Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 65 of 221
Found at i:18920310 original size:14 final size:13
Alignment explanation
Indices: 18920274--18920313 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
18920264 TTAAATCGTA
18920274 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
18920287 ATTTTAGTAAAACT
1 ATTTTAGTAAAA-T
* *
18920301 TTTTTTGTAAAAT
1 ATTTTAGTAAAAT
18920314 CGAGGGTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:18928728 original size:34 final size:34
Alignment explanation
Indices: 18928685--18928789 Score: 140
Period size: 34 Copynumber: 3.1 Consensus size: 34
18928675 CATGGCATTC
18928685 ATAGAGATAAGTCCGCTGGGACAGTAAACACGAA
1 ATAGAGATAAGTCCGCTGGGACAGTAAACACGAA
* ** * *
18928719 ATAGAGATAACT-CTATCGGGATAGTAAACACAAA
1 ATAGAGATAAGTCCGCT-GGGACAGTAAACACGAA
*
18928753 ATAGAGATAAGTCCGCTGGGACAATAAACACGAA
1 ATAGAGATAAGTCCGCTGGGACAGTAAACACGAA
18928787 ATA
1 ATA
18928790 TATATAAATC
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
33 2 0.03
34 54 0.93
35 2 0.03
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.17
Consensus pattern (34 bp):
ATAGAGATAAGTCCGCTGGGACAGTAAACACGAA
Found at i:18928811 original size:68 final size:68
Alignment explanation
Indices: 18928685--18928812 Score: 175
Period size: 68 Copynumber: 1.9 Consensus size: 68
18928675 CATGGCATTC
* * * * ***
18928685 ATAGAGATAAGTCCGCTGGGACAGTAAACACGAAATAGAGATAACTCTATCGGGATAGTAAACAC
1 ATAGAGATAAGTCCGCTGGGACAATAAACACGAAATAGAGATAAATCCACCAAAATAGTAAACAC
18928750 AAA
66 AAA
* *
18928753 ATAGAGATAAGTCCGCTGGGACAATAAACACGAAATATATATAAATCCACCAAAATAGTA
1 ATAGAGATAAGTCCGCTGGGACAATAAACACGAAATAGAGATAAATCCACCAAAATAGTA
18928813 GATATGGAAC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 51 1.00
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (68 bp):
ATAGAGATAAGTCCGCTGGGACAATAAACACGAAATAGAGATAAATCCACCAAAATAGTAAACAC
AAA
Found at i:18930907 original size:18 final size:18
Alignment explanation
Indices: 18930884--18930923 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
18930874 AAATCAAGAT
* *
18930884 AATGATTTTGAAATGGCA
1 AATGATATTGAAATAGCA
18930902 AATGATATTGAAATAGCA
1 AATGATATTGAAATAGCA
18930920 AATG
1 AATG
18930924 TTATGGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (18 bp):
AATGATATTGAAATAGCA
Found at i:18932145 original size:18 final size:17
Alignment explanation
Indices: 18932100--18932145 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
18932090 AATGCCAAAA
18932100 TGGTATCGATATTTATT
1 TGGTATCGATATTTATT
18932117 TGGTATCGATATTTATT
1 TGGTATCGATATTTATT
*
18932134 TGAGTATTGATA
1 TG-GTATCGATA
18932146 CTTTTTCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.26, C:0.04, G:0.20, T:0.50
Consensus pattern (17 bp):
TGGTATCGATATTTATT
Found at i:18933349 original size:36 final size:36
Alignment explanation
Indices: 18933309--18933380 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
18933299 ATGACAATTC
*
18933309 TTTTCT-TTCTATTA-TATTAGTATTTTCTATTCTATT
1 TTTTCTATTCTATTAGTATTAG-A-TTACTATTCTATT
18933345 TTTTCTATTCTATTAGTATTAGATTACTATTCTATT
1 TTTTCTATTCTATTAGTATTAGATTACTATTCTATT
18933381 CTATTATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 18 0.55
37 9 0.27
38 6 0.18
ACGTcount: A:0.22, C:0.11, G:0.04, T:0.62
Consensus pattern (36 bp):
TTTTCTATTCTATTAGTATTAGATTACTATTCTATT
Found at i:18933350 original size:14 final size:14
Alignment explanation
Indices: 18933331--18933358 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18933321 TATATTAGTA
18933331 TTTTCTATTCTATT
1 TTTTCTATTCTATT
18933345 TTTTCTATTCTATT
1 TTTTCTATTCTATT
18933359 AGTATTAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:18933366 original size:6 final size:6
Alignment explanation
Indices: 18933355--18933425 Score: 50
Period size: 5 Copynumber: 13.2 Consensus size: 6
18933345 TTTTCTATTC
* * * *
18933355 TATTAG TATTAG -ATTAC TATT-C TATT-C TATTAT TATTAG TATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
18933400 --TTAG -ATTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG T
18933426 TAGTGATCCC
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
4 4 0.07
5 28 0.48
6 26 0.45
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (6 bp):
TATTAG
Found at i:18936453 original size:15 final size:15
Alignment explanation
Indices: 18936433--18936463 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18936423 ATGATTATAT
18936433 TTTTAGAATATTTTA
1 TTTTAGAATATTTTA
*
18936448 TTTTAGAATGTTTTA
1 TTTTAGAATATTTTA
18936463 T
1 T
18936464 AGTCGTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (15 bp):
TTTTAGAATATTTTA
Found at i:18936776 original size:26 final size:27
Alignment explanation
Indices: 18936714--18936777 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
18936704 TTTATCGAGG
* * *
18936714 TTATTAGTGTATCGATAAATGAATATT
1 TTATTAATTTATCGATAAATGAATACT
*
18936741 TTATTAATTTATCGATAAATTAAT-CT
1 TTATTAATTTATCGATAAATGAATACT
18936767 TTATTAATTTA
1 TTATTAATTTA
18936778 GAGAATATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 12 0.36
27 21 0.64
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.50
Consensus pattern (27 bp):
TTATTAATTTATCGATAAATGAATACT
Found at i:18938017 original size:15 final size:15
Alignment explanation
Indices: 18937997--18938025 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18937987 TAACCAAGAT
18937997 TATTAATTTATCGAA
1 TATTAATTTATCGAA
18938012 TATTAATTTATCGA
1 TATTAATTTATCGA
18938026 GGTTTTACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (15 bp):
TATTAATTTATCGAA
Found at i:18939066 original size:25 final size:26
Alignment explanation
Indices: 18939025--18939075 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
18939015 AGTTGTAGAG
18939025 AGAAAATTCTCTAAAGAGATTATTTT
1 AGAAAATTCTCTAAAGAGATTATTTT
* *
18939051 AGAAAATT-TCTAAAGATATTTTTTT
1 AGAAAATTCTCTAAAGAGATTATTTT
18939076 GATTTACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGAGATTATTTT
Found at i:18940512 original size:58 final size:58
Alignment explanation
Indices: 18940411--18940586 Score: 185
Period size: 58 Copynumber: 3.0 Consensus size: 58
18940401 GTAAGATAAA
* * * *
18940411 CCTTAGCGGGCTTCGCAACACTAGATAGTCTTAACGAACATCCTCTTCATTTTTTAGT
1 CCTTAGCGGGCTTCCCAACACTAGATAGTCCTAACGGACATCCTCTTCATTTGTTAGT
* * * *
18940469 CCTTGGCGGGCTTCCCAACACTAGATAGTCCTAACGGATATCCTTCTT-ATTCGATAGT
1 CCTTAGCGGGCTTCCCAACACTAGATAGTCCTAACGGACATCC-TCTTCATTTGTTAGT
* *** * * *
18940527 CTTTAGCGTATTTCCCAACACTAAATATTCCT-ACTAGACATCCTCTTCATTTGTTAGT
1 CCTTAGCGGGCTTCCCAACACTAGATAGTCCTAAC-GGACATCCTCTTCATTTGTTAGT
18940585 CC
1 CC
18940587 CTGGCAAACT
Statistics
Matches: 95, Mismatches: 20, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
57 6 0.06
58 85 0.89
59 4 0.04
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (58 bp):
CCTTAGCGGGCTTCCCAACACTAGATAGTCCTAACGGACATCCTCTTCATTTGTTAGT
Found at i:18941155 original size:35 final size:35
Alignment explanation
Indices: 18941087--18941162 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
18941077 GATAAGTAAT
* ** *
18941087 TAGACCATTTTCATGGTGTCACTCCGCAAAGCCAA
1 TAGATCATTTTCATCATGTCACTCCACAAAGCCAA
* * *
18941122 TAGATCATTTTCATCATGTCACTCCATAGAGCCAG
1 TAGATCATTTTCATCATGTCACTCCACAAAGCCAA
18941157 TAGATC
1 TAGATC
18941163 GTTTCCACGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (35 bp):
TAGATCATTTTCATCATGTCACTCCACAAAGCCAA
Found at i:18944211 original size:38 final size:38
Alignment explanation
Indices: 18944169--18944348 Score: 118
Period size: 38 Copynumber: 4.8 Consensus size: 38
18944159 GTGAAAGGGA
*
18944169 TCAACTGGTCCTTCAGGGCAACACCGTGATAGCAGTAT
1 TCAACTGGTCCTTCAGGGAAACACCGTGATAGCAGTAT
* ** **
18944207 TCAACTGGTCCTTC-GAGGCAACACCGTGACGGTGGTAT
1 TCAACTGGTCCTTCAG-GGAAACACCGTGATAGCAGTAT
* * * ** * *
18944245 TCAACTAGTCTTTCAAGGTGACACTGTGA-CGACAGTAT
1 TCAACTGGTCCTTCAGGGAAACACCGTGATAG-CAGTAT
* ** * *
18944283 TCGACT-GTCCTTC-GAGGAAACACTATGATAACGGTATT
1 TCAACTGGTCCTTCAG-GGAAACACCGTGATAGCAGTA-T
*
18944321 TGAA-TGGTCCTTCAGGGAAACACCGTGA
1 TCAACTGGTCCTTCAGGGAAACACCGTGA
18944349 CAACGATATT
Statistics
Matches: 108, Mismatches: 26, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
37 23 0.21
38 84 0.78
39 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (38 bp):
TCAACTGGTCCTTCAGGGAAACACCGTGATAGCAGTAT
Found at i:18952101 original size:12 final size:12
Alignment explanation
Indices: 18952084--18952109 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18952074 ATAAAGCTTT
18952084 AATTAAGTAGTA
1 AATTAAGTAGTA
18952096 AATTAAGTAGTA
1 AATTAAGTAGTA
18952108 AA
1 AA
18952110 ATATGTACCA
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:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (12 bp):
AATTAAGTAGTA
Found at i:18953306 original size:28 final size:25
Alignment explanation
Indices: 18953234--18953306 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 25
18953224 TATATTATGT
* *
18953234 AATTTATATTATATGAAAATTAAAT
1 AATTTATATTATATTAAAATTAAAA
*
18953259 AATTTATATTATGTTATAAACATTAAAA
1 AATTTATATTAT-AT-TAAA-ATTAAAA
18953287 AATTTAATACTTATATTAAA
1 AATTT-ATA-TTATATTAAA
18953307 GTACTTTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 12 0.31
26 1 0.03
27 3 0.08
28 15 0.38
29 4 0.10
30 4 0.10
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (25 bp):
AATTTATATTATATTAAAATTAAAA
Found at i:18953742 original size:3 final size:3
Alignment explanation
Indices: 18953723--18953769 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
18953713 TAATGGTTAG
* *
18953723 ATA ATA AAA ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18953770 TGGACGATCC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:18953910 original size:17 final size:17
Alignment explanation
Indices: 18953888--18953921 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
18953878 TAATGATACC
*
18953888 ATACATGAGCCTTGCCT
1 ATACATGAACCTTGCCT
18953905 ATACATGAACCTTGCCT
1 ATACATGAACCTTGCCT
18953922 GAGTTTGGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (17 bp):
ATACATGAACCTTGCCT
