Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold39
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: 4724573
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 178835 characters in sequence are not A, C, G, or T
File 16 of 27
Found at i:2757966 original size:8 final size:8
Alignment explanation
Indices: 2757953--2757995 Score: 61
Period size: 8 Copynumber: 5.2 Consensus size: 8
2757943 CAATAATGTG
2757953 ATTTTTTT
1 ATTTTTTT
2757961 ATTTTTTTT
1 A-TTTTTTT
2757970 ATTTTTTT
1 ATTTTTTT
2757978 -TATTTTTT
1 AT-TTTTTT
2757986 ATTTTTTT
1 ATTTTTTT
2757994 AT
1 AT
2757996 CCTTTTTGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 1 0.03
8 22 0.69
9 9 0.28
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
ATTTTTTT
Found at i:2757968 original size:9 final size:9
Alignment explanation
Indices: 2757954--2757993 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
2757944 AATAATGTGA
2757954 TTTTTTTAT
1 TTTTTTTAT
2757963 TTTTTTTAT
1 TTTTTTTAT
2757972 TTTTTTTA-
1 TTTTTTTAT
2757980 -TTTTTTAT
1 TTTTTTTAT
2757988 TTTTTT
1 TTTTTT
2757994 ATCCTTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.24
9 22 0.76
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:2758001 original size:25 final size:25
Alignment explanation
Indices: 2757955--2758002 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
2757945 ATAATGTGAT
*
2757955 TTTTTTATTTTTTTTATTTTTTTTA
1 TTTTTTATTTTTTTTATCTTTTTTA
*
2757980 TTTTTTA-TTTTTTTATCCTTTTT
1 TTTTTTATTTTTTTTATCTTTTTT
2758003 GCCTTCCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.10, C:0.04, G:0.00, T:0.85
Consensus pattern (25 bp):
TTTTTTATTTTTTTTATCTTTTTTA
Found at i:2763140 original size:11 final size:10
Alignment explanation
Indices: 2763123--2763161 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
2763113 GCATCCTCCG
2763123 CAAAAAAATA
1 CAAAAAAATA
2763133 CAAAAAAATA
1 CAAAAAAATA
2763143 CAAAAAAA-A
1 CAAAAAAATA
*
2763152 CGAAAAAATA
1 CAAAAAAATA
2763162 AACAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.79, C:0.10, G:0.03, T:0.08
Consensus pattern (10 bp):
CAAAAAAATA
Found at i:2763147 original size:19 final size:19
Alignment explanation
Indices: 2763123--2763161 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
2763113 GCATCCTCCG
2763123 CAAAAAAATACAAAAAAATA
1 CAAAAAAA-ACAAAAAAATA
*
2763143 CAAAAAAAACGAAAAAATA
1 CAAAAAAAACAAAAAAATA
2763162 AACAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.79, C:0.10, G:0.03, T:0.08
Consensus pattern (19 bp):
CAAAAAAAACAAAAAAATA
Found at i:2764861 original size:49 final size:50
Alignment explanation
Indices: 2764676--2765118 Score: 290
Period size: 52 Copynumber: 8.7 Consensus size: 50
2764666 TACTTCTAAA
* *
2764676 CCTAATGTCGTTGGCCTTGAATTAGCACATTGGCATCCTTGTCATCTTTAAG-
1 CCTAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CC-T-TCATCTTTAAGT
* * * ** * * *
2764728 CCCAATATCGTTGGCCTTGAATCAGCTTATTGGCATCTTCAATAGTCCTAAG-
1 CCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTC-AT-CT-TTAAGT
* *
2764780 CCTAACGTCGCTGGCCTTGAATTAGCACATTGGCACCTTCATCTTTAAGT
1 CCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * *
2764830 CC-AATGTCGCTGGCCTTCAATCAGTATATTGGCACCTTCATCTTTAAGT
1 CCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * * * *
2764879 CC-AATGTTGTTGGCTTTGAATCAGCACATTGGTAGCTTTATCTTTAAGT
1 CCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * * * * * * *
2764928 CCGAA-ATCGCTAGCCTTAAATTAGCATATTGGCATCTTTAACATTCCTAAG-
1 CCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC-TT--TAAGT
* * * *
2764979 CCTAATGTCGCTGGCCTTGAATCAGTACATTAGCATTCTGTTCATCTTCAAGT
1 CCTAATGTCGCTGGCCTTGAATCAGCACATTGGCA--C-CTTCATCTTTAAGT
* * * * * * *
2765032 -CTAATGTCACTGACCGTGAATAAGCACATTGGCATTCTTCGCATCTTAAATT
1 CCTAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTT--CATCTTTAAGT
* * **
2765084 CC-AATATCGCTGGTCTTGAATCAGCATGTTGGCAC
1 CCTAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
2765119 ATTTATCATT
Statistics
Matches: 300, Mismatches: 75, Indels: 33
0.74 0.18 0.08
Matches are distributed among these distances:
49 116 0.39
50 12 0.04
51 9 0.03
52 156 0.52
53 1 0.00
54 2 0.01
55 4 0.01
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (50 bp):
CCTAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
Found at i:2765149 original size:61 final size:61
Alignment explanation
Indices: 2765084--2765200 Score: 191
Period size: 61 Copynumber: 1.9 Consensus size: 61
2765074 ATCTTAAATT
* *
2765084 CCAATATCGCTGGTCTTGAATCAGCATGTTGGCA-CATTTATCATTCTCCTCATCTTTAAGC
1 CCAATATCGCTGGTCTTGAATCAGCATATTGGCATC-TTTATCACTCTCCTCATCTTTAAGC
*
2765145 CCAATATCGCTGGTCTTGAATCAGCATATTGGCATCTTTATCACTCTTCTCATCTT
1 CCAATATCGCTGGTCTTGAATCAGCATATTGGCATCTTTATCACTCTCCTCATCTT
2765201 CATCATCTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
61 51 0.98
62 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (61 bp):
CCAATATCGCTGGTCTTGAATCAGCATATTGGCATCTTTATCACTCTCCTCATCTTTAAGC
Found at i:2765917 original size:19 final size:19
Alignment explanation
Indices: 2765872--2765926 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
2765862 ACTGCCCAAG
*
2765872 AAATGTATCGATACGTTTAT
1 AAATGTATCGATAC-ATTAT
2765892 AAATGTATCGATACATTAT
1 AAATGTATCGATACATTAT
* *
2765911 CATTGTATCGATACAT
1 AAATGTATCGATACAT
2765927 CTAGATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (19 bp):
AAATGTATCGATACATTAT
Found at i:2769577 original size:59 final size:59
Alignment explanation
Indices: 2769413--2769752 Score: 276
Period size: 59 Copynumber: 5.7 Consensus size: 59
2769403 TAAAGTTAGC
* * * * *
2769413 AGTTTCAGTTTTTTTGTTAAGTCCATTCTAGTTGGTTATGT-AGGAGA-TTACTAAAGTTGTT
1 AGTTT-AG-TTTTTTGTTAAGTCCACTCTAGTTGGTTATGTGA-AAGACTGA-TAGAGTTGGT
* * ** * * *
2769474 AATTTAAGTTTTTTTGTTAAGTCCACTCTATTTAATTATATGAAAGACTGACAGAGTTAGT
1 AGTTT-AG-TTTTTTGTTAAGTCCACTCTAGTTGGTTATGTGAAAGACTGATAGAGTTGGT
* * *
2769535 AGTTTTGTTTTTTGTTAAGGCCACTCTAGTTGGTTATGTGAAAGA-TCGATAAAGTTGGT
1 AGTTTAGTTTTTTGTTAAGTCCACTCTAGTTGGTTATGTGAAAGACT-GATAGAGTTGGT
* * ** *
2769594 AGTTTAGTTTTTTGCTAAATCCGTTCTAGTTGGTTATGT-AAGAGACTGATAGAGTTGGC
1 AGTTTAGTTTTTTGTTAAGTCCACTCTAGTTGGTTATGTGAA-AGACTGATAGAGTTGGT
* * ** *
2769653 AATTTAAGTTTTTTGTTAAGTCTACTCTAGTTGGTTATGTGAAAGACCAATAGAGTTGGC
1 AGTTT-AGTTTTTTGTTAAGTCCACTCTAGTTGGTTATGTGAAAGACTGATAGAGTTGGT
* * ** * *
2769713 AATTTAGTGTTGGGTTAAGTCCTCT-TCATTTGGTTATGTG
1 AGTTTAGTTTTTTGTTAAGTCCACTCT-AGTTGGTTATGTG
2769753 TGAGAGCAAT
Statistics
Matches: 226, Mismatches: 45, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
58 4 0.02
59 119 0.53
60 51 0.23
61 49 0.22
62 3 0.01
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.43
Consensus pattern (59 bp):
AGTTTAGTTTTTTGTTAAGTCCACTCTAGTTGGTTATGTGAAAGACTGATAGAGTTGGT
Found at i:2769591 original size:120 final size:119
Alignment explanation
Indices: 2769406--2769698 Score: 306
Period size: 120 Copynumber: 2.4 Consensus size: 119
2769396 AGACTAGTAA
* * * * *
2769406 AGTTAGCAGTTTCAGTTTTTTTGTTAAGTCCATTCTAGTTGGTTATGT-AGGAGATTACTAAAGT
1 AGTTAGCAATTTAAG-TTTTTTGTTAAGTCCACTCTAGTTGGTTATGTGA-AAGATGACTAAAGT
* * * *
2769470 TGTTAATTTAAGTTTTTTTGTTAAGTCCACTCTATTTAATTATATGAA-AGACTGACAG
64 TGGTAATTT-AG-TTTTTTGCTAAATCCACTCTAGTTAATTATAT-AAGAGACTGACAG
* * * *
2769528 AGTTAGTAGTTT-TGTTTTTTGTTAAGGCCACTCTAGTTGGTTATGTGAAAGATCGA-TAAAGTT
1 AGTTAGCAATTTAAGTTTTTTGTTAAGTCCACTCTAGTTGGTTATGTGAAAGAT-GACTAAAGTT
* ** ** * *
2769591 GGTAGTTTAGTTTTTTGCTAAATCCGTTCTAGTTGGTTATGTAAGAGACTGATAG
65 GGTAATTTAGTTTTTTGCTAAATCCACTCTAGTTAATTATATAAGAGACTGACAG
* *
2769646 AGTTGGCAATTTAAGTTTTTTGTTAAGTCTACTCTAGTTGGTTATGTGAAAGA
1 AGTTAGCAATTTAAGTTTTTTGTTAAGTCCACTCTAGTTGGTTATGTGAAAGA
2769699 CCAATAGAGT
Statistics
Matches: 144, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
117 2 0.01
118 42 0.29
119 39 0.27
120 47 0.33
121 3 0.02
122 11 0.08
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (119 bp):
AGTTAGCAATTTAAGTTTTTTGTTAAGTCCACTCTAGTTGGTTATGTGAAAGATGACTAAAGTTG
GTAATTTAGTTTTTTGCTAAATCCACTCTAGTTAATTATATAAGAGACTGACAG
Found at i:2772132 original size:148 final size:148
Alignment explanation
Indices: 2771865--2772266 Score: 367
Period size: 148 Copynumber: 2.7 Consensus size: 148
2771855 AAGTGACCCG
* * *
2771865 GTAGTTTCATAAGACTAGGTTTCAAGAAAAATGCTAAAAGGTCCCTAAGGTCTACCATCGACTTA
1 GTAGTTTCATAGGACTAGGTTTCAAGAAAAAAGCTAAAAGATCCCTAAGGTCTACCATCGACTTA
** * * *
2771930 GAAGTGCCCCATGATCCTAAAGGACTTGAAAAAGTAAAAGTGAGCCCACGCCTAATACAT-TCCT
66 GAAGTGCCCCATGATCCTAAAGGACTTGAAAAAGTAAAAGCAAACCCACACCTAATACATACCCT
*
2771994 TCGGTATTGAAACGACCTA
131 T-GGTATTGAAACAACCTA
* ** * ** * * *
2772013 GTAGTTTCACAGGACTAGGTTTTGAGAAAAAAGCTAAATGATCTTTAATGTCTACCATCGGCTTG
1 GTAGTTTCATAGGACTAGGTTTCAAGAAAAAAGCTAAAAGATCCCTAAGGTCTACCATCGACTTA
* ** * * * **
2772078 GAAGTGCTCGGTGATCCTAGAGGACTTGAAAAAGTAGAAGCAAACCTACACCTAATATGTACCCT
66 GAAGTGCCCCATGATCCTAAAGGACTTGAAAAAGTAAAAGCAAACCCACACCTAATACATACCCT
*
2772143 TGGTATTGAAGCAACCTA
131 TGGTATTGAAACAACCTA
* * * ** * * ** *
2772161 GAAGTTTCATAGGGCTAGGATTCGGGGGAAAATGCTAAAAGGCCCCTAAGGTCTACCATTC-ATT
1 GTAGTTTCATAGGACTAGGTTTC-AAGAAAAAAGCTAAAAGATCCCTAAGGTCTACCA-TCGACT
* ** * * *
2772225 TAGATGTGCCCGGTAATCCTAGAGGACTTGATAAATGTAAAA
64 TAGAAGTGCCCCATGATCCTAAAGGACTTGA-AAAAGTAAAA
2772267 TGATGACAAA
Statistics
Matches: 201, Mismatches: 49, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
148 134 0.67
149 57 0.28
150 10 0.05
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (148 bp):
GTAGTTTCATAGGACTAGGTTTCAAGAAAAAAGCTAAAAGATCCCTAAGGTCTACCATCGACTTA
GAAGTGCCCCATGATCCTAAAGGACTTGAAAAAGTAAAAGCAAACCCACACCTAATACATACCCT
TGGTATTGAAACAACCTA
Found at i:2772534 original size:16 final size:16
Alignment explanation
Indices: 2772499--2772542 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
2772489 AGAAAATTTG
* *
2772499 TTTATTATGATTATCC
1 TTTATTATTATTATCA
*
2772515 TTTATTATTATTATTA
1 TTTATTATTATTATCA
2772531 TTTATTTATTAT
1 TTTA-TTATTAT
2772543 ATATAAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTATTATTATTATCA
Found at i:2773307 original size:13 final size:13
Alignment explanation
Indices: 2773289--2773314 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2773279 TACACAAAGT
2773289 ATGTATCGATACA
1 ATGTATCGATACA
2773302 ATGTATCGATACA
1 ATGTATCGATACA
2773315 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2773312 original size:32 final size:33
Alignment explanation
Indices: 2773271--2773334 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
2773261 TAGCCAAACT
**
2773271 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
2773303 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2773335 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2776937 original size:30 final size:30
Alignment explanation
Indices: 2776859--2776952 Score: 95
Period size: 30 Copynumber: 3.1 Consensus size: 30
2776849 CAATTCTTCA
* *
2776859 CATCTCTTTTTCCAAGTCCACGCCTCTA-TGG
1 CATCTC-TGTTCCAAGTCCACGACT-TAGTGG
* *
2776890 CA-C-CCGTCCCAAAGTCCACGACTTAGTGG
1 CATCTCTGTTCC-AAGTCCACGACTTAGTGG
*
2776919 CATCTCTGTTCCAAGTCCATGACTTAGTGG
1 CATCTCTGTTCCAAGTCCACGACTTAGTGG
2776949 CATC
1 CATC
2776953 ATTTTTCTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
28 5 0.10
29 17 0.33
30 23 0.44
31 7 0.13
ACGTcount: A:0.20, C:0.34, G:0.17, T:0.29
Consensus pattern (30 bp):
CATCTCTGTTCCAAGTCCACGACTTAGTGG
Found at i:2777137 original size:32 final size:32
Alignment explanation
Indices: 2777042--2777704 Score: 352
Period size: 32 Copynumber: 21.2 Consensus size: 32
2777032 CATGACTCCA
* * *
2777042 TGGCATCTTTTCCTTTTAAGGCCACAACTCCG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
* * * *
2777074 TGACA-C----CCTTTTAAGTCCATAACACTA
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
*
2777101 TGGCACCTTTTCCTCTTAAGTCCACAACTCTG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
* ** *
2777133 TGGCATCTTTGGCTTTTAAGTCCATAACTCTG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
*
2777165 TGGCA-C----CATTTTAAGTCCACAACTCTG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
*
2777192 TGGCACCTTTTCCTTTTAAGTCCACAACTCCG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
* * * *
2777224 TGGCA-C----CCTTCTAAGTCTATAACTCCG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
* *
2777251 TGGCATCTTTTCCTTTTAAGTCCATAACTCTG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
* * *
2777283 TGGCA-C----CCTTTAAAG-CCTACAA-TTTCA
1 TGGCACCTTTTCCTTTTAAGTCC-ACAACTCT-G
* * *
2777310 TGGCACCCTTTTTCCTCTTAAGTCCACAACTTTA
1 TGGCA-CC-TTTTCCTTTTAAGTCCACAACTCTG
* * * **
2777344 TGGTATCTTTGCCTTTTAAGTCCACAACTCCA
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
* * *
2777376 TTGCA-C----CCTTCTAAGTCCACAACTTTG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
*
2777403 TGGCACCATTTT-GTTTTCGAAGTCCACAACTCTG
1 TGGCACC-TTTTCCTTTT--AAGTCCACAACTCTG
* * * **
2777437 TGGTA-C----CCTTTAAAGCCCATCATTTC-G
1 TGGCACCTTTTCCTTTTAAGTCCA-CAACTCTG
*
2777464 TGGCACCCTTTTTCCTCTTAAGTCCACAACTCTG
1 TGGCA-CC-TTTTCCTTTTAAGTCCACAACTCTG
* * *
2777498 TGGCATCTTTTCCTTTTAAGTCCATAACTCTA
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
* *
2777530 TGGCACCTTGTTCCTTTTAAGTCCACAAGTCCG
1 TGGCACCTT-TTCCTTTTAAGTCCACAACTCTG
* * * * *
2777563 TGGCACTTTTTTCTTTTCAAAGCCCACAATTCCG
1 TGGCACCTTTTCCTTTT--AAGTCCACAACTCTG
** * *
2777597 TGGCACACTTTTTCCTCTAGAAGTACAAAACTCTG
1 TGGCAC-C-TTTTCCT-TTTAAGTCCACAACTCTG
* * *
2777632 TGGCACCTTGTTCCTTTTAAGTCCATAACTTTA
1 TGGCACCTT-TTCCTTTTAAGTCCACAACTCTG
* * *
2777665 TGGCTCCTTTTTCTTTTCAAAG-CCTACAACTCCG
1 TGGCACCTTTTCCTTTT--AAGTCC-ACAACTCTG
2777699 TGGCAC
1 TGGCAC
2777705 TATTTTCCCT
Statistics
Matches: 481, Mismatches: 96, Indels: 106
0.70 0.14 0.16
Matches are distributed among these distances:
26 4 0.01
27 114 0.24
28 8 0.02
29 5 0.01
31 5 0.01
32 171 0.36
33 58 0.12
34 88 0.18
35 21 0.04
36 6 0.01
37 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.36
Consensus pattern (32 bp):
TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
Found at i:2777150 original size:91 final size:91
Alignment explanation
Indices: 2777036--2777228 Score: 269
Period size: 91 Copynumber: 2.1 Consensus size: 91
2777026 CTTCCACATG
* * * *
2777036 ACTCCATGGCATCTTTTCCTTTTAAGGCCACAACTCCGTGACACCCTTTTAAGTCCATAACACTA
1 ACTCCGTGGCATCTTTGCCTTTTAAGGCCACAACTCCGTGACACCATTTTAAGTCCACAACACTA
2777101 TGGCACCTTTTCCTCTTAAGTCCACA
66 TGGCACCTTTTCCTCTTAAGTCCACA
* * * * * * * *
2777127 ACTCTGTGGCATCTTTGGCTTTTAAGTCCATAACTCTGTGGCACCATTTTAAGTCCACAACTCTG
1 ACTCCGTGGCATCTTTGCCTTTTAAGGCCACAACTCCGTGACACCATTTTAAGTCCACAACACTA
*
