 3 0.05
17 13 0.21
18 16 0.25
19 9 0.14
20 4 0.06
21 18 0.29
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAATATAAAAAATATAA
Found at i:19427613 original size:9 final size:9
Alignment explanation
Indices: 19427536--19427633 Score: 74
Period size: 9 Copynumber: 10.3 Consensus size: 9
19427526 AAATGTTATT
19427536 AAAATATTATA
1 AAAATA-TA-A
*
19427547 AAAATTTAGA
1 AAAATATA-A
*
19427557 AAATTATAA
1 AAAATATAA
**
19427566 AAGTTATAA
1 AAAATATAA
19427575 AAAACTAT-A
1 AAAA-TATAA
19427584 AAAATA-AA
1 AAAATATAA
19427592 AAAATATAA
1 AAAATATAA
19427601 AAAATATAA
1 AAAATATAA
*
19427610 AAAAAAGTTATA
1 AAAATA--TA-A
19427622 AAAATATAA
1 AAAATATAA
19427631 AAA
1 AAA
19427634 CAACCATAGA
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
8 9 0.12
9 36 0.50
10 14 0.19
11 7 0.10
12 6 0.08
ACGTcount: A:0.70, C:0.01, G:0.03, T:0.26
Consensus pattern (9 bp):
AAAATATAA
Found at i:19427899 original size:10 final size:10
Alignment explanation
Indices: 19427874--19427933 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 10
19427864 TTTATAAATT
19427874 TTATATAAAGA
1 TTATATAAA-A
19427885 GTTATATAAAA
1 -TTATATAAAA
19427896 TTATATAAAAA
1 TTATAT-AAAA
19427907 TTAT-TAAAA
1 TTATATAAAA
*
19427916 TGATA-AAAA
1 TTATATAAAA
19427925 --ATATAAAA
1 TTATATAAAA
19427933 T
1 T
19427934 ATAAAAACAT
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
7 3 0.07
8 4 0.09
9 11 0.26
10 7 0.16
11 9 0.21
12 9 0.21
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (10 bp):
TTATATAAAA
Found at i:19427914 original size:20 final size:21
Alignment explanation
Indices: 19427874--19427926 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
19427864 TTTATAAATT
*
19427874 TTATATAAAGAGTTATATAAAA
1 TTATATAAA-AATTATATAAAA
19427896 TTATATAAAAATTAT-TAAAA
1 TTATATAAAAATTATATAAAA
*
19427916 TGATA-AAAAAT
1 TTATATAAAAAT
19427927 ATAAAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 6 0.21
20 9 0.31
21 5 0.17
22 9 0.31
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (21 bp):
TTATATAAAAATTATATAAAA
Found at i:19427923 original size:18 final size:16
Alignment explanation
Indices: 19427888--19427940 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 16
19427878 ATAAAGAGTT
19427888 ATATAAAATTATATAAAA
1 ATATAAAA-TATA-AAAA
19427906 ATTATTAAAATGATAAAAA
1 A-TA-TAAAAT-ATAAAAA
19427925 ATATAAAATATAAAAA
1 ATATAAAATATAAAAA
19427941 CATAATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.22
17 6 0.19
18 3 0.09
19 8 0.25
20 8 0.25
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
ATATAAAATATAAAAA
Found at i:19428334 original size:31 final size:31
Alignment explanation
Indices: 19428258--19428347 Score: 128
Period size: 30 Copynumber: 2.9 Consensus size: 31
19428248 TTTTAGACTT
*
19428258 AAATAATTTTAAAAATTAATTAAGTCCTTAAA
1 AAATAA-TTTAAAAATTAATTAAGTCCTCAAA
* *
19428290 AAATAA-TTAAAAATTAATTATGTCCTCATA
1 AAATAATTTAAAAATTAATTAAGTCCTCAAA
*
19428320 AAATAATTTAAAAATTAATTAAGCCCTC
1 AAATAATTTAAAAATTAATTAAGTCCTC
19428348 CTTATTAGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
30 27 0.52
31 19 0.37
32 6 0.12
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (31 bp):
AAATAATTTAAAAATTAATTAAGTCCTCAAA
Found at i:19429781 original size:21 final size:20
Alignment explanation
Indices: 19429753--19429791 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
19429743 TGGGTGCAGA
19429753 GATGTAAA-ATAAATAAAAGG
1 GATGTAAATA-AAATAAAAGG