Found at i:18975865 original size:15 final size:14
Alignment explanation
Indices: 18975830--18975859 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18975820 ATTTTGTTCC
18975830 AAAATTTCAAAAAT
1 AAAATTTCAAAAAT
18975844 AAAATTTCAAAAAT
1 AAAATTTCAAAAAT
18975858 AA
1 AA
18975860 TTATTTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATTTCAAAAAT
Found at i:18975979 original size:18 final size:18
Alignment explanation
Indices: 18975937--18975979 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
18975927 CTAGTTTTGA
* *
18975937 AATTATTTATTAATTTTTT
1 AATT-TTTATGAATTTTCT
*
18975956 ATTTTTTATGAATTTTCT
1 AATTTTTATGAATTTTCT
18975974 AATTTT
1 AATTTT
18975980 ATAAAACAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
AATTTTTATGAATTTTCT
Found at i:18977930 original size:17 final size:17
Alignment explanation
Indices: 18977887--18977932 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
18977877 TTTTATAATA
18977887 TTTTTAAAAAATGACAT
1 TTTTTAAAAAATGACAT
**
18977904 TTTAAAAAAAATGACAT
1 TTTTTAAAAAATGACAT
*
18977921 TTTTTTAAAAAT
1 TTTTTAAAAAAT
18977933 TTAGTTTGAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (17 bp):
TTTTTAAAAAATGACAT
Found at i:18984128 original size:20 final size:21
Alignment explanation
Indices: 18984091--18984131 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
18984081 TATATAATCA
18984091 TTATTTTCATAATCTATATAT
1 TTATTTTCATAATCTATATAT
18984112 TTATTTT-ATAA-CTTATATAT
1 TTATTTTCATAATC-TATATAT
18984132 GTACATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.05
20 11 0.58
21 7 0.37
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTTTCATAATCTATATAT
Found at i:18996619 original size:45 final size:44
Alignment explanation
Indices: 18996537--18996966 Score: 333
Period size: 45 Copynumber: 9.7 Consensus size: 44
18996527 GGATTGGAGT
* *
18996537 AAGCAAGTCTAATC-CTCCTGAAGTTGTAGT-GAGGCAGACTGAAGA
1 AAGCAAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA
** * * * *
18996582 TGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCC
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-A
* * * * *
18996628 AA-TAA-TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAG-
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGA
** * * *
18996669 GTG-ATAGATCTTATCTCTCTGAAGTTGCAGTAGG-GTAGA-T--CA
1 AAGCA-AG-TCTTATCTCCCTGAAGTTGCAGT-GGAGCAGACTAAGA
* * *
18996711 CATCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGA
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGA
* * * * *
18996756 AAGCAGGTCTTATCTCCCTGAGGTTGCAATGGAGTAGGCCTAAGA
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA-GACTAAGA
* * *
18996801 AAGCAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACCCAAAA
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGA
* * * * * *
18996846 AAGCGATTTTTATCTCCCTAAAGTTACAGTAGAGCAGACTAAGA
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGA
*
18996890 AAGCAAGTCTTATCTCCCT-AAGGTTGTAGTGGAGCAGACTCAAGA
1 AAGCAAGTCTTATCTCCCTGAA-GTTGCAGTGGAGCAGACT-AAGA
*
18996935 AAGCAAGTCTTATCTCCCTAAAGTTGCAGTGG
1 AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGG
18996967 TGTAATGACC
Statistics
Matches: 306, Mismatches: 59, Indels: 40
0.76 0.15 0.10
Matches are distributed among these distances:
40 2 0.01
41 27 0.09
42 3 0.01
43 7 0.02
44 88 0.29
45 171 0.56
46 8 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
AAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGA
Found at i:18996684 original size:44 final size:44
Alignment explanation
Indices: 18996587--18996748 Score: 145
Period size: 44 Copynumber: 3.8 Consensus size: 44
18996577 GAAGATGGCA
*
18996587 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * ***
18996631 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAGGTGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * * *
18996674 AGATCTTATCTCTCTGAAGTTGCAGTAGG-GTAGATCACA-TC-A-
1 A-ATCTTATCTCCCTGAAGTTGCAGT-GGAGCAGATTAAAGCCAAT
**
18996716 GGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
18996749 CTCAAGAAAG
Statistics
Matches: 94, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
40 2 0.02
41 26 0.28
43 7 0.07
44 56 0.60
45 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:18996914 original size:134 final size:135
Alignment explanation
Indices: 18996720--18996966 Score: 372
Period size: 134 Copynumber: 1.8 Consensus size: 135
18996710 ACATCAGGTC
* * * * *
18996720 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAGGTCTTATCTCCCTGAGGTTGCAA
1 TTATCTCCCTAAAGTTACAGTAGAGCAGACTCAAGAAAGCAAGTCTTATCTCCCTAAGGTTGCAA
* * * *
18996785 TGGAGTAGGC-CTAAGAAAGCAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACCCAAAAAAG
66 TGGAGCAGACTC-AAGAAAGCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCCAAAAAAG
18996849 CGATTT
130 CGATTT
* *
18996855 TTATCTCCCTAAAGTTACAGTAGAGCAGACT-AAGAAAGCAAGTCTTATCTCCCTAAGGTTGTAG
1 TTATCTCCCTAAAGTTACAGTAGAGCAGACTCAAGAAAGCAAGTCTTATCTCCCTAAGGTTGCAA
18996919 TGGAGCAGACTCAAGAAAGCAAGTCTTATCTCCCTAAAGTTGCAGTGG
66 TGGAGCAGACTCAAGAAAGCAAGTCTTATCTCCCTAAAGTTGCAGTGG
18996967 TGTAATGACC
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
134 71 0.71
135 29 0.29
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (135 bp):
TTATCTCCCTAAAGTTACAGTAGAGCAGACTCAAGAAAGCAAGTCTTATCTCCCTAAGGTTGCAA
TGGAGCAGACTCAAGAAAGCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACCCAAAAAAGC
GATTT
Found at i:18996938 original size:89 final size:89
Alignment explanation
Indices: 18996717--18996964 Score: 329
Period size: 89 Copynumber: 2.8 Consensus size: 89
18996707 ATCACATCAG
* *
18996717 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAGGTCTTATCTCCCTGAGGTTG
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-GTCTTATCTCCCTAAAGTTG
* * * *
18996782 CAATGGAGTAGGCCTAAGAAAGCAA
65 CAGTAGAGCAGGACTAAGAAAGCAA
* * * * * *
18996807 GTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACCCAAAAAAGCGATTTTTATCTCCCTAAAGTTA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGC-AGTCTTATCTCCCTAAAGTTG
18996872 CAGTAGAGCA-GACTAAGAAAGCAA
65 CAGTAGAGCAGGACTAAGAAAGCAA
*
18996896 GTCTTATCTCCCT-AAGGTTGTAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCTCCCTAAAGTT
1 GTCTTATCTCCCTGAA-GTTGCAGTGGAGCAGACTCAAGAAAGC-AGTCTTATCTCCCTAAAGTT
18996960 GCAGT
64 GCAGT
18996965 GGTGTAATGA
Statistics
Matches: 136, Mismatches: 20, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
88 2 0.01
89 71 0.52
90 62 0.46
91 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (89 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAGTCTTATCTCCCTAAAGTTGC
AGTAGAGCAGGACTAAGAAAGCAA
Found at i:18997285 original size:11 final size:11
Alignment explanation
Indices: 18997271--18997312 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 11
18997261 TAAAAAAATG
18997271 TTATTAAATTA
1 TTATTAAATTA
18997282 TTATTAAATTAGTA
1 TTATTAAA-T--TA
18997296 TTATTAAATTA
1 TTATTAAATTA
18997307 TTATTA
1 TTATTA
18997313 TATTTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 16 0.57
12 1 0.04
13 1 0.04
14 10 0.36
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (11 bp):
TTATTAAATTA
Found at i:18997288 original size:25 final size:25
Alignment explanation
Indices: 18997260--18997312 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
18997250 TTTTTATGTG
*
18997260 TTAAAAAAATGTTATTAAATTATTA
1 TTAAAAAAATATTATTAAATTATTA
** *
18997285 TTAAATTAGTATTATTAAATTATTA
1 TTAAAAAAATATTATTAAATTATTA
18997310 TTA
1 TTA
18997313 TATTTTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (25 bp):
TTAAAAAAATATTATTAAATTATTA
Found at i:18997297 original size:14 final size:14
Alignment explanation
Indices: 18997280--18997313 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
18997270 GTTATTAAAT
18997280 TATTATTAAATTAG
1 TATTATTAAATTAG
*
18997294 TATTATTAAATTAT
1 TATTATTAAATTAG
18997308 TATTAT
1 TATTAT
18997314 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TATTATTAAATTAG
Found at i:18997448 original size:3 final size:3
Alignment explanation
Indices: 18997442--18997467 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18997432 TATTAAAATA
18997442 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
18997468 ACTAGGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:18998661 original size:23 final size:22
Alignment explanation
Indices: 18998634--18998718 Score: 95
Period size: 21 Copynumber: 4.0 Consensus size: 22
18998624 GGCTTTGCCG
* *
18998634 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGT-T
*
18998657 ATCAGGCACCTCGTGTGTCG-T
1 ATCAGGCACCTCATGTGTCGTT
*
18998678 ATCAGGCACCTCGTGTGTCGTT
1 ATCAGGCACCTCATGTGTCGTT
*
18998700 -TCAGGCA-CTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
18998719 ATACTGATCA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.18
21 28 0.50
22 1 0.02
23 17 0.30
ACGTcount: A:0.16, C:0.24, G:0.26, T:0.34
Consensus pattern (22 bp):
ATCAGGCACCTCATGTGTCGTT
Found at i:18998680 original size:21 final size:21
Alignment explanation
Indices: 18998647--18998720 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
18998637 AGGCACTTTA
18998647 TGTGTCGTATATCAGGCACCTCG
1 TGTGTCG--TATCAGGCACCTCG
18998670 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* **
18998691 TGTGTCGTTTCAGGCA-CTTA
1 TGTGTCGTATCAGGCACCTCG
18998711 TGTGTCGTAT
1 TGTGTCGTAT
18998721 ACTGATCAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
20 11 0.23
21 29 0.62
23 7 0.15
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:19006219 original size:20 final size:21
Alignment explanation
Indices: 19006182--19006222 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
19006172 TATATAATCA
19006182 TTATTTTCATAATCTATATAT
1 TTATTTTCATAATCTATATAT
19006203 TTATTTT-ATAA-CTTATATAT
1 TTATTTTCATAATC-TATATAT
19006223 GTACATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.05
20 11 0.58
21 7 0.37
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTTTCATAATCTATATAT
Found at i:19008607 original size:16 final size:16
Alignment explanation