2777192 TGGCACCTTTTCCTTTTAAGTCCACA
66 TGGCACCTTTTCCTCTTAAGTCCACA
2777218 ACTCCGTGGCA
1 ACTCCGTGGCA
2777229 CCCTTCTAAG
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
91 88 1.00
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (91 bp):
ACTCCGTGGCATCTTTGCCTTTTAAGGCCACAACTCCGTGACACCATTTTAAGTCCACAACACTA
TGGCACCTTTTCCTCTTAAGTCCACA
Found at i:2777248 original size:118 final size:120
Alignment explanation
Indices: 2777117--2777340 Score: 312
Period size: 118 Copynumber: 1.9 Consensus size: 120
2777107 CTTTTCCTCT
* * *
2777117 TAAGTCCACAACTCTGTGGCATCTTTGGCTTTTAAGTCCATAACTCTGTGGCACCATTTTAAGTC
1 TAAGTCCACAACTCCGTGGCATCTTTGCCTTTTAAGTCCATAACTCTGTGGCACCATTTAAAG-C
* *
2777182 C-ACAA-CTCTGTGGCA-CC-TTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTC
65 CTACAATCTC-ATGGCACCCTTTTTCCTCTTAAGTCCACAACTCCGTGGCACCCTTC
* * * *
2777235 TAAGTCTATAACTCCGTGGCATCTTTTCCTTTTAAGTCCATAACTCTGTGGCACCCTTTAAAGCC
1 TAAGTCCACAACTCCGTGGCATCTTTGCCTTTTAAGTCCATAACTCTGTGGCACCATTTAAAGCC
*
2777300 TACAATTTCATGGCACCCTTTTTCCTCTTAAGTCCACAACT
66 TACAATCTCATGGCACCCTTTTTCCTCTTAAGTCCACAACT
2777341 TTATGGTATC
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
117 2 0.02
118 65 0.71
119 4 0.04
120 21 0.23
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.34
Consensus pattern (120 bp):
TAAGTCCACAACTCCGTGGCATCTTTGCCTTTTAAGTCCATAACTCTGTGGCACCATTTAAAGCC
TACAATCTCATGGCACCCTTTTTCCTCTTAAGTCCACAACTCCGTGGCACCCTTC
Found at i:2777268 original size:91 final size:88
Alignment explanation
Indices: 2777052--2777289 Score: 264
Period size: 91 Copynumber: 2.6 Consensus size: 88
2777042 TGGCATCTTT
* * * * * *
2777052 TCCTTTTAAGGCCACAACTCCGTGACACCCTTTTAAGTCCATAACACTATGGCACCTTTTCCTCT
1 TCCTTCTAAGTCCATAACTCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCACCTTTTCCTCT
*
2777117 TAAGTCCACAACTCTGTGGCATC
66 TAAGTCCACAACTCCGTGGCATC
* * * * *
2777140 TTTGGCTTTTAAGTCCATAACTCTGTGGCACCATTTTAAGTCCACAACTCTGTGGCACCTTTTCC
1 --T-CCTTCTAAGTCCATAACTCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCACCTTTTCC
*
2777205 TTTTAAGTCCACAACTCCGTGGCA-C
63 TCTTAAGTCCACAACTCCGTGGCATC
*
2777230 -CCTTCTAAGTCTATAACTCCGTGGCATCTTTTCCTTTTAAGTCCATAACTCTGTGGCACC
1 TCCTTCTAAGTCCATAACTCCGTGGCA-C----CCTTTTAAGTCCATAACTCTGTGGCACC
2777290 CTTTAAAGCC
Statistics
Matches: 125, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
86 22 0.18
87 1 0.01
90 2 0.02
91 100 0.80
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.34
Consensus pattern (88 bp):
TCCTTCTAAGTCCATAACTCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCACCTTTTCCTCT
TAAGTCCACAACTCCGTGGCATC
Found at i:2777290 original size:59 final size:59
Alignment explanation
Indices: 2777080--2777292 Score: 264
Period size: 59 Copynumber: 3.5 Consensus size: 59
2777070 TCCGTGACAC
* * * *
2777080 CCTTTTAAGTCCATAACACTATGGCACCTTTTCCTCTTAAGTCCACAACTCTGTGGCATCTTTG
1 CCTTTTAAGTCCATAACTCTGTGGCACC----CTTC-TAAGTCCACAACTCTGTGGCATCTTTT
* * * *
2777144 GCTTTTAAGTCCATAACTCTGTGGCACCATTTTAAGTCCACAACTCTGTGGCACCTTTT
1 CCTTTTAAGTCCATAACTCTGTGGCACCCTTCTAAGTCCACAACTCTGTGGCATCTTTT
* * * * *
2777203 CCTTTTAAGTCCACAACTCCGTGGCACCCTTCTAAGTCTATAACTCCGTGGCATCTTTT
1 CCTTTTAAGTCCATAACTCTGTGGCACCCTTCTAAGTCCACAACTCTGTGGCATCTTTT
2777262 CCTTTTAAGTCCATAACTCTGTGGCACCCTT
1 CCTTTTAAGTCCATAACTCTGTGGCACCCTT
2777293 TAAAGCCTAC
Statistics
Matches: 130, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
59 104 0.80
60 1 0.01
64 25 0.19
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (59 bp):
CCTTTTAAGTCCATAACTCTGTGGCACCCTTCTAAGTCCACAACTCTGTGGCATCTTTT
Found at i:2777314 original size:59 final size:57
Alignment explanation
Indices: 2777145--2777340 Score: 205
Period size: 59 Copynumber: 3.3 Consensus size: 57
2777135 GCATCTTTGG
* * *
2777145 CTTTTAAGTCCATAACTCTGTGGCACCATTTTAAGTCC-ACAACTCTGTGGCACCTTTTC
1 CTTTTAAGTCCACAACTCTGTGGCACC-CTTTAAG-CCTACAATTC-GTGGCACCTTTTC
* * * * *
2777204 CTTTTAAGTCCACAACTCCGTGGCACCCTTCTAAGTCTATAACTCCGTGGCATCTTTTC
1 CTTTTAAGTCCACAACTCTGTGGCACCCTT-TAAGCCTACAA-TTCGTGGCACCTTTTC
* *
2777263 CTTTTAAGTCCATAACTCTGTGGCACCCTTTAAAGCCTACAATTTCATGGCACCCTTTTTC
1 CTTTTAAGTCCACAACTCTGTGGCACCCTTT-AAGCCTACAA-TTCGTGGCA-CC-TTTTC
*
2777324 CTCTTAAGTCCACAACT
1 CTTTTAAGTCCACAACT
2777341 TTATGGTATC
Statistics
Matches: 113, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
58 4 0.04
59 87 0.77
60 2 0.02
61 20 0.18
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.35
Consensus pattern (57 bp):
CTTTTAAGTCCACAACTCTGTGGCACCCTTTAAGCCTACAATTCGTGGCACCTTTTC
Found at i:2777483 original size:154 final size:152
Alignment explanation
Indices: 2777042--2777536 Score: 515
Period size: 154 Copynumber: 3.3 Consensus size: 152
2777032 CATGACTCCA
* * * * * * **
2777042 TGGCATCTTTTCCTTTTAAGGCCACAACTCCGTGACACCCTTTTAAGTCCATAACACTATGGCAC
1 TGGCATCTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTCTAAGTCCACAACTCCGTGGCAC
* * * * * * *
2777107 CTTTTCCTCTTAAGTCCACAACTCTGTGGCATCTTTGGCTTTTAAGTCCATAA-CTCTGTGGCA-
66 CTTTTCCTTTTAAGTCCACAACTCTGTGGCA-C----CCTTTAAAGCCCACAATTTC-ATGGCAC
*
2777170 CC---AT--T-TTAAGTCCACAACTCTG
125 CCTTTTTCCTCTTAAGTCCACAACTCTG
* * * * *
2777192 TGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTCTAAGTCTATAACTCCGTGGCAT
1 TGGCATCTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTCTAAGTCCACAACTCCGTGGCAC
* *
2777257 CTTTTCCTTTTAAGTCCATAACTCTGTGGCACCCTTTAAAGCCTACAATTTCATGGCACCCTTTT
66 CTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAAGCCCACAATTTCATGGCACCCTTTT
* *
2777322 TCCTCTTAAGTCCACAACTTTA
131 TCCTCTTAAGTCCACAACTCTG
* * * **
2777344 TGGTATCTTTGCCTTTTAAGTCCACAACTCCATTGCACCCTTCTAAGTCCACAACTTTGTGGCAC
1 TGGCATCTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTCTAAGTCCACAACTCCGTGGCAC
* * *
2777409 CATTTT-GTTTTCGAAGTCCACAACTCTGTGGTACCCTTTAAAGCCCATC-ATTTCGTGGCACCC
66 C-TTTTCCTTTT--AAGTCCACAACTCTGTGGCACCCTTTAAAGCCCA-CAATTTCATGGCACCC
2777472 TTTTTCCTCTTAAGTCCACAACTCTG
127 TTTTTCCTCTTAAGTCCACAACTCTG
* *
2777498 TGGCATCTTTTCCTTTTAAGTCCATAACTCTATGGCACC
1 TGGCATCTTTTCCTTTTAAGTCCACAACTCCATGGCACC
2777537 TTGTTCCTTT
Statistics
Matches: 290, Mismatches: 43, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
145 16 0.06
146 4 0.01
149 2 0.01
150 85 0.29
151 1 0.00
152 75 0.26
153 4 0.01
154 102 0.35
155 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (152 bp):
TGGCATCTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTCTAAGTCCACAACTCCGTGGCAC
CTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAAGCCCACAATTTCATGGCACCCTTTT
TCCTCTTAAGTCCACAACTCTG
Found at i:2777549 original size:33 final size:33
Alignment explanation
Indices: 2777463--2777712 Score: 195
Period size: 33 Copynumber: 7.5 Consensus size: 33
2777453 CCATCATTTC
*
2777463 GTGGCACCCTTTTTCCTCTTAAGTCCACAACTCT
1 GTGGCA-CCTTTTTCCTTTTAAGTCCACAACTCT
* *
2777497 GTGGCATC-TTTTCCTTTTAAGTCCATAACTCT
1 GTGGCACCTTTTTCCTTTTAAGTCCACAACTCT
* * * *
2777529 ATGGCACCTTGTTCCTTTTAAGTCCACAAGTCC
1 GTGGCACCTTTTTCCTTTTAAGTCCACAACTCT
* * * *
2777562 GTGGCA-CTTTTTTCTTTTCAAAGCCCACAATTCC
1 GTGGCACCTTTTTCCTTTT--AAGTCCACAACTCT
** * *
2777596 GTGGCACACTTTTTCCTCTAGAAGTACAAAACTCT
1 GTGGCAC-CTTTTTCCT-TTTAAGTCCACAACTCT
* * *
2777631 GTGGCACCTTGTTCCTTTTAAGTCCATAACTTT
1 GTGGCACCTTTTTCCTTTTAAGTCCACAACTCT
* * *
2777664 ATGGCTCCTTTTT-CTTTTCAAAG-CCTACAACTCC
1 GTGGCACCTTTTTCCTTTT--AAGTCC-ACAACTCT
2777698 GTGGCA-CTATTTTCC
1 GTGGCACCT-TTTTCC
2777713 CTCCAAAAGT
Statistics
Matches: 169, Mismatches: 36, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
32 43 0.25
33 52 0.31
34 48 0.28
35 17 0.10
36 8 0.05
37 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.13, T:0.38
Consensus pattern (33 bp):
GTGGCACCTTTTTCCTTTTAAGTCCACAACTCT
Found at i:2780576 original size:21 final size:21
Alignment explanation
Indices: 2780543--2780587 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2780533 TTGCAAGTTG
*
2780543 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2780565 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2780585 AAA
1 AAA
2780588 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2782411 original size:15 final size:15
Alignment explanation
Indices: 2782391--2782421 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2782381 TAAAAATGTC
*
2782391 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2782406 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2782421 C
1 C
2782422 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2784485 original size:13 final size:13
Alignment explanation
Indices: 2784467--2784505 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2784457 ACATTTTTCC
2784467 TTGTATCGATACA
1 TTGTATCGATACA
2784480 TTGTATCGATACA
1 TTGTATCGATACA
*
2784493 TTATATCGATACA
1 TTGTATCGATACA
2784506 AGGTGACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2784669 original size:20 final size:20
Alignment explanation
Indices: 2784626--2784671 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
2784616 AAATCTTTTG
2784626 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
2784647 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
2784667 CAAAA
1 CAAAA
2784672 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:2787436 original size:30 final size:30
Alignment explanation
Indices: 2787358--2787451 Score: 95
Period size: 30 Copynumber: 3.1 Consensus size: 30
2787348 CAATTCTTCA
* *
2787358 CATCTCTTTTTCCAAGTCCACGCCTCTA-TGG
1 CATCTC-TGTTCCAAGTCCACGACT-TAGTGG
* *
2787389 CA-C-CCGTCCCAAAGTCCACGACTTAGTGG
1 CATCTCTGTTCC-AAGTCCACGACTTAGTGG
*
2787418 CATCTCTGTTCCAAGTCCATGACTTAGTGG
1 CATCTCTGTTCCAAGTCCACGACTTAGTGG
2787448 CATC
1 CATC
2787452 ATTTTTCTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
28 5 0.10
29 17 0.33
30 23 0.44
31 7 0.13
ACGTcount: A:0.20, C:0.34, G:0.17, T:0.29
Consensus pattern (30 bp):
CATCTCTGTTCCAAGTCCACGACTTAGTGG
Found at i:2787636 original size:32 final size:32
Alignment explanation
Indices: 2787541--2788203 Score: 336
Period size: 32 Copynumber: 21.2 Consensus size: 32
2787531 CATGACTCCA
* * *
2787541 TGGCATCTTTTCCTTTTAAGGCCACAACTCCG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
* * * *
2787573 TGACA-C----CCTTTTAAGTCCATAACTTTA
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
*
2787600 TGGCACCTTTTCCTCTTAAGTCCACAACTCTG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
* ** *
2787632 TGGCATCTTTGGCTTTTAAGTCCATAACTCTG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
*
2787664 TGGCA-C----CATTTTAAGTCCACAACTCTG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
* *
2787691 TGGCGCCTTTTCCTTTTAAGTCCACAACTCCG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
* * * *
2787723 TGGCA-C----CCTTCTAAGTCTATAACTCCG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
* *
2787750 TGGCATCTTTTCCTTTTAAGTCCATAACTCTG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
* * *
2787782 TGGCA-C----CCTTTAAAG-CCTACAA-TTTCA
1 TGGCACCTTTTCCTTTTAAGTCC-ACAACTCT-G
* *
2787809 TGGCACCCTTTTTCCTCTTAAGTCCACAACT-TAA
1 TGGCA-CC-TTTTCCTTTTAAGTCCACAACTCT-G
* * **
2787843 TGGCATCTTTGCCTTTTAAGTCCACAACTCCA
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
* * *
2787875 TTGCA-C----CCTTCTAAGTCCACAACTTTG
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
*
2787902 TGGCACCATTTT-GTTTTCGAAGTCCACAACTCTG
1 TGGCACC-TTTTCCTTTT--AAGTCCACAACTCTG
* * * **
2787936 TGGTA-C----CCTTTAAAGCCCATCATTTC-G
1 TGGCACCTTTTCCTTTTAAGTCCA-CAACTCTG
* *
2787963 TGACACCCTTTTTCCTCTTAAGTCCACAACTCTG
1 TGGCA-CC-TTTTCCTTTTAAGTCCACAACTCTG
* * *
2787997 TGGCATCTTTTCCTTTTAAGTCCATAACTCTA
1 TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
*
2788029 TGGCACCTTGTTCCTTTTAAGTCCACAAGTCTG
1 TGGCACCTT-TTCCTTTTAAGTCCACAACTCTG
* * * * *
2788062 TGGCACTTTTTTCTTTTCAAAGCCCACAATTCCG
1 TGGCACCTTTTCCTTTT--AAGTCCACAACTCTG
* *** * *
2788096 TGGTACACTTTTTCCTCCAGAAGTACAAAACTCTG
1 TGG--CACCTTTTCCT-TTTAAGTCCACAACTCTG
* *
2788131 TGGCACCTTGTTCCTTTTAAGTCCATAACTTTG
1 TGGCACCTT-TTCCTTTTAAGTCCACAACTCTG
* * *
2788164 TGGCTCCTTTTTCTTTTCAAAG-CCTACAACTCCG
1 TGGCACCTTTTCCTTTT--AAGTCC-ACAACTCTG
2788198 TGGCAC
1 TGGCAC
2788204 TATTTTCCCT
Statistics
Matches: 478, Mismatches: 98, Indels: 108
0.70 0.14 0.16
Matches are distributed among these distances:
26 4 0.01
27 112 0.23
28 8 0.02
29 5 0.01
31 5 0.01
32 171 0.36
33 62 0.13
34 85 0.18
35 16 0.03
36 10 0.02
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.36
Consensus pattern (32 bp):
TGGCACCTTTTCCTTTTAAGTCCACAACTCTG
Found at i:2787649 original size:91 final size:91
Alignment explanation
Indices: 2787535--2787727 Score: 260
Period size: 91 Copynumber: 2.1 Consensus size: 91
2787525 CTTCCACATG
* * * * *
2787535 ACTCCATGGCATCTTTTCCTTTTAAGGCCACAACTCCGTGACACCCTTTTAAGTCCATAACTTTA
1 ACTCCGTGGCATCTTTGCCTTTTAAGGCCACAACTCCGTGACACCATTTTAAGTCCACAACTCTA
2787600 TGGCACCTTTTCCTCTTAAGTCCACA
66 TGGCACCTTTTCCTCTTAAGTCCACA
* * * * * * *
2787626 ACTCTGTGGCATCTTTGGCTTTTAAGTCCATAACTCTGTGGCACCATTTTAAGTCCACAACTCTG
1 ACTCCGTGGCATCTTTGCCTTTTAAGGCCACAACTCCGTGACACCATTTTAAGTCCACAACTCTA
* *
2787691 TGGCGCCTTTTCCTTTTAAGTCCACA
66 TGGCACCTTTTCCTCTTAAGTCCACA
2787717 ACTCCGTGGCA
1 ACTCCGTGGCA
2787728 CCCTTCTAAG
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.34
Consensus pattern (91 bp):
ACTCCGTGGCATCTTTGCCTTTTAAGGCCACAACTCCGTGACACCATTTTAAGTCCACAACTCTA
TGGCACCTTTTCCTCTTAAGTCCACA
Found at i:2787767 original size:91 final size:88
Alignment explanation
Indices: 2787551--2787788 Score: 255
Period size: 91 Copynumber: 2.6 Consensus size: 88
2787541 TGGCATCTTT
* * * * * *
2787551 TCCTTTTAAGGCCACAACTCCGTGACACCCTTTTAAGTCCATAACTTTATGGCACCTTTTCCTCT
1 TCCTTCTAAGTCCATAACTCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCACCTTTTCCTCT
*
2787616 TAAGTCCACAACTCTGTGGCATC
66 TAAGTCCACAACTCCGTGGCATC
* * * * * *
2787639 TTTGGCTTTTAAGTCCATAACTCTGTGGCACCATTTTAAGTCCACAACTCTGTGGCGCCTTTTCC
1 --T-CCTTCTAAGTCCATAACTCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCACCTTTTCC
*
2787704 TTTTAAGTCCACAACTCCGTGGCA-C
63 TCTTAAGTCCACAACTCCGTGGCATC
*
2787729 -CCTTCTAAGTCTATAACTCCGTGGCATCTTTTCCTTTTAAGTCCATAACTCTGTGGCACC
1 TCCTTCTAAGTCCATAACTCCGTGGCA-C----CCTTTTAAGTCCATAACTCTGTGGCACC
2787789 CTTTAAAGCC
Statistics
Matches: 123, Mismatches: 19, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
86 22 0.18
87 1 0.01
90 2 0.02
91 98 0.80
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.34
Consensus pattern (88 bp):
TCCTTCTAAGTCCATAACTCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCACCTTTTCCTCT
TAAGTCCACAACTCCGTGGCATC
Found at i:2787789 original size:59 final size:59