19429773 GATGATAAATAAAATAAAA
1 GATG-TAAATAAAATAAAA
19429792 TAAAAACAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 12 0.71
22 1 0.06
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (20 bp):
GATGTAAATAAAATAAAAGG
Found at i:19447130 original size:15 final size:14
Alignment explanation
Indices: 19447109--19447144 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
19447099 ATAATCCTTA
*
19447109 ATAATTATCTTAAT
1 ATAATTATCCTAAT
19447123 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
19447138 ATAATTA
1 ATAATTA
19447145 AAATAGAGTC
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:19449089 original size:4 final size:4
Alignment explanation
Indices: 19449066--19449137 Score: 74
Period size: 4 Copynumber: 17.2 Consensus size: 4
19449056 CCAAATAAGT
* *
19449066 AATA AAT- AATAA AATAA AATA AATT AATA AATA AAGTA AAAA AATAA
1 AATA AATA AAT-A AAT-A AATA AATA AATA AATA AA-TA AATA AAT-A
*
19449113 AATA AATT AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
19449138 CAAAAAATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
3 3 0.05
4 39 0.67
5 16 0.28
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:19449112 original size:30 final size:29
Alignment explanation
Indices: 19449066--19449157 Score: 125
Period size: 30 Copynumber: 3.1 Consensus size: 29
19449056 CCAAATAAGT
*
19449066 AATAAATAATAAAATAAAATAAATTAATA
1 AATAAATAAAAAAATAAAATAAATTAATA
19449095 AATAAAGTAAAAAAATAAAATAAATTAATA
1 AATAAA-TAAAAAAATAAAATAAATTAATA
19449125 AATAAATAAATAACAA-AAAATAAAATTAA-A
1 AATAAATAAA-AA-AATAAAAT-AAATTAATA
19449155 AAT
1 AAT
19449158 TGGGTTGCCT
Statistics
Matches: 58, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
29 10 0.17
30 39 0.67
31 9 0.16
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.24
Consensus pattern (29 bp):
AATAAATAAAAAAATAAAATAAATTAATA
Found at i:19462766 original size:17 final size:18
Alignment explanation
Indices: 19462744--19462784 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
19462734 TAGATTATTG
19462744 GAAGCTCGTTTTGG-TAA
1 GAAGCTCGTTTTGGTTAA
19462761 GAAGCTCGTTTTGGTTAA
1 GAAGCTCGTTTTGGTTAA
19462779 -AAGCTC
1 GAAGCTC
19462785 ATTGAAGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (18 bp):
GAAGCTCGTTTTGGTTAA
Found at i:19476582 original size:50 final size:50
Alignment explanation
Indices: 19476473--19476723 Score: 344
Period size: 50 Copynumber: 4.9 Consensus size: 50
19476463 ACATTTGGGT
* *
19476473 GATGAGA--TCCCATGTAAGACCATGTTTGGAACATGGCATTGGCATCCTTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GA
*
19476524 GATCATGAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
19476577 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* *
19476627 GATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** *
19476677 TATGAGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GATGAG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
19476724 TGTTATGATC
Statistics
Matches: 182, Mismatches: 12, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
50 101 0.55
51 36 0.20
53 3 0.02
54 6 0.03
55 2 0.01
56 34 0.19
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:19478803 original size:43 final size:43
Alignment explanation
Indices: 19478711--19478840 Score: 118
Period size: 43 Copynumber: 3.0 Consensus size: 43
19478701 ATTTATATGG
* * * * *
19478711 AAAATCGCCGCTATAGAACATGACATTTAGTGGTG-TTTCTCAC