Indices: 19008574--19008619 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
19008564 AATTCAAATC
19008574 TAAA-TTTAAATTAATT
1 TAAATTTTAAA-TAATT
19008590 TAAATTTTAAAT-ATT
1 TAAATTTTAAATAATT
*
19008605 TTAATTTTCAAATAA
1 TAAATTTT-AAATAA
19008620 AAAATTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 10 0.38
16 9 0.35
17 7 0.27
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAATTTTAAATAATT
Found at i:19016834 original size:44 final size:44
Alignment explanation
Indices: 19016760--19016898 Score: 135
Period size: 45 Copynumber: 3.2 Consensus size: 44
19016750 CATTGGAATA
* * *
19016760 ATAA-CAA-ATACACGGTGG-ATCAGAACATAGC-ATCACCCTT-
1 ATAATCAATATACTCGGTGGAATCAGCACATAGCAACCA-CCTTC
* *
19016800 ATAGTCAATGATACTCGGTGGAATTAGCACATAGCAACCACCTTC
1 ATAATCAAT-ATACTCGGTGGAATCAGCACATAGCAACCACCTTC
* * * *
19016845 ATAATCAATAGTACTCGGTGGAATCAGCACACAACAACCACTTTT
1 ATAATCAATA-TACTCGGTGGAATCAGCACATAGCAACCACCTTC
19016890 ATAATCAAT
1 ATAATCAAT
19016899 GGTACCCGGT
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
40 3 0.04
41 3 0.04
43 10 0.12
44 16 0.20
45 49 0.60
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (44 bp):
ATAATCAATATACTCGGTGGAATCAGCACATAGCAACCACCTTC
Found at i:19016860 original size:45 final size:45
Alignment explanation
Indices: 19016811--19016908 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 45
19016801 TAGTCAATGA
* * *
19016811 TACTCGGTGGAATTAGCACATAGCAACCACCTTCATAATCAATAG
1 TACTCGGTGGAATCAGCACACAACAACCACCTTCATAATCAATAG
* * *
19016856 TACTCGGTGGAATCAGCACACAACAACCACTTTTATAATCAATGG
1 TACTCGGTGGAATCAGCACACAACAACCACCTTCATAATCAATAG
*
19016901 TACCCGGT
1 TACTCGGT
19016909 ACACGTAGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (45 bp):
TACTCGGTGGAATCAGCACACAACAACCACCTTCATAATCAATAG
Found at i:19024227 original size:33 final size:33
Alignment explanation
Indices: 19024190--19024260 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
19024180 GAAGTCCAAG
19024190 GAGCTTGCTCTTGAAGCCTCCAAGAAA-GCCGAT
1 GAGCTTGCTCTTGAAGCCTCCAA-AAAGGCCGAT
*
19024223 GAGCTTGCTCTTGAAGCTTCCAAAAAGGCCGAT
1 GAGCTTGCTCTTGAAGCCTCCAAAAAGGCCGAT
19024256 GAGCT
1 GAGCT
19024261 CAAAGTCGCC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 3 0.08
33 33 0.92
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (33 bp):
GAGCTTGCTCTTGAAGCCTCCAAAAAGGCCGAT
Found at i:19025704 original size:6 final size:6
Alignment explanation
Indices: 19025693--19025728 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
19025683 ATTATTCAGA
19025693 TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG
1 TGATGG TGATGG TGATGG TGATGG TGATGG TGATGG
19025729 GAGCTTTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (6 bp):
TGATGG
Found at i:19026764 original size:27 final size:27
Alignment explanation
Indices: 19026732--19026799 Score: 136
Period size: 27 Copynumber: 2.5 Consensus size: 27
19026722 CCAAGAAATT
19026732 GAATGATCGGGGTCTTTTACAAGAAGA
1 GAATGATCGGGGTCTTTTACAAGAAGA
19026759 GAATGATCGGGGTCTTTTACAAGAAGA
1 GAATGATCGGGGTCTTTTACAAGAAGA
19026786 GAATGATCGGGGTC
1 GAATGATCGGGGTC
19026800 ACCTTCATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.25
Consensus pattern (27 bp):
GAATGATCGGGGTCTTTTACAAGAAGA
Found at i:19045483 original size:28 final size:28
Alignment explanation
Indices: 19045451--19045507 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
19045441 CATATTCGCT
19045451 TACATCTATTGTCAAAAGAGTCATTTAA
1 TACATCTATTGTCAAAAGAGTCATTTAA
*
19045479 TACATCTATTGTCAAAAGCGTCATTTAA
1 TACATCTATTGTCAAAAGAGTCATTTAA
19045507 T
1 T
19045508 TAATTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (28 bp):
TACATCTATTGTCAAAAGAGTCATTTAA
Found at i:19048767 original size:63 final size:63
Alignment explanation
Indices: 19048674--19048842 Score: 214
Period size: 63 Copynumber: 2.7 Consensus size: 63
19048664 GACTCATTGC
* *
19048674 TTGCCACTATAGATCACATGAGCTAGAGACACGGGCGTGTGTCCAGGTCGTGTGACTT-ACGGT
1 TTGCCACTATAGATCACATGAGCCAGAGACACGGGCGTGTGTCCAGGTCGTATGA-TTCACGGT
* * * * *
19048737 TTGCCACTATTGATCACATGGGCCAAAGACACGGGCGTGTGTCCAGGTTGTATGATTCACTGT
1 TTGCCACTATAGATCACATGAGCCAGAGACACGGGCGTGTGTCCAGGTCGTATGATTCACGGT
* * * * *
19048800 TGGCCACTATAAATCATACGAGCCAGAGACACAGGCGTGTGTC
1 TTGCCACTATAGATCACATGAGCCAGAGACACGGGCGTGTGTC
19048843 TAGGCAGTGT
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
62 2 0.02
63 88 0.98
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (63 bp):
TTGCCACTATAGATCACATGAGCCAGAGACACGGGCGTGTGTCCAGGTCGTATGATTCACGGT
Found at i:19048862 original size:63 final size:62
Alignment explanation
Indices: 19048676--19048863 Score: 189
Period size: 63 Copynumber: 3.0 Consensus size: 62
19048666 CTCATTGCTT
* * * * *
19048676 GCCACTATAGATCACATGAGCTAGAGACACGGGCGTGTGTCCAGGTCGTGTGACTTACGGTTT
1 GCCACTATAGATCACATGAGCCAGAGACACGGGCGTGTGTCCAGG-CGTGTAACATACTGTTG
* * * * **
19048739 GCCACTATTGATCACATGGGCCAAAGACACGGGCGTGTGTCCAGG-TTGTATGATTCACTGTTG
1 GCCACTATAGATCACATGAGCCAGAGACACGGGCGTGTGTCCAGGCGTGTAACA-T-ACTGTTG
* * * * *
19048802 GCCACTATAAATCATACGAGCCAGAGACACAGGCGTGTGTCTAGGCAGTGTAACATACTGTT
1 GCCACTATAGATCACATGAGCCAGAGACACGGGCGTGTGTCCAGGC-GTGTAACATACTGTT
19048864 TGTACATTAG
Statistics
Matches: 99, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
61 3 0.03
62 1 0.01
63 89 0.90
64 1 0.01
65 5 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (62 bp):
GCCACTATAGATCACATGAGCCAGAGACACGGGCGTGTGTCCAGGCGTGTAACATACTGTTG
Found at i:19050107 original size:23 final size:24
Alignment explanation
Indices: 19050080--19050125 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
19050070 AGCTTGTTTT
*
19050080 TTTAATATTT-ATGTTATA-AAATA
1 TTTAAT-TTTGATGTGATATAAATA
19050103 TTTAATTTTGATGTGATATAAAT
1 TTTAATTTTGATGTGATATAAAT
19050126 GACATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 13 0.65
24 4 0.20
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (24 bp):
TTTAATTTTGATGTGATATAAATA
Found at i:19050640 original size:10 final size:10
Alignment explanation
Indices: 19050611--19050643 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
19050601 GCGAATTAAT
19050611 TTTCTTATGA
1 TTTCTTATGA
*
19050621 TATC-TATGA
1 TTTCTTATGA
19050630 TTTCTTATGA
1 TTTCTTATGA
19050640 TTTC
1 TTTC
19050644 AGAATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (10 bp):
TTTCTTATGA
Found at i:19050786 original size:13 final size:13
Alignment explanation
Indices: 19050751--19050788 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
19050741 GATATATTTG
*
19050751 TAATTTGAAAGCT
1 TAATTTGAAAACT
19050764 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
19050778 TAATTTGAAAA
1 TAATTTGAAAA
19050789 TTTGGAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:19050826 original size:29 final size:27
Alignment explanation
Indices: 19050752--19050826 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 27
19050742 ATATATTTGT
* * * *
19050752 AATTTGAAAGCTTAAGTTTGAAAACTT
1 AATTTGAAAACTTAAATTTAAAAACTA
*
19050779 AATTTGAAAATTTGGAAATTTAAAAACTA
1 AATTTGAAAACTT--AAATTTAAAAACTA
19050808 AATTTTTGAAAACTTAAAT
1 AA--TTTGAAAACTTAAAT
19050827 GTCTTGAGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
27 11 0.29
29 17 0.45
31 10 0.26
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (27 bp):
AATTTGAAAACTTAAATTTAAAAACTA
Found at i:19051089 original size:35 final size:34
Alignment explanation
Indices: 19051045--19051308 Score: 306
Period size: 35 Copynumber: 7.8 Consensus size: 34
19051035 TTCACTTGTC
* * *
19051045 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-CATTA
* *
19051080 TTCTGTTGCAGGGAATCTTTCCTGTTCA-CA-TA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACCATTA
* * * *
19051112 ATTTCTTGCATGGAATCTCTCCTGTTCATACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA-CCATTA
19051147 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-CATTA
* *
19051182 TTTTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACCATTA
* *
19051215 -TTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-CATTA
19051249 TTTTGTTGCAGGGAATCTCTCCTGTTCA-CA-TA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACCATTA
* * *
19051281 ATTTCTTGTAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA
19051309 TGTATTATTT
Statistics
Matches: 199, Mismatches: 23, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
32 76 0.38
33 8 0.04
34 6 0.03
35 109 0.55
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (34 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACCATTA
Found at i:19051229 original size:102 final size:102
Alignment explanation
Indices: 19051045--19051308 Score: 381
Period size: 102 Copynumber: 2.6 Consensus size: 102
19051035 TTCACTTGTC
* * * * *
19051045 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
* * *
19051110 TAATTTCTTGCATGGAATCTCTCCTGTTCATACATTA
66 TAATTTCTTGCAGGGAATCTCTCATGTTCACACATTA
19051147 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
* *
19051212 TCATTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
66 TAATTTCTTGCAGGGAATCTCTCATGTTCACACATTA
* * * *
19051249 TTTTGTTGCAGGGAATCTCTCCTGTT--CACA-TAATTTCTTGTAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCA
19051309 TGTATTATTT
Statistics
Matches: 148, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
99 26 0.18
100 4 0.03
102 118 0.80
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
TAATTTCTTGCAGGGAATCTCTCATGTTCACACATTA
Found at i:19051316 original size:67 final size:67
Alignment explanation
Indices: 19051045--19051318 Score: 311
Period size: 67 Copynumber: 4.0 Consensus size: 67
19051035 TTCACTTGTC
* * * * *
19051045 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCA--
1 TTTTCTTGCAGGGAATCTCTCCTGTTCA--CATAATT-TCTTGCAGGGAATCTCTCCTGTTCACG
19051108 CA-TA
63 CATTA
* * * * *
19051112 ATTTCTTGCATGGAATCTCTCCTGTTCATACATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTC--ACA-TAATTTCTTGCAGGGAATCTCTCCTGTTCACG
19051177 CATTA
63 CATTA
* * * *
19051182 TTTTGTTGCAGGGAATCTTTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCATGTTCACGCAT
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACATAATTTCTTGCAGGGAATCTCTCCTGTTCACGCAT
19051247 TA
66 TA
* * * *
19051249 TTTTGTTGCAGGGAATCTCTCCTGTTCACATAATTTCTTGTAGGGAATCTCTCCTGTTCATGTAT
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACATAATTTCTTGCAGGGAATCTCTCCTGTTCACGCAT
19051314 TA
66 TA
19051316 TTT
1 TTT
19051319 CTTTTTGGAC
Statistics
Matches: 179, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
67 145 0.81
68 6 0.03
69 3 0.02
70 25 0.14
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.42
Consensus pattern (67 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACATAATTTCTTGCAGGGAATCTCTCCTGTTCACGCAT
TA
Found at i:19054148 original size:20 final size:23
Alignment explanation
Indices: 19054113--19054157 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
19054103 AAGCAAATCA
19054113 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTATTTCTTTTTTGTAT
19054135 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTCTTTTTTGTAT
19054156 TT
1 TT
19054158 TTCTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (23 bp):
TTGATTCTATTTCTTTTTTGTAT
Found at i:19054167 original size:21 final size:21
Alignment explanation
Indices: 19054117--19054168 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
19054107 AAATCATTGA
*
19054117 TTCTATTTCTTTTTTGATTTG
1 TTCTTTTTCTTTTTTGATTTG
* *
19054138 ATC-TATTCTTTTTTGTATTT-
1 TTCTTTTTCTTTTTTG-ATTTG
19054158 TTCTTTTTCTT
1 TTCTTTTTCTT
19054169 AATTGTTCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.10, C:0.12, G:0.06, T:0.73
Consensus pattern (21 bp):
TTCTTTTTCTTTTTTGATTTG
Found at i:19065772 original size:232 final size:238
Alignment explanation
Indices: 19065455--19065890 Score: 616
Period size: 232 Copynumber: 1.8 Consensus size: 238
19065445 GGCGTTTTGT
* * *
19065455 TTAAAGCGCCGCAAAATATCTTTACTAAAACGCGTAGTTTTAATTTTGATGTATACTAATATTAG
1 TTAAAACGCCGCAAAATATCTTAACTAAAACGCATAGTTTTAATTTT-ATGTATA-TAATATTAG
* * *
19065520 TGACGCTTACAAGAAAACGCCGTTAAAGAATATCTTTAGCGGCGATTTAGACGAAGCGCCGCAAC
64 TGACGCTTACAAGAAAACGCCGTTAAAGAATAGCATTAGCGGCGATTTAGACGAAGCGCCGCAAA
* * * * * *
19065585 TTA-TCTTAAGAAAACGCAGTGTTTGGTCTTAAGCCATGTTACATTTAGTGGCGCTTATGGGAAA
129 GTACT-TTAACAAAACGCAGTGTTTCGTCTGAAGCCATGTTACATTTAGTGGCGCTTATAGCAAA
19065649 ACGCCGCAAAAAATCTCGATGTATACTTCAATTAGTGGCGCTGATG
193 ACGCCGCAAAAAATCTCGATGTATACTTCAATTAGTGGCGCTGATG
*
19065695 TTAAAACGCCGCAAAATA-CTTAACTAAAATGCATAGTTTTAA-TTT-TG-AT-T-ATATTAGTG
1 TTAAAACGCCGCAAAATATCTTAACTAAAACGCATAGTTTTAATTTTATGTATATAATATTAGTG
* * * * *
19065754 GCGCTTACTAGAAAACGCCGTTATAGAATAGCATTAGCGGCGCTTTAGCCGAAGCGCCGCAAAGT
66 ACGCTTACAAGAAAACGCCGTTAAAGAATAGCATTAGCGGCGATTTAGACGAAGCGCCGCAAAGT
**
19065819 ACTTTAACAAAACGCAGTGTTTCGTCTGAAGTTATGTTACATTTAGTGGCGCTTATAGCAAAACG
131 ACTTTAACAAAACGCAGTGTTTCGTCTGAAGCCATGTTACATTTAGTGGCGCTTATAGCAAAACG
19065884 CCGCAAA
196 CCGCAAA
19065891 CTATCTGAAC
Statistics
Matches: 175, Mismatches: 20, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
232 128 0.73
233 2 0.01
235 2 0.01
236 2 0.01
238 3 0.02
239 21 0.12
240 17 0.10
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (238 bp):
TTAAAACGCCGCAAAATATCTTAACTAAAACGCATAGTTTTAATTTTATGTATATAATATTAGTG
ACGCTTACAAGAAAACGCCGTTAAAGAATAGCATTAGCGGCGATTTAGACGAAGCGCCGCAAAGT
ACTTTAACAAAACGCAGTGTTTCGTCTGAAGCCATGTTACATTTAGTGGCGCTTATAGCAAAACG
CCGCAAAAAATCTCGATGTATACTTCAATTAGTGGCGCTGATG
Found at i:19066151 original size:189 final size:189
Alignment explanation
Indices: 19065747--19066139 Score: 596
Period size: 189 Copynumber: 2.1 Consensus size: 189
19065737 TTTTGATTAT
* *
19065747 ATTAGTGGCGCTTACTAGAAAACGCCGTTATAGAATAGCATTAGCGGCGCTTTAGCCGAAGCGCC
1 ATTAGTGGCGCTTACTAGAAAACGCCGTTAAAGAATAGCATTAGCGGCGCTTTAGCCAAAGCGCC
*
19065812 GCAAAGTACTTTAACAAAACGCAGTGTTTCGTCTGAAGTTATGTTACATTTAGTGGCGCTTATAG
66 GCAAAGTACTTTAACAAAACGCAGTGTTTCGTCTGAAGCTATGTTACATTTAGTGGCGCTTATAG
*
19065877 CAAAACGCCGCAAACTATCTGAACCAAAACGCACCATTTTGGTCTCGATGTATACTTCA
131 CAAAACGCCGCAAAATATCTGAACCAAAACGCACCATTTTGGTCTCGATGTATACTTCA
* * **
19065936 ATTAGTGGCGCTTACTAGAAAACGCCGTTAAAGAATA-TATTTAGCGGCGCTTTGGGTAAAGCGC
1 ATTAGTGGCGCTTACTAGAAAACGCCGTTAAAGAATAGCA-TTAGCGGCGCTTTAGCCAAAGCGC
* * * *
19066000 CGCAACGTA-TCTTAACAAAACGTAGTGGTTT-GTTTTAAGCTATGTTACATTTAGTGGCGCTTA
65 CGCAAAGTACT-TTAACAAAACGCAGT-GTTTCGTCTGAAGCTATGTTACATTTAGTGGCGCTTA
* *
19066063 TATG-AAAACGCCGCAAAATATCTGAACCAAAACGCACCGTTTTGGTCTCGATGTATACTTTA
128 TA-GCAAAACGCCGCAAAATATCTGAACCAAAACGCACCATTTTGGTCTCGATGTATACTTCA
19066125 ATTAGTGGCGCTTAC
1 ATTAGTGGCGCTTAC
19066140 GTTCAAACGC
Statistics
Matches: 186, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
188 2 0.01
189 179 0.96
190 5 0.03
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (189 bp):
ATTAGTGGCGCTTACTAGAAAACGCCGTTAAAGAATAGCATTAGCGGCGCTTTAGCCAAAGCGCC
GCAAAGTACTTTAACAAAACGCAGTGTTTCGTCTGAAGCTATGTTACATTTAGTGGCGCTTATAG
CAAAACGCCGCAAAATATCTGAACCAAAACGCACCATTTTGGTCTCGATGTATACTTCA
Found at i:19066756 original size:21 final size:21
Alignment explanation
Indices: 19066738--19066792 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
19066728 TAAGGTTTGT
19066738 AGTTTAGGGTTTAAAGTTTAA
1 AGTTTAGGGTTTAAAGTTTAA
* *
19066759 AGGTTACGGGTTTAAAGTATAA
1 AGTTTA-GGGTTTAAAGTTTAA
*
19066781 AGGTTACGGGTT
1 AGTTTA-GGGTT
19066793 AAACTTAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.31, C:0.04, G:0.29, T:0.36
Consensus pattern (21 bp):
AGTTTAGGGTTTAAAGTTTAA
Found at i:19066769 original size:22 final size:22
Alignment explanation
Indices: 19066744--19066792 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
19066734 TTGTAGTTTA
*
19066744 GGGTTTAAAGTTTAAAGGTTAC
1 GGGTTTAAAGTATAAAGGTTAC
19066766 GGGTTTAAAGTATAAAGGTTAC
1 GGGTTTAAAGTATAAAGGTTAC
19066788 GGGTT
1 GGGTT
19066793 AAACTTAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.35
Consensus pattern (22 bp):
GGGTTTAAAGTATAAAGGTTAC
Found at i:19068696 original size:28 final size:28
Alignment explanation
Indices: 19068633--19068870 Score: 388
Period size: 28 Copynumber: 8.5 Consensus size: 28
19068623 ATATTAAGTC
* *
19068633 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19068660 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
19068688 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19068716 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19068744 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19068772 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
19068800 CACACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
19068828 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
19068856 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19068871 GTACAATTTA
Statistics
Matches: 203, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
27 22 0.11
28 181 0.89
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:19070906 original size:24 final size:24
Alignment explanation
Indices: 19070863--19070916 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
19070853 TTCATTCCCT
*
19070863 AATTTCCCATTTCATATTCCCCCC
1 AATTCCCCATTTCATATTCCCCCC
19070887 AATTCCCCGATTTCAT-TTCCCCCC
1 AATTCCCC-ATTTCATATTCCCCCC
19070911 AATTCC
1 AATTCC
19070917 TATTCCCCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.20, C:0.43, G:0.02, T:0.35
Consensus pattern (24 bp):
AATTCCCCATTTCATATTCCCCCC
Found at i:19071574 original size:23 final size:24
Alignment explanation
Indices: 19071548--19071592 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
19071538 ATTTAAATCA
19071548 GTGTT-GCGTATTT-TATAGATTGG
1 GTGTTCGCGTATTTGT-TAGATTGG
*
19071571 GTGTTCTCGTATTTGTTAGATT
1 GTGTTCGCGTATTTGTTAGATT
19071593 TTTTATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 13 0.68
25 1 0.05
ACGTcount: A:0.16, C:0.07, G:0.27, T:0.51
Consensus pattern (24 bp):
GTGTTCGCGTATTTGTTAGATTGG
Found at i:19072329 original size:15 final size:15
Alignment explanation
Indices: 19072305--19072337 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
19072295 AAGGTTTCTA
*
19072305 TATTAGTATTAAATT
1 TATTACTATTAAATT
19072320 TATTACTATTAAATT
1 TATTACTATTAAATT
19072335 TAT
1 TAT
19072338 AAAAAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:19072405 original size:24 final size:24
Alignment explanation
Indices: 19072377--19072458 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 24
19072367 ATATTAGTAT
19072377 TATAAATATTGTTTTAATATAACC
1 TATAAATATTGTTTTAATATAACC
*
19072401 TATAAA-ATTTAAAAGTTTTCTAA-ATAA-T
1 TATAAATA-TT----G-TTT-TAATATAACC
19072429 TATAAATATTGTTTTAATATAACC
1 TATAAATATTGTTTTAATATAACC
19072453 TATAAA
1 TATAAA
19072459 ATTTAAAAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 20
0.68 0.03 0.29
Matches are distributed among these distances:
22 3 0.07
23 8 0.17
24 15 0.33
28 9 0.20
29 8 0.17
30 3 0.07
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (24 bp):
TATAAATATTGTTTTAATATAACC
Found at i:19072431 original size:52 final size:52
Alignment explanation
Indices: 19072375--19072500 Score: 252
Period size: 52 Copynumber: 2.4 Consensus size: 52
19072365 CTATATTAGT
19072375 ATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAGTTTTCTAAATA
1 ATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAGTTTTCTAAATA
19072427 ATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAGTTTTCTAAATA
1 ATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAGTTTTCTAAATA
19072479 ATTATAAATATTGTTTTAATAT
1 ATTATAAATATTGTTTTAATAT
19072501 CTATATAAGT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (52 bp):
ATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAGTTTTCTAAATA
Found at i:19072486 original size:21 final size:21
Alignment explanation
Indices: 19072458--19072519 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
19072448 TAACCTATAA
19072458 AATT-TAAAAGTTTTCTAAAT
1 AATTATAAAAGTTTTCTAAAT
*
19072478 AATTATAAATA-TTGTT-TTAAT
1 AATTATAAA-AGTT-TTCTAAAT
*
19072499 -ATCTATATAAGTTTTCTAAAT
1 AAT-TATAAAAGTTTTCTAAAT
19072520 TTATAAGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
20 9 0.27
21 21 0.64
