Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 73
Found at i:2655209 original size:22 final size:21
Alignment explanation
Indices: 2655175--2655216 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
2655165 TCCAAAATTG
2655175 TTTTAAAATACTATACTATATA
1 TTTTAAAATACTATA-TATATA
2655197 TTTTCAAAA-ACTATATATAT
1 TTTT-AAAATACTATATATAT
2655217 TATATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTTAAAATACTATATATATA
Found at i:2660099 original size:13 final size:13
Alignment explanation
Indices: 2660047--2660104 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
2660037 TAACTAAGCC
*
2660047 TAATATAATAACG
1 TAATATAATAACA
*
2660060 TAATACATATAA-A
1 TAATATA-ATAACA
*
2660073 -AA-ATATTGAACA
1 TAATATAAT-AACA
2660085 TAATATAATAACA
1 TAATATAATAACA
2660098 TAATATA
1 TAATATA
2660105 TATCGAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
10 1 0.03
11 4 0.11
12 3 0.09
13 19 0.54
14 8 0.23
ACGTcount: A:0.59, C:0.07, G:0.03, T:0.31
Consensus pattern (13 bp):
TAATATAATAACA
Found at i:2660102 original size:38 final size:39
Alignment explanation
Indices: 2660047--2660123 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 39
2660037 TAACTAAGCC
*
2660047 TAATATAATAACGTAATACATAT-AAAAAATATTGAACA
1 TAATATAATAACATAATACATATCAAAAAATATTGAACA
* *
2660085 TAATATAATAACATAATATATATCGAAAAATATTGAACA
1 TAATATAATAACATAATACATATCAAAAAATATTGAACA
2660124 GATCTATAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 21 0.60
39 14 0.40
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (39 bp):
TAATATAATAACATAATACATATCAAAAAATATTGAACA
Found at i:2661036 original size:14 final size:14
Alignment explanation
Indices: 2661017--2661060 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
2661007 AGGGTTGATT
2661017 GAGAGAGAAAAGAA
1 GAGAGAGAAAAGAA
2661031 GAGAGAGAAAAGAA
1 GAGAGAGAAAAGAA
2661045 GAGAGAGAAAAAGAA
1 GAGAGAG-AAAAGAA
2661060 G
1 G
2661061 TGACAGCGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 21 0.72
15 8 0.28
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (14 bp):
GAGAGAGAAAAGAA
Found at i:2664797 original size:18 final size:18
Alignment explanation
Indices: 2664754--2664800 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
2664744 ATTTCGAATG
* *
2664754 TTGTTATTTTTATATGTT
1 TTGTTATTTTTTTATCTT
*
2664772 TTG-T-TTTTTTTCTCTT
1 TTGTTATTTTTTTATCTT
2664788 TTGTTATTTTTTT
1 TTGTTATTTTTTT
2664801 GTATTTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 12 0.50
17 2 0.08
18 10 0.42
ACGTcount: A:0.09, C:0.04, G:0.09, T:0.79
Consensus pattern (18 bp):
TTGTTATTTTTTTATCTT
Found at i:2668564 original size:23 final size:23
Alignment explanation
Indices: 2668534--2668581 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
2668524 CATCGAAACG
2668534 TTTGCTCATGGGTTATATGAGCT
1 TTTGCTCATGGGTTATATGAGCT
2668557 TTTGCTCATGGGTTATATGAGCT
1 TTTGCTCATGGGTTATATGAGCT
2668580 TT
1 TT
2668582 CGCTTCGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (23 bp):
TTTGCTCATGGGTTATATGAGCT
Found at i:2672939 original size:17 final size:18
Alignment explanation
Indices: 2672903--2673005 Score: 92
Period size: 17 Copynumber: 6.0 Consensus size: 18
2672893 ATAAGCATTC
* *
2672903 TACTTCATATAAATCATG
1 TACTTCATTTAAAGCATG
*
2672921 TACTTAATTTAAA-CATG
1 TACTTCATTTAAAGCATG
*
2672938 TAGTTCA-TTAAAGCATG
1 TACTTCATTTAAAGCATG
*
2672955 TA-GTCATTT-AAGCATG
1 TACTTCATTTAAAGCATG
*
2672971 CTACTTCATTT-AAGCATT
1 -TACTTCATTTAAAGCATG
*
2672989 TATTTCATTT-AAGCATG
1 TACTTCATTTAAAGCATG
2673006 ATGTTTATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
16 15 0.21
17 34 0.47
18 23 0.32
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.41
Consensus pattern (18 bp):
TACTTCATTTAAAGCATG
Found at i:2672955 original size:34 final size:34
Alignment explanation
Indices: 2672894--2673005 Score: 118
Period size: 34 Copynumber: 3.2 Consensus size: 34
2672884 TATTGATAAA
* * *
2672894 TAAGCATTCTACTTCATATAAATCATGTACTTAATT
1 TAAGCATGCTACTTCAT-TAAAGCATGTA-TTCATT
* * *
2672930 TAAACATG-TAGTTCATTAAAGCATGTAGTCATT
1 TAAGCATGCTACTTCATTAAAGCATGTATTCATT
* *
2672963 TAAGCATGCTACTTCATTTAAGCATTTATTTCATT
1 TAAGCATGCTACTTCATTAAAGCATGTA-TTCATT
2672998 TAAGCATG
1 TAAGCATG
2673006 ATGTTTATTT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
33 11 0.17
34 26 0.41
35 20 0.32
36 6 0.10
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (34 bp):
TAAGCATGCTACTTCATTAAAGCATGTATTCATT
Found at i:2673348 original size:27 final size:27
Alignment explanation
Indices: 2673318--2673379 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
2673308 TACTGAAGAC
*
2673318 AATGCATGCTATAATTTAATTATAGGA
1 AATGCATGCTAGAATTTAATTATAGGA
* * * *
2673345 AATGCACGTTAGAATTTTATTATGGGA
1 AATGCATGCTAGAATTTAATTATAGGA
2673372 AATGCATG
1 AATGCATG
2673380 TGAGGAAGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.35
Consensus pattern (27 bp):
AATGCATGCTAGAATTTAATTATAGGA
Found at i:2678494 original size:4 final size:4
Alignment explanation
Indices: 2678478--2678521 Score: 72
Period size: 4 Copynumber: 11.0 Consensus size: 4
2678468 AAATGAATGT
2678478 TAAA T-AA TAAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
2678522 AGAATAAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 3 0.08
4 32 0.84
5 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:2681999 original size:14 final size:14
Alignment explanation
Indices: 2681980--2682016 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2681970 ATTGCTCTAA
2681980 TTTGTTTATTTTCT
1 TTTGTTTATTTTCT
*
2681994 TTTGTTTATTTTTT
1 TTTGTTTATTTTCT
2682008 TTTGTTTAT
1 TTTGTTTAT
2682017 ATTGCATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.08, C:0.03, G:0.08, T:0.81
Consensus pattern (14 bp):
TTTGTTTATTTTCT
Found at i:2682973 original size:14 final size:14
Alignment explanation
Indices: 2682935--2682988 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
2682925 ATTTTAAATA
*
2682935 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
2682949 TTTTACATTTGCAT
1 ATTTACATTTGCAT
2682963 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
2682978 CTTTGCATTTG
1 ATTTACATTTG
2682989 TATTGCACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:2686262 original size:13 final size:12
Alignment explanation
Indices: 2686241--2686272 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
2686231 GCAAAGAAAG
2686241 AAGAAAAAAAAA
1 AAGAAAAAAAAA
*
2686253 AGGAAAAAAAAA
1 AAGAAAAAAAAA
2686265 AAGAAAAA
1 AAGAAAAA
2686273 GGAAAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAAA
Found at i:2688654 original size:114 final size:114
Alignment explanation
Indices: 2688454--2688766 Score: 491
Period size: 114 Copynumber: 2.7 Consensus size: 114
2688444 CCATATGCTC
* *
2688454 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATATGGTTTGGTATGAACCCCAAAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAAT
* *
2688519 CATTAGATTTAAAATATGAATTTGCTCATAGTAGAAATAAGAAGACCCA
66 CATTGGATTTAAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCA
* *
2688568 ATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACTAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAAT
* *
2688633 CATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACCCA
66 CATTGGATTTAAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCA
* * * * *
2688682 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTCGGTAGGAACCCCAGAACCGAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAAT
* *
2688747 CATTGAAATTAAAAGATGAA
66 CATTGGATTTAAAAGATGAA
2688767 CTGCATGATC
Statistics
Matches: 181, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 181 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.32
Consensus pattern (114 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCCAAAACCAAT
CATTGGATTTAAAAGATGAATTTGCTCATAGTAGAAATAAGAAGACCCA
Found at i:2689755 original size:41 final size:41
Alignment explanation
Indices: 2689698--2689787 Score: 180
Period size: 41 Copynumber: 2.2 Consensus size: 41
2689688 GAGGGACATA
2689698 TTGAAGGCCAATTTCTACCAGAAATAGAATATTGGGGCATT
1 TTGAAGGCCAATTTCTACCAGAAATAGAATATTGGGGCATT
2689739 TTGAAGGCCAATTTCTACCAGAAATAGAATATTGGGGCATT
1 TTGAAGGCCAATTTCTACCAGAAATAGAATATTGGGGCATT
2689780 TTGAAGGC
1 TTGAAGGC
2689788 TCACAGCAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (41 bp):
TTGAAGGCCAATTTCTACCAGAAATAGAATATTGGGGCATT
Found at i:2691017 original size:54 final size:54
Alignment explanation
Indices: 2690942--2691133 Score: 225
Period size: 54 Copynumber: 3.6 Consensus size: 54
2690932 AAGCCACAGA
* * *
2690942 AAAGGATGAATGTGTTGTCAAACGCTTTATGAACGTCTGAGCAAAAACCACAAG
1 AAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCTGAGCAAAAACCACAAG
** *
2690996 AAAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTGAGCAAAAGCCAC-AG
1 AAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCTGAGCAAAAACCACAAG
* * *
2691049 AAAAGGATGAATGTGTTGTCAAGTG-TTT-T--ACATCTCGA-CAGAAACCACAGG
1 -AAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCT-GAGCAAAAACCACAAG
* *
2691100 AAAAGATGAATGTATTGTCAAATGTTTTATGAAC
1 AAAGGATGAATGTGTTGTCAAATGTTTTATGAAC
2691134 CAGTGATTAT
Statistics
Matches: 117, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
50 35 0.30
51 6 0.05
52 1 0.01
53 5 0.04
54 70 0.60
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (54 bp):
AAAGGATGAATGTGTTGTCAAATGTTTTATGAACATCTGAGCAAAAACCACAAG
Found at i:2691127 original size:104 final size:107
Alignment explanation
Indices: 2690932--2691128 Score: 285
Period size: 104 Copynumber: 1.9 Consensus size: 107
2690922 ATCTTGGCAG
*
2690932 AAGCCACAGAAAAGGATGAATGTGTTGTCAAACGCTTTATGAACGTCTGAGCAAAAACCACAAGA
1 AAGCCACAGAAAAGGATGAATGTGTTGTCAAACGCTTTAT-AACATCTGAGCAAAAACCACAAGA
* *
2690997 AAGGATGAATGTGTTGTCAAATGTTTTACAAACATCTGAGCAA
65 AAAGATGAATGTATTGTCAAATGTTTTACAAACATCTGAGCAA
** * *
2691040 AAGCCACAGAAAAGGATGAATGTGTTGTCAAGTG-TTT-T-ACATCTCGA-CAGAAACCACAGGA
1 AAGCCACAGAAAAGGATGAATGTGTTGTCAAACGCTTTATAACATCT-GAGCAAAAACCACAAGA
2691101 AAAGATGAATGTATTGTCAAATGTTTTA
65 AAAGATGAATGTATTGTCAAATGTTTTA
2691129 TGAACCAGTG
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
104 43 0.53
105 2 0.02
106 1 0.01
107 3 0.04
108 32 0.40
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (107 bp):
AAGCCACAGAAAAGGATGAATGTGTTGTCAAACGCTTTATAACATCTGAGCAAAAACCACAAGAA
AAGATGAATGTATTGTCAAATGTTTTACAAACATCTGAGCAA
Found at i:2691521 original size:22 final size:22
Alignment explanation
Indices: 2691489--2691546 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
2691479 TACATCTACA
*
2691489 CTTTTCAAAGATGATAGATTCCC
1 CTTTTCAAAGATGACAGATT-CC
*
2691512 CTTTT-AAAGATGACAGATTCT
1 CTTTTCAAAGATGACAGATTCC
2691533 CTTTTCAAAGATGA
1 CTTTTCAAAGATGA
2691547 AAGCTTTATC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 6 0.19
22 21 0.66
23 5 0.16
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (22 bp):
CTTTTCAAAGATGACAGATTCC
Found at i:2692113 original size:113 final size:112
Alignment explanation
Indices: 2691985--2692507 Score: 809
Period size: 113 Copynumber: 4.7 Consensus size: 112
2691975 TTTCCAGTTC
*
2691985 AAGTTCATAATGAGAAGAACTCAACTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* * *
2692050 CAACCTTTTGCTTAAATCCATCACTTGATGGATTAGCTTTGCCAGAGA
66 CAACCTTTTG-TCAAATACATCACTTGATGGATTAGCTTTTCCAGAGA
* *
2692098 AAGTTCATAACGAGAAGAACTCATCTGAAGAAGGAAGAAG---TTCATAATGAGAAGAATTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* * *
2692160 CAACCTTTTGCCCAAATCCATCACTTGATGGATTAGCTTTTCTAGAGA
66 CAACCTTTTG-TCAAATACATCACTTGATGGATTAGCTTTTCCAGAGA
* *