Alignment explanation
Indices: 2787579--2787791 Score: 255
Period size: 59 Copynumber: 3.5 Consensus size: 59
2787569 TCCGTGACAC
* * * *
2787579 CCTTTTAAGTCCATAACTTTATGGCACCTTTTCCTCTTAAGTCCACAACTCTGTGGCATCTTTG
1 CCTTTTAAGTCCATAACTCTGTGGCACC----CTTC-TAAGTCCACAACTCTGTGGCATCTTTT
* * * **
2787643 GCTTTTAAGTCCATAACTCTGTGGCACCATTTTAAGTCCACAACTCTGTGGCGCCTTTT
1 CCTTTTAAGTCCATAACTCTGTGGCACCCTTCTAAGTCCACAACTCTGTGGCATCTTTT
* * * * *
2787702 CCTTTTAAGTCCACAACTCCGTGGCACCCTTCTAAGTCTATAACTCCGTGGCATCTTTT
1 CCTTTTAAGTCCATAACTCTGTGGCACCCTTCTAAGTCCACAACTCTGTGGCATCTTTT
2787761 CCTTTTAAGTCCATAACTCTGTGGCACCCTT
1 CCTTTTAAGTCCATAACTCTGTGGCACCCTT
2787792 TAAAGCCTAC
Statistics
Matches: 128, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
59 102 0.80
60 1 0.01
64 25 0.20
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (59 bp):
CCTTTTAAGTCCATAACTCTGTGGCACCCTTCTAAGTCCACAACTCTGTGGCATCTTTT
Found at i:2787813 original size:59 final size:57
Alignment explanation
Indices: 2787644--2787839 Score: 196
Period size: 59 Copynumber: 3.3 Consensus size: 57
2787634 GCATCTTTGG
* * * *
2787644 CTTTTAAGTCCATAACTCTGTGGCACCATTTTAAGTCC-ACAACTCTGTGGCGCCTTTTC
1 CTTTTAAGTCCACAACTCTGTGGCACC-CTTTAAG-CCTACAATTC-GTGGCACCTTTTC
* * * * *
2787703 CTTTTAAGTCCACAACTCCGTGGCACCCTTCTAAGTCTATAACTCCGTGGCATCTTTTC
1 CTTTTAAGTCCACAACTCTGTGGCACCCTT-TAAGCCTACAA-TTCGTGGCACCTTTTC
* *
2787762 CTTTTAAGTCCATAACTCTGTGGCACCCTTTAAAGCCTACAATTTCATGGCACCCTTTTTC
1 CTTTTAAGTCCACAACTCTGTGGCACCCTTT-AAGCCTACAA-TTCGTGGCA-CC-TTTTC
*
2787823 CTCTTAAGTCCACAACT
1 CTTTTAAGTCCACAACT
2787840 TAATGGCATC
Statistics
Matches: 112, Mismatches: 19, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
58 4 0.04
59 86 0.77
60 2 0.02
61 20 0.18
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.35
Consensus pattern (57 bp):
CTTTTAAGTCCACAACTCTGTGGCACCCTTTAAGCCTACAATTCGTGGCACCTTTTC
Found at i:2787925 original size:93 final size:93
Alignment explanation
Indices: 2787750--2787932 Score: 212
Period size: 93 Copynumber: 2.0 Consensus size: 93
2787740 TATAACTCCG
* * **
2787750 TGGCATCTTTTCCTTTTAAGTCCATAACTCTGTGGCACCCTTTAAAGCCTACAATTTCATGGCAC
1 TGGCATCTTTGCCTTTTAAGTCCACAACTCCATGGCACCCTTTAAAGCCTACAATTTCATGGCAC
* *
2787815 CCTTTTTCCTCTTAAGTCCACAACTTAA
66 CATTTTTCCTCTGAAGTCCACAACTTAA
* *
2787843 TGGCATCTTTGCCTTTTAAGTCCACAACTCCATTGCACCCTTCT-AAGTCC-ACAACTTT-GTGG
1 TGGCATCTTTGCCTTTTAAGTCCACAACTCCATGGCACCCTT-TAAAG-CCTACAA-TTTCATGG
**
2787905 CACCATTTTGTTTTC-GAAGTCCACAACT
63 CACCATTTT-TCCTCTGAAGTCCACAACT
2787933 CTGTGGTACC
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
93 67 0.88
94 9 0.12
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.36
Consensus pattern (93 bp):
TGGCATCTTTGCCTTTTAAGTCCACAACTCCATGGCACCCTTTAAAGCCTACAATTTCATGGCAC
CATTTTTCCTCTGAAGTCCACAACTTAA
Found at i:2787985 original size:154 final size:152
Alignment explanation
Indices: 2787541--2788035 Score: 493
Period size: 154 Copynumber: 3.3 Consensus size: 152
2787531 CATGACTCCA
* * * * * ***
2787541 TGGCATCTTTTCCTTTTAAGGCCACAACTCCGTGACACCCTTTTAAGTCCATAACTTTATGGCAC
1 TGGCATCTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTCTAAGTCCACAACTCCGTGGCAC
* * * **** * * *
2787606 CTTTTCCTCTTAAGTCCACAACTCTGTGGCA-TCTTT--GGCTTTTAAGTCCAT-A-ACTCTGTG
66 CTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAAGCCCACAATTTCATGACACCCT-T-
*** *
2787666 GCACCATTTTAAGTCCACAACTCTG
129 TTTCC-TCTTAAGTCCACAACTCTG
** * * * *
2787691 TGGCGCCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTCTAAGTCTATAACTCCGTGGCAT
1 TGGCATCTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTCTAAGTCCACAACTCCGTGGCAC
* * *
2787756 CTTTTCCTTTTAAGTCCATAACTCTGTGGCACCCTTTAAAGCCTACAATTTCATGGCACCCTTTT
66 CTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAAGCCCACAATTTCATGACACCCTTTT
*
2787821 TCCTCTTAAGTCCACAACT-TAA
131 TCCTCTTAAGTCCACAACTCT-G
* * **
2787843 TGGCATCTTTGCCTTTTAAGTCCACAACTCCATTGCACCCTTCTAAGTCCACAACTTTGTGGCAC
1 TGGCATCTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTCTAAGTCCACAACTCCGTGGCAC
* * *
2787908 CATTTT-GTTTTCGAAGTCCACAACTCTGTGGTACCCTTTAAAGCCCATC-ATTTCGTGACACCC
66 C-TTTTCCTTTT--AAGTCCACAACTCTGTGGCACCCTTTAAAGCCCA-CAATTTCATGACACCC
2787971 TTTTTCCTCTTAAGTCCACAACTCTG
127 TTTTTCCTCTTAAGTCCACAACTCTG
* *
2787997 TGGCATCTTTTCCTTTTAAGTCCATAACTCTATGGCACC
1 TGGCATCTTTTCCTTTTAAGTCCACAACTCCATGGCACC
2788036 TTGTTCCTTT
Statistics
Matches: 287, Mismatches: 47, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
150 84 0.29
151 5 0.02
152 75 0.26
153 15 0.05
154 102 0.36
155 6 0.02
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (152 bp):
TGGCATCTTTTCCTTTTAAGTCCACAACTCCATGGCACCCTTCTAAGTCCACAACTCCGTGGCAC
CTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTAAAGCCCACAATTTCATGACACCCTTTT
TCCTCTTAAGTCCACAACTCTG
Found at i:2788048 original size:33 final size:33
Alignment explanation
Indices: 2787969--2788211 Score: 190
Period size: 33 Copynumber: 7.3 Consensus size: 33
2787959 TTCGTGACAC
*
2787969 CCTTTTTCCTCTTAAGTCCACAACTCTGTGGCA
1 CCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA
* * *
2788002 TC-TTTTCCTTTTAAGTCCATAACTCTATGGCA
1 CCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA
* *
2788034 CCTTGTTCCTTTTAAGTCCACAAGTCTGTGGCA
1 CCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA
* * * * *
2788067 -CTTTTTTCTTTTCAAAGCCCACAATTCCGTGGTA
1 CCTTTTTCCTTTT--AAGTCCACAACTCTGTGGCA
*** * *
2788101 CACTTTTTCCTCCAGAAGTACAAAACTCTGTGGCA
1 C-CTTTTTCCT-TTTAAGTCCACAACTCTGTGGCA
* * * *
2788136 CCTTGTTCCTTTTAAGTCCATAACTTTGTGGCT
1 CCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA
*
2788169 CCTTTTT-CTTTTCAAAG-CCTACAACTCCGTGGCA
1 CCTTTTTCCTTTT--AAGTCC-ACAACTCTGTGGCA
2788203 -CTATTTTCC
1 CCT-TTTTCC
2788212 CTCCAAAAGT
Statistics
Matches: 161, Mismatches: 38, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
32 43 0.27
33 53 0.33
34 41 0.25
35 16 0.10
36 8 0.05
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.39
Consensus pattern (33 bp):
CCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA
Found at i:2788135 original size:102 final size:102
Alignment explanation
Indices: 2788022--2788221 Score: 287
Period size: 102 Copynumber: 2.0 Consensus size: 102
2788012 TTAAGTCCAT
* *
2788022 AACTCTATGGCACCTTGTTCCTTTTAAGTCCACAAGTCTGTGGCACTTTTTTCTTTTCAAAGCCC
1 AACTCTATGGCACCTTGTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGCCC
* *
2788087 ACAATTCCGTGGTACACT-TTTT-CCTCCAGAAGTACAA
66 ACAACTCCGTGG--CACTATTTTCCCTCCAAAAGTACAA
* * * * *
2788124 AACTCTGTGGCACCTTGTTCCTTTTAAGTCCATAACTTTGTGGCTCCTTTTTCTTTTCAAAGCCT
1 AACTCTATGGCACCTTGTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGCCC
2788189 ACAACTCCGTGGCACTATTTTCCCTCCAAAAGT
66 ACAACTCCGTGGCACTATTTTCCCTCCAAAAGT
2788222 CCACAATCAG
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 4 0.05
102 79 0.91
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (102 bp):
AACTCTATGGCACCTTGTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGCCC
ACAACTCCGTGGCACTATTTTCCCTCCAAAAGTACAA
Found at i:2788844 original size:13 final size:13
Alignment explanation
Indices: 2788826--2788851 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2788816 TACAGCAAGT
2788826 ATGTATCGATACA
1 ATGTATCGATACA
2788839 ATGTATCGATACA
1 ATGTATCGATACA
2788852 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2789651 original size:32 final size:31
Alignment explanation
Indices: 2789614--2789797 Score: 246
Period size: 32 Copynumber: 5.8 Consensus size: 31
2789604 CAACCCTTTC
*
2789614 TAAAGCCCACGCAAGTTGGTGGCAACCTCTT
1 TAAAGCCCACACAAGTTGGTGGCAACCTCTT
2789645 TAAAAGCCCACACAAGTTGGTGGCAACC-CTTT
1 T-AAAGCCCACACAAGTTGGTGGCAACCTC-TT
2789677 CTAAAGCCCACACAAGTTGGTGGCAACCTTCTT
1 -TAAAGCCCACACAAGTTGGTGGCAACC-TCTT
* *
2789710 TAAAGCCCGCACAAGTTTGTGGCAACCTTCTT
1 TAAAGCCCACACAAGTTGGTGGCAACC-TCTT
*
2789742 TAAAGCCCACACAAGTCGGTGGCAACC-CTT
1 TAAAGCCCACACAAGTTGGTGGCAACCTCTT
*
2789772 TCAAAAGCCTACACAAGTTGGTGGCA
1 T--AAAGCCCACACAAGTTGGTGGCA
2789798 TTTCATTCTA
Statistics
Matches: 138, Mismatches: 8, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
30 4 0.03
31 2 0.01
32 128 0.93
33 3 0.02
34 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (31 bp):
TAAAGCCCACACAAGTTGGTGGCAACCTCTT
Found at i:2789681 original size:64 final size:64
Alignment explanation
Indices: 2789603--2789797 Score: 288
Period size: 64 Copynumber: 3.0 Consensus size: 64
2789593 TAAGCTTTCA
*
2789603 GCAACCCTTTCTAAAGCCCACGCAAGTTGGTGGCAACCTCTTTAAAAGCCCACACAAGTTGGTG
1 GCAACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACCTCTTTAAAAGCCCACACAAGTTGGTG
* *
2789667 GCAACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACCTTCTTT-AAAGCCCGCACAAGTTTGTG
1 GCAACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACC-TCTTTAAAAGCCCACACAAGTTGGTG
* * *
2789731 GCAA-CCTTCTTTAAAGCCCACACAAGTCGGTGGCAACC-CTTTCAAAAGCCTACACAAGTTGGT
1 GCAACCCTT-TCTAAAGCCCACACAAGTTGGTGGCAACCTCTTT-AAAAGCCCACACAAGTTGGT
2789794 G
64 G
2789795 GCA
1 GCA
2789798 TTTCATTCTA
Statistics
Matches: 119, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
62 4 0.03
63 4 0.03
64 106 0.89
65 5 0.04
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (64 bp):
GCAACCCTTTCTAAAGCCCACACAAGTTGGTGGCAACCTCTTTAAAAGCCCACACAAGTTGGTG
Found at i:2789767 original size:96 final size:96
Alignment explanation
Indices: 2789614--2789797 Score: 298
Period size: 96 Copynumber: 1.9 Consensus size: 96
2789604 CAACCCTTTC
* * *
2789614 TAAAGCCCACGCAAGTTGGTGGCAACCTCTTTAAAAGCCCACACAAGTTGGTGGCAACCCTTTCT
1 TAAAGCCCACACAAGTTGGTGGCAACCTCTTTAAAAGCCCACACAAGTCGGTGGCAACCCTTTCA
2789679 AAAGCCCACACAAGTTGGTGGCAACCTTCTT
66 AAAGCCCACACAAGTTGGTGGCAACCTTCTT
* *
2789710 TAAAGCCCGCACAAGTTTGTGGCAACCTTCTTT-AAAGCCCACACAAGTCGGTGGCAACCCTTTC
1 TAAAGCCCACACAAGTTGGTGGCAACC-TCTTTAAAAGCCCACACAAGTCGGTGGCAACCCTTTC
*
2789774 AAAAGCCTACACAAGTTGGTGGCA
65 AAAAGCCCACACAAGTTGGTGGCA
2789798 TTTCATTCTA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
96 76 0.94
97 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (96 bp):
TAAAGCCCACACAAGTTGGTGGCAACCTCTTTAAAAGCCCACACAAGTCGGTGGCAACCCTTTCA
AAAGCCCACACAAGTTGGTGGCAACCTTCTT
Found at i:2789858 original size:36 final size:36
Alignment explanation
Indices: 2789811--2789880 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
2789801 CATTCTAAAC
* *
2789811 CCAATGTCGCTGGCCTTGGATCAGCACAATGGCAGT
1 CCAATATCGCTGGCCTTGAATCAGCACAATGGCAGT
*
2789847 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCACAATGGCA
2789881 CTTTCATCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (36 bp):
CCAATATCGCTGGCCTTGAATCAGCACAATGGCAGT
Found at i:2789925 original size:49 final size:49
Alignment explanation
Indices: 2789844--2790382 Score: 398
Period size: 49 Copynumber: 10.8 Consensus size: 49
2789834 GCACAATGGC
*
2789844 AGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTA
* * * *
2789893 AGTCTAATGTCGCTGGCCATGAATCAGCACATTAGCACCTTCATCTTTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTA
* * * * * *
2789942 AGTCCGATATCGCTAGCCTCGAATCAGCATATTGGCATCTTTAACAT-TCCTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTT--CATCT-TTA
* * * *
2789994 A-ACCTAATGTCACTGGCCTTGAATCAGCATATTGTTTC-CTTTGTCATCTTTA
1 AGTCC-AATGTCGCTGGCCTTGAATCAGCACATTG--GCAC-TT-TCATCTTTA
* *
2790046 AGTCCAATGTCGCTGGCCTTGAATCAACACTTTGGCA----C--CTTTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTA
* * *
2790089 AGTCCAATATCGCTGGCCTTAAATCAGCACATTGGCACTTTTATCTTTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTA
* * * *
2790138 AGTCTAATGTCGCTGGCCTTAAATCAACACATTGGCACCTTCATCTTTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTA
** * * *
2790187 AGTCTGATATCGTTGGCCTTGAATCAGCAAATTGGCATCTTTAACAT-TTCTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTT--CATCTT-TA
** ** * * *
2790239 AACCCAATGTCATTGGCCTTGAATCAGCACATTAGCATTCTTCTTATCTTCA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--CTT-TCATCTTTA
* * * * ** *
2790291 AGTCTAATGTCACTGGCCGTGAATTAGCACATTAACATTTTTCGCATCTTT-
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTT--CATCTTTA
* * * * *
2790342 AGCCCAATATCGCTGACCTTGAATCAACATATTGGCACTTT
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTT
2790383 TATCGTCCTT
Statistics
Matches: 385, Mismatches: 78, Indels: 53
0.75 0.15 0.10
Matches are distributed among these distances:
43 38 0.10
45 1 0.00
49 153 0.40
50 11 0.03
51 34 0.09
52 134 0.35
53 11 0.03
54 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (49 bp):
AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTA
Found at i:2790093 original size:43 final size:43
Alignment explanation
Indices: 2790041--2790178 Score: 177
Period size: 43 Copynumber: 3.1 Consensus size: 43
2790031 CCTTTGTCAT
* *
2790041 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACTTTGGCAC
1 CTTTAAGTCCAATGTCGCTGGCCTTAAATCAACACATTGGCAC
* *
2790084 CTTTAAGTCCAATATCGCTGGCCTTAAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTCGCTGGCCTTAAATCAACACATTGGCAC
*
2790127 TTTTATCTTTAAGTCTAATGTCGCTGGCCTTAAATCAACACATTGGCAC
1 ------CTTTAAGTCCAATGTCGCTGGCCTTAAATCAACACATTGGCAC
2790176 CTT
1 CTT
2790179 CATCTTTAAG
Statistics
Matches: 82, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
43 42 0.51
49 40 0.49
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (43 bp):
CTTTAAGTCCAATGTCGCTGGCCTTAAATCAACACATTGGCAC
Found at i:2790108 original size:22 final size:22
Alignment explanation
Indices: 2790041--2790108 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 22
2790031 CCTTTGTCAT
*
2790041 CTTTAAGTCCAATGTCGCTGGC
1 CTTTAAGTCCAATATCGCTGGC
* * **
2790063 CTTGAA-T-CAACA-CTTTGGCAC
1 CTTTAAGTCCAATATCGCTGG--C
2790084 CTTTAAGTCCAATATCGCTGGC
1 CTTTAAGTCCAATATCGCTGGC
2790106 CTT
1 CTT
2790109 AAATCAGCAC
Statistics
Matches: 32, Mismatches: 9, Indels: 10
0.63 0.18 0.20
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 7 0.22
22 10 0.31
23 4 0.12
24 4 0.12
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (22 bp):
CTTTAAGTCCAATATCGCTGGC
Found at i:2790227 original size:92 final size:87
Alignment explanation
Indices: 2790038--2790230 Score: 208
Period size: 92 Copynumber: 2.1 Consensus size: 87
2790028 TTTCCTTTGT
* *
2790038 CATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAACACTTTGGCACCTTTAAGTCCAATATCGCT
1 CATCTTTAAGTCCAATGTCGCTGGCCTTAAATCAACACATTGGCACCTTTAAGTCCAATATCGCT
*
2790103 GGCCTTAAATCAGCACATTGGCA
66 GGCCTTAAATCAGCAAATTGG-A
*
2790126 CTTTTATCTTTAAGTCTAATGTCGCTGGCCTTAAATCAACACATTGGCACCTTCATCTTTAAGTC
1 C----ATCTTTAAGTCCAATGTCGCTGGCCTTAAATCAACACATTGGCA----C--CTTTAAGTC