22 3 0.09
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (21 bp):
AATTATAAAAGTTTTCTAAAT
Found at i:19072558 original size:15 final size:15
Alignment explanation
Indices: 19072534--19072566 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
19072524 AAGGTTTCTA
*
19072534 TATTAGTATTAAATT
1 TATTACTATTAAATT
19072549 TATTACTATTAAATT
1 TATTACTATTAAATT
19072564 TAT
1 TAT
19072567 AAATAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTACTATTAAATT
Found at i:19072641 original size:229 final size:229
Alignment explanation
Indices: 19072240--19072677 Score: 849
Period size: 229 Copynumber: 1.9 Consensus size: 229
19072230 AATGATAACA
19072240 TTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAACTTATAAGGTTTCTA
1 TTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAACTTATAAGGTTTCTA
19072305 TATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTATA
66 TATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTATA
19072370 TTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAGTTTTCTAAATAATTATAAA
131 TTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAGTTTTCTAAATAATTATAAA
19072435 TATTGTTTTAATATAACCTATAAAATTTAAAAGT
196 TATTGTTTTAATATAACCTATAAAATTTAAAAGT
*
19072469 TTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAATTTATAAGGTTTCTA
1 TTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAACTTATAAGGTTTCTA
*
19072534 TATTAGTATTAAATTTATTACTATTAAATTTATAAATAATTCTAAATATTGTTTTAATATCTATA
66 TATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTATA
*
19072599 TTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAATTTTTCTAAATAATTATAAA
131 TTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAGTTTTCTAAATAATTATAAA
19072664 TATTGTTTTAATAT
196 TATTGTTTTAATAT
19072678 TAAATTTATT
Statistics
Matches: 206, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
229 206 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (229 bp):
TTTCTAAATAATTATAAATATTGTTTTAATATCTATATAAGTTTTCTAAACTTATAAGGTTTCTA
TATTAGTATTAAATTTATTACTATTAAATTTATAAAAAATTCTAAATATTGTTTTAATATCTATA
TTAGTATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAGTTTTCTAAATAATTATAAA
TATTGTTTTAATATAACCTATAAAATTTAAAAGT
Found at i:19072713 original size:17 final size:17
Alignment explanation
Indices: 19072658--19072714 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
19072648 TCTAAATAAT
19072658 TATAAATATTGTTTTAA
1 TATAAATATTGTTTTAA
* * *
19072675 TATTAAAT-TTATTAGTAT
1 TA-TAAATATTGTT-TTAA
19072693 TATAAATATTGTTTTAA
1 TATAAATATTGTTTTAA
19072710 TATAA
1 TATAA
19072715 CCTATAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
17 18 0.58
18 13 0.42
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (17 bp):
TATAAATATTGTTTTAA
Found at i:19072781 original size:87 final size:84
Alignment explanation
Indices: 19072427--19072764 Score: 403
Period size: 87 Copynumber: 3.9 Consensus size: 84
19072417 TTTCTAAATA
19072427 ATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTG
1 ATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTG
*
19072492 TTTTAATATCTATATAAGT
66 TTTTAATATCTATATTAGT
* * * * * * ** *
19072511 TTTCTAAATTTATAAGGTTTCT-ATATTA-GTATTAAATTTATTACTATTAAATTTATAAATAAT
1 ATTATAAA--TAT--TGTTT-TAATATAACCTATAAAATTTA--A--A--AGTTTTCTAAATAAT
*
19072574 TCTAAATATTGTTTTAATATCTATATTAGT
55 TATAAATATTGTTTTAATATCTATATTAGT
*
19072604 ATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAATTTTTCTAAATAATTATAAATATTG
1 ATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTG
19072669 TTTTAATAT-TAAATTTATTAGT
66 TTTTAATATCT--A--TATTAGT
19072691 ATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTG
1 ATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTG
*
19072756 TTTAAATAT
66 TTTTAATAT
19072765 TAAATTTATT
Statistics
Matches: 214, Mismatches: 23, Indels: 31
0.80 0.09 0.12
Matches are distributed among these distances:
83 1 0.00
84 37 0.17
85 1 0.00
86 4 0.02
87 89 0.42
88 11 0.05
89 11 0.05
90 10 0.05
91 4 0.02
93 46 0.21
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (84 bp):
ATTATAAATATTGTTTTAATATAACCTATAAAATTTAAAAGTTTTCTAAATAATTATAAATATTG
TTTTAATATCTATATTAGT
Found at i:19073038 original size:25 final size:24
Alignment explanation
Indices: 19072953--19073143 Score: 102
Period size: 25 Copynumber: 7.6 Consensus size: 24
19072943 ATCCTACATT
* *
19072953 ATAAATTACATAATAATACACACTTAC
1 ATAAATTACATAAT--TACATA-ATAC
*
19072980 ATAAATTAAATAAGTTACATAATAC
1 ATAAATTACATAA-TTACATAATAC
*
19073005 ACAAATTACATAACTTACATAATAC
1 ATAAATTACATAA-TTACATAATAC
* *
19073030 ATAATTTACATAA-TACACAACTGAC
1 ATAAATTACATAATTACATAA-T-AC
* *
19073055 ATAACTTACATAA-TACATATTTTAC
1 ATAAATTACATAATTACATA--ATAC
* * *
19073080 ATCACTTACATAA-GACATAACTTAC
1 ATAAATTACATAATTACATAA--TAC
* * *
19073105 ATAAGTTTCATAA-TACACAACTAAC
1 ATAAATTACATAATTACATAA-T-AC
*
19073130 ATAACTTACATAAT
1 ATAAATTACATAAT
19073144 ACACAACTTA
Statistics
Matches: 132, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
23 6 0.05
24 2 0.02
25 105 0.80
26 6 0.05
27 12 0.09
28 1 0.01
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (24 bp):
ATAAATTACATAATTACATAATAC
Found at i:19073144 original size:25 final size:25
Alignment explanation
Indices: 19073027--19073219 Score: 244
Period size: 25 Copynumber: 7.7 Consensus size: 25
19073017 ACTTACATAA
*
19073027 TACATAATTTACATAATACACAACT
1 TACATAACTTACATAATACACAACT
* * **
19073052 GACATAACTTACATAATACATATTT
1 TACATAACTTACATAATACACAACT
* * *
19073077 TACATCACTTACATAAGACATAACT
1 TACATAACTTACATAATACACAACT
* *
19073102 TACATAAGTTTCATAATACACAACT
1 TACATAACTTACATAATACACAACT
*
19073127 AACATAACTTACATAATACACAACT
1 TACATAACTTACATAATACACAACT
*
19073152 TACATAAC-CATCATAATACACAACT
1 TACATAACTTA-CATAATACACAACT
* *
19073177 TACATAAGTTTCATAATACACAACT
1 TACATAACTTACATAATACACAACT
19073202 TACATAACTTACATAATA
1 TACATAACTTACATAATA
19073220 AATAAGTTAT
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
24 1 0.01
25 140 0.99
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (25 bp):
TACATAACTTACATAATACACAACT
Found at i:19078754 original size:12 final size:12
Alignment explanation
Indices: 19078737--19078788 Score: 86
Period size: 12 Copynumber: 4.3 Consensus size: 12
19078727 AGTAGAGGCC
19078737 GCAGCGAGAGAA
1 GCAGCGAGAGAA
19078749 GCAGCGAGAGAA
1 GCAGCGAGAGAA
19078761 GCAGCGAGAGAA
1 GCAGCGAGAGAA
* *
19078773 GCAGCAATAGAA
1 GCAGCGAGAGAA
19078785 GCAG
1 GCAG
19078789 AGGTTCAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.42, C:0.17, G:0.38, T:0.02
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:19079321 original size:43 final size:43
Alignment explanation
Indices: 19079232--19079372 Score: 119
Period size: 43 Copynumber: 3.3 Consensus size: 43
19079222 GAACACTACT
* * * * *
19079232 TTTAGCGGCGTTTT--TGAACAAGCACCGCTATAGAATATTACT-
1 TTTAGCGGCGTTTTCCTCAA-AAGCACCGCTAAAAAACATGA-TA
* *
19079274 TTTAGAGGCGTTTTCCTCAAAAGCGCCGCTAAAAAACATGA-A
1 TTTAGCGGCGTTTTCCTCAAAAGCACCGCTAAAAAACATGATA
** ** *
19079316 CTTTAGCGGCGTTTTTTTCCTAAGCACCGCTAAAGAACATGATA
1 -TTTAGCGGCGTTTTCCTCAAAAGCACCGCTAAAAAACATGATA
19079360 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
19079373 ATTTCTAGCC
Statistics
Matches: 80, Mismatches: 14, Indels: 9
0.78 0.14 0.09
Matches are distributed among these distances:
42 13 0.16
43 63 0.79
44 4 0.05
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTTCCTCAAAAGCACCGCTAAAAAACATGATA
Found at i:19079454 original size:42 final size:42
Alignment explanation
Indices: 19079390--19079512 Score: 183
Period size: 42 Copynumber: 2.9 Consensus size: 42
19079380 GCCGTGTAAG
* * **
19079390 CGCCACTAAAGAACATGATCTTTAACGGCGCATTTTTATAAC
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAC
* * *
19079432 CGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAC
19079474 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTAT
19079513 GTAAGCGCCA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAC
Found at i:19083388 original size:37 final size:38
Alignment explanation
Indices: 19083347--19083420 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 38
19083337 GTTGTTCAAC
*
19083347 TCGAAAAAAAGAAATA-AA-AAATTTAATAACAAAGAAA
1 TCGAAAAAAAGAAA-AGAAGAAATTTAAGAACAAAGAAA
** *
19083384 TCGAAAGGAAGAAAAGAAGAAATTTGAGAACAAAGAA
1 TCGAAAAAAAGAAAAGAAGAAATTTAAGAACAAAGAA
19083421 CAAATAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
36 1 0.03
37 14 0.45
38 16 0.52
ACGTcount: A:0.65, C:0.05, G:0.16, T:0.14
Consensus pattern (38 bp):
TCGAAAAAAAGAAAAGAAGAAATTTAAGAACAAAGAAA
Found at i:19083433 original size:7 final size:7
Alignment explanation
Indices: 19083423--19083464 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
19083413 ACAAAGAACA
19083423 AATAAAT
1 AATAAAT
19083430 AATAAAT
1 AATAAAT
19083437 AATAAAT
1 AATAAAT
*
19083444 AAT-CAT
1 AATAAAT
19083450 AAATAAAT
1 -AATAAAT
*
19083458 AAGAAAT
1 AATAAAT
19083465 GGAAATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
6 2 0.07
7 26 0.87
8 2 0.07
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (7 bp):
AATAAAT
Found at i:19085944 original size:48 final size:48
Alignment explanation
Indices: 19085892--19085987 Score: 119
Period size: 48 Copynumber: 2.0 Consensus size: 48
19085882 CAAATTTAGT
19085892 AATAAATAAATTGA-AAA-AAATAA-AAGA-AGAAATTTGATAACAAATAAA
1 AATAAATAAA-TGATAAATAAATAAGAA-ATAGAAATTT--TAACAAATAAA
*
19085940 AATAAATAAATGATAAATAAATAAGAAATGGAAATTTTAACAAATAAA
1 AATAAATAAATGATAAATAAATAAGAAATAGAAATTTTAACAAATAAA
19085988 GTGGAAGACG
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
47 3 0.07
48 24 0.56
49 7 0.16
50 9 0.21
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (48 bp):
AATAAATAAATGATAAATAAATAAGAAATAGAAATTTTAACAAATAAA
Found at i:19099176 original size:6 final size:6
Alignment explanation
Indices: 19099161--19099212 Score: 56
Period size: 5 Copynumber: 8.7 Consensus size: 6
19099151 CACTAGATCC
19099161 TTTTTCA TTTTTA TTTTTA -TTTTA -TTTTA TTTTTA CCTTTTTA -TTTTA
1 TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA --TTTTTA TTTTTA
19099209 TTTT