2692208 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
*
2692273 CAACCTTTTGTTCAAATACATCACTTGATGGATTAGCTTTTCTAGAGA
66 CAACCTTTTG-TCAAATACATCACTTGATGGATTAGCTTTTCCAGAGA
* * *
2692321 AAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTCGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
** *
2692386 CAACCTTTTGTACAAATACATCACTTGATGGATCCGCTTTTCCAGAGG
66 CAACCTTTTGT-CAAATACATCACTTGATGGATTAGCTTTTCCAGAGA
* *
2692434 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTAATAATGAGAAGAATTTATT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
2692499 CAACCTTTT
66 CAACCTTTT
2692508 TTCATCATTT
Statistics
Matches: 383, Mismatches: 23, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
110 103 0.27
112 1 0.00
113 279 0.73
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (112 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
CAACCTTTTGTCAAATACATCACTTGATGGATTAGCTTTTCCAGAGA
Found at i:2692339 original size:223 final size:225
Alignment explanation
Indices: 2691964--2692511 Score: 843
Period size: 223 Copynumber: 2.4 Consensus size: 225
2691954 CCATCATTCA
* *** *
2691964 ATGGATCAACTTTTCCAGTTCAAGTTCATAATGAGAAGAACTCAACTGAAGAAGGAAGAAGAAAT
1 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
*
2692029 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTT-AAATCCATCACTTGATGGATTAGCTTTGCC
66 TCATAATGAGAAGAATTTGTTCAACCTTTTG-TTCAAATACATCACTTGATGGATTAGCTTTGCC
*
2692093 AGAGAAAGTTCATAACGAGAAGAACTCATCTGAAGAA-G-GAAGAAGTTCATAATGAGAAGAATT
130 AGAGAAAGTTCATAACAAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAGAAGAATT
* * *
2692156 TATTCAACCTTTTGCCCAAATCCATCACTTG
195 CATTCAACCTTTTGCACAAATACATCACTTG
* * * *
2692187 ATGGATTAGCTTTTCTAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
* *
2692252 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATACATCACTTGATGGATTAGCTTTTCTA
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATACATCACTTGATGGATTAGCTTTGCCA
*
2692317 GAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
131 GAGAAAGTTCATAACAAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCATAATGAGAAGAATT
* *
2692382 CGTTCAACCTTTTGTACAAATACATCACTTG
195 CATTCAACCTTTTGCACAAATACATCACTTG
* *
2692413 ATGGATCCGCTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
1 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
* *
2692478 TAATAATGAGAAGAATTTATTCAACCTTTT-TTCA
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTCA
2692512 TCATTTGATG
Statistics
Matches: 294, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
222 2 0.01
223 149 0.51
224 1 0.00
225 4 0.01
226 138 0.47
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (225 bp):
ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
TCATAATGAGAAGAATTTGTTCAACCTTTTGTTCAAATACATCACTTGATGGATTAGCTTTGCCA
GAGAAAGTTCATAACAAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAGAAGAATTC
ATTCAACCTTTTGCACAAATACATCACTTG
Found at i:2692579 original size:113 final size:106
Alignment explanation
Indices: 2691955--2692561 Score: 639
Period size: 113 Copynumber: 5.5 Consensus size: 106
2691945 GATTTAAATC
** * ** *
2691955 CATCATTCAATGGATCAACTTTTCCAGTTCAAGTTCATAATGAGAAGAACTCAACTGAAGAAGGA
1 CATCATTTGATGGATCAGCTTTTCCAG-AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
2692020 AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAAT
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG--T---T
* * * *
2692067 CCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAACGAGAAGAACTCATCTGAAGAA-G
1 -CATCATTTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* *
2692131 --GAAGAAGTTCATAATGAGAAGAATTTATTCAACCTTTTGCCCAAATC
64 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG------TT
* * * *
2692178 CATCACTTGATGGATTAGCTTTTCTAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
2692243 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTT
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTT
* * *
2692285 CAAATACATCACTTGATGGATTAGCTTTTCTAGAGAAAGTTCATAATAAGAAGAACTCATCTGAA
1 C--AT-CAT---TTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAA
*
2692350 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTCGTTCAACCTTTTGTACAAAT
59 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT-----T
* *
2692403 ACATCACTTGATGGATCCGCTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 -CATCATTTGATGGATCAGCTTTTCCAGA-GAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* * *
2692468 AAGAAGAAATTAATAATGAGAAGAATTTATTCAACCTTTT-TT
64 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTT
* * *
2692510 CATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTC
1 CATCATTTGATGGATCAGCTTTTCCAGAG-A-AGTTCATAATGAGAAGAACTC
2692562 GTCATCTGAA
Statistics
Matches: 434, Mismatches: 37, Indels: 53
0.83 0.07 0.10
Matches are distributed among these distances:
104 1 0.00
105 1 0.00
106 43 0.10
107 3 0.01
109 2 0.00
110 97 0.22
111 1 0.00
112 2 0.00
113 276 0.64
114 2 0.00
116 2 0.00
117 2 0.00
118 1 0.00
119 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (106 bp):
CATCATTTGATGGATCAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTT
Found at i:2692813 original size:17 final size:17
Alignment explanation
Indices: 2692755--2692813 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
2692745 CAGCATTTCC
*
2692755 AGAAGGAGTTCACAATG
1 AGAAGAAGTTCACAATG
*
2692772 AGAAGAA-CTCATCTGAA-G
1 AGAAGAAGTTCA-C--AATG
2692790 AAGAAGAAGTTCACAATG
1 -AGAAGAAGTTCACAATG
2692808 AGAAGA
1 AGAAGA
2692814 GCTTGTGCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
16 3 0.09
17 15 0.45
18 2 0.06
19 10 0.30
20 3 0.09
ACGTcount: A:0.47, C:0.12, G:0.25, T:0.15
Consensus pattern (17 bp):
AGAAGAAGTTCACAATG
Found at i:2693070 original size:15 final size:14
Alignment explanation
Indices: 2693050--2693109 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
2693040 TTTTACCCAT
2693050 TTTATTTATTTATTA
1 TTTATTTA-TTATTA
2693065 TTTA-TTATTATTA
1 TTTATTTATTATTA
*
2693078 TAATTA-TAATTATTA
1 T--TTATTTATTATTA
*
2693093 TATATATTATTATTA
1 TTTAT-TTATTATTA
2693108 TT
1 TT
2693110 ATTAAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 9 0.24
14 3 0.08
15 25 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTATTTATTATTA
Found at i:2693072 original size:3 final size:3
Alignment explanation
Indices: 2693059--2693113 Score: 67
Period size: 3 Copynumber: 18.0 Consensus size: 3
2693049 TTTTATTTAT
* *
2693059 TTA TTA TTTA TTA TTA TTA TAA TTA TAA TTA TTA -TA TATA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
2693105 TTA TTA TTA
1 TTA TTA TTA
2693114 AAAAAATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 2 0.04
3 37 0.82
4 6 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2693126 original size:30 final size:30
Alignment explanation
Indices: 2693067--2693126 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
2693057 ATTTATTATT
* ** *
2693067 TATTATTATTATAATTATAATTATTATATA
1 TATTATTATTATAATTAAAAAAATAATATA
*
2693097 TATTATTATTATTATTAAAAAAATAATATA
1 TATTATTATTATAATTAAAAAAATAATATA
2693127 ATAATAATAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TATTATTATTATAATTAAAAAAATAATATA
Found at i:2696903 original size:27 final size:25
Alignment explanation
Indices: 2696860--2696910 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
2696850 TCAAAGGTAC
* *
2696860 TTGGATGGAAATTTATGAGAATACT
1 TTGGATGGAAAATTATGAAAATACT
2696885 TTGGTATGGTAAAATTATGAAAATAC
1 TTGG-ATGG-AAAATTATGAAAATAC
2696911 CCTTATGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 4 0.18
27 14 0.64
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (25 bp):
TTGGATGGAAAATTATGAAAATACT
Found at i:2698610 original size:24 final size:24
Alignment explanation
Indices: 2698583--2698638 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
2698573 TCATATTTTA
*
2698583 TCTGATTTTTGACTTGAATTATGT
1 TCTGATTTATGACTTGAATTATGT
** *
2698607 TCTGATACATGACTTGAATTTTGT
1 TCTGATTTATGACTTGAATTATGT
2698631 TCTGATTT
1 TCTGATTT
2698639 CTACTATGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.52
Consensus pattern (24 bp):
TCTGATTTATGACTTGAATTATGT
Found at i:2698849 original size:2 final size:2
Alignment explanation
Indices: 2698842--2698874 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2698832 AAAGGATGGG
2698842 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2698875 GTTTTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2703349 original size:24 final size:24
Alignment explanation
Indices: 2703277--2703354 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
2703267 AAATATTTTA
2703277 TCTGATTTTTGACTTGAATTCTGT
1 TCTGATTTTTGACTTGAATTCTGT
*** *
2703301 TCTGATACATGACTTGAATTATGT
1 TCTGATTTTTGACTTGAATTCTGT
*
2703325 TCTGATTTTTGA-TATGGATTCTGT
1 TCTGATTTTTGACT-TGAATTCTGT
2703349 TCTGAT
1 TCTGAT
2703355 ATCTGTTATG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 1 0.02
24 43 0.98
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.50
Consensus pattern (24 bp):
TCTGATTTTTGACTTGAATTCTGT
Found at i:2703367 original size:48 final size:48
Alignment explanation
Indices: 2703277--2703388 Score: 131
Period size: 48 Copynumber: 2.3 Consensus size: 48
2703267 AAATATTTTA
*
2703277 TCTGATTTTTGACT-TGAATTCTGTTCTGATACATGACTTGAATTATGT
1 TCTGATTTTTGA-TATGAATTCTGTTCTGATACATGACTTGAATTATAT
* *
2703325 TCTGATTTTTGATATGGATTCTGTTCTGATATC-TG-TTATGAATTATAT
1 TCTGATTTTTGATATGAATTCTGTTCTGATA-CATGACT-TGAATTATAT
*
2703373 TTTGATTTTCTGATAT
1 TCTGATTTT-TGATAT
2703389 CTCTGTTTAC
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
47 2 0.04
48 47 0.84
49 7 0.12
ACGTcount: A:0.22, C:0.10, G:0.16, T:0.52
Consensus pattern (48 bp):
TCTGATTTTTGATATGAATTCTGTTCTGATACATGACTTGAATTATAT
Found at i:2704279 original size:2 final size:2
Alignment explanation
Indices: 2704215--2704263 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
2704205 CTTAACGTGC
2704215 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2704257 AT AT AT A
1 AT AT AT A
2704264 AAAACTAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2704371 original size:21 final size:18
Alignment explanation
Indices: 2704329--2704377 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 18
2704319 TATATATTAC
*
2704329 ATATGTTTTTCAAAAATT
1 ATATGTTTTTCAAAAATA
2704347 ATATGTTTTTCAAATAAAATA
1 ATATGTTTTTC--A-AAAATA
2704368 ATATGTTTTT
1 ATATGTTTTT
2704378 TTTTAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 11 0.41
20 1 0.04
21 15 0.56
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (18 bp):
ATATGTTTTTCAAAAATA
Found at i:2704403 original size:22 final size:22
Alignment explanation
Indices: 2704378--2704559 Score: 140
Period size: 22 Copynumber: 8.2 Consensus size: 22
2704368 ATATGTTTTT
* *
2704378 TTTTAAAAAACTATGCTATATA
1 TTTTCAAAAACTATACTATATA
* *
2704400 TTTTCAAAGACTATATATTATATA
1 TTTTCAAAAAC--TATACTATATA
* * * *
2704424 TGTTTTCAAAAATTATACCATTTG
1 --TTTTCAAAAACTATACTATATA
* *
2704448 TTTT-TAAAATTATACTATATA
1 TTTTCAAAAACTATACTATATA
2704469 TTTTC-AAAACTATA-TATTATA
1 TTTTCAAAAACTATACTA-TATA
* *
2704490 TGTTTTCAAAAACTATACCATATG
1 --TTTTCAAAAACTATACTATATA
*
2704514 TTTTTAAAAACTATACTATATA
1 TTTTCAAAAACTATACTATATA
*
2704536 TTTTCAAAAACCATA-TAT-TA
1 TTTTCAAAAACTATACTATATA
2704556 TTTT
1 TTTT
2704560 TTTGACAAAA
Statistics
Matches: 128, Mismatches: 22, Indels: 22
0.74 0.13 0.13
Matches are distributed among these distances:
20 8 0.06
21 32 0.25
22 45 0.35
23 5 0.04
24 28 0.22
25 1 0.01
26 9 0.07
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (22 bp):
TTTTCAAAAACTATACTATATA
Found at i:2704421 original size:24 final size:24