** * *
2790191 TGATATCGTTGGCCTTGAATCAGCAAATTGG-
56 CAATATCGCTGGCCTTAAATCAGCAAATTGGA
2790222 CATCTTTAA
1 CATCTTTAA
2790231 CATTTCTAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 16
0.78 0.07 0.14
Matches are distributed among these distances:
88 1 0.01
92 49 0.56
96 2 0.02
98 35 0.40
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (87 bp):
CATCTTTAAGTCCAATGTCGCTGGCCTTAAATCAACACATTGGCACCTTTAAGTCCAATATCGCT
GGCCTTAAATCAGCAAATTGGA
Found at i:2790434 original size:61 final size:60
Alignment explanation
Indices: 2790335--2790461 Score: 179
Period size: 61 Copynumber: 2.1 Consensus size: 60
2790325 ACATTTTTCG
*
2790335 CATCTTTAGCCCAATATCGCTGACCTTGAATCAACATATTGGCA-CTTTTATC-GTCCTTCT
1 CATCTTTAGCCCAATATCGCTGACCTTGAATCAACATATTGGCATC-TTTATCACT-CTTCT
*
2790395 CATCTTTAAGCCCAATATCGCTTG-CCTTGAATCAGCATATTGGCATCTTTATCACTCTTCT
1 CATCTTT-AGCCCAATATCGC-TGACCTTGAATCAACATATTGGCATCTTTATCACTCTTCT
2790456 CATCTT
1 CATCTT
2790462 CATCATCTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
60 7 0.11
61 50 0.82
62 4 0.07
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.38
Consensus pattern (60 bp):
CATCTTTAGCCCAATATCGCTGACCTTGAATCAACATATTGGCATCTTTATCACTCTTCT
Found at i:2791133 original size:20 final size:20
Alignment explanation
Indices: 2791108--2791159 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
2791098 ATAAGTTTTG
2791108 TATCAATACATGATTCAATA
1 TATCAATACATGATTCAATA
* *
2791128 TATCAATACATCATTCAATG
1 TATCAATACATGATTCAATA
*
2791148 TATCGATACATG
1 TATCAATACATG
2791160 TAGGCAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (20 bp):
TATCAATACATGATTCAATA
Found at i:2795754 original size:66 final size:64
Alignment explanation
Indices: 2795641--2795980 Score: 219
Period size: 65 Copynumber: 5.2 Consensus size: 64
2795631 AGTGACTAGA
* * * * * *
2795641 GTGAGACCTAAGTCCAAAAGAATTTGACTAGGGCAAAACCATAATGTCTACTAAAAACGTATTAA
1 GTGAAACCTAAGT-CAAAAGAAGTTGACCAAGGCAAAACCATCATGTC-ACTAAAAACGTACTAA
2795706 G
64 G
* * *
2795707 GTGAAACCTAAGTCTAAAAGAAGTTGACCAAGGCAAAACTATCATGTCAACTTAAAAGGTGACTA
1 GTGAAACCTAAGTC-AAAAGAAGTTGACCAAGGCAAAACCATCATGTC-ACTAAAAACGT-ACTA
2795772 AG
63 AG
* * * * * * * *
2795774 GTGAAACATAAGTCGAAAGGAGCTTGACCAA-GCGAAACCATCACGTCAATAAAGGATG-ACTAA
1 GTGAAACCTAAGTCAAAAGAAG-TTGACCAAGGCAAAACCATCATGTCACTAAA-AACGTACTAA
*
2795837 A
64 G
* ** * *
2795838 GTGAAACCTAAGTCAAAAAGAGGTTGACCAAGGTGAAACCATAATGTCAAC-AAAAGATG-ACT-
1 GTGAAACCTAAGTC-AAAAGAAGTTGACCAAGGCAAAACCATCATGTC-ACTAAAA-ACGTACTA
2795900 A-
63 AG
* * * * * *
2795901 GTAAAAAACCTAAGTCGAAAAGAAGTTGACTAGGGCAAAACCATCCTATCAAC-AAATAATG-AC
1 GT--GAAACCTAAGTC-AAAAGAAGTTGACCAAGGCAAAACCATCATGTC-ACTAAA-AACGTAC
*
2795964 TAGG
61 TAAG
2795968 GTGAAACCTAAGT
1 GTGAAACCTAAGT
2795981 TGAGAAAAGG
Statistics
Matches: 219, Mismatches: 42, Indels: 27
0.76 0.15 0.09
Matches are distributed among these distances:
63 2 0.01
64 27 0.12
65 90 0.41
66 72 0.33
67 28 0.13
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (64 bp):
GTGAAACCTAAGTCAAAAGAAGTTGACCAAGGCAAAACCATCATGTCACTAAAAACGTACTAAG
Found at i:2795875 original size:32 final size:32
Alignment explanation
Indices: 2795704--2795887 Score: 108
Period size: 32 Copynumber: 5.6 Consensus size: 32
2795694 AAAACGTATT
* *
2795704 AAGGTGAAACCTAAGTCTAAAAGAAGTTGACC
1 AAGGTGAAACCTAAGTCAAAAAGAGGTTGACC
* * *
2795736 AAGG-CAAAACTATCATGTCAACTTAAA-AGG-TGACT
1 AAGGTGAAACCTA--A-GTCAA---AAAGAGGTTGACC
* * * *
2795771 AAGGTGAAACATAAGTCGAAAGGAGCTTGACC
1 AAGGTGAAACCTAAGTCAAAAAGAGGTTGACC
* * * * *
2795803 AA-GCGAAACCATCACGTCAATAA-AGGATGACT
1 AAGGTGAAACC-T-AAGTCAAAAAGAGGTTGACC
*
2795835 AAAGTGAAACCTAAGTCAAAAAGAGGTTGACC
1 AAGGTGAAACCTAAGTCAAAAAGAGGTTGACC
2795867 AAGGTGAAACCATAATGTCAA
1 AAGGTGAAACC-TAA-GTCAA
2795888 CAAAAGATGA
Statistics
Matches: 110, Mismatches: 27, Indels: 28
0.67 0.16 0.17
Matches are distributed among these distances:
30 2 0.02
31 22 0.20
32 37 0.34
33 21 0.19
34 10 0.09
35 8 0.07
36 7 0.06
37 3 0.03
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (32 bp):
AAGGTGAAACCTAAGTCAAAAAGAGGTTGACC
Found at i:2795910 original size:65 final size:65
Alignment explanation
Indices: 2795710--2797340 Score: 1005
Period size: 65 Copynumber: 25.1 Consensus size: 65
2795700 TATTAAGGTG
* * * * * * *
2795710 AAACCTAAGTCTAAAAGAAGTTGACCAAGGCAAAACTATCATGTCAACTTAAAAGGTGACTAAGG
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAAC--AAAAGATGACTAGGG
**
2795775 TG
64 CA
* * * * * * ** **
2795777 AAACATAAGTCGAAAGGAGCTTGACCAA-GCGAAACCATCACGTCAATAAAGGATGACTAAAGTG
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAAAGATGACTAGGGCA
* * * ***
2795841 AAACCTAAGTCAAAAAGAGGTTGACCAAGGTGAAACCATAATGTCAACAAAAGATGACTAGTAAA
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAAAGATGACTAGGGCA
* * * * * *
2795906 AAACCTAAGTCGAAAAGAAGTTGACTAGGGCAAAACCATC-CTATCAACAAATA-ATGACTAGGG
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCGAAACCATCAC-GTCAACAAA-AGATGACTAGGG
**
2795969 TG
64 CA
* * ** * * * *
2795971 AAACCTAAGTTGAGAAA-AGGTTGACCTGGGGTGAAA-TATCACGTCAACAAAGGATGACCAGGG
1 AAACCTAAG-TCAAAAAGAGGTTGACC-AAGGCGAAACCATCACGTCAACAAAAGATGACTAGGG
*
2796034 TA
64 CA
* ** ** * *
2796036 AAACCTATGTTGAAAAGAGGTTGACCAAGGTAAAACCATAACGTCAAC-AAAGAATAACTAGGGC
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAAAG-ATGACTAGGGC
*
2796100 G
65 A
* * * ** * * * * * *
2796101 AAGCTTAAGTTAAAAAGAAATTGACTAGGGCAAAACCATCACAT-AACGTAAAAGGTGACTAGGC
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAAC--AAAAGATGACTAGGG
*
2796165 CG
64 CA
* * ** * *
2796167 AAACCTAAGTCGAAAGGAGGTTGA-TTAGGAAGAAACCATCACGTCAACAAAAGATGACTAAGG-
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGG-CGAAACCATCACGTCAACAAAAGATGACTAGGGC
2796230 A
65 A
* * * * * * *
2796231 AATACCTAAGTCGAAAAGAGGTTGA-CTAGGTCAAAACCATAACGACAATAAAGGATGACTAGGG
1 AA-ACCTAAGTCAAAAAGAGGTTGACCAAGG-CGAAACCATCACGTCAACAAAAGATGACTAGGG
2796295 CA
64 CA
* * * * *
2796297 AAACCTAAGTCAAAAAAAAGTTGACCAAGGTGAAACCATCACGTCAACAAATA-ATGATTAGGGT
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAA-AGATGACTAGGGC
*
2796361 G
65 A
*** * * *
2796362 AAACCTAAGTCGAAAAA-AGGTTGACCAAGATAAAACCATCACATCAACAAAGGATGACTAGGGT
1 AAACCTAAGTC-AAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAAAGATGACTAGGGC
2796426 A
65 A
* * * * * * * * * * *
2796427 AAACCTAAGTTGAAAAA-AGGTTAACGAGGGCAAAACCATGACATTAACAAAGGATAACTAAGGC
1 AAACCTAAG-TCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAAAGATGACTAGGGC
2796491 A
65 A
* ** * * *
2796492 AAACCTAAGTCAAATAGAAATTGACCAAGGAGAAACCATCATGTTAACAAAAGATGACTA-GG-A
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAAAGATGACTAGGGCA
* * ** ** * * * *
2796555 GAAACCTAAGTCGAAAAGCGGTTGATTAAGGAAAAACTATCATGTCAACAAAGGATGACTAGGGT
1 -AAACCTAAGTCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAAAGATGACTAGGGC
2796620 A
65 A
* * * * * * * *
2796621 AAACATAAGTCAAAAAAAGGTTGACCAGGGCAAAACCATCACGTCGATAAAGGATAACTAGGGCA
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAAAGATGACTAGGGCA
** *** ** * * * *
2796686 AAAGTTAAG-CGAAAAAGAAACTGACCAAGGTAAAACCATCACATCAACTTAAAAGGTGATTAAG
1 AAACCTAAGTC-AAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAAC--AAAAGATGACTAGG
**
2796750 GTG
63 GCA
* * * *
2796753 AAACCTAAGTTGAAAAA-AGGTTTGACCAGGGCGAAACCATAACGTCAACAAAGGATGACTAGGG
1 AAACCTAAG-TCAAAAAGAGG-TTGACCAAGGCGAAACCATCACGTCAACAAAAGATGACTAGGG
*
2796817 CG
64 CA
* * * ** * * * * * *
2796819 AAACCTAAATCATAAAGAGATTGACTTAGGCGAAACCATAATGTCAATAAAGGATGACTAAGGCG
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAAAGATGACTAGGGCA
* * * * * * * *
2796884 ACACCTAAGTCAAAAAGAAGTTGATCAAGGTGAAACCATCGCCTCAACAAATA-ATGACCAAGGC
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAA-AGATGACTAGGGC
2796948 A
65 A
* * * * * * * *
2796949 AAATCTAAGTCGAAAAGAGGTTGACCAAGGCAAAACAATCACGTCAACAAATGATGACCAAGGTA
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAAAGATGACTAGGGCA
* * * * *
2797014 AAACCTAAATCGAAAAA-ATGTTGACCAAGGCGAAATCATCACGTCAACAAAATATGACTAGGGT
1 AAACCTAAGTC-AAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAAAGATGACTAGGGC
2797078 A
65 A
* * * * *
2797079 AAACCTAAGTC-AAAAGAAGTTGACCAGGGTGAAACCATCATGTCAAC-AAAGAATGACTAAGGC
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAAAG-ATGACTAGGGC
*
2797142 G
65 A
* ** * * *
2797143 AAACCTAAGTTGAAAAA-ACATTGACCAAGGTGAAACCATCACGTCAACAAAGGATGACTA-AGC
1 AAACCTAAG-TCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAAAGATGACTAGGGC
*
2797206 G
65 A
* * * ** * * **
2797207 AAACCAAAGTTTAAAAA-AGGTTGATC-AGGCCGAAGTCATCATGTTAACAAGGGATGACTAGGG
1 AAACCTAAG-TCAAAAAGAGGTTGACCAAGG-CGAAACCATCACGTCAACAAAAGATGACTAGGG
*
2797270 TA
64 CA
* * * * *
2797272 AAACCTAAGTCGAAAAGAGGTTAACCAGGGCAAAACC-T-AAGTCAA-AAAGAGATTGACTAGGG
1 AAACCTAAGTCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAA-AGA-TGACTAGGG
2797334 CA
64 CA
2797336 AAACC
1 AAACC
2797341 ATCACATCAA
Statistics
Matches: 1212, Mismatches: 305, Indels: 97
0.75 0.19 0.06
Matches are distributed among these distances:
62 2 0.00
63 18 0.01
64 226 0.19
65 778 0.64
66 113 0.09
67 48 0.04
68 27 0.02
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (65 bp):
AAACCTAAGTCAAAAAGAGGTTGACCAAGGCGAAACCATCACGTCAACAAAAGATGACTAGGGCA
Found at i:2796054 original size:195 final size:193
Alignment explanation
Indices: 2795710--2797308 Score: 1259
Period size: 195 Copynumber: 8.2 Consensus size: 193
2795700 TATTAAGGTG
* * * * ** *
2795710 AAACCTAAGTCTAAAAGAAGTTGACCAAGGCAAAACTATCATGTCAACTTAAAAGGTGACTAAGG
1 AAACCTAAGTCAAAAAGAAGTTGACCAGGGTAAAACCATCACATCAAC--AAAA-ATGACTAAGG
* * * * * * **
2795775 TGAAACATAAGTCGAAAGGAGCTTGACCAA-GCGAAACCATCACGTCAATAAAGGATGACTAAAG
63 CGAAACCTAAGTCGAAA-AAGGTTGACCAAGGTGAAACCATCACGTCAACAAAGGATGACTAGGG
* * ** * * **
2795839 TGAAACCTAAGTCAAAAAGAGGTTGACCAAGGTGAAACCATAATGTCAACAAAAGATGACTAGTA
127 TAAAACCTAAGTCGAAAAGAGGTTGACCAAGGCAAAACCATAACGTCAACAAAGGATGACTAGGG
*
2795904 AA
192 CA
* * * * *
2795906 AAACCTAAGTCGAAAAGAAGTTGACTAGGGCAAAACCATC-CTATCAACAAATAATGACTAGGGT
1 AAACCTAAGTCAAAAAGAAGTTGACCAGGGTAAAACCATCAC-ATCAACAAA-AATGACTAAGGC
* ** * *
2795970 GAAACCTAAGTTGAGAAAAGGTTGACCTGGGGTGAAA-TATCACGTCAACAAAGGATGACCAGGG
64 GAAACCTAAGTCGA-AAAAGGTTGACC-AAGGTGAAACCATCACGTCAACAAAGGATGACTAGGG
* * * * *
2796034 TAAAACCTATGTTGAAAAGAGGTTGACCAAGGTAAAACCATAACGTCAACAAAGAATAACTAGGG
127 TAAAACCTAAGTCGAAAAGAGGTTGACCAAGGCAAAACCATAACGTCAACAAAGGATGACTAGGG
*
2796099 CG
192 CA
* * * * * * *
2796101 AAGCTTAAGTTAAAAAGAAATTGACTAGGGCAAAACCATCACAT-AACGTAAAAGGTGACT-AGG
1 AAACCTAAGTCAAAAAGAAGTTGACCAGGGTAAAACCATCACATCAAC--AAAA-ATGACTAAGG
* ** * * *
2796164 CCGAAACCTAAGTCGAAAGGAGGTTGA-TTAGGAAGAAACCATCACGTCAACAAAAGATGACTAA
63 -CGAAACCTAAGTCGAAA-AAGGTTGACCAAGG-TGAAACCATCACGTCAACAAAGGATGACTAG
* * *
2796228 GG-AAATACCTAAGTCGAAAAGAGGTTGA-CTAGGTCAAAACCATAACGACAATAAAGGATGACT
125 GGTAAA-ACCTAAGTCGAAAAGAGGTTGACCAAGG-CAAAACCATAACGTCAACAAAGGATGACT
2796291 AGGGCA
188 AGGGCA
* * * * * * *
2796297 AAACCTAAGTCAAAAAAAAGTTGACCAAGGTGAAACCATCACGTCAACAAATAATGATTAGGGTG
1 AAACCTAAGTCAAAAAGAAGTTGACCAGGGTAAAACCATCACATCAACAAA-AATGACTAAGGCG
* * *
2796362 AAACCTAAGTCGAAAAAAGGTTGACCAAGATAAAACCATCACATCAACAAAGGATGACTAGGGTA
65 AAACCTAAGTCG-AAAAAGGTTGACCAAGGTGAAACCATCACGTCAACAAAGGATGACTAGGGTA
* * * * * * * * * *
2796427 AAACCTAAGTTGAAAAAAGGTTAACGAGGGCAAAACCATGACATTAACAAAGGATAACTAAGGCA
129 AAACCTAAGTCGAAAAGAGGTTGACCAAGGCAAAACCATAACGTCAACAAAGGATGACTAGGGCA
* * * ** * *
2796492 AAACCTAAGTCAAATAGAAATTGACCAAGG-AGAAACCATCATGTTAACAAAAGATGACT-AGGA
1 AAACCTAAGTCAAAAAGAAGTTGACCAGGGTA-AAACCATCACATCAACAAAA-ATGACTAAGGC
* ** ** * *
2796555 GAAACCTAAGTCGAAAAGCGGTTGATTAAGGAAAAACTATCATGTCAACAAAGGATGACTAGGGT
64 GAAACCTAAGTCGAAAA-AGGTTGACCAAGGTGAAACCATCACGTCAACAAAGGATGACTAGGGT
* * * * * * * *
2796620 AAAACATAAGTCAAAAAAAGGTTGACCAGGGCAAAACCATCACGTCGATAAAGGATAACTAGGGC
128 AAAACCTAAGTCGAAAAGAGGTTGACCAAGGCAAAACCATAACGTCAACAAAGGATGACTAGGGC
2796685 A
193 A
** ** * * *
2796686 AAAGTTAAG-CGAAAAAGAAACTGACCAAGGTAAAACCATCACATCAACTTAAAAGGTGATTAAG
1 AAACCTAAGTC-AAAAAGAAGTTGACCAGGGTAAAACCATCACATCAAC--AAAA-ATGACTAAG
* * * * *
2796750 GTGAAACCTAAGTTGAAAAAAGGTTTGACCAGGGCGAAACCATAACGTCAACAAAGGATGACTAG
62 GCGAAACCTAAGTCG-AAAAAGG-TTGACCAAGGTGAAACCATCACGTCAACAAAGGATGACTAG
** * * ** * * *
2796815 GGCGAAACCTAAATC-ATAAAGAGATTGACTTAGGCGAAACCATAATGTCAATAAAGGATGACTA
125 GGTAAAACCTAAGTCGA-AAAGAGGTTGACCAAGGCAAAACCATAACGTCAACAAAGGATGACTA
* *
2796879 AGGCG
189 GGGCA
* * * * * * * *
2796884 ACACCTAAGTCAAAAAGAAGTTGATCAAGGTGAAACCATCGCCTCAACAAATAATGACCAAGGCA
1 AAACCTAAGTCAAAAAGAAGTTGACCAGGGTAAAACCATCACATCAACAAA-AATGACTAAGGCG
* ** * * * *
2796949 AAATCTAAGTCGAAAAGAGGTTGACCAAGGCAAAACAATCACGTCAACAAATGATGACCAAGGTA
65 AAACCTAAGTCGAAAA-AGGTTGACCAAGGTGAAACCATCACGTCAACAAAGGATGACTAGGGTA
* * * * * * ** *
2797014 AAACCTAAATCGAAAAAATGTTGACCAAGGCGAAATCATCACGTCAACAAAATATGACTAGGGTA
129 AAACCTAAGTCGAAAAGAGGTTGACCAAGGCAAAACCATAACGTCAACAAAGGATGACTAGGGCA
* **
2797079 AAACCTAAGTC-AAAAGAAGTTGACCAGGGTGAAACCATCATGTCAACAAAGAATGACTAAGGCG
1 AAACCTAAGTCAAAAAGAAGTTGACCAGGGTAAAACCATCACATCAACAAA-AATGACTAAGGCG
* ** *
2797143 AAACCTAAGTTGAAAAAACATTGACCAAGGTGAAACCATCACGTCAACAAAGGATGACTAAGCG-
65 AAACCTAAGTCG-AAAAAGGTTGACCAAGGTGAAACCATCACGTCAACAAAGGATGACT-AGGGT
* ** * * * ** * * * *
2797207 -AAACCAAAGTTTAAAAAAGGTTGATC-AGGCCGAAGTCATCATGTTAACAAGGGATGACTAGGG
128 AAAACCTAAGTCGAAAAGAGGTTGACCAAGG-CAAAACCATAACGTCAACAAAGGATGACTAGGG
*
2797270 TA
192 CA
* * * *
2797272 AAACCTAAGTCGAAAAGAGGTTAACCAGGGCAAAACC
1 AAACCTAAGTCAAAAAGAAGTTGACCAGGGTAAAACC
2797309 TAAGTCAAAA
Statistics
Matches: 1127, Mismatches: 235, Indels: 84
0.78 0.16 0.06
Matches are distributed among these distances:
192 3 0.00
193 65 0.06
194 295 0.26
195 389 0.35
196 227 0.20
197 22 0.02
198 125 0.11
199 1 0.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (193 bp):
AAACCTAAGTCAAAAAGAAGTTGACCAGGGTAAAACCATCACATCAACAAAAATGACTAAGGCGA
AACCTAAGTCGAAAAAGGTTGACCAAGGTGAAACCATCACGTCAACAAAGGATGACTAGGGTAAA
ACCTAAGTCGAAAAGAGGTTGACCAAGGCAAAACCATAACGTCAACAAAGGATGACTAGGGCA
Found at i:2796492 original size:33 final size:32
Alignment explanation
Indices: 2796393--2796496 Score: 95
Period size: 33 Copynumber: 3.2 Consensus size: 32
2796383 TGACCAAGAT
* * *
2796393 AAAACCATCACATCAACAAAGGATGACTAGGGT
1 AAAACCAT-ACATTAACAAAGGATAACTAGGGC
* * *
2796426 AAAACC-TA-AGTTGAAAAAAGGTTAACGAGGGC
1 AAAACCATACA-TT-AACAAAGGATAACTAGGGC
*
2796458 AAAACCATGACATTAACAAAGGATAACTAAGGC
1 AAAACCAT-ACATTAACAAAGGATAACTAGGGC
2796491 AAAACC
1 AAAACC
2796497 TAAGTCAAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
30 1 0.02
31 2 0.04