1 TTTT
19099213 GCTTTCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
5 15 0.37
6 15 0.37
7 5 0.12
8 6 0.15
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:19099201 original size:24 final size:23
Alignment explanation
Indices: 19099162--19099212 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
19099152 ACTAGATCCT
19099162 TTTTCATTTTTATTTTTATTTTA
1 TTTTCATTTTTATTTTTATTTTA
19099185 TTTT-ATTTTTACCTTTTTATTTTA
1 TTTTCATTTTTA--TTTTTATTTTA
19099209 TTTT
1 TTTT
19099213 GCTTTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 7 0.27
23 4 0.15
24 15 0.58
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTCATTTTTATTTTTATTTTA
Found at i:19099222 original size:29 final size:30
Alignment explanation
Indices: 19099160--19099224 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
19099150 TCACTAGATC
*
19099160 CTTTTT-CATTTTTATTTTTATTTTATTTT
1 CTTTTTACATTTTTATTTTTATTTTACTTT
* * *
19099189 ATTTTTACCTTTTTA-TTTTATTTTGCTTT
1 CTTTTTACATTTTTATTTTTATTTTACTTT
19099218 CTTTTTA
1 CTTTTTA
19099225 TTGTTGCAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (30 bp):
CTTTTTACATTTTTATTTTTATTTTACTTT
Found at i:19109270 original size:13 final size:13
Alignment explanation
Indices: 19109252--19109281 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
19109242 TTGTGGTTCC
19109252 TGTATTGGATATT
1 TGTATTGGATATT
19109265 TGTATTGGATATT
1 TGTATTGGATATT
19109278 TGTA
1 TGTA
19109282 AACAGATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.53
Consensus pattern (13 bp):
TGTATTGGATATT
Found at i:19117070 original size:17 final size:17
Alignment explanation
Indices: 19117048--19117088 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
19117038 TTTGTTAATA
19117048 TATTATTTTCATATGTG
1 TATTATTTTCATATGTG
*
19117065 TATTATTTTCGTATGTG
1 TATTATTTTCATATGTG
19117082 TATTATT
1 TATTATT
19117089 AACACATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.22, C:0.05, G:0.12, T:0.61
Consensus pattern (17 bp):
TATTATTTTCATATGTG
Found at i:19117753 original size:26 final size:25
Alignment explanation
Indices: 19117711--19117766 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
19117701 AAACAAATAC
19117711 TCATA-TTTATATAATTAAAACAT-
1 TCATATTTTATATAATTAAAACATG
*
19117734 TCATATTTTATACTAGATTAAAATATG
1 TCATATTTTATA-TA-ATTAAAACATG
19117761 TCATAT
1 TCATAT
19117767 GTCCCTATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 5 0.18
24 6 0.21
25 2 0.07
26 9 0.32
27 6 0.21
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (25 bp):
TCATATTTTATATAATTAAAACATG
Found at i:19117992 original size:20 final size:20
Alignment explanation
Indices: 19117967--19118008 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
19117957 TTTATTTAAA
*
19117967 AATTACACATCAACCAAATT
1 AATTACACATCAACAAAATT
19117987 AATTACACATCAACAAAATT
1 AATTACACATCAACAAAATT
19118007 AA
1 AA
19118009 CAATGTTAAT
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:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (20 bp):
AATTACACATCAACAAAATT
Found at i:19118170 original size:15 final size:15
Alignment explanation
Indices: 19118150--19118201 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 15
19118140 ACTATAAAAC
19118150 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
19118165 ATTTATAATTGTAATATAT
1 ATTTATTA-T-T-A-ATAT
19118184 ATTTATTATTAATAT
1 ATTTATTATTAATAT
19118199 ATT
1 ATT
19118202 AATATATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 14 0.45
16 2 0.06
17 2 0.06
18 2 0.06
19 11 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:19118196 original size:17 final size:17
Alignment explanation
Indices: 19118150--19118200 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
19118140 ACTATAAAAC
19118150 ATTTATTATTAATATAT
1 ATTTATTATTAATATAT
*
19118167 -TTATAATT-GTAATATAT
1 ATT-T-ATTATTAATATAT
19118184 ATTTATTATTAATATAT
1 ATTTATTATTAATATAT
19118201 TAATATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 5 0.18
17 18 0.64
18 5 0.18
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTATTATTAATATAT
Found at i:19118268 original size:15 final size:16
Alignment explanation
Indices: 19118248--19118278 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19118238 TTATTAAAAC
19118248 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
19118263 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
19118279 ACAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:19118343 original size:29 final size:31
Alignment explanation
Indices: 19118286--19118349 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
19118276 ATTACAAAAA
19118286 AAATTAATATTAAATAATGTATTAAATTAAT
1 AAATTAATATTAAATAATGTATTAAATTAAT
* * *
19118317 AAATT-ATATT-AATAATTTATTATATTACT
1 AAATTAATATTAAATAATGTATTAAATTAAT
19118346 AAAT
1 AAAT
19118350 AGAAATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 20 0.67
30 5 0.17
31 5 0.17
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (31 bp):
AAATTAATATTAAATAATGTATTAAATTAAT
Found at i:19120395 original size:28 final size:27
Alignment explanation
Indices: 19120364--19120546 Score: 74
Period size: 28 Copynumber: 6.6 Consensus size: 27
19120354 TATAAAAGAA
19120364 AATAAAAATATTAAATATTAAAAATATT
1 AATAAAAATATTAAATATTAAAAA-ATT
***
19120392 AATATTGATA-TAAACTTATT--AAAATT
1 AATAAAAATATTAAA--TATTAAAAAATT
* *
19120418 -A-AAAAATATATAAAAACTTATAAATATT
1 AATAAAAATAT-TAAATA-TTA-AAAAATT
* * * **
19120446 -ATAAAATTATAAAAAAATTATGAAATT
1 AATAAAAATAT-TAAATATTAAAAAATT
* * *
19120473 AATAAAACTTATTTGAAATATTTAAAATTT
1 AATAAAA-ATA-TT-AAATATTAAAAAATT
* *
19120503 AAAAAAAATATTAGAAT-TATAAAAAAAT
1 AATAAAAATATTA-AATAT-TAAAAAATT
19120531 AATAAAAATATTAAAT
1 AATAAAAATATTAAAT
19120547 TGATATAAAC
Statistics
Matches: 115, Mismatches: 25, Indels: 31
0.67 0.15 0.18
Matches are distributed among these distances:
24 5 0.04
25 3 0.03
26 7 0.06
27 16 0.14
28 45 0.39
29 22 0.19
30 17 0.15
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (27 bp):
AATAAAAATATTAAATATTAAAAAATT
Found at i:19120439 original size:10 final size:9
Alignment explanation
Indices: 19120407--19120574 Score: 60
Period size: 9 Copynumber: 18.0 Consensus size: 9
19120397 TGATATAAAC
*
19120407 TTATTAAAA
1 TTATAAAAA
19120416 TTA-AAAAA
1 TTATAAAAA
19120424 TATATAAAAA
1 T-TATAAAAA
*
19120434 CTTATAAATA
1 -TTATAAAAA
19120444 TTAT-AAAA
1 TTATAAAAA
19120452 TTATAAAAAAA
1 TTAT--AAAAA
*
19120463 TTAT-GAAA
1 TTATAAAAA
*
19120471 TTAATAAAAC
1 TT-ATAAAAA
*
19120481 TTATTTGAAATA
1 TTA--T-AAAAA
*
19120493 TT-TAAAAT
1 TTATAAAAA
*
19120501 TTAAAAAAA
1 TTATAAAAA
* * *
19120510 ATATTAGAA
1 TTATAAAAA
19120519 TTATAAAAAAA
1 TTAT--AAAAA
*
19120530 TAATAAAAA
1 TTATAAAAA
*
19120539 -TAT-TAAA
1 TTATAAAAA
*
19120546 TTGATATAAAC
1 TT-ATA-AAAA
*
19120557 TTATAAGAA
1 TTATAAAAA
19120566 TTATAAAAA
1 TTATAAAAA
19120575 AAATCATAAA
Statistics
Matches: 114, Mismatches: 27, Indels: 36
0.64 0.15 0.20
Matches are distributed among these distances:
7 3 0.03
8 25 0.22
9 42 0.37
10 19 0.17
11 20 0.18
12 5 0.04
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:19120457 original size:17 final size:18
Alignment explanation
Indices: 19120365--19120479 Score: 64
Period size: 19 Copynumber: 6.3 Consensus size: 18
19120355 ATAAAAGAAA
19120365 ATAAAAATAT-T-AAA-T
1 ATAAAAATATATAAAATT
*
19120380 ATTAAAAATAT-TAATATT
1 A-TAAAAATATATAAAATT
*
19120398 GATATAAACT-TATTAAAATT
1 -ATA-AAAATATA-TAAAATT
19120418 A-AAAAATATATAAAAACTT
1 ATAAAAATATAT-AAAA-TT
*
19120437 ATAAATAT-TATAAAATT
1 ATAAAAATATATAAAATT
* *
19120454 ATAAAAAAATTATGAAATT
1 ATAAAAATA-TATAAAATT
19120473 AATAAAA
1 -ATAAAA
19120480 CTTATTTGAA
Statistics
Matches: 78, Mismatches: 8, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
15 1 0.01
16 10 0.13
17 15 0.19
18 15 0.19
19 20 0.26
20 17 0.22
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
ATAAAAATATATAAAATT
Found at i:19120511 original size:20 final size:20
Alignment explanation
Indices: 19120488--19120529 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
19120478 AACTTATTTG
19120488 AAATATTTAAAATT-TAAAAA
1 AAATA-TTAAAATTATAAAAA
*
19120508 AAATATTAGAATTATAAAAA
1 AAATATTAAAATTATAAAAA
19120528 AA
1 AA
19120530 TAATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AAATATTAAAATTATAAAAA
Found at i:19120545 original size:47 final size:49
Alignment explanation
Indices: 19120488--19120585 Score: 112
Period size: 48 Copynumber: 2.0 Consensus size: 49
19120478 AACTTATTTG
* *
19120488 AAATATTTAAAATTTA-AAAAAAATATTAGAATTAT-AAAAAAATAATAA
1 AAATATTT-AAATTGATAAAAAAATATAAGAATTATAAAAAAAATAATAA
* ** *
19120536 AAATA-TTAAATTGATATAAACTTATAAGAATTATAAAAAAAATCATAA
1 AAATATTTAAATTGATAAAAAAATATAAGAATTATAAAAAAAATAATAA
19120584 AA
1 AA
19120586 CCTTAAACTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
46 6 0.14
47 17 0.40
48 19 0.45
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (49 bp):
AAATATTTAAATTGATAAAAAAATATAAGAATTATAAAAAAAATAATAA
Found at i:19121013 original size:9 final size:9
Alignment explanation
Indices: 19120991--19121239 Score: 89
Period size: 9 Copynumber: 26.8 Consensus size: 9
19120981 CATGTTCAAG
*
19120991 TTTTTATGAT
1 TTTTTAT-AA
19121001 TTTTTATAA
1 TTTTTATAA
19121010 TTTTTATAAA
1 TTTTTAT-AA
*
19121020 TTTATATGAA
1 TTTTTAT-AA
*
19121030 TTTTAAT-A
1 TTTTTATAA
*
19121038 TTTTTATCA
1 TTTTTATAA
*
19121047 TTTTTATGAT
1 TTTTTAT-AA
19121057 TTTTATATAA
1 TTTT-TATAA
* * *
19121067 CTTTAATATG
1 TTTTTATA-A
19121077 TTTTTATAAAAA
1 TTTTTAT---AA
** ** *
19121089 AATAAATAT
1 TTTTTATAA
19121098 TTTTTATTAA
1 TTTTTA-TAA
*
19121108 -TTTTATAT
1 TTTTTATAA
19121116 TTTTTATAA
1 TTTTTATAA
*
19121125 TTTATTAGAA
1 TTT-TTATAA
19121135 TTTTTATAA
1 TTTTTATAA
19121144 TTTTT-TAA
1 TTTTTATAA
*
19121152 GTTTATATAAA
1 -TTTTTAT-AA
*
19121163 TTTTCAT-A
1 TTTTTATAA
19121171 TTTTT-TAA
1 TTTTTATAA
* *
19121179 TATTTAATTA
1 T-TTTTATAA
19121189 TTTTTAT-A
1 TTTTTATAA
*
19121197 TTTTT-TTA
1 TTTTTATAA
* *
19121205 GTTTTAAAA
1 TTTTTATAA
*
19121214 TTTTATTTAA
1 TTTT-TATAA
*
19121224 TATTTATAA
1 TTTTTATAA
*