1 AAAAACGCCACTATAGAACATGACCTTTAGCGGTGCTTT-TCCC
* *
19478754 AAAAACGCCATTATAGAACATGACCTTTAACGGTGCTTTTCCC
1 AAAAACGCCACTATAGAACATGACCTTTAGCGGTGCTTTTCCC
* * * * * * *
19478797 ATAAACGTCGCTAAAGAACATGATCTTTAGCGGCGCTTTCCCC
1 AAAAACGCCACTATAGAACATGACCTTTAGCGGTGCTTTTCCC
19478840 A
1 A
19478841 CAAATGGCGA
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
43 67 0.96
44 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
AAAAACGCCACTATAGAACATGACCTTTAGCGGTGCTTTTCCC
Found at i:19478869 original size:43 final size:43
Alignment explanation
Indices: 19478768--19478870 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 43
19478758 ACGCCATTAT
* * * * * * *
19478768 AGAACATGACCTTTAACGGTGCTTTTCCCATAAACGTCGCTAA
1 AGAACATGACTTTTAGCGGCGCTTTCCCCACAAACGGCGATAA
*
19478811 AGAACATGA-TCTTTAGCGGCGCTTTCCCCACAAATGGCGATAA
1 AGAACATGACT-TTTAGCGGCGCTTTCCCCACAAACGGCGATAA
19478854 AGAACATGACTTTTAGC
1 AGAACATGACTTTTAGC
19478871 TTCATTTTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 49 0.98
44 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
AGAACATGACTTTTAGCGGCGCTTTCCCCACAAACGGCGATAA
Found at i:19480910 original size:24 final size:24
Alignment explanation
Indices: 19480877--19480952 Score: 98
Period size: 24 Copynumber: 3.2 Consensus size: 24
19480867 TACTTGGGTA
* ** *
19480877 ATTTACCGTCAATTCATTTTTTAT
1 ATTTCCCGTCAATTCATCCTTTAC
**
19480901 ATTTTTCGTCAATTCATCCTTTAC
1 ATTTCCCGTCAATTCATCCTTTAC
19480925 ATTTCCCGTCAATTCATCCTTTAC
1 ATTTCCCGTCAATTCATCCTTTAC
19480949 ATTT
1 ATTT
19480953 GTAGTGCCAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.22, C:0.24, G:0.04, T:0.50
Consensus pattern (24 bp):
ATTTCCCGTCAATTCATCCTTTAC
Found at i:19481002 original size:33 final size:32
Alignment explanation
Indices: 19480957--19481251 Score: 167
Period size: 33 Copynumber: 8.8 Consensus size: 32
19480947 ACATTTGTAG
* *
19480957 TGCCATAACCCAGTTATGGTCTTATCATTAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATTAGAA
*
19480990 TGCCATAGCCCAGCTATGGTCTTACATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTACAT-TAGA-A
* * * * * ** * * *
19481024 CTGTCATGGTCCAACCATAATCTTACGTTCATAG
1 -TGCCATAGCCCAGCTATGGTCTTACATT-AGAA
* * * * *
19481058 TGCCATAACCCAGTTATGGTCTTACGTTCATAG
1 TGCCATAGCCCAGCTATGGTCTTACATT-AGAA
* *
19481091 TGCCATAACCCAGCTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATTAGAA
* *
19481124 TGCCATAGCCCAACTATGGTCTTACATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTACAT-TAGA-A
* * * * * * *
19481158 CTGCCATGGTCCAACCATGGTCTTACGTTCATAG
1 -TGCCATAGCCCAGCTATGGTCTTACATT-AGAA
* ** *
19481192 TGTCATAAACCAGTTATGGTCTTATCATTAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATTAGAA
* *
19481225 TGCCATAGCTCAGCCATGGTCTTACAT
1 TGCCATAGCCCAGCTATGGTCTTACAT
19481252 ATAAACACTG
Statistics
Matches: 199, Mismatches: 53, Indels: 21
0.73 0.19 0.08
Matches are distributed among these distances:
32 9 0.05
33 135 0.68
34 9 0.05
35 46 0.23
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (32 bp):
TGCCATAGCCCAGCTATGGTCTTACATTAGAA
Found at i:19481163 original size:101 final size:101
Alignment explanation
Indices: 19481073--19481317 Score: 409
Period size: 101 Copynumber: 2.4 Consensus size: 101
19481063 TAACCCAGTT
* *
19481073 ATGGTCTTACGTTCATAGTGCCATAACCCAGCTATGGTCTTATCATCAGAATGCCATAGCCCAAC
1 ATGGTCTTACGTTCATAGTGTCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAAC
*
19481138 TATGGTCTTACATATAAACACTGCCATGGTCCAACC