32 21 0.38
33 28 0.50
34 3 0.05
35 1 0.02
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.14
Consensus pattern (32 bp):
AAAACCATACATTAACAAAGGATAACTAGGGC
Found at i:2796851 original size:32 final size:31
Alignment explanation
Indices: 2796782--2796901 Score: 109
Period size: 33 Copynumber: 3.7 Consensus size: 31
2796772 GTTTGACCAG
* *
2796782 GGCGAAACCATAACGTCAACAAAG-GATGACTAG
1 GGCGAAACC-TAA-GTC-ATAAAGAGATGACTAA
* *
2796815 GGCGAAACCTAAATCATAAAGAGATTGACTTA
1 GGCGAAACCTAAGTCATAAAGAGA-TGACTAA
2796847 GGCGAAACCATAATGTCAATAAAG-GATGACTAA
1 GGCGAAACC-TAA-GTC-ATAAAGAGATGACTAA
* *
2796880 GGCGACACCTAAGTCAAAAAGA
1 GGCGAAACCTAAGTCATAAAGA
2796902 AGTTGATCAA
Statistics
Matches: 73, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
30 10 0.14
31 7 0.10
32 20 0.27
33 26 0.36
34 4 0.05
35 6 0.08
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (31 bp):
GGCGAAACCTAAGTCATAAAGAGATGACTAA
Found at i:2796959 original size:587 final size:585
Alignment explanation
Indices: 2795710--2797202 Score: 1493
Period size: 587 Copynumber: 2.5 Consensus size: 585
2795700 TATTAAGGTG
* * ** * ** * *
2795710 AAACCTAAGTCTAAAAGAAGTTGACCAAGGCAAAACTATCATGTCAACTTAAA-AGGTGACTAAG
1 AAACCTAAGTCAAAAAAAAGTTGACCAAGGTGAAACCATCACCTCAAC--AAATA-ATGACCAAG
** * ** * * * * * * *
2795774 GTGAAACATAAGTCGAAAGGAGCTTGACCAAG-CGAAACCATCACGTCAATAAAGGATGACTAAA
63 GCAAAACCTAAGTCGAAAAAAGGTTGACCAAGACAAAACAATCACATCAACAAAGGATGACCAAG
* * * ** * ** *
2795838 GTGAAACCTAAGTC-AAAAAGAGGTTGACCAAGGTGAAACCATAATGTCAACAAAAGATGACT-A
128 GTAAAACCTAAATCGAAAAA-AGGTTAACCAAGGCAAAACCATCACATCAACAAAAGATAACTAA
** * * * * * *
2795901 GTAAAAAACCTAAGTCGAAAAGAAGTTGACTAGGGCA-AAACCATCCTATCAACAAATAATGACT
192 G-GCAAAACCTAAGTC-AAAAGAAATTGACCAAGG-AGAAACCATCATGTCAACAAAGAATGACT
* * * * ** ** **
2795965 AGGGTGAAACCTAAGTTGAGAAAAGGTTGACCTGGGGTGAAA-TATCACGTCAACAAAGGATGAC
254 AAGGAGAAACCTAAGTCGAAAAAACATTGACC-AAGGAAAAACTATCACGTCAACAAAGGATGAC
* * * ** * *
2796029 CAGGGTAAAACCTATGTTGAAAAGAGGTTGACCAAGGTAAAACCATAACGTCAACAAAGAATAAC
318 TAGGGTAAAACATAAGTCAAAAAAAGGTTGACCAAGGCAAAACCATAACGTCAACAAAGAATAAC
* ** * * *
2796094 TAGGGCGAAGCTTAAGTTAAAAAGAAATTGACTAGGGCAAAACCATCACATAACGTAAAAGGTGA
383 TAGGGCAAAGCTTAAGCGAAAAAGAAACTGACCAAGGCAAAACCATCACATAACGTAAAAGGTGA
** ** *
2796159 CTAGGCCGAAACCTAAGTCGAAAGGAGGTTGATTAGGAAGAAACCATCACGTCAACAAAAGATGA
448 CTAGGCCGAAACCTAAGTCGAAAAAAGGTTGACCAGGAAGAAACCATAACGTCAACAAAAGATGA
* *
2796224 CTAAGGAAATACCTAAGTCGAAAAGAGGTTGACTAGGTCAAAACCATAACGACAATAAAGGATGA
513 CTAAGGAAATACCTAAATCGAAAAGAGATTGACTAGGTCAAAACCATAACGACAATAAAGGATGA
*
2796289 CTAGGGCA
578 CTAAGGCA
* ** * **
2796297 AAACCTAAGTCAAAAAAAAGTTGACCAAGGTGAAACCATCACGTCAACAAATAATGATTAGGGTG
1 AAACCTAAGTCAAAAAAAAGTTGACCAAGGTGAAACCATCACCTCAACAAATAATGACCAAGGCA
* * * *
2796362 AAACCTAAGTCGAAAAAAGGTTGACCAAGATAAAACCATCACATCAACAAAGGATGACTAGGGTA
66 AAACCTAAGTCGAAAAAAGGTTGACCAAGACAAAACAATCACATCAACAAAGGATGACCAAGGTA
* * * * * * *
2796427 AAACCTAAGTTGAAAAAAGGTTAACGAGGGCAAAACCATGACATTAACAAAGGATAACTAAGGCA
131 AAACCTAAATCGAAAAAAGGTTAACCAAGGCAAAACCATCACATCAACAAAAGATAACTAAGGCA
*
2796492 AAACCTAAGTCAAATAGAAATTGACCAAGGAGAAACCATCATGTTAACAAA-AGATGACT-AGGA
196 AAACCTAAGTCAAA-AGAAATTGACCAAGGAGAAACCATCATGTCAACAAAGA-ATGACTAAGGA
* * ** *
2796555 GAAACCTAAGTCG-AAAAGCGGTTGATTAAGGAAAAACTATCATGTCAACAAAGGATGACTAGGG
259 GAAACCTAAGTCGAAAAAAC-ATTGACCAAGGAAAAACTATCACGTCAACAAAGGATGACTAGGG
* * * * *
2796619 TAAAACATAAGTCAAAAAAAGGTTGACCAGGGCAAAACCATCACGTCGATAAAGGATAACTAGGG
323 TAAAACATAAGTCAAAAAAAGGTTGACCAAGGCAAAACCATAACGTCAACAAAGAATAACTAGGG
* * *
2796684 CAAAAG-TTAAGCGAAAAAGAAACTGACCAAGGTAAAACCATCACATCAACTTAAAAGGTGATTA
388 C-AAAGCTTAAGCGAAAAAGAAACTGACCAAGGCAAAACCATCACAT-AACGTAAAAGGTGACT-
* * ** *
2796748 AGG-TGAAACCTAAGTTGAAAAAAGGTTTGACCAGGGCGAAACCATAACGTCAACAAAGGATGAC
450 AGGCCGAAACCTAAGTCGAAAAAAGG-TTGACCAGGAAGAAACCATAACGTCAACAAAAGATGAC
* * * * *
2796812 TAGGGCGAA-ACCTAAATC-ATAAAGAGATTGACTTAGG-CGAAACCATAATGTCAATAAAGGAT
514 TAAGG-AAATACCTAAATCGA-AAAGAGATTGAC-TAGGTCAAAACCATAACGACAATAAAGGAT
*
2796874 GACTAAGGCG
576 GACTAAGGCA
* * * *
2796884 ACACCTAAGTCAAAAAGAAGTTGATCAAGGTGAAACCATCGCCTCAACAAATAATGACCAAGGCA
1 AAACCTAAGTCAAAAAAAAGTTGACCAAGGTGAAACCATCACCTCAACAAATAATGACCAAGGCA
* * * * *
2796949 AAATCTAAGTCGAAAAGAGGTTGACCAAGGCAAAACAATCACGTCAACAAATGATGACCAAGGTA
66 AAACCTAAGTCGAAAAAAGGTTGACCAAGACAAAACAATCACATCAACAAAGGATGACCAAGGTA
* * * * * * * * *
2797014 AAACCTAAATCGAAAAAATGTTGACCAAGGCGAAATCATCACGTCAACAAAATATGACTAGGGTA
131 AAACCTAAATCGAAAAAAGGTTAACCAAGGCAAAACCATCACATCAACAAAAGATAACTAAGGCA
* * * *
2797079 AAACCTAAGTCAAAAGAAGTTGACCAGGGTGAAACCATCATGTCAACAAAGAATGACTAAGGCGA
196 AAACCTAAGTCAAAAGAAATTGACCAAGGAGAAACCATCATGTCAACAAAGAATGACTAAGGAGA
* ** *
2797144 AACCTAAGTTGAAAAAACATTGACCAAGGTGAAACCATCACGTCAACAAAGGATGACTA
261 AACCTAAGTCGAAAAAACATTGACCAAGGAAAAACTATCACGTCAACAAAGGATGACTA
2797203 AGCGAAACCA
Statistics
Matches: 745, Mismatches: 142, Indels: 38
0.81 0.15 0.04
Matches are distributed among these distances:
584 8 0.01
585 175 0.23
586 190 0.26
587 361 0.48
588 11 0.01
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (585 bp):
AAACCTAAGTCAAAAAAAAGTTGACCAAGGTGAAACCATCACCTCAACAAATAATGACCAAGGCA
AAACCTAAGTCGAAAAAAGGTTGACCAAGACAAAACAATCACATCAACAAAGGATGACCAAGGTA
AAACCTAAATCGAAAAAAGGTTAACCAAGGCAAAACCATCACATCAACAAAAGATAACTAAGGCA
AAACCTAAGTCAAAAGAAATTGACCAAGGAGAAACCATCATGTCAACAAAGAATGACTAAGGAGA
AACCTAAGTCGAAAAAACATTGACCAAGGAAAAACTATCACGTCAACAAAGGATGACTAGGGTAA
AACATAAGTCAAAAAAAGGTTGACCAAGGCAAAACCATAACGTCAACAAAGAATAACTAGGGCAA
AGCTTAAGCGAAAAAGAAACTGACCAAGGCAAAACCATCACATAACGTAAAAGGTGACTAGGCCG
AAACCTAAGTCGAAAAAAGGTTGACCAGGAAGAAACCATAACGTCAACAAAAGATGACTAAGGAA
ATACCTAAATCGAAAAGAGATTGACTAGGTCAAAACCATAACGACAATAAAGGATGACTAAGGCA
Found at i:2797091 original size:31 final size:31
Alignment explanation
Indices: 2797056--2797152 Score: 83
Period size: 31 Copynumber: 3.1 Consensus size: 31
2797046 AAATCATCAC
*
2797056 GTCAACAAAATATGACTAGGGTAAAACCTAA
1 GTCAACAAAATATGACTAGGGTGAAACCTAA
* *
2797087 GTCAA-AAGAAGT-TGACCAGGGTGAAACCATCAT
1 GTCAACAA-AA-TATGACTAGGGTGAAACC-T-AA
* *
2797120 GTCAACAAAGA-ATGACTAAGGCGAAACCTAA
1 GTCAACAAA-ATATGACTAGGGTGAAACCTAA
2797151 GT
1 GT
2797153 TGAAAAAACA
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
30 2 0.04
31 24 0.46
32 3 0.06
33 20 0.38
34 3 0.06
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.18
Consensus pattern (31 bp):
GTCAACAAAATATGACTAGGGTGAAACCTAA
Found at i:2797210 original size:32 final size:33
Alignment explanation
Indices: 2796782--2797212 Score: 138
Period size: 32 Copynumber: 13.3 Consensus size: 33
2796772 GTTTGACCAG
* *
2796782 GGCGAAACCAT-AACGTCAACAAAGGATGACTAG
1 GGCGAAACCATCAA-GTCAACAAAGAATGACTAA
* * *
2796815 GGCGAAACC-T-AAATCATA-AAGAGATTGACTTA
1 GGCGAAACCATCAAGTCA-ACAA-AGAATGACTAA
* *
2796847 GGCGAAACCAT-AATGTCAATAAAGGATGACTAA
1 GGCGAAACCATCAA-GTCAACAAAGAATGACTAA
*
2796880 GGCGACACC-T-AAGTCAA-AAAGAAGTTGA-TCAA
1 GGCGAAACCATCAAGTCAACAAAGAA--TGACT-AA
* *** * *
2796912 GGTGAAACCATCGCCTCAACAAATAATGACCAA
1 GGCGAAACCATCAAGTCAACAAAGAATGACTAA
** *
2796945 GGC-AAA--ATCTAAGTCGAA-AAGAGGTTGACCAA
1 GGCGAAACCATC-AAGTC-AACAA-AGAATGACTAA
* * * *
2796977 GGCAAAACAATCACGTCAACAAATG-ATGACCAA
1 GGCGAAACCATCAAGTCAACAAA-GAATGACTAA
** * * * *
2797010 GGTAAAACC-T-AAATCGAAAAAATG-TTGACCAA
1 GGCGAAACCATCAAGTC-AACAAA-GAATGACTAA
* * *
2797042 GGCGAAATCATCACGTCAACAAA-ATATGACTAG
1 GGCGAAACCATCAAGTCAACAAAGA-ATGACTAA
** * *
2797075 GGTAAAACC-T-AAGTC-A-AAAGAAGTTGACCAG
1 GGCGAAACCATCAAGTCAACAAAGAA--TGACTAA
* *
2797106 GGTGAAACCATCATGTCAACAAAGAATGACTAA
1 GGCGAAACCATCAAGTCAACAAAGAATGACTAA
* * * * *
2797139 GGCGAAACC-T-AAGTTGAAAAAACATTGACCAA
1 GGCGAAACCATCAAG-TCAACAAAGAATGACTAA
* * *
2797171 GGTGAAACCATCACGTCAACAAAGGATGACTAA
1 GGCGAAACCATCAAGTCAACAAAGAATGACTAA
2797204 -GCGAAACCA
1 GGCGAAACCA
2797213 AAGTTTAAAA
Statistics
Matches: 296, Mismatches: 67, Indels: 71
0.68 0.15 0.16
Matches are distributed among these distances:
29 4 0.01
30 10 0.03
31 38 0.13
32 104 0.35
33 104 0.35
34 22 0.07
35 14 0.05
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (33 bp):
GGCGAAACCATCAAGTCAACAAAGAATGACTAA
Found at i:2797312 original size:32 final size:32
Alignment explanation
Indices: 2797266--2797340 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 32
2797256 AGGGATGACT
* * *
2797266 AGGGTAAAACCTAAGTCGAAAAGAGGTTAACC
1 AGGGCAAAACCTAAGTCAAAAAGAGATTAACC
* *
2797298 AGGGCAAAACCTAAGTCAAAAAGAGATTGACT
1 AGGGCAAAACCTAAGTCAAAAAGAGATTAACC
2797330 AGGGCAAAACC
1 AGGGCAAAACC
2797341 ATCACATCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.13
Consensus pattern (32 bp):
AGGGCAAAACCTAAGTCAAAAAGAGATTAACC
Found at i:2797359 original size:97 final size:97
Alignment explanation
Indices: 2797252--2797437 Score: 245
Period size: 97 Copynumber: 1.9 Consensus size: 97
2797242 TCATCATGTT
* * *
2797252 AACAAGGGATGACTAGGGTAAAACCTAAGTCGA-AAAGAGGTTAACCA-GGGCAAAACCTAA-GT
1 AACAAAGGATGACTAGGGCAAAACCTAAGTCGATAAA-AGGTTAA-CATGGGAAAAACCTAATGT
2797314 CAA-AAAGAGATTGACTAGGGCAAAACCATCACATC
64 CAATAAAG-GA-TGACTAGGGCAAAACCATCACATC
* * *
2797349 AACAAAGGATGACTTGGGCAAAACCTAAGTTGATAAAAGGTTGACATGGGAAAAACCTAATGTCA
1 AACAAAGGATGACTAGGGCAAAACCTAAGTCGATAAAAGGTTAACATGGGAAAAACCTAATGTCA
*
2797414 ATAAAGGATGACTAGGGTAAAACC
66 ATAAAGGATGACTAGGGCAAAACC
2797438 TAAGTTAGAA
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
96 2 0.03
97 62 0.79
98 10 0.13
99 4 0.05
ACGTcount: A:0.44, C:0.16, G:0.23, T:0.17
Consensus pattern (97 bp):
AACAAAGGATGACTAGGGCAAAACCTAAGTCGATAAAAGGTTAACATGGGAAAAACCTAATGTCA
ATAAAGGATGACTAGGGCAAAACCATCACATC
Found at i:2797378 original size:65 final size:63
Alignment explanation
Indices: 2797298--2797442 Score: 159
Period size: 64 Copynumber: 2.3 Consensus size: 63
2797288 GAGGTTAACC
* *
2797298 AGGGCAAAACCTAAGTCA-AAAAGAGATTGAC-TAGGGCAAAACCATCACATCAACAAAGGATGA
1 AGGGCAAAACCTAAGTCATAAAAG-G-TTGACAT-GGGAAAAACC-TAACATCAACAAAGGATGA
2797361 CT
62 CT
* * ** *
2797363 TGGGCAAAACCTAAGTTGATAAAAGGTTGACATGGGAAAAACCTAATGTCAATAAAGGATGACT
1 AGGGCAAAACCTAAG-TCATAAAAGGTTGACATGGGAAAAACCTAACATCAACAAAGGATGACT
*
2797427 AGGGTAAAACCTAAGT
1 AGGGCAAAACCTAAGT
2797443 TAGAAAGAAG
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
63 1 0.01
64 30 0.44
65 28 0.41
66 4 0.06
67 5 0.07
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (63 bp):
AGGGCAAAACCTAAGTCATAAAAGGTTGACATGGGAAAAACCTAACATCAACAAAGGATGACT
Found at i:2797404 original size:32 final size:30
Alignment explanation
Indices: 2797352--2797444 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 30
2797342 TCACATCAAC
* *
2797352 AAAGGATGACTTGGGCAAAACCTAAGTTGAT
1 AAAGGATGAC-TGGGAAAAACCTAAGTTAAT
* *
2797383 AAAAGGTTGACATGGGAAAAACCTAATGTCAAT
1 -AAAGGATGAC-TGGGAAAAACCTAA-GTTAAT
*
2797416 AAAGGATGACTAGGGTAAAACCTAAGTTA
1 AAAGGATGACT-GGGAAAAACCTAAGTTA
2797445 GAAAGAAGTG
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
31 4 0.08
32 43 0.84
33 4 0.08
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.22
Consensus pattern (30 bp):
AAAGGATGACTGGGAAAAACCTAAGTTAAT
Found at i:2798099 original size:76 final size:75
Alignment explanation
Indices: 2798019--2798388 Score: 269
Period size: 76 Copynumber: 4.9 Consensus size: 75
2798009 GCTAAGGGAA
* ** * *
2798019 AAGAACATGATAAGGAATATGCAATTTCTAAAATTTTCATCAACAACCGAAACAAACTGATAATG
1 AAGAACATGATAGGGAATATGTGATTTCTAAAATTTTCATCAATAACCGAAACAAACTAATAAT-
*
2798084 ACCAGAAGAAG
65 AGCAGAAGAAG
* * * * * * * * * *
2798095 AAGAACATAATGGGGAACATGTTATTTCTAAAATTTTTATCAATAGCTGAAACAAATTGATAACA
1 AAGAACATGATAGGGAATATGTGATTTCTAAAATTTTCATCAATAACCGAAACAAACTAATAATA
**
2798160 ATATGAAGAAG
66 GCA-GAAGAAG
* * * * * * ** *
2798171 AAAAACATGATGGGGAACATGTTGATTT-TATAATTTTTGACCAATAATTGAAACAAACTAAAAA
1 AAGAACATGATAGGGAATATG-TGATTTCTA-AAATTTTCATCAATAACCGAAACAAACTAATAA
* *
2798235 TAAGCTGAAAAAG
64 T-AGCAGAAGAAG
* * * * **
2798248 AAGAACATGATAGGGAATATATTG-TTTCTAAAATTTTTATTAACAGTCGAAACAAACTAATAAT
1 AAGAACATGATAGGGAATAT-GTGATTTCTAAAATTTTCATCAATAACCGAAACAAACTAATAAT
**
2798312 AGGTTGAAGGAA-
65 A-GCAGAA-GAAG
* * * * *
2798324 AGGAACATGATAAGGAATATGTGATTTCTAAAATTTCCATCAATATCCGAAACAAACTAAAAATA
1 AAGAACATGATAGGGAATATGTGATTTCTAAAATTTTCATCAATAACCGAAACAAACTAATAATA
2798389 AGCTAGAGGA
Statistics
Matches: 231, Mismatches: 54, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
75 5 0.02
76 166 0.72
77 59 0.26
78 1 0.00
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.27
Consensus pattern (75 bp):
AAGAACATGATAGGGAATATGTGATTTCTAAAATTTTCATCAATAACCGAAACAAACTAATAATA
GCAGAAGAAG
Found at i:2798255 original size:77 final size:76
Alignment explanation
Indices: 2798092--2798286 Score: 212
Period size: 77 Copynumber: 2.6 Consensus size: 76
2798082 TGACCAGAAG
* * * * * *
2798092 AAGAAGAACATAATGGGGAACATGTTATTTCTAAAATTTTTATCAATAGCTGAAACAAATTGATA
1 AAGAAGAACATGATGGGGAACATGTTATTTCTAAAATTTTTACCAATAACTGAAACAAACTAAAA
* *
2798157 ACAATATGAAG
66 ACAAGATGAAA
* * *
2798168 AAGAAAAACATGATGGGGAACATGTTGATTT-TATAATTTTTGACCAATAATTGAAACAAACTAA
1 AAGAAGAACATGATGGGGAACATGTT-ATTTCTAAAATTTTT-ACCAATAACTGAAACAAACTAA
* *
2798232 AAATAAGCTGAAA
64 AAACAAGATGAAA
* * * *
2798245 AAGAAGAACATGATAGGGAATATATTGTTTCTAAAATTTTTA
1 AAGAAGAACATGATGGGGAACATGTTATTTCTAAAATTTTTA
2798287 TTAACAGTCG
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
76 37 0.38
77 60 0.62
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (76 bp):
AAGAAGAACATGATGGGGAACATGTTATTTCTAAAATTTTTACCAATAACTGAAACAAACTAAAA
ACAAGATGAAA
Found at i:2798359 original size:153 final size:151
Alignment explanation
Indices: 2797973--2798392 Score: 404
Period size: 153 Copynumber: 2.8 Consensus size: 151
2797963 TGTGTTTTTG
* * *
2797973 AAATTTTTATCAAC-GATCAAAACAAACTGATGATAGGCT-AAGGGAAAAGAACATGATAAGGAA
1 AAATTTTTATCAACAG-TCGAAACAAACTGATAATAGGTTGAA-GG-AAAGAACATGATAAGGAA
** * * * * * * * *
2798036 TATGCAATTTCTAAAATTTTCATCAACAACCGAAACAAACTGATAATGACCAGAAGAAGAAGAAC
63 TATGTGATTTCTAAAATTTTCATCAATAATCGAAACAAACTAAAAATAAGCTGAAAAAGAAGAAC
* *
2798101 ATAATGGGGAACATGTTATTTCTA
128 ATAATAGGGAACATATTATTTCTA
* * * * **
2798125 AAATTTTTATCAATAG-CTGAAACAAATTGATAACA-ATATGAAGAAGAAA-AACATGATGGGGA
1 AAATTTTTATCAACAGTC-GAAACAAACTGATAATAGGT-TGAAG--GAAAGAACATGATAAGGA
* * * * *
2798187 ACATGTTGATTT-TATAATTTTTGACCAATAATTGAAACAAACTAAAAATAAGCTGAAAAAGAAG
62 ATATG-TGATTTCTA-AAATTTTCATCAATAATCGAAACAAACTAAAAATAAGCTGAAAAAGAAG
* * *
2798251 AACATGATAGGGAATATATTGTTTCTA
125 AACATAATAGGGAACATATTATTTCTA
* *
2798278 AAATTTTTATTAACAGTCGAAACAAACTAATAATAGGTTGAAGGAAAGGAACATGATAAGGAATA
1 AAATTTTTATCAACAGTCGAAACAAACTGATAATAGGTTGAAGGAAA-GAACATGATAAGGAATA