Alignment explanation
Indices: 2704394--2704582 Score: 134
Period size: 24 Copynumber: 8.2 Consensus size: 24
2704384 AAAACTATGC
*
2704394 TATATATTTTCAAAGACTATATAT
1 TATATATTTTCAAAAACTATATAT
* *
2704418 TATATATGTTTTCAAAAATTATACCAT
1 TATATA--TTTTCAAAAACTATA-TAT
* *
2704445 T-TGT-TTTT--AAAA-T-TATAC
1 TATATATTTTCAAAAACTATATAT
2704463 TATATATTTTC-AAAACTATATAT
1 TATATATTTTCAAAAACTATATAT
* *
2704486 TATATGTTTTCAAAAACTATACCA-
1 TATATATTTTCAAAAACTATA-TAT
* *
2704510 TATGT-TTTT-AAAAAC--TATAC
1 TATATATTTTCAAAAACTATATAT
*
2704530 TATATATTTTCAAAAACCATATAT
1 TATATATTTTCAAAAACTATATAT
* *
2704554 TAT-TTTTTTGACAAAACTATATAT
1 TATATATTTTCA-AAAACTATATAT
2704578 TATAT
1 TATAT
2704583 GATATAAAAA
Statistics
Matches: 131, Mismatches: 17, Indels: 33
0.72 0.09 0.18
Matches are distributed among these distances:
18 2 0.02
19 5 0.04
20 11 0.08
21 12 0.09
22 13 0.10
23 28 0.21
24 40 0.31
25 2 0.02
26 15 0.11
27 3 0.02
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (24 bp):
TATATATTTTCAAAAACTATATAT
Found at i:2704458 original size:21 final size:21
Alignment explanation
Indices: 2704421--2704522 Score: 87
Period size: 21 Copynumber: 4.7 Consensus size: 21
2704411 TATATATTAT
*
2704421 ATATGTTTTCAAAAATTATACC
1 ATATGTTTT-TAAAATTATACC
* *
2704443 ATTTGTTTTTAAAATTATACT
1 ATATGTTTTTAAAATTATACC
* * **
2704464 ATATATTTTCAAAACTATATATT
1 ATATGTTTTTAAAA-T-TATACC
* *
2704487 ATATGTTTTCAAAAACTATACC
1 ATATGTTTT-TAAAATTATACC
2704509 ATATGTTTTTAAAA
1 ATATGTTTTTAAAA
2704523 ACTATACTAT
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
21 25 0.39
22 22 0.34
23 13 0.20
24 4 0.06
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (21 bp):
ATATGTTTTTAAAATTATACC
Found at i:2704495 original size:66 final size:67
Alignment explanation
Indices: 2704377--2704574 Score: 265
Period size: 66 Copynumber: 2.9 Consensus size: 67
2704367 AATATGTTTT
* *
2704377 TTTTTAAAAAACTATGCTATATATTTTCAAAGACTATATATTATATATGTTTTCAAAAATTATAC
1 TTTTT-AAAAACTATACTATATATTTTCAAA-ACTATATA-T-TATATGTTTTCAAAAACTATAC
*
2704442 CATTTG
62 CATATG
*
2704448 TTTTT-AAAATTATACTATATATTTTCAAAACTATATATTATATGTTTTCAAAAACTATACCATA
1 TTTTTAAAAACTATACTATATATTTTCAAAACTATATATTATATGTTTTCAAAAACTATACCATA
2704512 TG
66 TG
* * *
2704514 TTTTTAAAAACTATACTATATATTTTCAAAAACCATATATTAT-TTTTTTGACAAAACTATA
1 TTTTTAAAAACTATACTATATATTTTC-AAAACTATATATTATATGTTTTCA-AAAACTATA
2704575 TATTATATGA
Statistics
Matches: 116, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
66 31 0.27
67 27 0.23
68 31 0.27
69 22 0.19
71 5 0.04
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.45
Consensus pattern (67 bp):
TTTTTAAAAACTATACTATATATTTTCAAAACTATATATTATATGTTTTCAAAAACTATACCATA
TG
Found at i:2704525 original size:46 final size:46
Alignment explanation
Indices: 2704469--2704583 Score: 130
Period size: 46 Copynumber: 2.5 Consensus size: 46
2704459 ATACTATATA
* *
2704469 TTTTCAAAACTATATATTATATGTTTTCAAAAACTATACCA-TATGT
1 TTTTAAAAACTATATATTATATGTTTTCAAAAACCATA-CATTATGT
* *
2704515 TTTTAAAAACTATACTA-TATA--TTTTCAAAAACCATATATTATTT
1 TTTTAAAAACTATA-TATTATATGTTTTCAAAAACCATACATTATGT
2704559 TTTTGACAAAACTATATATTATATG
1 TTTT-A-AAAACTATATATTATATG
2704584 ATATAAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
43 1 0.02
44 22 0.38
45 3 0.05
46 30 0.52
47 2 0.03
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.44
Consensus pattern (46 bp):
TTTTAAAAACTATATATTATATGTTTTCAAAAACCATACATTATGT
Found at i:2704561 original size:22 final size:23
Alignment explanation
Indices: 2704377--2704582 Score: 130
Period size: 22 Copynumber: 9.0 Consensus size: 23
2704367 AATATGTTTT
* *
2704377 TTTTTAAAAAACTATGCTA-TATA
1 TTTTTCAAAAACTAT-ATATTATA
*
2704400 -TTTTCAAAGACTATATATTATATA
1 TTTTTCAAAAACTATATA-T-TATA
* * *
2704424 TGTTTTCAAAAATTATACCATT-TG
1 T-TTTTCAAAAACTATA-TATTATA
*
2704448 TTTTT--AAAA-T-TATACTATA
1 TTTTTCAAAAACTATATATTATA
2704467 TATTTTC-AAAACTATATATTATA
1 T-TTTTCAAAAACTATATATTATA
* *
2704490 TGTTTTCAAAAACTATACCA-TATG
1 T-TTTTCAAAAACTATA-TATTATA
2704514 TTTTT-AAAAACTATACTA-TATA
1 TTTTTCAAAAACTATA-TATTATA
* *
2704536 -TTTTCAAAAACCATATATTATT
1 TTTTTCAAAAACTATATATTATA
*
2704558 TTTTTGACAAAACTATATATTATA
1 TTTTTCA-AAAACTATATATTATA
2704582 T
1 T
2704583 GATATAAAAA
Statistics
Matches: 145, Mismatches: 21, Indels: 33
0.73 0.11 0.17
Matches are distributed among these distances:
18 2 0.01
19 4 0.03
20 5 0.03
21 16 0.11
22 40 0.28
23 27 0.19
24 34 0.23
25 2 0.01
26 14 0.10
27 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (23 bp):
TTTTTCAAAAACTATATATTATA
Found at i:2705531 original size:116 final size:122
Alignment explanation
Indices: 2705315--2705659 Score: 472
Period size: 116 Copynumber: 2.9 Consensus size: 122
2705305 TATCCTTCGT
2705315 TGAGAAGCT-GAAATTGACTCTGATAAAAATCTGCAAAATTATGCATGTGTGTGATGCTATGAAT
1 TGAGAAG-TAGAAATTGACTCTGATAAAAATCTGCAAAATTATGCATGTGTGTGATGCTATGAAT
* * * ** **
2705379 GCACTACTTTTATGTATGTCTAAAATGTATATGCAAAATATGTTAT-TTTAGGA-C-T-
65 GCACTGCTCTTATGTATGTCTAAAATGCATATGCAAAATATG-TATGCCTAAAAGCATA
2705434 T-AG-AG-AGAAATTGACTCTGATAAAAATCTGCAAAATTATGCATGTGTGTGATGCTATGAATG
1 TGAGAAGTAGAAATTGACTCTGATAAAAATCTGCAAAATTATGCATGTGTGTGATGCTATGAATG
*
2705496 CACTGCTCTTATGTATGTCTAAAATGCATAAGCAAAATATGTATGCCTAAAATGCATA
66 CACTGCTCTTATGTATGTCTAAAATGCATATGCAAAATATGTATGCCTAAAA-GCATA
* * * * * *
2705554 TGCGAAGTTGAAATTGACTTTGATAAAAATATGCAAAATTATGTATGTATGTGATGCTATGAATG
1 TGAGAAGTAGAAATTGACTCTGATAAAAATCTGCAAAATTATGCATGTGTGTGATGCTATGAATG
*
2705619 CATTGCTCTTATGTATGTCTAAAATGCATATGCAAAATATG
66 CACTGCTCTTATGTATGTCTAAAATGCATATGCAAAATATG
2705660 ATTCAAAATA
Statistics
Matches: 201, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
115 3 0.01
116 96 0.48
117 2 0.01
118 3 0.01
119 2 0.01
120 1 0.00
121 1 0.00
122 2 0.01
123 91 0.45
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (122 bp):
TGAGAAGTAGAAATTGACTCTGATAAAAATCTGCAAAATTATGCATGTGTGTGATGCTATGAATG
CACTGCTCTTATGTATGTCTAAAATGCATATGCAAAATATGTATGCCTAAAAGCATA
Found at i:2707601 original size:30 final size:30
Alignment explanation
Indices: 2707567--2707632 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
2707557 GTTGATAAAA
* * *
2707567 TATTAATAAACATCTTAAAATTGTATGAAT
1 TATTAATAAACACCATAAAAATGTATGAAT
*
2707597 TATTAATAAACGCCATAAAAATGTATGAAT
1 TATTAATAAACACCATAAAAATGTATGAAT
2707627 TATTAA
1 TATTAA
2707633 ATGTAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (30 bp):
TATTAATAAACACCATAAAAATGTATGAAT
Found at i:2709021 original size:162 final size:162
Alignment explanation
Indices: 2708695--2709033 Score: 493
Period size: 162 Copynumber: 2.1 Consensus size: 162
2708685 AGATTGAAAT
* * *
2708695 AAGTATCGACACTTTGGGAATTTAAAAGAGAACCAGTAATAGCACCTATAAAGTGTCGATACTTT
1 AAGTGTCGATACTTTGAGAATTTAAAAGAGAACCAGTAATAGCACCTATAAAGTGTCGATACTTT
* *
2708760 ATAAAAATGTATTGTTCCATAACAATATAACAGGTAAAAATATGACAAAACCGATCTCGAAAAGA
66 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGATCTCGAAAAGA
* * * *
2708825 CAAAACTGGCAAAACGCTATCGGATCTGTTGA
131 AAAAACTGGCAAAACGCTACCGGATATATTGA
* **
2708857 AAGTGTCGATACTTTGAGAATTTAAAAGAGAAGCAGTAATAGTTCCTATAAAGTGTCGATACTTT
1 AAGTGTCGATACTTTGAGAATTTAAAAGAGAACCAGTAATAGCACCTATAAAGTGTCGATACTTT
* * * *
2708922 ATTAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCGGTGCTTC-AAAT
66 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGAT-C-TCGAAAA
*
2708986 GAAAAAACTGG-AAAGCGCTACCGGATATATTGA
129 GAAAAAACTGGCAAAACGCTACCGGATATATTGA
2709019 AAGTGTCGATACTTT
1 AAGTGTCGATACTTT
2709034 AATATAAGTA
Statistics
Matches: 158, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
162 142 0.90
163 14 0.09
164 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (162 bp):
AAGTGTCGATACTTTGAGAATTTAAAAGAGAACCAGTAATAGCACCTATAAAGTGTCGATACTTT
ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGATCTCGAAAAGA
AAAAACTGGCAAAACGCTACCGGATATATTGA
Found at i:2709278 original size:183 final size:182
Alignment explanation
Indices: 2708874--2709402 Score: 832
Period size: 182 Copynumber: 2.9 Consensus size: 182
2708864 GATACTTTGA
* ** *
2708874 GAATTTAAAAGAGAAGCAGTAATAGTTCCTATAAAGTGTCGATACTTTATTAAAATGTATCGATC
1 GAATTTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATC
* * *
2708939 CATAACGATATAACAGGTAAAAATATGACAAAACCGGTGCTTCAAATGAAAAAACTGGAAAGCGC
66 CATAACGATATAACAGGTAAAAATATGACAAAACCGGTGCTTCAAATGACAAAACCGTAAAGCGC
* * *
2709004 TACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATTGACACTTTGG
131 TACCGGATATATTGAAAGTGTCTATACTTTAATATAAGTATCGACACTCTGG
*
2709056 GAATTTAAAAGAGAA-ACAATAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGAT
1 GAATTTAAAAGAGAAGA-AGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGAT
*
2709120 CCATAACGATATAACAGGTAAAAATATGACAAACCCGGTGCTTCAAATGACAAAACCGATAAAGC
65 CCATAACGATATAACAGGTAAAAATATGACAAAACCGGTGCTTCAAATGACAAAACCG-TAAAGC
*
2709185 GCTATCGGATATATTGAAAGTGTCTATACTTTAATATAAGTATCGACACTCTGG
129 GCTACCGGATATATTGAAAGTGTCTATACTTTAATATAAGTATCGACACTCTGG
*
2709239 GAATTTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCAATC
1 GAATTTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATC
*
2709304 CATAACGATATAACAGGTAAAAATATGACAAAACTGGT-C-TCGAAATGACAAAACCGGTAAAGC
66 CATAACGATATAACAGGTAAAAATATGACAAAACCGGTGCTTC-AAATGACAAAACC-GTAAAGC
**
2709367 GCTACCAAATATATTGAAAGTGT-TGATACTTTAATA
129 GCTACCGGATATATTGAAAGTGTCT-ATACTTTAATA
2709403 AGTAAGCATA
Statistics
Matches: 321, Mismatches: 20, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
181 3 0.01
182 164 0.51
183 153 0.48
184 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
GAATTTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTATCGATC
CATAACGATATAACAGGTAAAAATATGACAAAACCGGTGCTTCAAATGACAAAACCGTAAAGCGC
TACCGGATATATTGAAAGTGTCTATACTTTAATATAAGTATCGACACTCTGG
Found at i:2711316 original size:22 final size:24
Alignment explanation
Indices: 2711270--2711320 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
2711260 GTTTTTGTTT
* *
2711270 TTATATAAAATGATAGTATAGTTA
1 TTATATAAAAAGATAGAATAGTTA
2711294 TTATATAAAAAGATA-AATA-TTA
1 TTATATAAAAAGATAGAATAGTTA
2711316 TTATA
1 TTATA
2711321 AATGCAGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 8 0.32
23 3 0.12
24 14 0.56
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (24 bp):
TTATATAAAAAGATAGAATAGTTA
Found at i:2713623 original size:20 final size:20
Alignment explanation
Indices: 2713598--2713640 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
2713588 AAACCGATAA
*
2713598 TTACAATGTAATAGGTAAAT
1 TTACAATGTAAAAGGTAAAT
*
2713618 TTACAATGTAAAAGGTATAT
1 TTACAATGTAAAAGGTAAAT
2713638 TTA
1 TTA
2713641 TACCGGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (20 bp):
TTACAATGTAAAAGGTAAAT
Found at i:2713714 original size:199 final size:189
Alignment explanation
Indices: 2713331--2713772 Score: 512
Period size: 199 Copynumber: 2.3 Consensus size: 189
2713321 AAGAGAGGAG
*
2713331 ATGACAAAAGCTAGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGACATCGAAACC
1 ATGAC-AAA-CTAGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCAACATCGAAACC
* ** **
2713396 CATAATTACAATGTAATAGGTAATTTGTCAATGTAACCGGTATAAATATATTGTTTATGAGAGAA
64 CATAATTACAATGTAATAGGTAATTTGACAATGTAAAAGGTATAAATATACGGTTTATGAGAGAA
*
2713461 TAGGTTTACATAATGTATCGACATTTTAAAATTTTGTGTCAATACAATTTGTCCAGAATGA
129 TAGGTCTACATAATGTATCGACATTTTAAAATTTTGTGTCAATACAATTTGTCCAGAATGA
*
2713522 ATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTA-AAATTATATTGATCCCAAAAACAT
1 ATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTATAAA--A-AGT-AT--C---AACAT
* **
2713586 CGAAACCGATAATTACAATGTAATAGGTAAATTT-ACAATGTAAAAGGTATATTTATACCGGTTT