66 CATGGTCTTACATATAAACACTGCCATGGTCCAACC
* * * *
19481174 ATGGTCTTACGTTCATAGTGTCATAAACCAGTTATGGTCTTATCATTAGAATGCCATAGCTCAGC
1 ATGGTCTTACGTTCATAGTGTCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAAC
19481239 CATGGTCTTACATATAAACACTGCCATGGTCCAACC
66 CATGGTCTTACATATAAACACTGCCATGGTCCAACC
* *
19481275 ATGGTCTTACGTTCATAGTGTCATAACCTAGTTAAGGTCTTAT
1 ATGGTCTTACGTTCATAGTGTCATAACCCAGTTATGGTCTTAT
19481318 TCGTCAATTC
Statistics
Matches: 134, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 134 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (101 bp):
ATGGTCTTACGTTCATAGTGTCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAAC
CATGGTCTTACATATAAACACTGCCATGGTCCAACC
Found at i:19481172 original size:35 final size:34
Alignment explanation
Indices: 19481124--19481284 Score: 114
Period size: 35 Copynumber: 4.7 Consensus size: 34
19481114 ATCATCAGAA
* *
19481124 TGCCATAGCCCAACTATGGTCTTACATATAAACAC
1 TGCCATAGTCCAACCATGGTCTTACAT-TAAACAC
* * * * *
19481159 TGCCATGGTCCAACCATGGTCTTACGTT-CATAG
1 TGCCATAGTCCAACCATGGTCTTACATTAAACAC
* ** *** *
19481192 TGTCATAAACCAGTTATGGTCTTATCATTAGA-A-
1 TGCCATAGTCCAACCATGGTCTTA-CATTAAACAC
*
19481225 TGCCATAG-CTCAGCCATGGTCTTACATATAAACAC
1 TGCCATAGTC-CAACCATGGTCTTACAT-TAAACAC
*
19481260 TGCCATGGTCCAACCATGGTCTTAC
1 TGCCATAGTCCAACCATGGTCTTAC
19481285 GTTCATAGTG
Statistics
Matches: 96, Mismatches: 23, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
32 4 0.04
33 40 0.42
34 6 0.06
35 45 0.47
36 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (34 bp):
TGCCATAGTCCAACCATGGTCTTACATTAAACAC
Found at i:19481199 original size:134 final size:134
Alignment explanation
Indices: 19480954--19481215 Score: 452
Period size: 134 Copynumber: 2.0 Consensus size: 134
19480944 TTTACATTTG
* * *
19480954 TAGTGCCATAACCCAGTTATGGTCTTATCATTAGAATGCCATAGCCCAGCTATGGTCTTACATAT
1 TAGTGCCATAACCCAGCTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATAT
* *
19481019 AAACACTGTCATGGTCCAACCATAATCTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTACG
66 AAACACTGCCATGGTCCAACCATAATCTTACGTTCATAGTGCCATAAACCAGTTATGGTCTTACG
19481084 TTCA
131 TTCA
19481088 TAGTGCCATAACCCAGCTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATAT
1 TAGTGCCATAACCCAGCTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATAT
** *
19481153 AAACACTGCCATGGTCCAACCATGGTCTTACGTTCATAGTGTCATAAACCAGTTATGGTCTTA
66 AAACACTGCCATGGTCCAACCATAATCTTACGTTCATAGTGCCATAAACCAGTTATGGTCTTA
19481216 TCATTAGAAT
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
134 120 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (134 bp):
TAGTGCCATAACCCAGCTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATAT
AAACACTGCCATGGTCCAACCATAATCTTACGTTCATAGTGCCATAAACCAGTTATGGTCTTACG
TTCA
Found at i:19481229 original size:134 final size:134
Alignment explanation
Indices: 19480957--19481248 Score: 442
Period size: 134 Copynumber: 2.2 Consensus size: 134
19480947 ACATTTGTAG
* * *
19480957 TGCCATAACCCAGTTATGGTCTTATCATTAGAATGCCATAGCCCAGCTATGGTCTTACATATAAA
1 TGCCATAACCCAGCTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAAA
* * *
19481022 CACTGTCATGGTCCAACCATAATCTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTACGTTC
66 CACTGCCATGGTCCAACCATAATCTTACGTTCATAGTGCCATAAACCAGTTATGGTCTTACATTC
* *
19481087 ATAG
131 AGAA
19481091 TGCCATAACCCAGCTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAAA
1 TGCCATAACCCAGCTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAAA
** *
19481156 CACTGCCATGGTCCAACCATGGTCTTACGTTCATAGTGTCATAAACCAGTTATGGTCTTATCATT
66 CACTGCCATGGTCCAACCATAATCTTACGTTCATAGTGCCATAAACCAGTTATGGTCTTA-CATT
19481221 -AGAA
130 CAGAA
* * *
19481225 TGCCATAGCTCAGCCATGGTCTTA
1 TGCCATAACCCAGCTATGGTCTTA
19481249 CATATAAACA
Statistics
Matches: 143, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
134 140 0.98
135 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.30
Consensus pattern (134 bp):
TGCCATAACCCAGCTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGTCTTACATATAAA
CACTGCCATGGTCCAACCATAATCTTACGTTCATAGTGCCATAAACCAGTTATGGTCTTACATTC
AGAA
Found at i:19488524 original size:41 final size:42
Alignment explanation
Indices: 19488467--19488569 Score: 147
Period size: 41 Copynumber: 2.5 Consensus size: 42
19488457 CGGTGTTTAG
* * * *
19488467 ACCAAAATCGCCACTATTTCTCAACTTTTTGCGGCGTTT-GA
1 ACCAAAAACACCACTATTGCTCAACTTTTTGCGGCATTTGGA
19488508 ACCAAAAACACCACTATTGCTCAACTTTTTGCGGCATTTGGA
1 ACCAAAAACACCACTATTGCTCAACTTTTTGCGGCATTTGGA
*
19488550 A-CAAAAACACCGCTATTGCT
1 ACCAAAAACACCACTATTGCT
19488570 TACCTTTTGC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 53 0.95
42 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (42 bp):
ACCAAAAACACCACTATTGCTCAACTTTTTGCGGCATTTGGA
Found at i:19490539 original size:13 final size:12
Alignment explanation
Indices: 19490512--19490562 Score: 57
Period size: 13 Copynumber: 4.0 Consensus size: 12
19490502 GCTTGACCTG
*
19490512 AAGAAAAAAATA
1 AAGAAAAAAAGA
19490524 AAGAAAGAAAAGA
1 AAGAAA-AAAAGA
*
19490537 AAGTGAAAAAAGA
1 AAG-AAAAAAAGA
19490550 AAGAAAGAAAAGA
1 AAGAAA-AAAAGA
19490563 GAATTTTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
12 8 0.24
13 23 0.70
14 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (12 bp):
AAGAAAAAAAGA
Found at i:19490929 original size:19 final size:19
Alignment explanation
Indices: 19490907--19490960 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
19490897 TACAAGTAAG
19490907 TATGATAATTGAATAT-ATT
1 TATGATAATTGAATATGA-T
**
19490926 TATGA-AATAAAATATGAT
1 TATGATAATTGAATATGAT
*
19490944 TATGATTATTGAATATG
1 TATGATAATTGAATATG
19490961 TATAATGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.43
Consensus pattern (19 bp):
TATGATAATTGAATATGAT
Found at i:19496027 original size:14 final size:14
Alignment explanation
Indices: 19496004--19496034 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19495994 AGCCCTCCCA
19496004 TATTAATTTTTTTG
1 TATTAATTTTTTTG
*
19496018 TATTATTTTTTTTG
1 TATTAATTTTTTTG
19496032 TAT
1 TAT
19496035 ATATATTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.74
Consensus pattern (14 bp):
TATTAATTTTTTTG
Found at i:19503822 original size:11 final size:11
Alignment explanation
Indices: 19503808--19503847 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
19503798 ATTTTTTTAG
19503808 TTCTCTCTCAA
1 TTCTCTCTCAA
*
19503819 TTCTCTCTTAA
1 TTCTCTCTCAA
19503830 TTCTCTCTCAA
1 TTCTCTCTCAA
19503841 TTCTCTC
1 TTCTCTC
19503848 AACTTCTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.15, C:0.35, G:0.00, T:0.50
Consensus pattern (11 bp):
TTCTCTCTCAA
Found at i:19506600 original size:42 final size:42
Alignment explanation
Indices: 19506529--19506690 Score: 143
Period size: 42 Copynumber: 3.9 Consensus size: 42
19506519 CAAAAGCCCG
* * *
19506529 AAGGCTAAACAGAAGCTCATGAGAGCTAAAC-AGAAACCCATA