19121233 TTATTAT
1 TTTTTAT
19121240 TTAATCATTT
Statistics
Matches: 173, Mismatches: 46, Indels: 41
0.67 0.18 0.16
Matches are distributed among these distances:
7 2 0.01
8 30 0.17
9 72 0.42
10 60 0.35
11 5 0.03
12 3 0.02
13 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:19121015 original size:19 final size:19
Alignment explanation
Indices: 19120991--19121148 Score: 87
Period size: 19 Copynumber: 8.3 Consensus size: 19
19120981 CATGTTCAAG
19120991 TTTTTATGATTTTTTATAA
1 TTTTTATGATTTTTTATAA
* * *
19121010 TTTTTATAAATTTATATGAA
1 TTTTTATGATTTTTTAT-AA
* *
19121030 TTTTAAT-A-TTTTTATCA
1 TTTTTATGATTTTTTATAA
19121047 TTTTTATGATTTTTATATAA
1 TTTTTATGATTTTT-TATAA
* *
19121067 CTTTAATATG-TTTTTATAAAAA
1 -TTT-TTATGATTTTT-T-ATAA
** **
19121089 AATAAAT-ATTTTTTATTAA
1 TTTTTATGATTTTTTA-TAA
19121108 -TTTTAT-ATTTTTTATAA
1 TTTTTATGATTTTTTATAA
*
19121125 TTTATTA-GAATTTTTATAA
1 TTT-TTATGATTTTTTATAA
19121144 TTTTT
1 TTTTT
19121149 TAAGTTTATA
Statistics
Matches: 109, Mismatches: 18, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
17 10 0.09
18 23 0.21
19 38 0.35
20 20 0.18
21 11 0.10
22 7 0.06
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTATGATTTTTTATAA
Found at i:19121033 original size:29 final size:28
Alignment explanation
Indices: 19120995--19121063 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 28
19120985 TTCAAGTTTT
*
19120995 TATGATTTTTTATAATTTTTATAAATTTA
1 TATGAATTTTTATAATTTTTAT-AATTTA
* * *
19121024 TATGAATTTTAAT-ATTTTTATCATTTT
1 TATGAATTTTTATAATTTTTATAATTTA
19121051 TATG-ATTTTTATA
1 TATGAATTTTTATA
19121064 TAACTTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.21
27 8 0.24
28 8 0.24
29 11 0.32
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (28 bp):
TATGAATTTTTATAATTTTTATAATTTA
Found at i:19121043 original size:20 final size:19
Alignment explanation
Indices: 19120999--19121197 Score: 80
Period size: 19 Copynumber: 10.5 Consensus size: 19
19120989 AGTTTTTATG
*
19120999 ATTTTT-TATAATTTTTAT
1 ATTTTTATATAATTTTAAT
**
19121017 AAATTTATATGAATTTTAAT
1 ATTTTTATAT-AATTTTAAT
19121037 ATTTTTATCAT--TTTT-AT
1 ATTTTTAT-ATAATTTTAAT
*
19121054 GATTTTTATATAACTTTAAT
1 -ATTTTTATATAATTTTAAT
* ** *
19121074 ATGTTTTTATAAAAAAATAAAT
1 A--TTTTTAT-ATAATTTTAAT
19121096 ATTTTT-TATTAATTTT-AT
1 ATTTTTATA-TAATTTTAAT
* *
19121114 ATTTTT-TATAATTTATTAG
1 ATTTTTATATAATTT-TAAT
* *
19121133 AATTTT-TATAATTTT-TT
1 ATTTTTATATAATTTTAAT
** *
19121150 AAGTTTATATAAATTTTCAT
1 ATTTTTATAT-AATTTTAAT
19121170 A-TTTT-T-TAATATTTAATT
1 ATTTTTATATAAT-TTTAA-T
19121188 ATTTTTATAT
1 ATTTTTATAT
19121198 TTTTTTAGTT
Statistics
Matches: 138, Mismatches: 22, Indels: 39
0.69 0.11 0.20
Matches are distributed among these distances:
16 3 0.02
17 20 0.14
18 35 0.25
19 38 0.28
20 24 0.17
21 10 0.07
22 8 0.06
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (19 bp):
ATTTTTATATAATTTTAAT
Found at i:19121050 original size:37 final size:37
Alignment explanation
Indices: 19121001--19121085 Score: 100
Period size: 37 Copynumber: 2.2 Consensus size: 37
19120991 TTTTTATGAT
*
19121001 TTTTTATAATTTTTAT-AAATTTATATGAATTTTAATA
1 TTTTTATAATTTTTATGAAATTTATAT-AACTTTAATA
* **
19121038 TTTTTATCATTTTTATGATTTTTATATAACTTTAATA
1 TTTTTATAATTTTTATGAAATTTATATAACTTTAATA
19121075 TGTTTTTATAA
1 --TTTTTATAA
19121086 AAAAATAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
37 24 0.60
38 8 0.20
39 8 0.20
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (37 bp):
TTTTTATAATTTTTATGAAATTTATATAACTTTAATA
Found at i:19121139 original size:28 final size:26
Alignment explanation
Indices: 19121100--19121202 Score: 106
Period size: 28 Copynumber: 3.9 Consensus size: 26
19121090 ATAAATATTT
19121100 TTTATT-AA-TTTTATATTTTTTATAA
1 TTTATTAAATTTTTATATTTTTTA-AA
*
19121125 TTTATTAGAATTTTTATAATTTTTTAAG
1 TTTATTA-AATTTTTAT-ATTTTTTAAA
*
19121153 TTTATATAAATTTTCATATTTTTTAATA
1 TTTAT-TAAATTTTTATATTTTTTAA-A
19121181 TTTAATT--ATTTTTATATTTTTT
1 TTT-ATTAAATTTTTATATTTTTT
19121203 TAGTTTTAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
25 6 0.09
26 14 0.21
27 11 0.16
28 24 0.36
29 12 0.18
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTATTAAATTTTTATATTTTTTAAA
Found at i:19121215 original size:28 final size:27
Alignment explanation
Indices: 19121134--19121212 Score: 67
Period size: 26 Copynumber: 2.9 Consensus size: 27
19121124 ATTTATTAGA
*
19121134 ATTTTTATAATTTTTTAAGTTTATATAA--
1 ATTTTTAT-ATTTTTTTAGTTT-TA-AATT
* *
19121162 ATTTTCATA-TTTTTTAATATTT-AATT
1 ATTTTTATATTTTTTTAGT-TTTAAATT
19121188 ATTTTTATATTTTTTTAGTTTTAAA
1 ATTTTTATATTTTTTTAGTTTTAAA
19121213 ATTTTATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
24 2 0.05
26 19 0.46
27 13 0.32
28 7 0.17
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.65
Consensus pattern (27 bp):
ATTTTTATATTTTTTTAGTTTTAAATT
Found at i:19121241 original size:20 final size:20
Alignment explanation
Indices: 19121207--19121249 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
19121197 TTTTTTTAGT
19121207 TTTAAAATTTTATTTAAT-A
1 TTTAAAATTTTATTTAATCA
*
19121226 TTTATAATTATTATTTAATCA
1 TTTAAAATT-TTATTTAATCA
19121247 TTT
1 TTT
19121250 TTATGAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 9 0.43
21 4 0.19
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTAAAATTTTATTTAATCA
Found at i:19128954 original size:17 final size:17
Alignment explanation
Indices: 19128919--19128956 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
19128909 GTGACCCCTG
*
19128919 TTTTCAAAATTTTTAAA
1 TTTTCAAAACTTTTAAA
19128936 TTTTCTAAAACTTTT-AA
1 TTTTC-AAAACTTTTAAA
19128953 TTTT
1 TTTT
19128957 GTTTCAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTCAAAACTTTTAAA
Found at i:19132777 original size:21 final size:22
Alignment explanation
Indices: 19132718--19132781 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
19132708 CAGAAGCACT
* *
19132718 ATACGACACATAAAGTGTCTGA
1 ATACGACACATATAGTGCCTGA
* ** *
19132740 A-AAGACACACGTGGTGCCT-A
1 ATACGACACATATAGTGCCTGA
19132760 ATACGACACATATAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
19132782 TCGGCAAAGC
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTGA
Found at i:19135376 original size:57 final size:59
Alignment explanation
Indices: 19135264--19135384 Score: 167
Period size: 57 Copynumber: 2.1 Consensus size: 59
19135254 TTGACGGTAG
* *
19135264 AAAAGATCTAGTTTGGACGGGTGATCCAATCCTGATATAGCCCTCCCGAAGAATATGTGTGA
1 AAAAGATCTAGCTCGGACGGGTGATCC-AT-CTGATATAGCCCTCCCGAAGAATATGTG-GA
*
19135326 AAAAGATCTAGCTCGGACGGGTGAT-C-T-TGATATAGCCCTCCCGAATAATATGTGGA
1 AAAAGATCTAGCTCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGGA
19135382 AAA
1 AAA
19135385 TGGATTTAGG
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
56 5 0.09
57 26 0.46
59 1 0.02
61 1 0.02
62 23 0.41
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (59 bp):
AAAAGATCTAGCTCGGACGGGTGATCCATCTGATATAGCCCTCCCGAAGAATATGTGGA
Found at i:19135581 original size:67 final size:67
Alignment explanation
Indices: 19135472--19135603 Score: 210
Period size: 67 Copynumber: 2.0 Consensus size: 67
19135462 GTTTATATTA
* *
19135472 CAGGGGATTTAGCCTGGACTGATAATCCCGTTGTAAGAAATGAAGTTCGCGGGAGTGTGCTCTCT
1 CAGGGGATTTAGCCTAGACTGATAATCCCGCTGTAAGAAATGAAGTTCGCGGGAGTGTGCTCTCT
19135537 TG
66 TG
* * * *
19135539 CAGGGGATTTAGCCTAGACTGGTAATCTCGCTGTAAGTAATGAGGTTCGCGGGAGTGTGCTCTCT
1 CAGGGGATTTAGCCTAGACTGATAATCCCGCTGTAAGAAATGAAGTTCGCGGGAGTGTGCTCTCT
19135604 GAATTGGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (67 bp):
CAGGGGATTTAGCCTAGACTGATAATCCCGCTGTAAGAAATGAAGTTCGCGGGAGTGTGCTCTCT
TG
Found at i:19137293 original size:7 final size:7
Alignment explanation
Indices: 19137283--19137313 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
19137273 AATTTCCCCC
19137283 TTTTTCT
1 TTTTTCT
19137290 TTTTTCT
1 TTTTTCT
19137297 TTTTTCT
1 TTTTTCT
*
19137304 TTTTCCT
1 TTTTTCT
19137311 TTT
1 TTT
19137314 CTTTCTCCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:19139779 original size:82 final size:82
Alignment explanation
Indices: 19139628--19139790 Score: 220
Period size: 82 Copynumber: 2.0 Consensus size: 82
19139618 TTGTGTCTGC
* * ** * *
19139628 AGGTCATTGAATTCGGCTACTTAATGGCTAAGGAGACATGTATTTAAGGTGCTGTTAACATGCAA
1 AGGTCATTGAATTCGGCTACTTAATGGCAAAGGAAACATACATTTAAGGAGATGTTAACATGCAA
19139693 GGAACGGCATTTAAAGA
66 GGAACGGCATTTAAAGA
**
19139710 AGGTCATTGAAATTCGGCTACTTAATGGCAAAGGAAACATACA-TTAAGGAGATGTTCCCATGCA
1 AGGTCATTG-AATTCGGCTACTTAATGGCAAAGGAAACATACATTTAAGGAGATGTTAACATGCA
* *
19139774 TGGAACGGTATTTAAAG
65 AGGAACGGCATTTAAAG
19139791 GGAAGTAAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
82 41 0.59
83 29 0.41
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (82 bp):
AGGTCATTGAATTCGGCTACTTAATGGCAAAGGAAACATACATTTAAGGAGATGTTAACATGCAA
GGAACGGCATTTAAAGA
Found at i:19141272 original size:13 final size:12
Alignment explanation
Indices: 19141247--19141300 Score: 76
Period size: 12 Copynumber: 4.6 Consensus size: 12
19141237 ACGGTATTGT
19141247 AAAAAAAA-T-A
1 AAAAAAAATTCA
*
19141257 AAAAAAAACTTGA
1 AAAAAAAA-TTCA
19141270 AAAAAAAATTCA
1 AAAAAAAATTCA
19141282 AAAAAAAATTCA
1 AAAAAAAATTCA
19141294 AAAAAAA
1 AAAAAAA
19141301 GTTTGTATTC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
10 8 0.20
12 23 0.57
13 9 0.22
ACGTcount: A:0.80, C:0.06, G:0.02, T:0.13
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:19141386 original size:26 final size:26
Alignment explanation
Indices: 19141347--19141407 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
19141337 TATTGAAGAA
* *
19141347 AAAAAAGAATAAAAAAAATTCGGAATT-
1 AAAAAA-AAGAAAAAAAA-TCGAAATTG
19141374 AAAAAAAAGAAAAAAAATCGAAATTG
1 AAAAAAAAGAAAAAAAATCGAAATTG
19141400 AAAAAAAA
1 AAAAAAAA
19141408 AGAGTGATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 7 0.23
26 18 0.58
27 6 0.19
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (26 bp):
AAAAAAAAGAAAAAAAATCGAAATTG
Found at i:19141408 original size:27 final size:27
Alignment explanation