57 CGAAACCCATAATTACAATGTAATAGGT-AATTTGACAATGTAAAAGGTATAAATATA-CGG-TT
* * * * **
2713650 TTTGAGAGAATAGGTCTACATAATGTATTGACACTTTTATAA-TTTGTGTCGATACTTTTTGTCC
119 TATGAGAGAATAGGTCTACATAATGTATCGACA-TTTTAAAATTTTGTGTCAATACAATTTGTCC
* *
2713714 ATAATGT
183 AGAATGA
* * * *
2713721 ATGCCCAAACGAGCTGTACGCATAAAGTGTCGATACATTTATAAAAAGTATC
1 ATG-ACAAACTAGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATC
2713773 GATACATTTA
Statistics
Matches: 212, Mismatches: 24, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
188 3 0.01
189 32 0.15
190 4 0.02
191 7 0.03
192 2 0.01
194 1 0.00
195 1 0.00
197 51 0.24
198 8 0.04
199 60 0.28
200 40 0.19
201 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (189 bp):
ATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCAACATCGAAACCCA
TAATTACAATGTAATAGGTAATTTGACAATGTAAAAGGTATAAATATACGGTTTATGAGAGAATA
GGTCTACATAATGTATCGACATTTTAAAATTTTGTGTCAATACAATTTGTCCAGAATGA
Found at i:2713769 original size:21 final size:21
Alignment explanation
Indices: 2713744--2713796 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
2713734 CTGTACGCAT
*
2713744 AAAGTGTCGATACATTTATAA
1 AAAGTATCGATACATTTATAA
2713765 AAAGTATCGATACATTTATAA
1 AAAGTATCGATACATTTATAA
2713786 AAAGTATCGAT
1 AAAGTATCGAT
2713797 CCCAGAAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.32
Consensus pattern (21 bp):
AAAGTATCGATACATTTATAA
Found at i:2716840 original size:12 final size:12
Alignment explanation
Indices: 2716777--2716841 Score: 71
Period size: 12 Copynumber: 5.4 Consensus size: 12
2716767 TTTCATATGT
*
2716777 AATTGGAGTTTG
1 AATTTGAGTTTG
*
2716789 AATTT-AGATTTC
1 AATTTGAG-TTTG
2716801 AATTTGAGTTTG
1 AATTTGAGTTTG
*
2716813 AATTT-AGATTTC
1 AATTTGAG-TTTG
2716825 AATTTGAGTTTG
1 AATTTGAGTTTG
2716837 AATTT
1 AATTT
2716842 CATTATAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
11 4 0.09
12 36 0.82
13 4 0.09
ACGTcount: A:0.29, C:0.03, G:0.18, T:0.49
Consensus pattern (12 bp):
AATTTGAGTTTG
Found at i:2716853 original size:24 final size:24
Alignment explanation
Indices: 2716777--2716841 Score: 121
Period size: 24 Copynumber: 2.7 Consensus size: 24
2716767 TTTCATATGT
*
2716777 AATTGGAGTTTGAATTTAGATTTC
1 AATTTGAGTTTGAATTTAGATTTC
2716801 AATTTGAGTTTGAATTTAGATTTC
1 AATTTGAGTTTGAATTTAGATTTC
2716825 AATTTGAGTTTGAATTT
1 AATTTGAGTTTGAATTT
2716842 CATTATAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.29, C:0.03, G:0.18, T:0.49
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAGATTTC
Found at i:2718781 original size:199 final size:198
Alignment explanation
Indices: 2718304--2719013 Score: 847
Period size: 199 Copynumber: 3.6 Consensus size: 198
2718294 TGATACATTT
* * * *
2718304 ATTAAAA--GTATCGATCCCAAAAACATCGAAACCGATAATTATATTCTAATAGGTAAATTTGCA
1 ATTAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACA
* *
2718367 ATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGGTATACATAATGTATCGACACTTTT
66 ATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTATACATAATGTATCGACACTTTT
* ** *** *
2718432 TATATTTGTGTCGATACTTTTTGTCCGAGCCTTTCTTTGATCAACGAGGTGCACGCATAAAATGT
131 TAAATTTGTGTCGATACTTTTTGTCC-AAAC--TGAATG-TCAACGAGGTGCACGCATAAAGTGT
2718497 CGATACA
192 CGATACA
* * * ** * * **
2718504 TTTAAAATTATATCGATCCCAAAAATATTAAAATCGATAATTATAACATAATAGGTAAATTTACA
1 ATTAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACA
* *
2718569 ATGTAATCGGTATAAATATACCAGTTTTATGAGAAAATAGGTATACATAATGTATCGACACTTTT
66 ATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTATACATAATGTATCGACACTTTT
* *
2718634 TACATTTGTGTCGATA-TGTTTTGTCCAAACTGAATGCTCAACGAGGTTCACGCATAAAGTGTCG
131 TAAATTTGTGTCGATACT-TTTTGTCCAAACTGAATG-TCAACGAGGTGCACGCATAAAGTGTCG
2718698 ATACA
194 ATACA
* * * * *
2718703 ATTAAAATTGTATCGATCCTAAAAACATTGAAACCCTTAATTATAATGTAATAGGTAATTTTGCA
1 ATTAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACA
* ** * * *
2718768 ATGTAACCGGTATAAATATACCGGTTTAATTTGAAAACT-TGTCA-ATATAATGTATCGACACTA
66 ATGTAACCGGTATAAATATACCGGTTTTATGAGAAAA-TAGGT-ATACATAATGTATCGACACTT
* * * *
2718831 TTTAAATATGTGTTGATACTTTTTGTCCAGAA-TGAATGACAATGAGGTGCACGCATAAAGTGTC
129 TTTAAATTTGTGTCGATACTTTTTGTCCA-AACTGAATGTCAACGAGGTGCACGCATAAAGTGTC
2718895 GATACA
193 GATACA
* * * *
2718901 TTTAAATTTGTATCAATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTAAATTTACA
1 ATTAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACA
* * * * *
2718966 ATGTAACCAGTATAAATATATCGGTTTTATGAGAGAATAAGTCTACAT
66 ATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTATACAT
2719014 TCGTAATGTG
Statistics
Matches: 434, Mismatches: 67, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
197 1 0.00
198 121 0.28
199 167 0.38
200 11 0.03
201 3 0.01
202 131 0.30
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.34
Consensus pattern (198 bp):
ATTAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACA
ATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTATACATAATGTATCGACACTTTT
TAAATTTGTGTCGATACTTTTTGTCCAAACTGAATGTCAACGAGGTGCACGCATAAAGTGTCGAT
ACA
Found at i:2720253 original size:694 final size:684
Alignment explanation
Indices: 2719126--2720503 Score: 2197
Period size: 694 Copynumber: 2.0 Consensus size: 684
2719116 GCAGCCTAGC
2719126 AGTAGATAGCTTTCCTGTTTAATTTATCTTCTTTTATTTAAGTGAATTAGTAGGCTTCGCCAATG
1 AGTAGATAGCTTTCCTGTTTAATTTATCTTCTTTTATTTAAGTGAATTAGTAGGCTTCGCCAATG
*
2719191 CAACTATGGTCGATATTCAACTGGTGATCCGTGAATACCGAGGGTTTAGATGCACATGTAGAAAA
66 CAACTATGGTCAATATTCAACTGGTGATCCGTGAATACCGAGGGTTTAGATGCACATGTAGAAAA
* * *
2719256 GTGGAATTTCCGGTTATCTACTTGAGACGAGTTCGATTAATTATTTAGTTTATGGGTTTGTTTGA
131 GTGGAATTTCCGGTTATATACTTGAGACGAATTCGATTAATTATTTAGTTTATGGGCTTGTTTGA
* * * *
2719321 TTGTTTGAATTTTAATTGTGCAGTGACAAACTTAGTTTTATAAAAAAAATAGTGGCTAAATATTT
196 TTATTTGAATTTTAATTGTGCAGTGACAAACTTAGTTTGATAAAAAAAACAATGGCTAAATATTT
* *
2719386 TCCTTCAAGACATTTTTTAGAGTGATTCATTCTGATTATTTTGATTTCATCATTAATTTTACAGA
261 TCCTTCAAGACATTTTTTAAAGTAATTCATTCTGATTATTTTGATTTCATCATTAATTTTACAGA
* *
2719451 TTAGTTGATTGTGAGAAAGAACAAGTCAACAACATAAACTTCGGTCACTGGTCAGGTAGTATCTT
326 TCAGTTGATTGTGAGAAAGAACAAGTCAACAACATAAACTTCGGTCACCGGTCAGGTAGTATCTT
* * * *
2719516 TCCTTGCTAATAAATTTGTTTTATTGTTTACTTGCTCCTATATTTTTTTTATCGATTACTTTTAA
391 TCCTTGCTAATAAATATGTTTTATTGTTTACTTGATACTATATTTGTTTTATCGATTACTTTTAA
* *
2719581 ATATGTTACCTCGAAAACAACCATCGGGTGCCCAAAATAGAAAAC-GAAAAAACAAGAACAATAA
456 ATATGTTACCTC-AAAACAACCATCGGGTGCCCAAAATAGAAAACAAAAAAAACAAGAACAAGAA
* *
2719645 ATAGCTAATTCTTTACA-TGGTTCTTT-GATAGATTTATTGTTAGACCGATTAAACCTTTTAATA
520 AGAGCTAATTCTTTACATTGG-TCTTTAGATAGATTTATTGTTAGACCGATTAAACCTTGTAATA
* *
2719708 ATCCGATTGAATATTTATGTTTTGTCTATTATACGGTACAAGTATAGGGGCATAAAATTATTATC
584 ATCCGATTGAAAATTTATGTTTTGTCTATTATACGGTACAAGTATAGGGGCATAAAAGTATTATC
2719773 TTGCCCAGGGCATTAAAACTCATTGGACCGGCCCTG
649 TTGCCCAGGGCATTAAAACTCATTGGACCGGCCCTG
* * * *
2719809 AGTAGATAGCTTTTCTGTTTAATTTATCTTCTTTTATTTAAGTGAATTAGTTGGCTTTGCCATTG
1 AGTAGATAGCTTTCCTGTTTAATTTATCTTCTTTTATTTAAGTGAATTAGTAGGCTTCGCCAATG
* *
2719874 CAACTATGTTGATTATGGTCAATATTCAACTGGTGATCCGTGAATACCGAGGGTTTCGATGTACA
66 CAAC---------TATGGTCAATATTCAACTGGTGATCCGTGAATACCGAGGGTTTAGATGCACA
*
2719939 TGTAGAAAAGTGGAATTTCCCGGTTATATACTTGAGATGAATTCGATTAATTATTTAGTTTATGG
122 TGTAGAAAAGTGGAATTT-CCGGTTATATACTTGAGACGAATTCGATTAATTATTTAGTTTATGG
* *
2720004 GCTTGTTTGATTATTTGAATTTTGATTGTGCAGTGATAAACTTAGTTTGATAAAAAAAACAATGG
186 GCTTGTTTGATTATTTGAATTTTAATTGTGCAGTGACAAACTTAGTTTGATAAAAAAAACAATGG
* * * *
2720069 CTAAATATTTTCTTTCAATATATTTTTTCAAAGTAATTCCTT-TCGATTATTTTGATTTCATCAT
251 CTAAATATTTTCCTTCAAGACATTTTTT-AAAGTAATTCATTCT-GATTATTTTGATTTCATCAT
* *
2720133 TAATTTTCCAGATCAGTTGATTGTGAGAAAGAACAAGTTAACAACATAAACTTCGGTCACCGGTC
314 TAATTTTACAGATCAGTTGATTGTGAGAAAGAACAAGTCAACAACATAAACTTCGGTCACCGGTC
* * *
2720198 AGGTTGTATCTTTCCTTGCTAATATATATGTTTTATTGTTTACTTGATACTATATTTGTTTTATT
379 AGGTAGTATCTTTCCTTGCTAATAAATATGTTTTATTGTTTACTTGATACTATATTTGTTTTATC
*
2720263 GATTACTTTTAAATATGTTACCTCAAAACAACCATTGGGTGCCCAAAATAGAAAACAAAAAAAAC
444 GATTACTTTTAAATATGTTACCTCAAAACAACCATCGGGTGCCCAAAATAGAAAACAAAAAAAAC
* * *
2720328 AAGAACAAGAAAGATCTAATTCTTTATATTGGTCTTTAGATAGATTTATTGTTAGACCGGTTAAA
509 AAGAACAAGAAAGAGCTAATTCTTTACATTGGTCTTTAGATAGATTTATTGTTAGACCGATTAAA
2720393 CCTTGTAATAATCCGATTGAAAATTTATGTTTTGTCTATTATACGGTACAAGTATAGGGGCATAA
574 CCTTGTAATAATCCGATTGAAAATTTATGTTTTGTCTATTATACGGTACAAGTATAGGGGCATAA
*
2720458 AAGTATTATCTTGCCCAGGGCATTAAAACTCATTGGATCGGCCCTG
639 AAGTATTATCTTGCCCAGGGCATTAAAACTCATTGGACCGGCCCTG
2720504 GGTATAAGCA
Statistics
Matches: 635, Mismatches: 45, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
683 65 0.10
692 67 0.11
693 158 0.25
694 209 0.33
695 136 0.21
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.39
Consensus pattern (684 bp):
AGTAGATAGCTTTCCTGTTTAATTTATCTTCTTTTATTTAAGTGAATTAGTAGGCTTCGCCAATG
CAACTATGGTCAATATTCAACTGGTGATCCGTGAATACCGAGGGTTTAGATGCACATGTAGAAAA
GTGGAATTTCCGGTTATATACTTGAGACGAATTCGATTAATTATTTAGTTTATGGGCTTGTTTGA
TTATTTGAATTTTAATTGTGCAGTGACAAACTTAGTTTGATAAAAAAAACAATGGCTAAATATTT
TCCTTCAAGACATTTTTTAAAGTAATTCATTCTGATTATTTTGATTTCATCATTAATTTTACAGA
TCAGTTGATTGTGAGAAAGAACAAGTCAACAACATAAACTTCGGTCACCGGTCAGGTAGTATCTT
TCCTTGCTAATAAATATGTTTTATTGTTTACTTGATACTATATTTGTTTTATCGATTACTTTTAA
ATATGTTACCTCAAAACAACCATCGGGTGCCCAAAATAGAAAACAAAAAAAACAAGAACAAGAAA
GAGCTAATTCTTTACATTGGTCTTTAGATAGATTTATTGTTAGACCGATTAAACCTTGTAATAAT
CCGATTGAAAATTTATGTTTTGTCTATTATACGGTACAAGTATAGGGGCATAAAAGTATTATCTT
GCCCAGGGCATTAAAACTCATTGGACCGGCCCTG
Found at i:2721211 original size:148 final size:149
Alignment explanation
Indices: 2720942--2721214 Score: 374
Period size: 148 Copynumber: 1.8 Consensus size: 149
2720932 TTTATGATAA
* * *
2720942 ACATTACAATGCTATTCAAACTTCCATTTTTAAATGTATCAAATTAAAAAACTTAAACATTACAA
1 ACATTACAATGCTATTCAAACATCCATTTTTAAATGTAACAAACTAAAAAACTTAAACATTACAA
* *
2721007 CGTTATTCGAACTTCCATTTTTGAATGTAACAATTTGGATAAGTTAAACTCTTTAGTTCGGAAAC
66 CGTTATTCGAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAAACACTTTAGTTCGGAAAC
2721072 ATCGAAGTGTTTTGTCAAG
131 ATCGAAGTGTTTTGTCAAG
* * * * *
2721091 ACATTCCAATGCTATTCAAACATCCATCTTTT-AATGTAACAACCT-AATAAGTTAAACATTTCA
1 ACATTACAATGCTATTCAAACATCCAT-TTTTAAATGTAACAAACTAAAAAACTTAAACATTACA
** *
2721154 ATTTTTTTC-AAGCTTCCATTTTTTG-ATGTAACAACTTGGATAAGTTAAACACTTTAGTTCG
65 ACGTTATTCGAA-CTTCCA-TTTTTGAATGTAACAACTTGGATAAGTTAAACACTTTAGTTCG
2721215 TAAATAAAAC
Statistics
Matches: 108, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
147 2 0.02
148 61 0.56
149 41 0.38
150 4 0.04
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (149 bp):
ACATTACAATGCTATTCAAACATCCATTTTTAAATGTAACAAACTAAAAAACTTAAACATTACAA
CGTTATTCGAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAAACACTTTAGTTCGGAAAC
ATCGAAGTGTTTTGTCAAG
Found at i:2721361 original size:56 final size:56
Alignment explanation
Indices: 2721296--2721406 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 56
2721286 AAGTATTTTG
* * * *
2721296 TTAAGACATT-GCAATGTTATTTAAAATTCCATCTTTTAATGTAACAACTTGGATAAC
1 TTAAGACATTAG-AATGCTATTCAAAATTCCATC-TTAAAAGTAACAACTTGGATAAC
*
2721353 TTAA-ACATTAGAATGCTATTCAAACTTCCATCTTAAAAGTAACAACTTGGATAA
1 TTAAGACATTAGAATGCTATTCAAAATTCCATCTTAAAAGTAACAACTTGGATAA
2721407 GCTAAAATCT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 20 0.42
56 23 0.48
57 5 0.10
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (56 bp):
TTAAGACATTAGAATGCTATTCAAAATTCCATCTTAAAAGTAACAACTTGGATAAC
Found at i:2721586 original size:93 final size:91
Alignment explanation
Indices: 2721353--2721683 Score: 303