1 AAGGTTAAACAAAAGCTCATAAGAGCTAAACGA-AAACCCATA
* * *
19506571 AAGGTTGAACGAAAGCTCGTAAGAGCTAAACGAAAACCCATA
1 AAGGTTAAACAAAAGCTCATAAGAGCTAAACGAAAACCCATA
* * * *
19506613 AGGGTTAAACAAAAGCTCA-ATAGAGCTGAACGGAAA-CTACT-
1 AAGGTTAAACAAAAGCTCATA-AGAGCTAAACGAAAACCCA-TA
* * *
19506654 ATGAGTTAAGCAGAAGCTCATAAGAGCTAAACGAAAA
1 AAG-GTTAAACAAAAGCTCATAAGAGCTAAACGAAAA
19506691 GTAAACACGT
Statistics
Matches: 97, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
41 5 0.05
42 90 0.93
43 2 0.02
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (42 bp):
AAGGTTAAACAAAAGCTCATAAGAGCTAAACGAAAACCCATA
Found at i:19506614 original size:21 final size:21
Alignment explanation
Indices: 19506550--19506614 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
19506540 GAAGCTCATG
19506550 AGAGCTAAAC-AGAAACCCATA
1 AGAGCTAAACGA-AAACCCATA
* * * * *
19506571 A-AGGTTGAACGAAAGCTCGTA
1 AGA-GCTAAACGAAAACCCATA
19506592 AGAGCTAAACGAAAACCCATA
1 AGAGCTAAACGAAAACCCATA
19506613 AG
1 AG
19506615 GGTTAAACAA
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
20 1 0.03
21 28 0.90
22 2 0.06
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.12
Consensus pattern (21 bp):
AGAGCTAAACGAAAACCCATA
Found at i:19506621 original size:21 final size:21
Alignment explanation
Indices: 19506562--19506626 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
19506552 AGCTAAACAG
* *
19506562 AAACCCATAAAGGTTGAACGA
1 AAACCCATAAGGGTTAAACGA
* * * * *
19506583 AAGCTCGTAAGAGCTAAACGA
1 AAACCCATAAGGGTTAAACGA
19506604 AAACCCATAAGGGTTAAAC-A
1 AAACCCATAAGGGTTAAACGA
19506624 AAA
1 AAA
19506627 GCTCAATAGA
Statistics
Matches: 32, Mismatches: 12, Indels: 1
0.71 0.27 0.02
Matches are distributed among these distances:
20 4 0.12
21 28 0.88
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.14
Consensus pattern (21 bp):
AAACCCATAAGGGTTAAACGA
Found at i:19510181 original size:28 final size:29
Alignment explanation
Indices: 19510124--19510181 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
19510114 TGGATTGTAA
**
19510124 AAGATTTCTAGTTGAGCCACAAAAGTTAG
1 AAGATTTCTAGTTGAGCCACAAAAACTAG
19510153 AAGATTT-TAGTTTGA-CCACAAAAACTAG
1 AAGATTTCTAG-TTGAGCCACAAAAACTAG
19510181 A
1 A
19510182 GGGGGAGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (29 bp):
AAGATTTCTAGTTGAGCCACAAAAACTAG
Found at i:19515072 original size:16 final size:16
Alignment explanation
Indices: 19515053--19515083 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19515043 GTTTTTCATT
*
19515053 TTTTTATTTAGGGTTA
1 TTTTGATTTAGGGTTA
19515069 TTTTGATTTAGGGTT
1 TTTTGATTTAGGGTT
19515084 GTCTAGATTT
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:0.16, C:0.00, G:0.23, T:0.61
Consensus pattern (16 bp):
TTTTGATTTAGGGTTA
Found at i:19515699 original size:34 final size:34
Alignment explanation
Indices: 19515616--19515699 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 34
19515606 TAAATTATTT
* *
19515616 TTGTATTGGTTATTGTCTGTC-ATGTTGTATTAAA
1 TTGT-TTGGTTGTTGTCTGCCTATGTTGTATTAAA
* *
19515650 TTG--T--TTGCTAT-TGCCTATGTTGTATTAAA
1 TTGTTTGGTTGTTGTCTGCCTATGTTGTATTAAA
19515679 TTGTTTGGTTGTTGTCTGCCT
1 TTGTTTGGTTGTTGTCTGCCT
19515700 TTATTGACTA
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
28 3 0.08
29 20 0.53
31 2 0.05
33 5 0.13
34 8 0.21
ACGTcount: A:0.15, C:0.10, G:0.21, T:0.54
Consensus pattern (34 bp):
TTGTTTGGTTGTTGTCTGCCTATGTTGTATTAAA
Found at i:19517531 original size:38 final size:38