Indices: 19141346--19141410 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
19141336 GTATTGAAGA
* *
19141346 AAAAAAAGAATAAAAAAAATTCGGAATT
1 AAAAAAA-AAGAAAAAAAATTCGAAATT
19141374 -AAAAAAAAGAAAAAAAA-TCGAAATT
1 AAAAAAAAAGAAAAAAAATTCGAAATT
19141399 GAAAAAAAAAGA
1 -AAAAAAAAAGA
19141411 GTGATTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 7 0.21
26 10 0.30
27 16 0.48
ACGTcount: A:0.74, C:0.03, G:0.11, T:0.12
Consensus pattern (27 bp):
AAAAAAAAAGAAAAAAAATTCGAAATT
Found at i:19142352 original size:21 final size:22
Alignment explanation
Indices: 19142318--19142365 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
19142308 AAATTGAGAG
* *
19142318 AAGAAAAAGTGAAATGAGAGAAA
1 AAGAAAAAG-GAAATAAAAGAAA
19142341 AAGAAAAA-GAAATAAAAGAAA
1 AAGAAAAAGGAAATAAAAGAAA
19142362 AAGA
1 AAGA
19142366 TGAAAATGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 15 0.65
23 8 0.35
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (22 bp):
AAGAAAAAGGAAATAAAAGAAA
Found at i:19142408 original size:18 final size:19
Alignment explanation
Indices: 19142387--19142424 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
19142377 TTCCAAAAAC
19142387 AAAAGAGAGTG-AAAAGAA
1 AAAAGAGAGTGAAAAAGAA
*
19142405 AAAAGAGATTGAAAAAGAA
1 AAAAGAGAGTGAAAAAGAA
19142424 A
1 A
19142425 TTGAAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.08
Consensus pattern (19 bp):
AAAAGAGAGTGAAAAAGAA
Found at i:19142421 original size:12 final size:12
Alignment explanation
Indices: 19142404--19142477 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
19142394 AGTGAAAAGA
19142404 AAAAAGAGATTG
1 AAAAAGAGATTG
*
19142416 AAAAAGAAATTG
1 AAAAAGAGATTG
19142428 AAAAAGA-A--G
1 AAAAAGAGATTG
*
19142437 AAAAAGAAAGAGTGG
1 AAAAAG--AGA-TTG
*
19142452 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
19142464 AAAGAGAGCTTG
1 AAAAAGAGATTG
19142476 AA
1 AA
19142478 CAGAAATTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
9 7 0.14
11 2 0.04
12 32 0.64
13 2 0.04
15 7 0.14
ACGTcount: A:0.62, C:0.01, G:0.24, T:0.12
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:19144159 original size:82 final size:82
Alignment explanation
Indices: 19144007--19144169 Score: 238
Period size: 82 Copynumber: 2.0 Consensus size: 82
19143997 TTGTGTCTGC
* * * * *
19144007 AGGTCATTGAATTCGGCTACTTAATGGCTAAGGAGACATGCATTTAAGGTGCTGTTACCATGCAA
1 AGGTCATTGAATTCAGCTACTTAATGGCAAAGGAAACATGCATTTAAGGAGATGTTACCATGCAA
19144072 GGAACGGCATTTAAAGA
66 GGAACGGCATTTAAAGA
*
19144089 AGGTCATTGAAATTCAGCTACTTAATGGCAAAGGAAACATGCA-TTAAGGAGATGTTCCCATGCA
1 AGGTCATTG-AATTCAGCTACTTAATGGCAAAGGAAACATGCATTTAAGGAGATGTTACCATGCA
* *
19144153 TGGAACGGTATTTAAAG
65 AGGAACGGCATTTAAAG
19144170 GGAAGTAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
82 42 0.58
83 30 0.42
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (82 bp):
AGGTCATTGAATTCAGCTACTTAATGGCAAAGGAAACATGCATTTAAGGAGATGTTACCATGCAA
GGAACGGCATTTAAAGA
Found at i:19148199 original size:58 final size:56
Alignment explanation
Indices: 19148107--19148307 Score: 160
Period size: 56 Copynumber: 3.6 Consensus size: 56
19148097 GGCTTTAAGT
* * * * * * * *
19148107 AAAATCTTCAAAAATCATCAGCTGCGAATATGGATAT-ACAAGTTGTTTTGTACTTGGG
1 AAAATTTTCTAAAATAATAAGCTGGGAATGTGGATATGACAA-CT-TTTTATACTT-GG
* ** *
19148165 AAAATTTTCTAAAATAATAAGCTGGGAATGTGGATTTGTGAACTTTTTATCCTTGG
1 AAAATTTTCTAAAATAATAAGCTGGGAATGTGGATATGACAACTTTTTATACTTGG
* *
19148221 -AAATTTTCTAAAATAATAAGCTGGGAATGTGAAT-TCG-CGAACTATTTTATCCTT-G
1 AAAATTTTCTAAAATAATAAGCTGGGAATGTGGATAT-GAC-AACT-TTTTATACTTGG
* * *
19148276 AAATTTTTCTAAAATAATATGCTGGAAATGTG
1 AAAATTTTCTAAAATAATAAGCTGGGAATGTG
19148308 AATCCACGAG
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.01
55 39 0.32
56 40 0.33
57 8 0.07
58 31 0.26
59 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (56 bp):
AAAATTTTCTAAAATAATAAGCTGGGAATGTGGATATGACAACTTTTTATACTTGG
Found at i:19148300 original size:56 final size:56
Alignment explanation
Indices: 19148166--19148326 Score: 227
Period size: 56 Copynumber: 2.9 Consensus size: 56
19148156 GTACTTGGGA
* * *
19148166 AAATTTTCTAAAATAATAAGCTGGGAATGTGGATTTGTGAACT-TTTTATCCTTGG
1 AAATTTTCTAAAATAATAAGCTGGGAATGTGAATTCGCGAACTATTTTATCCTTGG
19148221 AAATTTTCTAAAATAATAAGCTGGGAATGTGAATTCGCGAACTATTTTATCCTT-G
1 AAATTTTCTAAAATAATAAGCTGGGAATGTGAATTCGCGAACTATTTTATCCTTGG
* * * * *
19148276 AAATTTTTCTAAAATAATATGCTGGAAATGTGAATCCACGAGCTATTTTAT
1 AAA-TTTTCTAAAATAATAAGCTGGGAATGTGAATTCGCGAACTATTTTAT
19148327 ATTTAGAAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
55 44 0.46
56 52 0.54
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (56 bp):
AAATTTTCTAAAATAATAAGCTGGGAATGTGAATTCGCGAACTATTTTATCCTTGG
Found at i:19148561 original size:69 final size:69
Alignment explanation
Indices: 19148414--19148817 Score: 280
Period size: 69 Copynumber: 5.9 Consensus size: 69
19148404 CCTACTAGCT
** * ** * * ** * *
19148414 TTAATATGGCAGCTGGGAGCTTT-CTTCTCACTAACTGCGTTGGAGGCTACGACTTTTCGCCTGC
1 TTAATATGATAGCTGGGAGCTTTGC-TCTCGCTAACTATGTTGGAGGCTGCGGCACTTCGCTTGT
*
19148478 AAGCT
65 AAGCC
* * ** ** *
19148483 TTAACATGATAGTTGGGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGTAGCACTTCATTTGTG
1 TTAATATGATAGCTGGGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGGCACTTCGCTTGTA
19148548 AGCC
66 AGCC
* * * ** *
19148552 TTAATATGATAGCTGGGAGCTTTGATCTTGCTAA-T-TGCTTAGAGGCTGCGGCTGTTTGCTTG-
1 TTAATATGATAGCTGGGAGCTTTGCTCTCGCTAACTATG-TTGGAGGCTGCGGCACTTCGCTTGT
19148614 AGAGCC
65 A-AGCC
* * * * * *
19148620 TTAATATAATAGTTGGGAG-TTCTGCTCTCGCTAATTGTGTTGAAGGCTGCGGCTA-TTCGCCTG
1 TTAATATGATAGCTGGGAGCTT-TGCTCTCGCTAACTATGTTGGAGGCTGCGGC-ACTTCGCTTG
19148683 TAAGCC
64 TAAGCC
* * * * * * * * * *
19148689 TTAATATGACAACTGGGAACTTTTCTCTCGCTAACTTTATTGGTGGCTACGGCTCTTCGCTTGCA
1 TTAATATGATAGCTGGGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGGCACTTCGCTTGTA
19148754 AGCC
66 AGCC
* * * * * * * *
19148758 TTAATATAACAGCTGAGAGCTTTGCTCTCACTAACTACGTTGGAGGGTGCGACTCTTCGC
1 TTAATATGATAGCTGGGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGGCACTTCGC
19148818 CTACGAGCCT
Statistics
Matches: 256, Mismatches: 69, Indels: 20
0.74 0.20 0.06
Matches are distributed among these distances:
67 4 0.02
68 48 0.19
69 198 0.77
70 6 0.02
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (69 bp):
TTAATATGATAGCTGGGAGCTTTGCTCTCGCTAACTATGTTGGAGGCTGCGGCACTTCGCTTGTA
AGCC
Found at i:19148637 original size:68 final size:70
Alignment explanation
Indices: 19148547--19148695 Score: 173
Period size: 68 Copynumber: 2.2 Consensus size: 70
19148537 CTTCATTTGT
* * * *
19148547 GAGCCTTAATATGATAGCTGGGAGCTT-TGATCTTGCTAATTGCT-TAG-AGGCTGCGGCTGTTT
1 GAGCCTTAATATAATAGCTGGGAG-TTCTGATCTCGCTAATTG-TGTAGAAGGCTGCGGCTATTC
*
19148609 GCTTG-A
64 GCCTGTA
* * *
19148615 GAGCCTTAATATAATAGTTGGGAGTTCTGCTCTCGCTAATTGTGTTGAAGGCTGCGGCTATTCGC
1 GAGCCTTAATATAATAGCTGGGAGTTCTGATCTCGCTAATTGTGTAGAAGGCTGCGGCTATTCGC
19148680 CTGTA
66 CTGTA
19148685 -AGCCTTAATAT
1 GAGCCTTAATAT
19148696 GACAACTGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
67 3 0.04
68 37 0.54
69 28 0.41
70 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (70 bp):
GAGCCTTAATATAATAGCTGGGAGTTCTGATCTCGCTAATTGTGTAGAAGGCTGCGGCTATTCGC
CTGTA
Found at i:19148722 original size:137 final size:138
Alignment explanation
Indices: 19148456--19148799 Score: 336
Period size: 137 Copynumber: 2.5 Consensus size: 138
19148446 AACTGCGTTG
* * * * * *
19148456 GAGGCTACGACTTTTCGCCTGCAAGCTTTAACATGATAGTTGGGAGCTTTGCTCTCGCTAACTAT
1 GAGGCTACGGCTCTTCGCTTGCAAGCCTTAATATAATAGTTGGGAGCTTTGCTCTCGCTAACTAT
* * ** * * * * *
19148521 GTTGGAGGCTGTAGCACTTCATTTGTGAGCCTTAATATGATAGCTGGGAGCTTTGATCTTGCTAA
66 GTTGAAGGCTGCAGCACTTCACCTGTAAGCCTTAATATGACAACTGGGAACTTTGATCTCGCTAA
*
19148586 -TTGCTTA
131 CTTGATTA
* * * *
19148593 GAGGCTGCGGCTGTTTGCTTG-AGAGCCTTAATATAATAGTTGGGAG-TTCTGCTCTCGCTAATT
1 GAGGCTACGGCTCTTCGCTTGCA-AGCCTTAATATAATAGTTGGGAGCTT-TGCTCTCGCTAACT
* * * **
19148656 GTGTTGAAGGCTGCGGCTA-TTCGCCTGTAAGCCTTAATATGACAACTGGGAACTTTTCTCTCGC
64 ATGTTGAAGGCTGCAGC-ACTTCACCTGTAAGCCTTAATATGACAACTGGGAACTTTGATCTCGC
* *
19148720 TAACTTTATTG
128 TAACTTGATTA
* * * * * *
19148731 GTGGCTACGGCTCTTCGCTTGCAAGCCTTAATATAACAGCTGAGAGCTTTGCTCTCACTAACTAC
1 GAGGCTACGGCTCTTCGCTTGCAAGCCTTAATATAATAGTTGGGAGCTTTGCTCTCGCTAACTAT
19148796 GTTG
66 GTTG
19148800 GAGGGTGCGA
Statistics
Matches: 164, Mismatches: 37, Indels: 11
0.77 0.17 0.05
Matches are distributed among these distances:
136 3 0.02
137 100 0.61
138 58 0.35
139 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (138 bp):
GAGGCTACGGCTCTTCGCTTGCAAGCCTTAATATAATAGTTGGGAGCTTTGCTCTCGCTAACTAT
GTTGAAGGCTGCAGCACTTCACCTGTAAGCCTTAATATGACAACTGGGAACTTTGATCTCGCTAA
CTTGATTA
Found at i:19157025 original size:16 final size:17
Alignment explanation
Indices: 19156991--19157025 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19156981 CATTGGAAGA
*
19156991 TTTGGTTTTGTTGGCCT
1 TTTGATTTTGTTGGCCT
19157008 TTTGATTTTGTT-GCCT
1 TTTGATTTTGTTGGCCT
19157024 TT
1 TT
19157026 ACAGAATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.03, C:0.11, G:0.23, T:0.63
Consensus pattern (17 bp):
TTTGATTTTGTTGGCCT
Found at i:19160845 original size:19 final size:20
Alignment explanation
Indices: 19160809--19160847 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
19160799 TTAAACATAG
19160809 AACTGAAAATAAGGTTTATA
1 AACTGAAAATAAGGTTTATA
19160829 AACT-AAAA-AAGGCTTTATA
1 AACTGAAAATAAGG-TTTATA
19160848 TGGATTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (20 bp):
AACTGAAAATAAGGTTTATA
Found at i:19162025 original size:17 final size:18
Alignment explanation
Indices: 19161985--19162026 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
19161975 TTTAAAAGAG
19161985 GGATTGTTAATAAAATCT
1 GGATTGTTAATAAAATCT
19162003 GG-TTGTTAATAAAATC-
1 GGATTGTTAATAAAATCT
19162019 GGATTGTT
1 GGATTGTT
19162027 TTCCTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.09
17 19 0.83
18 2 0.09
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.40
Consensus pattern (18 bp):
GGATTGTTAATAAAATCT
Done.