Period size: 93 Copynumber: 3.6 Consensus size: 91
2721343 CTTGGATAAC
* * * *
2721353 TTAAACATTAGAATGCTATTCAAACTTCCATC-TTAAAAGTAACAACTTGGATAAGCTAAAATCT
1 TTAAACATTACAATGTTATTCAAACTTCCATCTTTAAATGTAACAACTTGGATAAGAT-AAATCT
*
2721417 TTTGTTTG-TAAGCT-TCAAATTGTTTTG
65 TTTGTTCGTTAA--TATCAAATTGTTTTG
** * * *
2721444 TTAAACATTACAACATTATTCAAACTTCTATTTTTTAAAT-TAACAACTTGGGA-AAGTTAAGAT
1 TTAAACATTACAATGTTATTCAAACTTCCA-TCTTTAAATGTAACAACTT-GGATAAGATAA-AT
2721507 CTTTTGTTCGTTAATATCAAATTGTTTTG
63 CTTTTGTTCGTTAATATCAAATTGTTTTG
* * * *
2721536 TTAATACATTGCAATGTTATTCGAACTTCTATCTTTGAATGTAACAACTTGGATAAGATAAACTC
1 TTAA-ACATTACAATGTTATTCAAACTTCCATCTTTAAATGTAACAACTTGGATAAGATAAA-TC
** * * * *
2721601 TTCAGTTCATGAACATCAAATTATTTTG
64 TTTTGTTCGTTAATATCAAATTGTTTTG
* * * * * * *
2721629 TTAAAATATTATAATGATATTCAAACATCCATTTTTGAATGTAACAACTTTGATA
1 TT-AAACATTACAATGTTATTCAAACTTCCATCTTTAAATGTAACAACTTGGATA
2721684 TGTTAAGCAT
Statistics
Matches: 198, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
91 28 0.14
92 53 0.27
93 115 0.58
94 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (91 bp):
TTAAACATTACAATGTTATTCAAACTTCCATCTTTAAATGTAACAACTTGGATAAGATAAATCTT
TTGTTCGTTAATATCAAATTGTTTTG
Found at i:2721821 original size:56 final size:55
Alignment explanation
Indices: 2721646--2721858 Score: 198
Period size: 56 Copynumber: 3.8 Consensus size: 55
2721636 ATTATAATGA
* * * * * *
2721646 TATTCAAACATCCATTTTTGAATGTAACAACTTTGATATGTTAAGCATTACAACTT
1 TATTTAAACTTCCATTTTTGAATGTAACAACATAGATAAGTTAAACATTACAA-TT
* * **
2721702 TATTTAAACTTCCATTTTT-TATGTAA-AACATGGATAAGTTAAGACATTACAACAC
1 TATTTAAACTTCCATTTTTGAATGTAACAACATAGATAAGTTAA-ACATTACAA-TT
* * * * *
2721757 TATTTAAACTTTCATTTTTAAATGTAACAACCTAAATAAGATAAACATTACAATGT
1 TATTTAAACTTCCATTTTTGAATGTAACAACATAGATAAGTTAAACATTACAAT-T
* * *
2721813 TATATAAACGTCCATTTTTGAATGTAACAA-ATTGGATAAGTTAAAC
1 TATTTAAACTTCCATTTTTGAATGTAACAACA-TAGATAAGTTAAAC
2721859 TCTTTAGCTA
Statistics
Matches: 127, Mismatches: 25, Indels: 10
0.78 0.15 0.06
Matches are distributed among these distances:
54 13 0.10
55 33 0.26
56 69 0.54
57 12 0.09
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (55 bp):
TATTTAAACTTCCATTTTTGAATGTAACAACATAGATAAGTTAAACATTACAATT
Found at i:2722246 original size:93 final size:93
Alignment explanation
Indices: 2722050--2722229 Score: 240
Period size: 93 Copynumber: 1.9 Consensus size: 93
2722040 AGAAAAAAAA
* * * *
2722050 GGATAAGTTAAAATCATTAGTTCGTAAACAACAAAGTGTTTTGTTACAACATTACAATGTTATTA
1 GGATAAGTTAAAATCATTAGTTCATAAACAACAAAGTGTTTTGCTACAACAGTACAATGCTATTA
2722115 AAACTTACATTTTTGAATGTAACAAATT
66 AAACTTACATTTTTGAATGTAACAAATT
* * * *
2722143 GGATAAGTTAAAGTCTTTAGTTCATAAACATCAAAGTGTTTTGCTA-AGGCAGTACAATGCTATT
1 GGATAAGTTAAAATCATTAGTTCATAAACAACAAAGTGTTTTGCTACA-ACAGTACAATGCTATT
2722207 CAAAA-TTACATATTTT-AATGTAA
65 -AAAACTTACAT-TTTTGAATGTAA
2722230 TAACTTTGAT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 1 0.01
93 67 0.88
94 8 0.11
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (93 bp):
GGATAAGTTAAAATCATTAGTTCATAAACAACAAAGTGTTTTGCTACAACAGTACAATGCTATTA
AAACTTACATTTTTGAATGTAACAAATT
Found at i:2722493 original size:56 final size:56
Alignment explanation
Indices: 2722424--2722650 Score: 208
Period size: 56 Copynumber: 4.0 Consensus size: 56
2722414 AAAGTGTTTT
* * * *
2722424 GTTAAGACTTTACATTGCTATTAAAACTTCCATCTTTAAATGTAAAAAGTTGGATAA
1 GTTAAGACATTACAATGCTATTCAAACTTCCATCTTT-AATGTAAAAACTTGGATAA
* *
2722481 GTTAA-ACATTACAATGAC-ATTCAAACTTCTATCTTTAATGTAACAACTTGGATAA
1 GTTAAGACATTACAATG-CTATTCAAACTTCCATCTTTAATGTAAAAACTTGGATAA
* * * * * * * *
2722536 GTTAAGACATTAAAATGGTATTTAAACTTCCTTTTTTTAATGTGACAACTTGAATAA
1 GTTAAGACATTACAATGCTATTCAAACTTCC-ATCTTTAATGTAAAAACTTGGATAA
* ** *** *
2722593 GTTAA-ACATTACATTATTATTCAAACTTTTGTTTTTGAATGTAAAAACTTGGATAA
1 GTTAAGACATTACAATGCTATTCAAACTTCCATCTTT-AATGTAAAAACTTGGATAA
2722649 GT
1 GT
2722651 CAAAGTCTTT
Statistics
Matches: 140, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
55 27 0.19
56 81 0.58
57 32 0.23
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (56 bp):
GTTAAGACATTACAATGCTATTCAAACTTCCATCTTTAATGTAAAAACTTGGATAA
Found at i:2722523 original size:238 final size:242
Alignment explanation
Indices: 2721995--2722537 Score: 591
Period size: 238 Copynumber: 2.3 Consensus size: 242
2721985 TAACCAATTA
** * * * * * *** *
2721995 GATAAGTTCGACATTACAATGCTATTCAAACTTTTAGCTTGGAATAG-AAAAAAAAGGATAAGTT
1 GATAAGTTAAACACTACAATGCTATTCAAACTTTCATCTTTGAAT-GTAACAACTTGGATAAGTC
* *
2722059 AAAATCATTAGTTCGTAAACAACAAAGTGTTTTGTTACAACATTACAATGTTATTAAAACTTACA
65 AAAATCATTAGTTCGTAAACAACAAAGTGTTTTGTTACAACATTACAACGTTATTAAAACCTACA
* * * * *
2722124 TTTTTGAATGTAACAAATTGGATAAGTTAAAGTCTTTAGTTCATAAACATCAAAGTGTTTTGCTA
130 TTTTTCAATGTAACAAATTGGATAAGATAAAATCTTTAGTCCATAAACATAAAAGTGTTTTGCTA
* * * *
2722189 AGGCAGTACAATGCTATTCAAAATTACATATTTTAATGTAATAACTTT
195 AGACAGTACAATGCTATTCAAAATTACATATTTAAATGTAAAAACTTG
* * *
2722237 GATAGGTTAAGCACTACAATGCTATTCAAACTTTCATCTTTGAATGTAACAACTTTGATAAGTCA
1 GATAAGTTAAACACTACAATGCTATTCAAACTTTCATCTTTGAATGTAACAACTTGGATAAGTCA
* * * * * * *
2722302 AACTCTTTGGTTCGTAAACATC-AA-T-TTTTTTTA-AACATTACAACGTTATTCAAACCTCCAT
66 AAATCATTAGTTCGTAAACAACAAAGTGTTTTGTTACAACATTACAACGTTATTAAAACCTACAT
* * * *
2722363 TTTTCAATGTAACAACTTGGATAAGATAAAATCTTTAGTCCGTAATCATAAAAAGTGTTTTGTTA
131 TTTTCAATGTAACAAATTGGATAAGATAAAATCTTTAGTCCATAAACAT-AAAAGTGTTTTGCTA
** * * * *
2722428 AGACTTTACATTGCTATT-AAAACTTCCATCTTTAAATGTAAAAAGTTG
195 AGACAGTACAATGCTATTCAAAA-TTACATATTTAAATGTAAAAACTTG
*
2722476 GATAAGTTAAACATTACAATGAC-ATTCAAAC-TTCTATCTTT-AATGTAACAACTTGGATAAGT
1 GATAAGTTAAACACTACAATG-CTATTCAAACTTTC-ATCTTTGAATGTAACAACTTGGATAAGT
2722538 TAAGACATTA
Statistics
Matches: 250, Mismatches: 46, Indels: 14
0.81 0.15 0.05
Matches are distributed among these distances:
238 93 0.37
239 85 0.34
240 2 0.01
241 3 0.01
242 67 0.27
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (242 bp):
GATAAGTTAAACACTACAATGCTATTCAAACTTTCATCTTTGAATGTAACAACTTGGATAAGTCA
AAATCATTAGTTCGTAAACAACAAAGTGTTTTGTTACAACATTACAACGTTATTAAAACCTACAT
TTTTCAATGTAACAAATTGGATAAGATAAAATCTTTAGTCCATAAACATAAAAGTGTTTTGCTAA
GACAGTACAATGCTATTCAAAATTACATATTTAAATGTAAAAACTTG
Found at i:2722839 original size:56 final size:55
Alignment explanation
Indices: 2722689--2722860 Score: 145
Period size: 56 Copynumber: 3.1 Consensus size: 55
2722679 TGTTTTGCTA
* * * * *
2722689 AAACATTATAATGCTATTCAAAGTT-C-TACATTTGAATGTAACAAGTTTGAGAAGTT
1 AAACATTACAATGTTATTCAAACTTACAT-C-TTTGAATGTAACAA-CTTGATAAGTT
*** *
2722745 AAGTGTTACAATGTTATTCAAACTTATATCTTAT-AATGTAACAA-TTCGAATAAGTT
1 AAACATTACAATGTTATTCAAACTTACATCTT-TGAATGTAACAACTT-G-ATAAGTT
* * *
2722801 AAACATTACAATGTTATTTAAACTTCCCTCTTTGAATGTAACAACTTGGATAAGTT
1 AAACATTACAATGTTATTCAAACTTACATCTTTGAATGTAACAACTT-GATAAGTT
2722857 AAAC
1 AAAC
2722861 TCTTTACTTC
Statistics
Matches: 93, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
54 2 0.02
55 2 0.02
56 83 0.89
57 5 0.05
58 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.37
Consensus pattern (55 bp):
AAACATTACAATGTTATTCAAACTTACATCTTTGAATGTAACAACTTGATAAGTT
Found at i:2722859 original size:261 final size:262
Alignment explanation
Indices: 2722362--2722860 Score: 639
Period size: 261 Copynumber: 1.9 Consensus size: 262
2722352 CAAACCTCCA
* * *
2722362 TTTTTCAATGTAACAACTTGGATAAGATAAAATCTTTAGTCCGTAATCATAAAAAGTGTTTTGTT
1 TTTTTCAATGTAAAAACTTGGATAAGATAAAATCTTTAGTCCGTAAACATAAAAAGTGTTTTGCT
* * * *
2722427 AAGACTTTACATTGCTATTAAAACTTCCATCTTTAAATGTAAAAAGTTGGATAAGTTAAACATTA
66 AAAACATTACAATGCTATTAAAACTTCCATCTTTAAATGTAAAAAGTTGGAGAAGTTAAACATTA
* *
2722492 CAATGACATTCAAACTTCTATCTTTAATGTAACAACTTGGATAAGTTAAGACATTAAAATGGTAT
131 CAATGACATTCAAACTTATATCTTTAATGTAACAACTTGAATAAGTTAAGACATTAAAATGGTAT
* * * *
2722557 TTAAACTTCCTTTTTTTAATGTGACAACTTGAATAAGTTAAACATTACATTATTATTCAAACTTT
196 TTAAACTTCCCTCTTTGAATGTAACAACTTGAATAAGTTAAACATTACATTATTATTCAAACTTT
2722622 TG
261 TG
* * **
2722624 TTTTTGAATGTAAAAACTTGGATAAG-TCAAAGTCTTTAGTTTGTAAACATAAAAA-TGTTTTGC
1 TTTTTCAATGTAAAAACTTGGATAAGAT-AAAATCTTTAGTCCGTAAACATAAAAAGTGTTTTGC
* * * * * * * ***
2722687 TAAAACATTATAATGCTATTCAAAGTTCTA-CATTTGAATGTAACAAGTTTGAGAAGTTAAGTGT
65 TAAAACATTACAATGCTATTAAAACTTCCATC-TTTAAATGTAAAAAGTTGGAGAAGTTAAACAT
** *
2722751 TACAATGTTATTCAAACTTATATCTTATAATGTAACAA-TTCGAATAAGTTAA-ACATTACAATG
129 TACAATGACATTCAAACTTATATCTT-TAATGTAACAACTT-GAATAAGTTAAGACATTAAAATG
* *
2722814 TTATTTAAACTTCCCTCTTTGAATGTAACAACTTGGATAAGTTAAAC
192 GTATTTAAACTTCCCTCTTTGAATGTAACAACTTGAATAAGTTAAAC
2722861 TCTTTACTTC
Statistics
Matches: 201, Mismatches: 32, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
260 1 0.00
261 132 0.66
262 68 0.34
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (262 bp):
TTTTTCAATGTAAAAACTTGGATAAGATAAAATCTTTAGTCCGTAAACATAAAAAGTGTTTTGCT
AAAACATTACAATGCTATTAAAACTTCCATCTTTAAATGTAAAAAGTTGGAGAAGTTAAACATTA
CAATGACATTCAAACTTATATCTTTAATGTAACAACTTGAATAAGTTAAGACATTAAAATGGTAT
TTAAACTTCCCTCTTTGAATGTAACAACTTGAATAAGTTAAACATTACATTATTATTCAAACTTT
TG
Found at i:2724420 original size:22 final size:22
Alignment explanation
Indices: 2724374--2724421 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2724364 TTAATTTATG
*
2724374 TTTGGGTGCTATTTGTGTAAAA
1 TTTGGGTGCTATTTGCGTAAAA
*
2724396 TTTGGGTGTTATTT-CGTAAATA
1 TTTGGGTGCTATTTGCGTAAA-A
2724418 TTTG
1 TTTG
2724422 CAGAAGTGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.21, C:0.04, G:0.25, T:0.50
Consensus pattern (22 bp):
TTTGGGTGCTATTTGCGTAAAA
Found at i:2730582 original size:39 final size:39
Alignment explanation
Indices: 2730537--2730684 Score: 244
Period size: 39 Copynumber: 3.8 Consensus size: 39
2730527 GGAAATCAGT
*
2730537 CCTCCATGCATCAACATTCAATTCCCTCTTAAGCAGAGC
1 CCTCCATGCATCAACCTTCAATTCCCTCTTAAGCAGAGC
*
2730576 CTTCCATGCATCAACCTTCAATTCCCTCTTAAAG-AGAGC
1 CCTCCATGCATCAACCTTCAATTCCCTCTT-AAGCAGAGC
2730615 CCTCCATGCATCAACCTTCAATTCCCTCTTAAGCAGAGC
1 CCTCCATGCATCAACCTTCAATTCCCTCTTAAGCAGAGC
* *
2730654 CCTCCATGCATCAACCTTCAGTTACCTCTTA
1 CCTCCATGCATCAACCTTCAATTCCCTCTTA
2730685 TGCTAAATTT
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
38 3 0.03
39 96 0.94
40 3 0.03
ACGTcount: A:0.26, C:0.36, G:0.09, T:0.28
Consensus pattern (39 bp):
CCTCCATGCATCAACCTTCAATTCCCTCTTAAGCAGAGC
Found at i:2730773 original size:29 final size:29
Alignment explanation
Indices: 2730722--2730943 Score: 261
Period size: 29 Copynumber: 7.6 Consensus size: 29
2730712 ATTGTCTCCT
* * *
2730722 TTTATTATAATTTATAAAT-GTTTTATCC
1 TTTATTGTAATTTATAAATAGTTTTGTAC
* *
2730750 TTTATTGTAATTTATAAATAGTTTT-CAT
1 TTTATTGTAATTTATAAATAGTTTTGTAC
*
2730778 TTTATTGTAATTTATAAATAGTTTTGTAT
1 TTTATTGTAATTTATAAATAGTTTTGTAC
*
2730807 TTTATTGTAATTTATAAATTTGTTTTGTAC
1 TTTATTGTAATTTATAAA-TAGTTTTGTAC
* *
2730837 TTTATTGTAATTTCTAAAATTTGTTTTGTAC
1 TTTATTGTAATTTAT-AAA-TAGTTTTGTAC
*
2730868 TTTATTGTAATTTATAAATAGTTTTGTAT
1 TTTATTGTAATTTATAAATAGTTTTGTAC
* * *
2730897 TTTATTATAATTTATAACA-AATTTTGTCC
1 TTTATTGTAATTTATAA-ATAGTTTTGTAC
*
2730926 TTTATTATAATTTATAAA
1 TTTATTGTAATTTATAAA
2730944 ATAATTTTCC
Statistics
Matches: 174, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
28 44 0.25
29 74 0.43
30 27 0.16
31 29 0.17
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.57
Consensus pattern (29 bp):
TTTATTGTAATTTATAAATAGTTTTGTAC
Found at i:2730887 original size:90 final size:85
Alignment explanation
Indices: 2730721--2730962 Score: 297
Period size: 90 Copynumber: 2.8 Consensus size: 85
2730711 AATTGTCTCC
* *
2730721 TTTTATTATAATTTATAAATGTTTTATCCTTTATTGTAATTTATAAATAGTTTTCATTTTATTGT