Alignment explanation
Indices: 19517480--19517556 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
19517470 ATCATACTCA
19517480 ACACATATATAAATCAAATAGTTAGTTCGTACAATTAG
1 ACACATATATAAATCAAATAGTTAGTTCGTACAATTAG
19517518 ACACATATATAAATCAAATAGTTAGTTCGTACAATTAG
1 ACACATATATAAATCAAATAGTTAGTTCGTACAATTAG
19517556 A
1 A
19517557 GGTCTAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (38 bp):
ACACATATATAAATCAAATAGTTAGTTCGTACAATTAG
Found at i:19523186 original size:21 final size:21
Alignment explanation
Indices: 19523139--19523192 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
19523129 ACCAAGTGGT
**
19523139 TGCCCCAACTCAGCAACAGTC
1 TGCCCCAACTCAGCAACAAAC
* **
19523160 TACCCCAACTCAGTTACAAAC
1 TGCCCCAACTCAGCAACAAAC
19523181 TGCCCCAACTCA
1 TGCCCCAACTCA
19523193 CCAAACTTAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.43, G:0.09, T:0.17
Consensus pattern (21 bp):
TGCCCCAACTCAGCAACAAAC
Found at i:19524162 original size:109 final size:109
Alignment explanation
Indices: 19524024--19524240 Score: 425
Period size: 109 Copynumber: 2.0 Consensus size: 109
19524014 CCAATGTCCT
19524024 CACTTTTTTTAGAAGACCCAACAACACAATTTGTGAACGGGGCATCAATGGTGGATCAAACCAGG
1 CACTTTTTTTAGAAGACCCAACAACACAATTTGTGAACGGGGCATCAATGGTGGATCAAACCAGG
19524089 TGAAAAACAACATGGTTTTTGAAACCCACTCCCAAACTTCTTAA
66 TGAAAAACAACATGGTTTTTGAAACCCACTCCCAAACTTCTTAA
19524133 CACTTTTTTTAGAAGACCCAACAACACAATTTGTGAACGGGGCATCAATGGTGGATCAAACCAGG
1 CACTTTTTTTAGAAGACCCAACAACACAATTTGTGAACGGGGCATCAATGGTGGATCAAACCAGG
*
19524198 TGAAAAACAACATGGTTTTTGAAACCCATTCCCAAACTTCTTA
66 TGAAAAACAACATGGTTTTTGAAACCCACTCCCAAACTTCTTA
19524241 CACCCAAAAA
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 107 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (109 bp):
CACTTTTTTTAGAAGACCCAACAACACAATTTGTGAACGGGGCATCAATGGTGGATCAAACCAGG
TGAAAAACAACATGGTTTTTGAAACCCACTCCCAAACTTCTTAA
Found at i:19524363 original size:3 final size:3
Alignment explanation
Indices: 19524348--19524466 Score: 159
Period size: 3 Copynumber: 40.0 Consensus size: 3
19524338 CTATTTTTTC
* * * * * * *
19524348 TCT TCT CCT TCT TCT TCT TC- TCC TCC TCT TCC TCC TCC TCT TCT TTT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
19524395 TAT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
19524443 TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT
19524467 GCCTAAACCC
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
2 2 0.02
3 105 0.98
ACGTcount: A:0.01, C:0.37, G:0.00, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:19524885 original size:10 final size:9
Alignment explanation
Indices: 19524870--19524936 Score: 50
Period size: 9 Copynumber: 7.2 Consensus size: 9
19524860 TGGAGGTGTG
19524870 TTTTTACTAA
1 TTTTTA-TAA
19524880 TTTTTAAATAA
1 TTTTT--ATAA
*
19524891 TATTTTAGAA
1 T-TTTTATAA
19524901 TTTTTATTAA
1 TTTTTA-TAA
19524911 -TTTT-TAA
1 TTTTTATAA
*
19524918 TTTTTAAAA
1 TTTTTATAA
19524927 TTTTT-TAA
1 TTTTTATAA
19524935 TT
1 TT
19524937 ATGTGACATG
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
7 3 0.06
8 8 0.17
9 16 0.34
10 11 0.23
11 4 0.09
12 5 0.11
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:19531735 original size:2 final size:2
Alignment explanation
Indices: 19531728--19531768 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
19531718 GTGGCACCTG
19531728 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