*
2798343 TGTGATTTCTAAAATTTCCATCAAT-ATCCGAAACAAACTAAAAATAAGCT
65 TGTGATTTCTAAAATTTTCATCAATAAT-CGAAACAAACTAAAAATAAGCT
2798393 AGAGGATAGC
Statistics
Matches: 211, Mismatches: 43, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
151 7 0.03
152 82 0.39
153 119 0.56
154 3 0.01
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.26
Consensus pattern (151 bp):
AAATTTTTATCAACAGTCGAAACAAACTGATAATAGGTTGAAGGAAAGAACATGATAAGGAATAT
GTGATTTCTAAAATTTTCATCAATAATCGAAACAAACTAAAAATAAGCTGAAAAAGAAGAACATA
ATAGGGAACATATTATTTCTA
Found at i:2799939 original size:109 final size:112
Alignment explanation
Indices: 2799726--2799987 Score: 336
Period size: 109 Copynumber: 2.4 Consensus size: 112
2799716 GATCTGATCA
* * *
2799726 TATAAAATATGAAATTTTTTGAAAATCA-AATAAATTTGATGCCATTGTCTCAAAAGTTTCAAAA
1 TATAAAATATGAATTTTTTTGAAAATCAGAA-AAATTTGATGTCATTATCTCAAAAGTTTCAAAA
* * * *
2799790 GTGATAGGATATATGCCCCATTTTCCTAGGCACGAATGGATTAAGTTG
65 GTGATAGAAAATAAGCCCCATTTTCCTAGGCACGAATGGATCAAGTTG
* * *
2799838 TATAAAATATG-ATTTTTTTGAAAATTAGAAAAATTTGATGTCATTATTTCAAAA-TTTCAAAAT
1 TATAAAATATGAATTTTTTTGAAAATCAGAAAAATTTGATGTCATTATCTCAAAAGTTTCAAAAG
* * * *
2799901 TGATA-AAAATAAGCCCCATTTTCCTAGGCATGATTGGATCAGGTTT
66 TGATAGAAAATAAGCCCCATTTTCCTAGGCACGAATGGATCAAGTTG
* *
2799947 TATAAAA-ATGAATTTCTTTGAAAATCAGACAAATTTGATGT
1 TATAAAATATGAATTTTTTTGAAAATCAGAAAAATTTGATGT
2799988 TCTTTCAAGT
Statistics
Matches: 131, Mismatches: 17, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
108 3 0.02
109 67 0.51
110 13 0.10
111 35 0.27
112 13 0.10
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (112 bp):
TATAAAATATGAATTTTTTTGAAAATCAGAAAAATTTGATGTCATTATCTCAAAAGTTTCAAAAG
TGATAGAAAATAAGCCCCATTTTCCTAGGCACGAATGGATCAAGTTG
Found at i:2800681 original size:19 final size:19
Alignment explanation
Indices: 2800649--2800710 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
2800639 TGCTTTCTAT
2800649 TGATACATTGTATCGATACA
1 TGATA-ATTGTATCGATACA
* *
2800669 TGTTCAA-TGTATCGATGCA
1 TGAT-AATTGTATCGATACA
2800688 TGGATAATTGTATCGATACA
1 T-GATAATTGTATCGATACA
2800708 TGA
1 TGA
2800711 AACTGGCAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
19 16 0.46
20 18 0.51
21 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (19 bp):
TGATAATTGTATCGATACA
Found at i:2800763 original size:20 final size:19
Alignment explanation
Indices: 2800738--2800791 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
2800728 CTACCACTGT
2800738 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
2800758 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGA-GAA
2800778 TTGTATCGATACAT
1 TTGTATCGATACAT
2800792 TGCTTCAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:2802380 original size:3 final size:3
Alignment explanation
Indices: 2802366--2802401 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
2802356 CATCAAAGAC
* *
2802366 GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GGT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
2802402 TTGGATAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:2808009 original size:27 final size:27
Alignment explanation
Indices: 2807979--2808033 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
2807969 ATAAAGCCAC
*
2807979 TTGCCTTCCACCTCATGATCGTTACCT
1 TTGCCTTCCACCTCATGATCATTACCT
2808006 TTGCCTTCCACCTCATGATCATTACCT
1 TTGCCTTCCACCTCATGATCATTACCT
2808033 T
1 T
2808034 CACCTCCTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.16, C:0.36, G:0.09, T:0.38
Consensus pattern (27 bp):
TTGCCTTCCACCTCATGATCATTACCT
Found at i:2809580 original size:13 final size:13
Alignment explanation
Indices: 2809562--2809613 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
2809552 GATACATGGC
*
2809562 ACATTGTATTGAT
1 ACATTGTATCGAT
2809575 ACATTGTATCGAT
1 ACATTGTATCGAT
2809588 ACA-TG-AT-G--
1 ACATTGTATCGAT
2809596 A-ATTGTATCGAT
1 ACATTGTATCGAT
2809608 ACATTG
1 ACATTG
2809614 CTTCACATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 19 0.59
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:2809582 original size:33 final size:32
Alignment explanation
Indices: 2809545--2809613 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
2809535 CTACCACTGT
*
2809545 TTGTATCGATACATG-GCACATTGTATTGATACA
1 TTGTATCGATACATGAG-A-ATTGTATCGATACA
2809578 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGA-GAATTGTATCGATACA
2809611 TTG
1 TTG
2809614 CTTCACATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 31 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACATGAGAATTGTATCGATACA
Found at i:2813050 original size:2 final size:2
Alignment explanation
Indices: 2813039--2813069 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2813029 AAAGTTAGAA
2813039 AT AT -T 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
2813070 CTTCTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:2817002 original size:149 final size:146
Alignment explanation
Indices: 2816849--2817211 Score: 379
Period size: 149 Copynumber: 2.4 Consensus size: 146
2816839 GACCTCGTAG
** * *
2816849 TTTCACAAGACTAGGTTTCAAAAAAAATGCTAAAAGATCCCTAAGGTTTACCATCGACTTATAAG
1 TTTCA-AAGACTAGGTTTCAGGAAAAATGCTAAAAGATCCCTAAGGTCTACCATCGACTTAGAAG
* *
2816914 TA-CTCAGTGATCCTAAAGGACTTGAAAAAAATAAAAGCAAACCTACGCCTAATACGTAGCCTCA
65 TACCT-AGTAATCCTAAAGGACTTG-AAAAAATAAAAGCAAACCTACGCCTAATACGTACCCTCA
*
2816978 GCATAGAAATAACCTGATAA
128 GCAT-GAAATAACCCGATAA
** * * * * *
2816998 TTTCAAAGGACTAGGTTTTGGGAAAAAGGCTAAAAGGTCCTTAACGTCTACCATCAACTTAGAAG
1 TTTCAAA-GACTAGGTTTCAGGAAAAATGCTAAAAGATCCCTAAGGTCTACCATCGACTTAGAAG
* * * * * ** *
2817063 TGCCTAGTAATCCTAGAGGACTTGAAAAAGTAGATGTGAACCTACGCCTAATACGTACCCTCCGC
65 TACCTAGTAATCCTAAAGGACTTGAAAAAATAAAAGCAAACCTACGCCTAATACGTACCCTCAGC
* * *
2817128 ATGAAGTGACCCGATAG
130 ATGAAATAACCCGATAA
* * * *
2817145 TTTCATAGGGCTAGGTTTCGGAGGAAAAATGCT-AAAGTTCCCTAAGGTCTACCATTGACTTAGA
1 TTTCA-AAGACTAGGTTTC--AGGAAAAATGCTAAAAGATCCCTAAGGTCTACCATCGACTTAGA
2817209 AGT
63 AGT
2817212 GCTTGATGAT
Statistics
Matches: 174, Mismatches: 35, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
147 25 0.14
148 68 0.39
149 79 0.45
150 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (146 bp):
TTTCAAAGACTAGGTTTCAGGAAAAATGCTAAAAGATCCCTAAGGTCTACCATCGACTTAGAAGT
ACCTAGTAATCCTAAAGGACTTGAAAAAATAAAAGCAAACCTACGCCTAATACGTACCCTCAGCA
TGAAATAACCCGATAA
Found at i:2817206 original size:148 final size:148
Alignment explanation
Indices: 2816871--2817232 Score: 415
Period size: 148 Copynumber: 2.4 Consensus size: 148
2816861 AGGTTTCAAA
* * * *
2816871 AAAAATGCTAAAAGATCCCTAAGGTTTACCATCGACTTATAAGTACTCAGTGATCCTAAAGGACT
1 AAAAATGCTAAAAGATCCCTAAGGTCTACCATCGACTTAGAAGTGCT-AGTGATCCTAGAGGACT
* *
2816936 TGAAAAAAATAAAAGCAAACCTACGCCTAATACGTAGCCTCAGCATAGAAATAACCTGATAATTT
65 TGAAAAAAATAAAAGCAAACCTACGCCTAATACGTACCCTCAGCATAGAAATAACCCGATAATTT
*
2817001 CAAAGGACTAGGTTTTGGG
130 CAAAGGACTAGGTTTGGGG
* * * * * *
2817020 AAAAAGGCTAAAAGGTCCTTAACGTCTACCATCAACTTAGAAGTGCCTAGTAATCCTAGAGGACT
1 AAAAATGCTAAAAGATCCCTAAGGTCTACCATCGACTTAGAAGTG-CTAGTGATCCTAGAGGACT
* * * ** * * * *
2817085 TG-AAAAAGTAGATGTGAACCTACGCCTAATACGTACCCTCCGCAT-GAAGTGACCCGATAGTTT
65 TGAAAAAAATAAAAGCAAACCTACGCCTAATACGTACCCTCAGCATAGAAATAACCCGATAATTT
* *
2817148 CATAGGGCTAGGTTTCGGAGG
130 CAAAGGACTAGGTTT-GG-GG
* * *
2817169 AAAAATGCT-AAAGTTCCCTAAGGTCTACCATTGACTTAGAAGTGCTTGATGATCCTAGAGGACT
1 AAAAATGCTAAAAGATCCCTAAGGTCTACCATCGACTTAGAAGTGCTAG-TGATCCTAGAGGACT
2817233 CAATAAATGT
Statistics
Matches: 177, Mismatches: 32, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
147 30 0.17
148 81 0.46
149 64 0.36
150 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (148 bp):
AAAAATGCTAAAAGATCCCTAAGGTCTACCATCGACTTAGAAGTGCTAGTGATCCTAGAGGACTT
GAAAAAAATAAAAGCAAACCTACGCCTAATACGTACCCTCAGCATAGAAATAACCCGATAATTTC
AAAGGACTAGGTTTGGGG
Found at i:2818116 original size:20 final size:19
Alignment explanation
Indices: 2818091--2818140 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
2818081 CTATTTCATG
* *
2818091 TATCGATACAATTATGCATA
1 TATCGATACAATGA-ACATA
*
2818111 TATCGATACAATGAACATG
1 TATCGATACAATGAACATA
2818130 TATCGATACAA
1 TATCGATACAA
2818141 AGCATAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (19 bp):
TATCGATACAATGAACATA
Found at i:2819075 original size:33 final size:33
Alignment explanation
Indices: 2819011--2819077 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
2819001 AAGTGCACTA
*
2819011 AAGTGCTCATCCATGCACTGCGAGAGCGAAGTG
1 AAGTGCTCATCCATGCACTGCGAAAGCGAAGTG
* ** * *
2819044 AAGTGCTCATTCATGTGCTGTGAAAGTGAAGTG
1 AAGTGCTCATCCATGCACTGCGAAAGCGAAGTG
2819077 A
1 A
2819078 TCAACTCTCG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (33 bp):
AAGTGCTCATCCATGCACTGCGAAAGCGAAGTG
Found at i:2826868 original size:19 final size:19
Alignment explanation
Indices: 2826825--2826879 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
2826815 TGCCAGTTTT
**
2826825 ATGTATCGATACAATTGTGC
1 ATGTATCGATACAA-TGAAC
2826845 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGAAC
2826864 ATGTATCGATACAATG
1 ATGTATCGATACAATG
2826880 TATCGATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATGAAC
Found at i:2826882 original size:13 final size:13
Alignment explanation
Indices: 2826864--2826889 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2826854 TACAATGAAC
2826864 ATGTATCGATACA
1 ATGTATCGATACA
2826877 ATGTATCGATACA
1 ATGTATCGATACA
2826890 TCTGGATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2827761 original size:166 final size:165
Alignment explanation
Indices: 2827484--2827954 Score: 508
Period size: 166 Copynumber: 2.8 Consensus size: 165
2827474 CGAGAGGACT
* * * * *
2827484 TGAAAAGTTTTAAAAACA-TCTATATCCATATGGAAGGCCATAGGAATAATAGAAATCTAAAGAA
1 TGAAAAGTTTTAAAAA-ATTTTATA-CCCTTTGAAAGGCCATAGGAATAATAGAAATTTAAAGAA
* * * * *
2827548 AATGACTAAGTTGATGATTTTTCTTCTAAAATCTAAATTTTCTATTTAGTCCCTAAACTTTTGAA
64 AATGACTAAGATGATGATTTTTCTTTTAAAAACTAAACTTGCTATTTAGTCCCTAAACTTTTGAA
* *
2827613 AATTTCATTTCATACTCAATGAAAAACCAAAAAG-ATA
129 AATTTCATTTCATACCCAATGAAAAACC-AAAAGCACA
*
2827650 TGAAAAGTTTTAAAAAATTTTATACCCCTTTGAAAGACCATAGGAATAATAGAAATTTAAAGAAA
1 TGAAAAGTTTTAAAAAATTTTATA-CCCTTTGAAAGGCCATAGGAATAATAGAAATTTAAAGAAA
* * * *
2827715 ATGACTAAGATAGCT-ATTTTTCTTTTAAAACCTAAACTTGCTATTTAGTCCATTAACTTTTGAA
65 ATGACTAAGAT-GATGATTTTTCTTTTAAAAACTAAACTTGCTATTTAGTCCCTAAACTTTTGAA
* * * *
2827779 AATTTCATTTCATACCCGATGGAAAACCGAGAGCACA
129 AATTTCATTTCATACCCAATGAAAAACCAAAAGCACA
** * *
2827816 TGAAAAGTTTT-AAAAATTTCTATACCCTTACAAAAGGCCATAGGAATAATAAAAATCTT-TA-A
1 TGAAAAGTTTTAAAAAATTT-TATACCCTT-TGAAAGGCCATAGGAATAATAGAAAT-TTAAAGA
* ** * *
2827878 AAAT-ACCTAAAATGATGATTTCACCTTTAAAAACTAAAACTTGCTATTTAATCCCTAAACTTTT
63 AAATGA-CTAAGATGATGATTTTTCTTTTAAAAACT-AAACTTGCTATTTAGTCCCTAAACTTTT
*
2827942 -AAATATTTTATTT
126 GAAA-ATTTCATTT
2827955 TAGTCCCTAC
Statistics
Matches: 259, Mismatches: 36, Indels: 20
0.82 0.11 0.06
Matches are distributed among these distances:
164 3 0.01
165 45 0.17
166 207 0.80
167 4 0.02
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (165 bp):
TGAAAAGTTTTAAAAAATTTTATACCCTTTGAAAGGCCATAGGAATAATAGAAATTTAAAGAAAA
TGACTAAGATGATGATTTTTCTTTTAAAAACTAAACTTGCTATTTAGTCCCTAAACTTTTGAAAA
TTTCATTTCATACCCAATGAAAAACCAAAAGCACA
Found at i:2828952 original size:18 final size:18
Alignment explanation
Indices: 2828928--2828963 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2828918 TCCATCATCC
*
2828928 TTTTTTTATTTTATTTTTG
1 TTTTTTT-TTTCATTTTTG
2828947 TTTTTTTTTTCATTTTT
1 TTTTTTTTTTCATTTTT
2828964 TCATGGCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.86
Consensus pattern (18 bp):
TTTTTTTTTTCATTTTTG
Found at i:2838171 original size:17 final size:18
Alignment explanation
Indices: 2838149--2838189 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2838139 AAGGTATTGC
2838149 TTTAATTTT-CTAAAATT
1 TTTAATTTTACTAAAATT
*
2838166 TTTAATTTTATTAAAATT
1 TTTAATTTTACTAAAATT
*
2838184 ATTAAT
1 TTTAAT
2838190 GCATAAACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAATTTTACTAAAATT
Found at i:2839013 original size:57 final size:57
Alignment explanation
Indices: 2838944--2839058 Score: 196
Period size: 57 Copynumber: 2.0 Consensus size: 57
2838934 GGAAATGACC
2838944 ACTTTGACCTAAAATACTAGGTCTTT-CTAATGGTCCCTAAACTTTTCTAAATTTGCA
1 ACTTTGACCTAAAATACTAGGT-TTTCCTAATGGTCCCTAAACTTTTCTAAATTTGCA
**
2839001 ACTTTGACCTAAAATGTTAGGTTTTCCTAATGGTCCCTAAACTTTTCTAAATTTGCA
1 ACTTTGACCTAAAATACTAGGTTTTCCTAATGGTCCCTAAACTTTTCTAAATTTGCA
2839058 A
1 A
2839059 ATTAGTCCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
56 3 0.05
57 52 0.95
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (57 bp):
ACTTTGACCTAAAATACTAGGTTTTCCTAATGGTCCCTAAACTTTTCTAAATTTGCA
Found at i:2841551 original size:65 final size:65
Alignment explanation
Indices: 2841442--2841726 Score: 216
Period size: 65 Copynumber: 4.4 Consensus size: 65
2841432 ACTAGGGTGG
** * * *
2841442 AACCTAAGTTGAAAAGGCATTGGCCAGTACAAAACCATATGAACCAACTAAAGATGGCCAAGGCG
1 AACCTAAGTCAAAAAGG-GTTGGCTAGGACAAAACCATATGAACCAACTAAAGATGGCCAAGGCG
2841507 A
65 A
* * * * *** * **
2841508 AACCCAAGTCGAAAAGGGTTGGCTAGGACAAAACCATACGAACCAAATTTGGATGACCAAGATGA
1 AACCTAAGTCAAAAAGGGTTGGCTAGGACAAAACCATATGAACCAACTAAAGATGGCCAAGGCGA
* ** ** *
2841573 AACCTAAGTCAAAAAGGGTTGG-TCAAGATGAAACCATATGAACCAACTTTAGATGG-CTAGAGC
1 AACCTAAGTCAAAAAGGGTTGGCT-AGGACAAAACCATATGAACCAACTAAAGATGGCCAAG-GC
*
2841636 AA
64 GA
* * * ** ** *
2841638 AACCTGAGTCAAAAAAGGGTTGGTTGGGATGAAACCATATGAACCAACTAAAGATGG-CAACACA
1 AACCTAAGTC-AAAAAGGGTTGGCTAGGACAAAACCATATGAACCAACTAAAGATGGCCAAGGCG
2841702 A
65 A
* *
2841703 AACTTAAGTCGAAAAAAGGTTGGC
1 AACCTAAGTC-AAAAAGGGTTGGC
2841727 CAAGATGAAA
Statistics
Matches: 176, Mismatches: 39, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
64 4 0.02
65 114 0.65
66 57 0.32
67 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.17
Consensus pattern (65 bp):
AACCTAAGTCAAAAAGGGTTGGCTAGGACAAAACCATATGAACCAACTAAAGATGGCCAAGGCGA
Found at i:2841675 original size:66 final size:65
Alignment explanation
Indices: 2841473--2841750 Score: 222
Period size: 65 Copynumber: 4.3 Consensus size: 65
2841463 GGCCAGTACA
** * * * *
2841473 AAACCATATGAACCAACTAAAGATGGCCAAGGCGAAACCCAAGTC-GAAAAGGGTTGG-CTAGGA
1 AAACCATATGAACCAACTAAAGATGG-CAACACAAAACCTAAGTCAAAAAAGGGTTGGTC-AAGA
**
2841536 CA
64 TG
* * *** * * **
2841538 AAACCATACGAACCAAATTTGGATGACCAAGATGAAACCTAAGTC-AAAAAGGGTTGGTCAAGAT
1 AAACCATATGAACCAACTAAAGATG-GCAACACAAAACCTAAGTCAAAAAAGGGTTGGTCAAGAT
2841602 G
65 G