1 TTTTATTATAATTTATAAATGTTTTATACTTTATTGTAATTTATAAATAGTTTTCACTTTATTGT
2730786 AATTTATAAATAGTTTTGTA
66 AATTTATAAATAGTTTTGTA
* * * * *
2730806 TTTTATTGTAATTTATAAATTTGTTTTGTACTTTATTGTAATTTCTAAAATTTGTTTTGTACTTT
1 TTTTATTATAATTTATAAA--TGTTTTATACTTTATTGTAATTTAT-AAA-TAGTTTT-CACTTT
2730871 ATTGTAATTTATAAATAGTTTTGTA
61 ATTGTAATTTATAAATAGTTTTGTA
** * * * *
2730896 TTTTATTATAATTTATAACAAATTTTGTCCTTTATTATAATTTATAAAATAATTTTC-CTTTATT
1 TTTTATTATAATTTATAA-ATGTTTTATACTTTATTGTAATTTAT-AAATAGTTTTCACTTTATT
2730960 GTA
64 GTA
2730963 TATTCTAAAA
Statistics
Matches: 135, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
85 18 0.13
86 10 0.07
87 22 0.16
88 8 0.06
89 30 0.22
90 46 0.34
91 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.57
Consensus pattern (85 bp):
TTTTATTATAATTTATAAATGTTTTATACTTTATTGTAATTTATAAATAGTTTTCACTTTATTGT
AATTTATAAATAGTTTTGTA
Found at i:2730956 original size:28 final size:29
Alignment explanation
Indices: 2730692--2730962 Score: 223
Period size: 29 Copynumber: 9.3 Consensus size: 29
2730682 TTATGCTAAA
* * * *
2730692 TTTATTGTATTTTATAAAAAATTGTCTCC
1 TTTATTGTAATTTATAAAATATTTTGTCC
* * *
2730721 TTTTATTATAATTTAT-AAATGTTTTATCC
1 -TTTATTGTAATTTATAAAATATTTTGTCC
* *
2730750 TTTATTGTAATTTAT-AAATAGTTT-TCAT
1 TTTATTGTAATTTATAAAATATTTTGTC-C
**
2730778 TTTATTGTAATTTAT-AAATAGTTTTGTAT
1 TTTATTGTAATTTATAAAATA-TTTTGTCC
* * *
2730807 TTTATTGTAATTTATAAATTTGTTTTGTAC
1 TTTATTGTAATTTATAAA-ATATTTTGTCC
* * *
2730837 TTTATTGTAATTTCTAAAATTTGTTTTGTAC
1 TTTATTGTAATTTATAAAA--TATTTTGTCC
**
2730868 TTTATTGTAATTTAT-AAATAGTTTTGTAT
1 TTTATTGTAATTTATAAAATA-TTTTGTCC
*
2730897 TTTATTATAATTTATAACAA-ATTTTGTCC
1 TTTATTGTAATTTATAA-AATATTTTGTCC
* *
2730926 TTTATTATAATTTATAAAATAATTT-TCC
1 TTTATTGTAATTTATAAAATATTTTGTCC
2730954 TTTATTGTA
1 TTTATTGTA
2730963 TATTCTAAAA
Statistics
Matches: 205, Mismatches: 25, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
27 2 0.01
28 55 0.27
29 76 0.37
30 45 0.22
31 27 0.13
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.57
Consensus pattern (29 bp):
TTTATTGTAATTTATAAAATATTTTGTCC
Found at i:2731013 original size:29 final size:29
Alignment explanation
Indices: 2730889--2731017 Score: 91
Period size: 29 Copynumber: 4.5 Consensus size: 29
2730879 TTATAAATAG
* *
2730889 TTTTGTATTTTATTATAATTTATAACAA-A
1 TTTTGTCTTTTATTATAAATTATAA-AACA
* * *
2730918 TTTTGTCCTTTATTATAATTTATAAAATA
1 TTTTGTCTTTTATTATAAATTATAAAACA
* * * * * *
2730947 ATTT-TCCTTTATTGTATATTCTAAAACG
1 TTTTGTCTTTTATTATAAATTATAAAACA
**** *
2730975 TTAAAACTTTTATTATAAATTCTAAAACA
1 TTTTGTCTTTTATTATAAATTATAAAACA
2731004 TTTTGTCTTTTATT
1 TTTTGTCTTTTATT
2731018 GTAATTTGAT
Statistics
Matches: 77, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
28 21 0.27
29 56 0.73
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (29 bp):
TTTTGTCTTTTATTATAAATTATAAAACA
Found at i:2731744 original size:23 final size:23
Alignment explanation
Indices: 2731709--2731753 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2731699 TTGTCAACCG
2731709 TTATAATTTTC-AAATAATATAAT
1 TTATAATTTTCAAAATAA-ATAAT
2731732 TTAT-ATTTCTCAAAATAAATAA
1 TTATAATTT-TCAAAATAAATAA
2731754 ATGGAAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 10 0.50
24 6 0.30
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (23 bp):
TTATAATTTTCAAAATAAATAAT
Found at i:2733654 original size:31 final size:31
Alignment explanation
Indices: 2733619--2733703 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 31
2733609 GGAGTACCTT
*
2733619 GGGGCCTACGAGCCTACCCAAGAAAATTCTC
1 GGGGCCTACGAGCCTACCCAAGAAAAATCTC
2733650 GGGGCC-ACAGAGGCCTACCCAAGAAAAATCTC
1 GGGGCCTAC-GA-GCCTACCCAAGAAAAATCTC
* *
2733682 AGGACCGTA-GAGCCTACCCAAG
1 GGGGCC-TACGAGCCTACCCAAG
2733704 GGTCACCTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
30 2 0.04
31 19 0.40
32 25 0.53
34 1 0.02
ACGTcount: A:0.32, C:0.32, G:0.25, T:0.12
Consensus pattern (31 bp):
GGGGCCTACGAGCCTACCCAAGAAAAATCTC
Found at i:2733863 original size:12 final size:12
Alignment explanation
Indices: 2733846--2733940 Score: 118
Period size: 12 Copynumber: 7.9 Consensus size: 12
2733836 ACAGAGATAT
2733846 CAGAAATCAGAA
1 CAGAAATCAGAA
*
2733858 CAGAAATCAGAG
1 CAGAAATCAGAA
*
2733870 CAGAAATCATAA
1 CAGAAATCAGAA
* *
2733882 CAGAATTCATAA
1 CAGAAATCAGAA
2733894 CAGAAATCAGAA
1 CAGAAATCAGAA
* * *
2733906 CGGAATTCAGAG
1 CAGAAATCAGAA
*
2733918 CAAAAATCAGAA
1 CAGAAATCAGAA
2733930 CAGAAATCAGA
1 CAGAAATCAGA
2733941 TAAAATATTC
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 69 1.00
ACGTcount: A:0.54, C:0.17, G:0.17, T:0.13
Consensus pattern (12 bp):
CAGAAATCAGAA
Found at i:2735367 original size:16 final size:17
Alignment explanation
Indices: 2735331--2735372 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
2735321 CGGTCAATGG
* *
2735331 CGGTCAACGTCGGTCAA
1 CGGTCAACGTCAGTAAA
2735348 CGGTCAACG-CAGTAAA
1 CGGTCAACGTCAGTAAA
2735364 CGGTCAACG
1 CGGTCAACG
2735373 GGTCGGATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (17 bp):
CGGTCAACGTCAGTAAA
Found at i:2741373 original size:14 final size:14
Alignment explanation
Indices: 2741356--2741382 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2741346 AAAAATAGTA
2741356 ATGAAATAATAATG
1 ATGAAATAATAATG
2741370 ATGAAATAATAAT
1 ATGAAATAATAAT
2741383 AAATATATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (14 bp):
ATGAAATAATAATG
Found at i:2741546 original size:21 final size:21
Alignment explanation
Indices: 2741515--2741558 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
2741505 AATAATAGTA
2741515 AAAAGTAAAAG-GAGAAATAAAT
1 AAAAGTAAAAGTG-G-AATAAAT
2741537 AAAA-TAAAAGTGGAATAAAT
1 AAAAGTAAAAGTGGAATAAAT
2741557 AA
1 AA
2741559 TAATGAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 7 0.33
22 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (21 bp):
AAAAGTAAAAGTGGAATAAAT
Found at i:2743025 original size:21 final size:21
Alignment explanation
Indices: 2742976--2743025 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
2742966 GTATCATTTA
* *
2742976 AATAATAAAATTAGTAATTAT
1 AATAATATAATTAGTAAATAT
2742997 -ATATATATAATT-GTATAATAT
1 AATA-ATATAATTAGTA-AATAT
2743018 AATAATAT
1 AATAATAT
2743026 TAATACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
20 6 0.25
21 15 0.62
22 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
AATAATATAATTAGTAAATAT
Found at i:2743277 original size:20 final size:20
Alignment explanation
Indices: 2743249--2743288 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2743239 TCCTTCGTCG
2743249 TGAAATTGAAATCGAACTCA
1 TGAAATTGAAATCGAACTCA
*
2743269 TGAAGTTGAAATCGAACTCA
1 TGAAATTGAAATCGAACTCA
2743289 GAGTTCTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (20 bp):
TGAAATTGAAATCGAACTCA
Found at i:2743508 original size:20 final size:20
Alignment explanation
Indices: 2743480--2743519 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2743470 CACTTCGTCG
2743480 TGAAATTGAAATCGAACTCA
1 TGAAATTGAAATCGAACTCA
*
2743500 TGAAGTTGAAATCGAACTCA
1 TGAAATTGAAATCGAACTCA
2743520 GAGTTCTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (20 bp):
TGAAATTGAAATCGAACTCA
Found at i:2743773 original size:105 final size:105
Alignment explanation
Indices: 2743576--2744522 Score: 1709
Period size: 105 Copynumber: 9.0 Consensus size: 105
2743566 CGTTGTGAAG
* * * *
2743576 CTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTG
1 CTGAATTTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* *
2743641 TCTGGAGTCCAATATTCTTCGTTGTGAAGTTGAAATTGACT
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* * *
2743682 CTGAATCTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGCTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
2743747 CTGGAGTACAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* * *
2743787 CTGGATTTGAGAAATGCTTGTAGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
2743852 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
2743892 CTGAATCTGAGAAATGTTTGTTGAAAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
2743957 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
2743997 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
2744062 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
2744102 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
2744167 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
2744207 CTGAATCTGAGAAATGTTTGTTGACAACCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
2744272 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
2744312 CTGAATTTGAGAAATGTTTGTTG--AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
2744375 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
2744415 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
2744480 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
2744520 CTG
1 CTG
2744523 GGTAAAACCT
Statistics
Matches: 810, Mismatches: 29, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
103 102 0.13
105 697 0.86
106 11 0.01
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
Found at i:2745379 original size:52 final size:51
Alignment explanation
Indices: 2745300--2745397 Score: 133
Period size: 52 Copynumber: 1.9 Consensus size: 51
2745290 TTTTTTCCTC
* ** *
2745300 TTTTTCTTTTTTCAATTTAGGGTGCCCTTTCGGGTTTTCACCCTAAACGTT
1 TTTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACGTT
* *
2745351 TTTTTTTTTTTTCCAACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTTCTTTTTT-CAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
2745398 GTGAAGTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 11 0.28
52 29 0.73
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.48
Consensus pattern (51 bp):
TTTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACGTT
Found at i:2756278 original size:29 final size:29
Alignment explanation
Indices: 2756225--2756282 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 29
2756215 TATAAAAAGA
2756225 AATAAAATATATATATATACGTATAATAAT
1 AATAAAATATATATATATAC-TATAATAAT
2756255 AATAACAATATATATATATA-TATAATAA
1 AATAA-AATATATATATATACTATAATAA
2756283 AACGTAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 8 0.30
30 5 0.19
31 14 0.52
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (29 bp):
AATAAAATATATATATATACTATAATAAT
Found at i:2756291 original size:33 final size:32
Alignment explanation
Indices: 2756219--2756291 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 32
2756209 AAAGAGTATA
*
2756219 AAAAGAAATAAAATATATATATATACGTATAAT
1 AAAAGTAATAAAATATATATATATAC-TATAAT
2756252 --AA-TAATAACAATATATATATATA-TATAAT
1 AAAAGTAATAA-AATATATATATATACTATAAT
2756281 AAAACGTAATA
1 AAAA-GTAATA
2756292 TATAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
29 6 0.18
30 5 0.15
31 18 0.53
33 5 0.15
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (32 bp):
AAAAGTAATAAAATATATATATATACTATAAT
Found at i:2756294 original size:29 final size:28
Alignment explanation
Indices: 2756225--2756295 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
2756215 TATAAAAAGA
*
2756225 AATAA-AATATATATATATACGTATAAT
1 AATAATAATATATATATATACATATAAT
* *
2756252 AATAATAACAATATATATATATATATAAT
1 AATAATAA-TATATATATATACATATAAT
2756281 AA-AACGTAATATATA
1 AATAA--TAATATATA
2756296 AAAAAATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
27 5 0.14
28 4 0.11
29 24 0.67
30 3 0.08
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (28 bp):
AATAATAATATATATATATACATATAAT
Found at i:2757395 original size:21 final size:21
Alignment explanation
Indices: 2757346--2757395 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