19531769 TCCTTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:19532513 original size:30 final size:30
Alignment explanation
Indices: 19532477--19532567 Score: 164
Period size: 30 Copynumber: 3.0 Consensus size: 30
19532467 GATAAACTAG
19532477 ACAGCACTACAGAATTTATCATATGACTTA
1 ACAGCACTACAGAATTTATCATATGACTTA
*
19532507 ACAGCACAACAGAATTTATCATATGACTTA
1 ACAGCACTACAGAATTTATCATATGACTTA
*
19532537 ACAGCACTACAGAATTTATCATATCACTTA
1 ACAGCACTACAGAATTTATCATATGACTTA
19532567 A
1 A
19532568 GCTTTATATA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (30 bp):
ACAGCACTACAGAATTTATCATATGACTTA
Found at i:19535133 original size:17 final size:17
Alignment explanation
Indices: 19535107--19535140 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19535097 AGCATATTTC
19535107 TATTTCCTTAGTTTCTT
1 TATTTCCTTAGTTTCTT
* *
19535124 TATTTGCTTATTTTCTT
1 TATTTCCTTAGTTTCTT
19535141 ATACAAGGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.15, G:0.06, T:0.68
Consensus pattern (17 bp):
TATTTCCTTAGTTTCTT
Found at i:19536110 original size:3 final size:3
Alignment explanation
Indices: 19536102--19536147 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
19536092 ACCAATGTGA
19536102 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
19536148 CAGGCCTCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:19543164 original size:9 final size:9
Alignment explanation
Indices: 19543150--19543242 Score: 57
Period size: 9 Copynumber: 9.9 Consensus size: 9
19543140 TTTAGATATA
19543150 ATTTTTAAT
1 ATTTTTAAT
19543159 ATTTTT-AT
1 ATTTTTAAT
19543167 ACTTTTTAAT
1 A-TTTTTAAT
*
19543177 AGTATTT-AT
1 A-TTTTTAAT
19543186 ATTGTTTAAT
1 ATT-TTTAAT
19543196 AATTTTT-AT
1 -ATTTTTAAT
* **
19543205 GCTTTTTTTT
1 -ATTTTTAAT
*
19543215 ACATTTTAAT
1 A-TTTTTAAT
19543225 ATTTTTAAT
1 ATTTTTAAT
19543234 AATTTTTAA
1 -ATTTTTAA
19543243 ACTGGTTTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 15
0.71 0.12 0.16
Matches are distributed among these distances:
8 4 0.06
9 31 0.48
10 27 0.42
11 3 0.05
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:19543203 original size:38 final size:38
Alignment explanation
Indices: 19543150--19543241 Score: 109
Period size: 38 Copynumber: 2.4 Consensus size: 38
19543140 TTTAGATATA
*
19543150 ATTTTTAAT-ATTTTTATACTTTTTAATA-GTATTT-AT
1 ATTTTTAATAATTTTTATACTTTTTAATACAT-TTTAAT
* **
19543186 ATTGTTTAATAATTTTTATGCTTTTTTTTACATTTTAAT
1 ATT-TTTAATAATTTTTATACTTTTTAATACATTTTAAT
19543225 ATTTTTAATAATTTTTA
1 ATTTTTAATAATTTTTA
19543242 AACTGGTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
36 3 0.06
37 6 0.12
38 33 0.69
39 6 0.12
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (38 bp):
ATTTTTAATAATTTTTATACTTTTTAATACATTTTAAT
Found at i:19543242 original size:19 final size:18
Alignment explanation
Indices: 19543150--19543241 Score: 87
Period size: 19 Copynumber: 4.9 Consensus size: 18
19543140 TTTAGATATA
19543150 ATTTTTAAT-ATTTTTAT
1 ATTTTTAATAATTTTTAT
* *
19543167 ACTTTTTAATAGTATTTAT
1 A-TTTTTAATAATTTTTAT
19543186 ATTGTTTAATAATTTTTAT
1 ATT-TTTAATAATTTTTAT
* ** *
19543205 GCTTTTTTTTACATTTTAAT
1 -ATTTTTAATA-ATTTTTAT
19543225 ATTTTTAATAATTTTTA
1 ATTTTTAATAATTTTTA
19543242 AACTGGTTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 9
0.73 0.15 0.11
Matches are distributed among these distances:
17 1 0.02
18 16 0.28
19 32 0.55
20 9 0.16
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
ATTTTTAATAATTTTTAT
Done.