** * * * ***
2841603 AAACCATATGAACCAACTTTAGATGGCTAGAGCAAAACCTGAGTCAAAAAAGGGTTGGTTGGGAT
1 AAACCATATGAACCAACTAAAGATGGCAACA-CAAAACCTAAGTCAAAAAAGGGTTGGTCAAGAT
2841668 G
65 G
* *
2841669 AAACCATATGAACCAACTAAAGATGGCAACACAAAACTTAAGTCGAAAAAA-GGTTGGCCAAGAT
1 AAACCATATGAACCAACTAAAGATGGCAACACAAAACCTAAGTC-AAAAAAGGGTTGGTCAAGAT
2841733 G
65 G
* *
2841734 AAACCTTTTGAACCAAC
1 AAACCATATGAACCAAC
2841751 ATTGGTATCC
Statistics
Matches: 172, Mismatches: 36, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
64 4 0.02
65 117 0.68
66 51 0.30
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (65 bp):
AAACCATATGAACCAACTAAAGATGGCAACACAAAACCTAAGTCAAAAAAGGGTTGGTCAAGATG
Found at i:2841887 original size:65 final size:66
Alignment explanation
Indices: 2841765--2841893 Score: 156
Period size: 65 Copynumber: 2.0 Consensus size: 66
2841755 GTATCCAAGG
* *
2841765 TGGAACCTAAGTCGAAAAAGGATTGACTAGGATGGAACCATACAAATCAACTAAGGGTGACTAGA
1 TGGAACCTAAGTCGAAAAAGGATTGACTAGGATGAAACCATACAAATCAACTAAGGGTAACTAGA
2841830 A
66 A
* * * * *
2841831 TGGAACTTAAGTTG-AAAAGGGTTGACTAGGGTGAAACCATA-ATAGTCAA-TAGAGGGTAACTA
1 TGGAACCTAAGTCGAAAAAGGATTGACTAGGATGAAACCATACA-AATCAACTA-AGGGTAACTA
2841893 G
64 G
2841894 GATGAAATCT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
64 3 0.06
65 39 0.72
66 12 0.22
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.21
Consensus pattern (66 bp):
TGGAACCTAAGTCGAAAAAGGATTGACTAGGATGAAACCATACAAATCAACTAAGGGTAACTAGA
A
Found at i:2842472 original size:55 final size:55
Alignment explanation
Indices: 2842201--2842471 Score: 375
Period size: 55 Copynumber: 4.9 Consensus size: 55
2842191 TGCTTTTTCT
* * *
2842201 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACC
* * * *
2842256 TTTCGAAGCCCACACAAGTTGGTGTCATTTTTCAGTCCCCAAAGAGCAGGACACC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACC
2842311 TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACC
* **
2842366 TCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCC
1 T-TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACC
* * * * *
2842421 TTTCAAAGCCTACACGAGTTGGTGGCACTTTTTACTCCTCAATGAGCAGGA
1 TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
2842472 TACACTTTAT
Statistics
Matches: 195, Mismatches: 17, Indels: 8
0.89 0.08 0.04
Matches are distributed among these distances:
54 6 0.03
55 184 0.94
56 5 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (55 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACC
Found at i:2843230 original size:21 final size:21
Alignment explanation
Indices: 2843204--2843280 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
2843194 AAATTATCCA
2843204 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
* *
2843225 AATGTATTGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
2843246 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
2843267 AATGTATCGATACA
1 AATGTATCGATACA
2843281 GGGTCCCAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 3 0.06
21 46 0.94
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:2843340 original size:19 final size:19
Alignment explanation
Indices: 2843316--2843383 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
2843306 AATTCAACAA
2843316 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2843335 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
*
2843350 --TGTATCGATATATAAGT
1 TTTGTATCGATACATAAGT
*
2843367 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2843384 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2843359 original size:32 final size:32
Alignment explanation
Indices: 2843318--2843380 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
2843308 TTCAACAATT
*
2843318 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
2843350 TGTATCGATATATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2843381 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2845840 original size:51 final size:54
Alignment explanation
Indices: 2845772--2845906 Score: 172
Period size: 51 Copynumber: 2.6 Consensus size: 54
2845762 GTTGAGTTTC
* * * *
2845772 TCAA-TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACAC-
1 TCAATTTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACA
* *
2845824 T-AA-TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACA
1 TCAATTTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACA
2845876 TCAATTTCTTCACAATCGGGGATACTCCAAC
1 TCAATTTCTTCACAATCGGGGATACTCCAAC
2845907 CCTGTTAATC
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
50 2 0.03
51 41 0.59
52 2 0.03
53 2 0.03
54 20 0.29
55 3 0.04
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.33
Consensus pattern (54 bp):
TCAATTTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACA
Found at i:2845961 original size:28 final size:27
Alignment explanation
Indices: 2845890--2845962 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
2845880 TTTCTTCACA
*
2845890 ATCGGGGATACTCCAACCCTGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
2845917 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
2845943 TTCGATGGGATACTCCAACC
1 ATCG--GGGATACTCCAACC
2845963 TCGGTTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
26 5 0.12
27 22 0.54
28 14 0.34
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:2846025 original size:52 final size:50
Alignment explanation
Indices: 2845949--2846118 Score: 173
Period size: 52 Copynumber: 3.3 Consensus size: 50
2845939 TATTTTCGAT
*
2845949 GGGATACTCCAACCTCGGTTTTATTGCTAAAACACTAATTTTTCCACAATCG
1 GGGATACTCCAACC-CGGTTTTATT-CTAAAACACCAATTTTTCCACAATCG
* * **
2846001 GGGATACTCCAATCCCGGTCTTATTTTCAAAACACCAA-TTTTCCTTTAATCG
1 GGGATACTCCAA-CCCGGTTTTATTCT-AAAACACCAATTTTTCC-ACAATCG
* * *
2846053 GGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATCG
1 GGGATACTCCAAC-CCGGTTTTA-TT-CTAAAACACCAATTTTTCCACAATCG
*
2846105 AGGATACTCCAACC
1 GGGATACTCCAACC
2846119 TCATTATTTC
Statistics
Matches: 98, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
51 9 0.09
52 71 0.72
53 14 0.14
54 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (50 bp):
GGGATACTCCAACCCGGTTTTATTCTAAAACACCAATTTTTCCACAATCG
Found at i:2846101 original size:104 final size:101
Alignment explanation
Indices: 2845781--2846118 Score: 297
Period size: 104 Copynumber: 3.2 Consensus size: 101
2845771 CTCAATTCTC
* * * *
2845781 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGGGGATACTCCAAC-CCG-GTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
2845845 ACTCTAACTCCGATTTTATTTCCAAAAAACATCAATTTCTT
64 ACTCCAACTCCGATTTTATTTCCAAAAAAC--CAATTT-TT
* * ** * * * ** **
2845886 CACAATCGGGGATACTCCAACCCTGTTAATCATCGGGGATACTCCAA--CCCCGTTATTTTCGAT
1 CACAATCGGGGATACTCCAACCCGGTTTATTTTC---AAAACACCAATTTTCC-TT-TAATCG--
* * * * *
2845949 GGGATACTCCAAC-CTCGGTTTTATTGCTAAAACACTAATTTTT
59 GGGATACTCCAACTC-CGATTTTATTTCCAAAAAACCAATTTTT
2845992 CCACAATCGGGGATACTCCAATCCCGGTCTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
1 -CACAATCGGGGATACTCCAA-CCCGGT-TTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
2846057 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
63 TACTCCAACTCCGATTTTATTTCCAAAAA-ACCAATTTTT
*
2846097 CACAATCGAGGATACTCCAACC
1 CACAATCGGGGATACTCCAACC
2846119 TCATTATTTC
Statistics
Matches: 179, Mismatches: 38, Indels: 34
0.71 0.15 0.14
Matches are distributed among these distances:
103 8 0.04
104 48 0.27
105 31 0.17
106 20 0.11
107 31 0.17
108 8 0.04
109 33 0.18
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (101 bp):
CACAATCGGGGATACTCCAACCCGGTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATAC
TCCAACTCCGATTTTATTTCCAAAAAACCAATTTTT
Found at i:2846146 original size:212 final size:211
Alignment explanation
Indices: 2845779--2846172 Score: 598
Period size: 212 Copynumber: 1.9 Consensus size: 211
2845769 TTCTCAATTC
* * *
2845779 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATCTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
2845844 TACTCTAACTCCGATTTTATTTCCAAAAAACATCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACA-CAATTTCTTCACAATCGAGGATACTCCAACCC
* * * *
2845909 TGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGATGGGATACTCCAACCTCGGTTTTATT
130 TATTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCTCGGTTTTATT
2845974 GCTAAAACACTAATTTT
195 GCTAAAACACTAATTTT
* *
2845991 TCCACAATCGGGGATACTCCAA-TCCCGGTCTTATTTTCAAAACACCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACT-CCGATCTTATTTTCAAAACACCAATTTT-CTATAATCGGG
2846055 GATACTCCAACTCCGATTTTATTTCCAAAAATAC-CAATTT-TTCACAATCGAGGATACTCCAA-
64 GATACTCCAACTCCGATTTTATTTCCAAAAA-ACACAATTTCTTCACAATCGAGGATACTCCAAC
*
2846117 CCTCATTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAA
128 CCT-ATTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAA
2846173 TCCCGATTTT
Statistics
Matches: 165, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
210 3 0.02
211 25 0.15
212 95 0.58
213 40 0.24
214 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (211 bp):
TCCACAATCGGGGATACTCCAACTCCGATCTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACAATTTCTTCACAATCGAGGATACTCCAACCCT
ATTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCTCGGTTTTATTG
CTAAAACACTAATTTT
Found at i:2858530 original size:12 final size:11
Alignment explanation
Indices: 2858511--2858564 Score: 67
Period size: 11 Copynumber: 5.0 Consensus size: 11
2858501 CATTCTTTTT
2858511 CAAAAAAAAAA
1 CAAAAAAAAAA
*
2858522 CACAAAAAAAA
1 CAAAAAAAAAA
2858533 CAACAAAAAAAA
1 CAA-AAAAAAAA
*
2858545 C--AAAACAAA
1 CAAAAAAAAAA
2858554 CAAAAAAAAAA
1 CAAAAAAAAAA
2858565 ATAGACCCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 8 0.22
11 19 0.53
12 9 0.25
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:2858540 original size:21 final size:21
Alignment explanation
Indices: 2858511--2858565 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
2858501 CATTCTTTTT
2858511 CAAAAAAAAAACACAAAAAAAA
1 CAAAAAAAAAA-ACAAAAAAAA
* *
2858533 CAACAAAAAAAACAAAACAAA
1 CAAAAAAAAAAACAAAAAAAA
2858554 CAAAAAAAAAAA
1 CAAAAAAAAAAA
2858566 TAGACCCCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (21 bp):
CAAAAAAAAAAACAAAAAAAA
Found at i:2858549 original size:17 final size:17
Alignment explanation
Indices: 2858525--2858565 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
2858515 AAAAAAACAC
2858525 AAAAAAAAC-AACAAAA
1 AAAAAAAACAAACAAAA
2858541 AAAACAAAACAAACAAAA
1 AAAA-AAAACAAACAAAA
2858559 AAAAAAA
1 AAAAAAA
2858566 TAGACCCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.17
17 8 0.35
18 11 0.48
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAACAAACAAAA
Found at i:2859514 original size:59 final size:59
Alignment explanation
Indices: 2859422--2860369 Score: 1157
Period size: 59 Copynumber: 16.4 Consensus size: 59
2859412 CTTCTCCTTC
* * *
2859422 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACATAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* *
2859481 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCATACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
*
2859540 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
2859599 CACCTTCAGTCCTCAAAGAGCGGGACGTCTTTTCTTTTAAAGCCCACCCGAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* *
2859658 CACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGG
*
2859718 CACCTTTCAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGG
1 CACC-TTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
** * *
2859773 CATTTTCCAGTCCTCAGAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGG
1 CACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
*
2859828 CACCTTCAGTCCTCAAAGAG-AGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCA-GGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* *
2859887 CACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGAGG
1 CACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
**
2859946 CACCTTCAGTCCTCAAAGAGTGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
2860005 CACTTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * *
2860064 CACCTTCAATCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGG
* ** *
2860124 CACCTTTCAGTCCCCAAAGAGCAGGAC-CC----CTTTCGAAGCCCACACAAGTTGGTGT
1 CACC-TTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
** * * *
2860179 CATTTTTAAGTCCCCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGG
1 CA-CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
** * *
2860234 CATTTTCCAGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCATACAAGTTGGTGG
1 CACCTT-CAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* *
2860289 CACCTTTCAGTCCTCAAAGAGCAGGATGCC-TTTC----AAAGCCCACACGAGTTGGTGG
1 CACC-TTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
2860344 CACTTTTTACTCCTCAATGAGCAGGA
1 CAC-CTTCAGTCCTCAAAGAGCAGGA
2860370 TACACTTTAT
Statistics
Matches: 798, Mismatches: 65, Indels: 56
0.87 0.07 0.06
Matches are distributed among these distances:
53 5 0.01
54 24 0.03
55 237 0.30
56 8 0.01
57 4 0.01
59 428 0.54
60 51 0.06
61 41 0.05
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (59 bp):
CACCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:2860015 original size:406 final size:406
Alignment explanation
Indices: 2859422--2860321 Score: 1508
Period size: 406 Copynumber: 2.2 Consensus size: 406
2859412 CTTCTCCTTC
* *
2859422 CACCTTCAGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACATAAGTTGGTGGCACCTT
1 CACCTTCAGTCCTCAAAGAGAGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* *
2859487 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCAGTCC
66 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGAGGCACCTTCAGTCC
2859552 TCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
131 TCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
* *
2859617 AGCGGGACGTCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGG
196 AGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTCAATCCTCAAAGAGCAGG
*
2859682 ATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACAC
261 ATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACAC
* * *
2859747 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAGAGAGCAGGACACCTCTT-AAAG
326 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAAGTCCCCAAAGAGCAGGACACCT-TTCAAAG
2859811 CCCACACAAGTTGGTGG
390 CCCACACAAGTTGGTGG
2859828 CACCTTCAGTCCTCAAAGAGAGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CACCTTCAGTCCTCAAAGAGAGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
2859893 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGAGGCACCTTCAGTCC
66 CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGAGGCACCTTCAGTCC
* *
2859958 TCAAAGAGTGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAG
131 TCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
2860023 AGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTCAATCCTCAAAGAGCAGG
196 AGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTCAATCCTCAAAGAGCAGG
*
2860088 ATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACCC
261 ATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACAC
* * *
2860153 CTTTCGAAGCCCACACAAGTTGGTGTCATTTTTAAGTCCCCAAAGAGCAGGACACCTTTCAAAGC
326 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAAGTCCCCAAAGAGCAGGACACCTTTCAAAGC
2860218 CCACACAAGTTGGTGG
391 CCACACAAGTTGGTGG
** ** *
2860234 CATTTTCCAGTCCTCAAAGAGCA-GGACACC---TC--TTAAAGCCCATACAAGTTGGTGGCACC
1 CACCTT-CAGTCCTCAAAGAG-AGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
2860293 TTTCAGTCCTCAAAGAGCAGGATGCCTTT
64 -TTCAGTCCTCAAAGAGCGGGACGCCTTT
2860322 CAAAGCCCAC
Statistics
Matches: 467, Mismatches: 23, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
402 26 0.06
403 26 0.06
404 2 0.00
405 2 0.00
406 391 0.84
407 19 0.04
408 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (406 bp):
CACCTTCAGTCCTCAAAGAGAGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
CAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGAGGCACCTTCAGTCC
TCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
AGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTCAATCCTCAAAGAGCAGG
ATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACAC
CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAAGTCCCCAAAGAGCAGGACACCTTTCAAAGC
CCACACAAGTTGGTGG
Found at i:2861146 original size:19 final size:19
Alignment explanation
Indices: 2861122--2861189 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
2861112 AATTCAACAA
2861122 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2861141 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
*
2861156 --TGTATCGATATATAAGT
1 TTTGTATCGATACATAAGT
*
2861173 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2861190 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 10 0.24
15 2 0.05
17 2 0.05
19 27 0.66
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2861165 original size:32 final size:32
Alignment explanation
Indices: 2861124--2861186 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
2861114 TTCAACAATT
*
2861124 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
2861156 TGTATCGATATATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2861187 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2861247 original size:13 final size:13
Alignment explanation
Indices: 2861229--2861254 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2861219 CATTTTTCTG
2861229 TGTATCGATACAT
1 TGTATCGATACAT
2861242 TGTATCGATACAT
1 TGTATCGATACAT
2861255 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2861251 original size:33 final size:33
Alignment explanation
Indices: 2861209--2861275 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2861199 GCCAAGGAAA
***
2861209 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2861242 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2861275 T
1 T
2861276 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2863685 original size:51 final size:53
Alignment explanation
Indices: 2863621--2863962 Score: 185
Period size: 52 Copynumber: 6.5 Consensus size: 53
2863611 AGTTTCTCAA
* * * *
2863621 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTT-TCAAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCACAAAACACCAAT
* *
2863672 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCACAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTT-CACAAAACACCAAT
* * **** * * *
2863726 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATTGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT--TTCACAAAACACCAAT
** *** * * *
2863779 CCCGTT-ATTTTCGATGGGATACTCCAAC-CCCAGTTTTA--TCGCTAAAACACTAAT
1 TTC-TTCACAATCG--GGGATACTCCAACTCCGA-TTTTATTTCAC-AAAACACCAAT
* * *
2863833 TT-TTCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTT-TCAAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACT-CCGATTTTATTTCACAAAACACCAA-T
* *
2863886 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTC-CAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCAC-AAAACACCAAT
*
2863938 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
2863963 CTCGTTATTT
Statistics
Matches: 216, Mismatches: 47, Indels: 55
0.68 0.15 0.17
Matches are distributed among these distances:
50 4 0.02
51 32 0.15
52 80 0.37
53 39 0.18
54 40 0.19
55 18 0.08
57 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCACAAAACACCAAT
Found at i:2863946 original size:104 final size:103
Alignment explanation
Indices: 2863626--2863963 Score: 310
Period size: 104 Copynumber: 3.2 Consensus size: 103
2863616 CTCAATTCTC
* * * *
2863626 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGGGGATACTCCAAC-CCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
2863690 ACTCTAACTCCGATTTTATTTCCACAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCCA-AAAACACCAATTT-TT
* * **** * * ** **
2863731 CACAATCGGGGATACTCCAACCCCGTTAATCATTGGGGATACTCCAA--CCCCGTTATTTTCGAT
1 CACAATCGGGGATACTCCAACCCGGTT--TTATTTTCAAAACACCAATTTTCC-TT-TAATCG--
* * *
2863794 GGGATACTCCAAC-CCCAGTTTTA--TCGCTAAAACACTAATTTTT
60 GGGATACTCCAACTCCGA-TTTTATTTC-CAAAAACACCAATTTTT
*
2863837 CCACAATCGGGGATACTCCAATCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGGGGATACTCCAA-CCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
2863902 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
*
2863942 CACAATCGAGGATACTCCAACC
1 CACAATCGGGGATACTCCAACC
2863964 TCGTTATTTC
Statistics
Matches: 180, Mismatches: 37, Indels: 34
0.72 0.15 0.14
Matches are distributed among these distances:
103 2 0.01
104 41 0.23
105 38 0.21
106 30 0.17
107 40 0.22
108 12 0.07
109 17 0.09
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (103 bp):
CACAATCGGGGATACTCCAACCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:2863982 original size:28 final size:28
Alignment explanation
Indices: 2863946--2864022 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
2863936 ATTTTTCACA
* * *
2863946 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
2863974 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*** *
2864002 CGAGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
2864023 ATTTTTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:2863991 original size:212 final size:212
Alignment explanation
Indices: 2863624--2864017 Score: 614
Period size: 212 Copynumber: 1.9 Consensus size: 212
2863614 TTCTCAATTC
* *
2863624 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
2863689 TACTCTAACTCCGATTTTATTTCCACAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCACAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * * *
2863754 CGTTAATCATTGGGGATACTCCAACCCCGTTATTTTCGATGGGATACTCCAACCCCAGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAGTTTTATC
2863819 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * *
2863836 TCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACT-CCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
2863900 GATACTCCAACTCCGATTTTATTTCCA-AAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCACAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* *
2863963 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAA
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAA
2864018 TCCCGATTTT
Statistics
Matches: 165, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 29 0.18
212 100 0.61
213 36 0.22
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (212 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCACAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAGTTTTATC
GCTAAAACACTAATTTT
Found at i:2867966 original size:47 final size:47
Alignment explanation
Indices: 2867897--2867991 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
2867887 AAGAGTCTCT
*
2867897 ATATTCTACCACATTATTTGTGCAATTGAAATCTAGTTTAGCATTGA
1 ATATTCTACCACAATATTTGTGCAATTGAAATCTAGTTTAGCATTGA
* *
2867944 ATATTCTGCTACAATATTTGTGCAATTGAAATCTAGTTTAGCATTGA
1 ATATTCTACCACAATATTTGTGCAATTGAAATCTAGTTTAGCATTGA
2867991 A
1 A
2867992 AGGATAGTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (47 bp):
ATATTCTACCACAATATTTGTGCAATTGAAATCTAGTTTAGCATTGA
Found at i:2869290 original size:21 final size:20
Alignment explanation
Indices: 2869266--2869312 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
2869256 TTCTACAATT
*
2869266 TGTATCGATATAATTAGTGAA
1 TGTATCGATA-AATAAGTGAA
* *
2869287 TGTATTGATACATAAGTGAA
1 TGTATCGATAAATAAGTGAA
2869307 TGTATC
1 TGTATC
2869313 AATGCATGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.38
Consensus pattern (20 bp):
TGTATCGATAAATAAGTGAA
Found at i:2881574 original size:20 final size:20
Alignment explanation
Indices: 2881551--2881590 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2881541 GTTATAAGTA
*
2881551 ATGTATAGATACAATTTATC
1 ATGTATAGATACAATGTATC
*
2881571 ATGTATTGATACAATGTATC
1 ATGTATAGATACAATGTATC
2881591 GATATAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATAGATACAATGTATC
Found at i:2882958 original size:27 final size:27
Alignment explanation
Indices: 2882920--2882983 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
2882910 CAGGTCAGTT
2882920 GTTTGCAAATTCATCAAACGGGATATC
1 GTTTGCAAATTCATCAAACGGGATATC
* * *
2882947 GTTTGCAAATTCATTAAATGGGATGTC
1 GTTTGCAAATTCATCAAACGGGATATC
*
2882974 ATTTGCAAAT
1 GTTTGCAAAT
2882984 ATAGGCTCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (27 bp):
GTTTGCAAATTCATCAAACGGGATATC
Found at i:2884940 original size:43 final size:43
Alignment explanation
Indices: 2884877--2885017 Score: 142
Period size: 43 Copynumber: 3.3 Consensus size: 43
2884867 CACCTTTTTG
* *** *
2884877 TTTTCCCTTTGTCCTTAAGGAGCAGGATGTGTTTTATTTCCTC
1 TTTTCCCTTTGTCCTCAAGGAGCAGGATGCACTTCATTTCCTC
** *
2884920 TTTTCCCTTTGTCCTCAAGGAATAGGATGCACTTCATTTCCTT
1 TTTTCCCTTTGTCCTCAAGGAGCAGGATGCACTTCATTTCCTC
* * ** * *
2884963 TTTTCCCTTTGTCCTCAAAGAGCAAGACACACTTCACTT-C-A
1 TTTTCCCTTTGTCCTCAAGGAGCAGGATGCACTTCATTTCCTC
2885004 TTTTCCCTTTGTCC
1 TTTTCCCTTTGTCC
2885018 ACAAAAAAGC
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 14 0.17
42 1 0.01
43 67 0.82
ACGTcount: A:0.18, C:0.27, G:0.13, T:0.42
Consensus pattern (43 bp):
TTTTCCCTTTGTCCTCAAGGAGCAGGATGCACTTCATTTCCTC
Found at i:2885386 original size:20 final size:20
Alignment explanation
Indices: 2885362--2885415 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
2885352 CACCCCCAGA
**
2885362 TGTATCGATACATA-TTGCT
1 TGTATCGATACATACTTAAT
2885381 TGGTATCGATACATACTTAAT
1 T-GTATCGATACATACTTAAT
2885402 TGTATCGATACATA
1 TGTATCGATACATA
2885416 AAACTAGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 1 0.03
20 26 0.84
21 4 0.13
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATACTTAAT
Found at i:2885480 original size:13 final size:13
Alignment explanation
Indices: 2885443--2885480 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2885433 AACTCACTCA
*
2885443 GTATCGATACACT
1 GTATCGATACATT
2885456 GTATCGATACATT
1 GTATCGATACATT
2885469 GTATCGATACAT
1 GTATCGATACAT
2885481 GGTAAAATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:2886323 original size:35 final size:34
Alignment explanation
Indices: 2886278--2886350 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 34
2886268 TCATTTCCTT
* *
2886278 TTTTCCCTTTGTCCTCAAAGAGTAGGACGCACTTC
1 TTTTCCCTTTGTCCTCAAAGAGCAAGACGCA-TTC
* *
2886313 TTTTCCCTTTGTCCTTAAGGAGCAAGACGCATTC
1 TTTTCCCTTTGTCCTCAAAGAGCAAGACGCATTC
2886347 TTTT
1 TTTT
2886351 TTTCCTTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
34 7 0.21
35 27 0.79
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.38
Consensus pattern (34 bp):
TTTTCCCTTTGTCCTCAAAGAGCAAGACGCATTC
Found at i:2899098 original size:20 final size:19
Alignment explanation
Indices: 2899073--2899128 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
2899063 AAAAAGACAA
*
2899073 AATGTATCGATACATTTAT
1 AATGTATCGATACATTCAT
*
2899092 GAATGTATCAATACATTCAT
1 -AATGTATCGATACATTCAT
2899112 ACATGTATCGATACATT
1 A-ATGTATCGATACATT
2899129 GAAATATCTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 31 0.97
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
AATGTATCGATACATTCAT
Found at i:2899191 original size:91 final size:92
Alignment explanation
Indices: 2899022--2899199 Score: 234
Period size: 91 Copynumber: 1.9 Consensus size: 92
2899012 TTTTAACCAG
*
2899022 ATGTATCGATACATTGAAAAATGTATCAATACATCTAGAAAAAAAAGACAAAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATCTATCAATACATCTAGAAAAAAAAGACAAAATGTATCGATACA
*
2899087 TTTATGAATGTATCAATACATTCATAC
66 TTCATGAATGTATCAATACATTCATAC
* * ** *** *
2899114 ATGTATCGATACATTGAAATATCTGTTGATACATCT-GGGTAAAAAGACAGAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATCTATCAATACATCTAGAAAAAAAAGACAAAATGTATCGATACA
*
2899178 TTCAT-ACATGTATCGATACATT
66 TTCATGA-ATGTATCAATACATT
2899200 ACATTTGGGT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
90 1 0.01
91 42 0.57
92 31 0.42
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (92 bp):
ATGTATCGATACATTGAAAAATCTATCAATACATCTAGAAAAAAAAGACAAAATGTATCGATACA
TTCATGAATGTATCAATACATTCATAC
Found at i:2902359 original size:18 final size:18
Alignment explanation
Indices: 2902333--2902367 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2902323 ATGGAGTCTC
* *
2902333 TCCTTTCTTTTTGCCAGG
1 TCCTATCTTTTTCCCAGG
2902351 TCCTATCTTTTTCCCAG
1 TCCTATCTTTTTCCCAG
2902368 TTAAAGATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.31, G:0.11, T:0.49
Consensus pattern (18 bp):
TCCTATCTTTTTCCCAGG
Found at i:2906562 original size:16 final size:17
Alignment explanation
Indices: 2906532--2906564 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2906522 TAGATTGAGA
2906532 AAAATTAATAGATATTT
1 AAAATTAATAGATATTT
*
2906549 AAAA-TAATATATATTT
1 AAAATTAATAGATATTT
2906565 TTTTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AAAATTAATAGATATTT
Found at i:2906652 original size:17 final size:17
Alignment explanation
Indices: 2906626--2906667 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
2906616 CAAAATTTAG
*
2906626 TTAACATGTAACTAATT
1 TTAACCTGTAACTAATT
2906643 TTAACCTGTAACTAATT
1 TTAACCTGTAACTAATT
2906660 TTAACCTG
1 TTAACCTG
2906668 ATTCTCTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (17 bp):
TTAACCTGTAACTAATT
Done.