2757336 GTATCATTTA
* *
2757346 AATAATAAAATTAGTAATTAT
1 AATAATATAATTAGTAAATAT
2757367 -ATATATATAATT-GTATAATAT
1 AATA-ATATAATTAGTA-AATAT
2757388 AATAATAT
1 AATAATAT
2757396 TAATACAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
20 6 0.25
21 15 0.62
22 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
AATAATATAATTAGTAAATAT
Found at i:2759794 original size:2 final size:2
Alignment explanation
Indices: 2759789--2759819 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2759779 TGTGTGTGTG
*
2759789 TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2759820 CTTTTCATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2765034 original size:2 final size:2
Alignment explanation
Indices: 2765027--2765065 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
2765017 TAGAAGTGAA
*
2765027 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2765066 AGTATGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2766346 original size:102 final size:104
Alignment explanation
Indices: 2766170--2766375 Score: 398
Period size: 102 Copynumber: 2.0 Consensus size: 104
2766160 GAGTTTGGGG
2766170 TGTTACATTTAATGGTATCAGAGCTAAGGTTTAGCCGATTCTAGGCTTAAACCGAAGGTAAAAAA
1 TGTTACATTTAATGGTATCAGAGCTAAGGTTTAGCCGATTCTAGGCTTAAACCGAAGGTAAAAAA
2766235 AAGTTTTAAAAATGTGTACATACCAAC-C-TAATGAAAA
66 AAGTTTTAAAAATGTGTACATACCAACACATAATGAAAA
2766272 TGTTACATTTAATGGTATCAGAGCTAAGGTTTAGCCGATTCTAGGCTTAAACCGAAGGTAAAAAA
1 TGTTACATTTAATGGTATCAGAGCTAAGGTTTAGCCGATTCTAGGCTTAAACCGAAGGTAAAAAA
2766337 AAGTTTTAAAAATGTGTACATACCAACACATAATGAAAA
66 AAGTTTTAAAAATGTGTACATACCAACACATAATGAAAA
2766376 ATTTCTGATA
Statistics
Matches: 102, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
102 92 0.90
103 1 0.01
104 9 0.09
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (104 bp):
TGTTACATTTAATGGTATCAGAGCTAAGGTTTAGCCGATTCTAGGCTTAAACCGAAGGTAAAAAA
AAGTTTTAAAAATGTGTACATACCAACACATAATGAAAA
Found at i:2767551 original size:16 final size:15
Alignment explanation
Indices: 2767526--2767557 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
2767516 TTTGATTTTT
2767526 TAATGAATAAAGAAA
1 TAATGAATAAAGAAA
2767541 TAATGGAATAAAGAAA
1 TAAT-GAATAAAGAAA
2767557 T
1 T
2767558 GAAAATGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.62, C:0.00, G:0.16, T:0.22
Consensus pattern (15 bp):
TAATGAATAAAGAAA
Found at i:2770000 original size:9 final size:9
Alignment explanation
Indices: 2769975--2770007 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
2769965 AATATGAAAA
*
2769975 TGATCTATG
1 TGATATATG
2769984 TG-TATATG
1 TGATATATG
2769992 TGATATATG
1 TGATATATG
2770001 TGATATA
1 TGATATA
2770008 CAAGAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.45
Consensus pattern (9 bp):
TGATATATG
Found at i:2770233 original size:18 final size:18
Alignment explanation
Indices: 2770210--2770244 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2770200 AGGGTTCTAC
*
2770210 GTGGTCCTTTGGGACATA
1 GTGGTCCTTCGGGACATA
2770228 GTGGTCCTTCGGGACAT
1 GTGGTCCTTCGGGACAT
2770245 TTCATAGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.20, G:0.34, T:0.31
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:2771655 original size:49 final size:49
Alignment explanation
Indices: 2771583--2771681 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
2771573 CAAATGACTG
2771583 AGTTCAAGAGATCAGAATAGGTTATCTAGTGTGTTCTCGCAAAACCAGT
1 AGTTCAAGAGATCAGAATAGGTTATCTAGTGTGTTCTCGCAAAACCAGT
2771632 AGTTCAAGAGATCAGAATAGGTTATCTAGTGTGTTCTCGCAAAACCAGT
1 AGTTCAAGAGATCAGAATAGGTTATCTAGTGTGTTCTCGCAAAACCAGT
2771681 A
1 A
2771682 AAAAGATACA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (49 bp):
AGTTCAAGAGATCAGAATAGGTTATCTAGTGTGTTCTCGCAAAACCAGT
Found at i:2771924 original size:24 final size:24
Alignment explanation
Indices: 2771890--2771999 Score: 78
Period size: 24 Copynumber: 4.5 Consensus size: 24
2771880 TAACAGAGAT
* *
2771890 ATCAAAAATCAAAATAGAATTCAA
1 ATCAGAAATCAAAACAGAATTCAA
* * * * *
2771914 ATCAGATATCAGAACATAATCCAG
1 ATCAGAAATCAAAACAGAATTCAA
*
2771938 ATCAGAAATCAAAAACAGAATTCAG
1 ATCAGAAATC-AAAACAGAATTCAA
* * *
2771963 GTCATG-TATCATAACAGAATTCAA
1 ATCA-GAAATCAAAACAGAATTCAA
* *
2771987 GTCGGAAATCAAA
1 ATCAGAAATCAAA
2772000 TAAAATATTC
Statistics
Matches: 65, Mismatches: 18, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
23 1 0.02
24 46 0.71
25 17 0.26
26 1 0.02
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAA
Found at i:2773011 original size:26 final size:27
Alignment explanation
Indices: 2772977--2773073 Score: 108
Period size: 27 Copynumber: 3.6 Consensus size: 27
2772967 AGTTGAGTGA
*
2772977 TATTCTTGGT-AATTTCCA-TTATAGGGG
1 TATT-TTGGTCAATTTACACTT-TAGGGG
* *
2773004 TATTTTGGTCATTTTACACTTTAAGGG
1 TATTTTGGTCAATTTACACTTTAGGGG
*
2773031 TATTTTGGTCATTTTACACTTTAGGGG
1 TATTTTGGTCAATTTACACTTTAGGGG
* *
2773058 CATTTTGGTCATTTTA
1 TATTTTGGTCAATTTA
2773074 TAGATCTAGG
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
26 5 0.08
27 56 0.89
28 2 0.03
ACGTcount: A:0.21, C:0.11, G:0.20, T:0.48
Consensus pattern (27 bp):
TATTTTGGTCAATTTACACTTTAGGGG
Found at i:2773031 original size:27 final size:27
Alignment explanation
Indices: 2773001--2773073 Score: 128
Period size: 27 Copynumber: 2.7 Consensus size: 27
2772991 TCCATTATAG
2773001 GGGTATTTTGGTCATTTTACACTTTAA
1 GGGTATTTTGGTCATTTTACACTTTAA
*
2773028 GGGTATTTTGGTCATTTTACACTTTAG
1 GGGTATTTTGGTCATTTTACACTTTAA
*
2773055 GGGCATTTTGGTCATTTTA
1 GGGTATTTTGGTCATTTTA
2773074 TAGATCTAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.19, C:0.11, G:0.22, T:0.48
Consensus pattern (27 bp):
GGGTATTTTGGTCATTTTACACTTTAA
Found at i:2774262 original size:19 final size:17
Alignment explanation
Indices: 2774240--2774276 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
2774230 GTCAAAGTTC
2774240 TGGTCAACAGTGTCAACGG
1 TGGTCAAC-G-GTCAACGG
2774259 TGGTCAACGGTCAACGG
1 TGGTCAACGGTCAACGG
2774276 T
1 T
2774277 CAACGGGTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 1 0.06
19 8 0.44
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (17 bp):
TGGTCAACGGTCAACGG
Found at i:2774327 original size:15 final size:15
Alignment explanation
Indices: 2774304--2774335 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2774294 CACTCGTGTT
2774304 GGGTCGGGTCAGACC
1 GGGTCGGGTCAGACC
*
2774319 GGGTTGGGTCAGACC
1 GGGTCGGGTCAGACC
2774334 GG
1 GG
2774336 TCAAACCGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.22, G:0.50, T:0.16
Consensus pattern (15 bp):
GGGTCGGGTCAGACC
Found at i:2776207 original size:22 final size:21
Alignment explanation
Indices: 2776153--2776222 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 21
2776143 CAAACGTGAG
*
2776153 AATAATAAATAAAACAAGAAAA
1 AATAATAAA-AAAACAATAAAA
*
2776175 AATGGAAAATAACAAAACACATAAAA
1 AAT----AATAAAAAAACA-ATAAAA
*
2776201 AATAATAAAAAAATAATAAAA
1 AATAATAAAAAAACAATAAAA
2776222 A
1 A
2776223 TAAACAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
21 7 0.18
22 13 0.33
25 6 0.15
26 13 0.33
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (21 bp):
AATAATAAAAAAACAATAAAA
Found at i:2776208 original size:10 final size:10
Alignment explanation
Indices: 2776195--2776240 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 10
2776185 AACAAAACAC
2776195 ATAAAAAATA
1 ATAAAAAATA
2776205 ATAAAAAAATA
1 AT-AAAAAATA
2776216 AT-AAAAATA
1 ATAAAAAATA
*
2776225 A-ACAAAATGA
1 ATAAAAAAT-A
2776235 ATAAAA
1 ATAAAA
2776241 TGTTAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
9 13 0.43
10 4 0.13
11 13 0.43
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (10 bp):
ATAAAAAATA
Found at i:2776211 original size:11 final size:11
Alignment explanation
Indices: 2776197--2776222 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2776187 CAAAACACAT
2776197 AAAAAATAATA
1 AAAAAATAATA
2776208 AAAAAATAATA
1 AAAAAATAATA
2776219 AAAA
1 AAAA
2776223 TAAACAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAATAATA
Found at i:2776221 original size:19 final size:19
Alignment explanation
Indices: 2776180--2776251 Score: 60
Period size: 19 Copynumber: 3.8 Consensus size: 19
2776170 GAAAAAATGG
* *
2776180 AAAATAACAAAACACATAA-
1 AAAATAATAAAA-AAATAAT
2776199 AAAATAATAAAAAAATAAT
1 AAAATAATAAAAAAATAAT
2776218 -AAA-AATAAACAAAATGAAT
1 AAAATAATAAA-AAAAT-AAT
**
2776237 AAAATGTTAAAAAAA
1 AAAATAATAAAAAAA
2776252 CAAAGACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
17 6 0.14
18 13 0.30
19 14 0.32
20 7 0.16
21 4 0.09
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAATAATAAAAAAATAAT
Found at i:2776565 original size:14 final size:14
Alignment explanation
Indices: 2776557--2776587 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2776547 TATAAGATAT
2776557 ATATAATAAAAATA
1 ATATAATAAAAATA
*
2776571 ATATAATATAAATA
1 ATATAATAAAAATA
2776585 ATA
1 ATA
2776588 AAAAAAGAGG
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATATAATAAAAATA
Found at i:2776601 original size:23 final size:23
Alignment explanation
Indices: 2776553--2776603 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
2776543 ATGATATAAG
* * *
2776553 ATATATATAATAAAAATAATATA
1 ATATAAATAATAAAAATAAGAGA
2776576 ATATAAATAATAAAAA-AAGAGGA
1 ATATAAATAATAAAAATAAGA-GA
2776599 ATATA
1 ATATA
2776604 GTAAATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (23 bp):
ATATAAATAATAAAAATAAGAGA
Found at i:2778852 original size:65 final size:67
Alignment explanation
Indices: 2778707--2778872 Score: 219
Period size: 65 Copynumber: 2.5 Consensus size: 67
2778697 ATGAAAACGG
* **
2778707 TCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGATTTTGTGTTTAAAGAGAAA
1 TCTCAAGGGAGACAAAA-TTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTAAAGAGAAA
*
2778772 CTG
65 CTA
* * *
2778775 TCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATTAATTCAAAGA-TTT-TGTTTAAAGGGAAAC
1 TCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTAAAGAGAAAC
2778838 TA
66 TA
* * *
2778840 TCTCAAGAGAGACAAAATTTGTTTCAAGAGAAA
1 TCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA
2778873 CTATCTCAAC
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
65 44 0.51
66 3 0.03
67 24 0.28
68 16 0.18
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.31
Consensus pattern (67 bp):
TCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATTTTGTGTTTAAAGAGAAAC
TA
Found at i:2778873 original size:36 final size:36
Alignment explanation
Indices: 2778821--2779133 Score: 183
Period size: 36 Copynumber: 9.0 Consensus size: 36
2778811 ATTCAAAGAT
*
2778821 TTTGTTTAAAGGGAAACTATCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
* * *
2778857 TTTGTTTCAAGAGAAACTATCTCAACAGAAACAAAA
1 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
* * * ** * * **
2778893 CTTAGCTCCAAAAGAAACTGTCTCAAGGGAGATGAAA
1 -TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
*** *
2778930 TTTGTTTCAAATAAAACATAT-TC-----A-A-ATAA
1 TTTGTTTCAAGGGAAAC-TATCTCAAGAGAGACAAAA
*
2778959 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
* * *
2778995 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGACA
1 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
* * * *
2779031 TTTATTTCAAGGGAAA-TATTTTC-A-A-TG-----T
1 TTTGTTTCAAGGGAAACTA-TCTCAAGAGAGACAAAA
* * * *
2779059 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAA
1 TT-TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
* *
2779096 TTTTGTTTCAAGGGAAACTATCTCAAGCGAGATAAAA
1 -TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
2779133 T
1 T
2779134 ATTCTTTTTA
Statistics
Matches: 210, Mismatches: 45, Indels: 44
0.70 0.15 0.15
Matches are distributed among these distances:
28 4 0.02
29 33 0.16
30 3 0.01
31 1 0.00
32 1 0.00
33 1 0.00
34 2 0.01
35 3 0.01
36 102 0.49
37 58 0.28
38 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
Found at i:2778920 original size:138 final size:138
Alignment explanation
Indices: 2778767--2779019 Score: 364
Period size: 138 Copynumber: 1.8 Consensus size: 138
2778757 GTGTTTAAAG
* ** * * *
2778767 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAA-TTAATTCAAAGATTTTGTTTAAA
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAT-ATTCAAAGAATTTGTTTAAA
2778831 GGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAACAGAAACAAAACTT
65 GGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAACAGAAACAAAACTT
2778896 AGCTCCAAA
130 AGCTCCAAA
** * * *
2778905 AGAAACTGTCTCAAGGGAGATGAAATTTGTTTCAAATAAAACATATTCAAATAATTTGTTTCAAG
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACATATTCAAAGAATTTGTTTAAAG
* * *
2778970 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAA
66 GGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAA
2779020 GAGAGACGAC
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
138 99 0.99
139 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (138 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACATATTCAAAGAATTTGTTTAAAG
GGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTATCTCAACAGAAACAAAACTTA
GCTCCAAA
Found at i:2779113 original size:37 final size:37
Alignment explanation
Indices: 2779062--2779133 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
2779052 TCAATGTTTA
* *
2779062 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGAAAAAATTT
* *
2779099 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAAT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGAAAAAAT
2779134 ATTCTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.26
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGCGAGAAAAAATTT
Found at i:2783346 original size:19 final size:19
Alignment explanation
Indices: 2783295--2783380 Score: 61
Period size: 19 Copynumber: 4.5 Consensus size: 19
2783285 CAAACGTGAG
*
2783295 AATAATAAATAA-AACAAGA
1 AATAATAAAAAATAACAA-A
* **
2783314 AAAAATGGAAAATAACAAA
1 AATAATAAAAAATAACAAA
* *
2783333 ACAT-GTAAAAAATAATAAA
1 A-ATAATAAAAAATAACAAA
*
2783352 AATAATAAAAATTAAC-AA
1 AATAATAAAAAATAACAAA
2783370 AATGAATAAAA
1 AAT-AATAAAA
2783381 TGTTAAAAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
18 7 0.14
19 38 0.75
20 6 0.12
ACGTcount: A:0.72, C:0.05, G:0.06, T:0.17
Consensus pattern (19 bp):
AATAATAAAAAATAACAAA
Found at i:2783354 original size:28 final size:28
Alignment explanation
Indices: 2783322--2783380 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
2783312 GAAAAAATGG
2783322 AAAATAACAAAACATGTAA-AAAAT-AATA
1 AAAATAACAAAA-AT-TAACAAAATGAATA
*
2783350 AAAATAATAAAAATTAACAAAATGAATA
1 AAAATAACAAAAATTAACAAAATGAATA
2783378 AAA
1 AAA
2783381 TGTTAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 3 0.11
27 7 0.25
28 18 0.64
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (28 bp):
AAAATAACAAAAATTAACAAAATGAATA
Found at i:2783390 original size:19 final size:17
Alignment explanation
Indices: 2783349--2783396 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
2783339 AAAAAATAAT
2783349 AAAAATAATAAAAATTA
1 AAAAATAATAAAAATTA
*
2783366 ACAAAATGAATAAAATGTTA
1 A-AAAAT-AATAAAA-ATTA
2783386 AAAAA-AATAAA
1 AAAAATAATAAA
2783397 GACACAGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 7 0.26
18 5 0.19
19 11 0.41
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (17 bp):
AAAAATAATAAAAATTA
Found at i:2783468 original size:20 final size:19
Alignment explanation
Indices: 2783425--2783473 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
2783415 AATTAATGGA
2783425 GTAAAAAAAATAAAAAAAG
1 GTAAAAAAAATAAAAAAAG
*
2783444 GTAAAAAAAAT-TAAAAAG
1 GTAAAAAAAATAAAAAAAG
*
2783462 G-AATAAAAATAA
1 GTAAAAAAAATAA
2783474 TGTGTACATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 8 0.31
18 7 0.27
19 11 0.42
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (19 bp):
GTAAAAAAAATAAAAAAAG
Found at i:2783593 original size:16 final size:16
Alignment explanation
Indices: 2783572--2783660 Score: 62
Period size: 16 Copynumber: 5.5 Consensus size: 16
2783562 TATTAAGAAA
2783572 ATAATAATAG-AAAAAT
1 ATAATAA-AGTAAAAAT
2783588 ATAATAAAGTAAAAAT
1 ATAATAAAGTAAAAAT
*
2783604 ATAATATAA--ATAAAT
1 ATAATA-AAGTAAAAAT
2783619 A-AATAAA-TAAATAAT
1 ATAATAAAGTAAA-AAT
* *
2783634 AGAATATTAAGAAAAAAT
1 ATAATA--AAGTAAAAAT
2783652 ATATATAAA
1 ATA-ATAAA
2783661 AACGTATAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
13 2 0.03
14 6 0.10
15 12 0.20
16 23 0.38
17 4 0.07
18 7 0.12
19 6 0.10
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (16 bp):
ATAATAAAGTAAAAAT
Found at i:2783618 original size:4 final size:4
Alignment explanation
Indices: 2783584--2783632 Score: 55
Period size: 4 Copynumber: 11.5 Consensus size: 4
2783574 AATAATAGAA
2783584 AAAT ATAAT AAAGT AAA- AATAT AATAT AAAT AAAT AAAT AAAT AAAT
1 AAAT A-AAT AAA-T AAAT AA-AT AA-AT AAAT AAAT AAAT AAAT AAAT
2783631 AA
1 AA
2783633 TAGAATATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
3 2 0.05
4 24 0.59
5 15 0.37
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:2783660 original size:39 final size:37
Alignment explanation
Indices: 2783617--2783694 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 37
2783607 ATATAAATAA
2783617 ATAAATAA-ATAAATAATAGAATATTAAGAAAAAATATAT
1 ATAAA-AACATAAA-AA-AGAATATTAAGAAAAAATATAT
*
2783656 ATAAAAACGTATAAAAAATAATATTAAGAAAAAATATAT
1 ATAAAAAC--ATAAAAAAGAATATTAAGAAAAAATATAT
2783695 GCATAGTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
38 2 0.06
39 26 0.74
40 2 0.06
41 5 0.14
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (37 bp):
ATAAAAACATAAAAAAGAATATTAAGAAAAAATATAT
Found at i:2783737 original size:14 final size:14
Alignment explanation
Indices: 2783718--2783748 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2783708 AGAAAAATTA
2783718 ATACATATATACAT
1 ATACATATATACAT
*
2783732 ATACATATATATAT
1 ATACATATATACAT
2783746 ATA
1 ATA
2783749 ATGATATAAG
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:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (14 bp):
ATACATATATACAT
Found at i:2786209 original size:157 final size:158
Alignment explanation
Indices: 2785910--2786224 Score: 623
Period size: 157 Copynumber: 2.0 Consensus size: 158
2785900 TTTTGTGAGA
2785910 TTATTGTGTGGATTTTCATTTGGAAATTCATGACAGGTATTAAGAAGGTGGATAAGACCCGTTTT
1 TTATTGTGTGGATTTTCATTTGGAAATTCATGACAGGTATTAAGAAGGTGGATAAGACCCGTTTT
2785975 AAGTTGGAATAGAGTTTTTCTATGAGGGAAGGCGATGCATAATGGTTGTTGAATGGTAGGTGTCG
66 AAGTTGGAATAGAGTTTTTCTATGAGGGAAGGCGATGCATAATGGTTGTTGAATGGTAGGTGTCG
2786040 CAACCAACTCTAAAATTATTTGATCAGC
131 CAACCAACTCTAAAATTATTTGATCAGC
2786068 TTATTGTGTGGA-TTTCATTTGGAAATTCATGACAGGTATTAAGAAGGTGGATAAGACCCGTTTT
1 TTATTGTGTGGATTTTCATTTGGAAATTCATGACAGGTATTAAGAAGGTGGATAAGACCCGTTTT
2786132 AAGTTGGAATAGAGTTTTTCTATGAGGGAAGGCGATGCATAATGGTTGTTGAATGGTAGGTGTCG
66 AAGTTGGAATAGAGTTTTTCTATGAGGGAAGGCGATGCATAATGGTTGTTGAATGGTAGGTGTCG
2786197 CAACCAACTCTAAAATTATTTGATCAGC
131 CAACCAACTCTAAAATTATTTGATCAGC
2786225 CATCAGATTT
Statistics
Matches: 157, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
157 145 0.92
158 12 0.08
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (158 bp):
TTATTGTGTGGATTTTCATTTGGAAATTCATGACAGGTATTAAGAAGGTGGATAAGACCCGTTTT
AAGTTGGAATAGAGTTTTTCTATGAGGGAAGGCGATGCATAATGGTTGTTGAATGGTAGGTGTCG
CAACCAACTCTAAAATTATTTGATCAGC
Found at i:2789532 original size:16 final size:17
Alignment explanation
Indices: 2789511--2789553 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
2789501 ATGTAAAAAT
2789511 AAATATTTAAATTTA-A
1 AAATATTTAAATTTATA
** *
2789527 AAATATAAAAATTTATT
1 AAATATTTAAATTTATA
2789544 AAATATTTAA
1 AAATATTTAA
2789554 TCAAGTAGTG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATTTAAATTTATA
Found at i:2789672 original size:14 final size:14
Alignment explanation
Indices: 2789653--2789679 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2789643 GACAAATTAA
2789653 AAGTTGTCTTTTGG
1 AAGTTGTCTTTTGG
2789667 AAGTTGTCTTTTG
1 AAGTTGTCTTTTG
2789680 AGTTCTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.26, T:0.52
Consensus pattern (14 bp):
AAGTTGTCTTTTGG
Found at i:2790657 original size:18 final size:18
Alignment explanation
Indices: 2790636--2790674 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2790626 TTGCAGAGCA
2790636 AAAAGATTGT-TATATTTT
1 AAAA-ATTGTATATATTTT
*
2790654 AAAAATTTTATATATTTT
1 AAAAATTGTATATATTTT
2790672 AAA
1 AAA
2790675 TGTTTATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (18 bp):
AAAAATTGTATATATTTT
Found at i:2790764 original size:26 final size:26
Alignment explanation
Indices: 2790715--2790764 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
2790705 AATTGTACGC
**
2790715 AATAACCTAAACTTATTTTTTTATAA
1 AATAACCTAAACTTATTTAATTATAA
*
2790741 AATAATCTAAACTTATTTAATTAT
1 AATAACCTAAACTTATTTAATTAT
2790765 TGGTGGTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (26 bp):
AATAACCTAAACTTATTTAATTATAA
Found at i:2791958 original size:29 final size:29
Alignment explanation
Indices: 2791916--2791974 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2791906 TCTTTCACTG
2791916 TATCTTGATTATTAAAAAGATACAGAGGC
1 TATCTTGATTATTAAAAAGATACAGAGGC
2791945 TATCTTGATTATTAAAAAGATACAGAGGC
1 TATCTTGATTATTAAAAAGATACAGAGGC
2791974 T
1 T
2791975 TAGCAATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (29 bp):
TATCTTGATTATTAAAAAGATACAGAGGC
Found at i:2794407 original size:24 final size:24
Alignment explanation
Indices: 2794379--2794429 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
2794369 ACAGCCAAAC
2794379 AATTAAAGGGAAAAAAACTCTGCA
1 AATTAAAGGGAAAAAAACTCTGCA
*
2794403 AATTAAAGGGCAAAAAACTCTGCA
1 AATTAAAGGGAAAAAAACTCTGCA
2794427 AAT
1 AAT
2794430 CTAGTTACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.53, C:0.14, G:0.16, T:0.18
Consensus pattern (24 bp):
AATTAAAGGGAAAAAAACTCTGCA
Found at i:2796883 original size:32 final size:33
Alignment explanation
Indices: 2796822--2796888 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 33
2796812 ACAAAATTAA
**
2796822 AAGAAAGAAATGATTAAAATAGACTATGGA-AG
1 AAGAAAGAAATGATTAAAATAGAAAATGGATAG
2796854 AAGAAAGGAAATGA-TAAGAA-AGAAAATGGATAG
1 AAGAAA-GAAATGATTAA-AATAGAAAATGGATAG
2796887 AA
1 AA
2796889 ATGTTATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.60, C:0.01, G:0.24, T:0.15
Consensus pattern (33 bp):
AAGAAAGAAATGATTAAAATAGAAAATGGATAG
Found at i:2797560 original size:17 final size:17
Alignment explanation
Indices: 2797516--2797553 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
2797506 AATAGAGAGA
*
2797516 ACCCTCTTTATTTTGGC
1 ACCCTCTTCATTTTGGC
2797533 ACCCTCTTCATTTTGGC
1 ACCCTCTTCATTTTGGC
2797550 ACCC
1 ACCC
2797554 ATTTCATCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.37, G:0.11, T:0.39
Consensus pattern (17 bp):
ACCCTCTTCATTTTGGC
Found at i:2801124 original size:18 final size:19
Alignment explanation
Indices: 2801082--2801125 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
2801072 GATGTATGAG
* *
2801082 TCTTTTTCTTTTCTTTTTG
1 TCTTTTTCTATTCTTTTTC
*
2801101 TTTTTTTC-ATTCTTTTTC
1 TCTTTTTCTATTCTTTTTC
2801119 TCTTTTT
1 TCTTTTT
2801126 GTTGCAACAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (19 bp):
TCTTTTTCTATTCTTTTTC
Done.