Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold9
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: 3883850
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 144036 characters in sequence are not A, C, G, or T
File 7 of 24
Found at i:944052 original size:59 final size:57
Alignment explanation
Indices: 943979--944132 Score: 182
Period size: 59 Copynumber: 2.6 Consensus size: 57
943969 TGACATAAAA
943979 TTTTCAATTAAACTTCTTACACATAGAATCTTTAATTAAACTTTTATTCATAGGATTTT
1 TTTTCAATTAAACTTCTTACACATAGAATCTTTAATTAAACTTTTATTCATAGG--TTT
* * * * * * *
944038 TTTTCAATTCAACTTCATGCATATAGATTCTTTAATCAAACTTTTATTCATATGTTT
1 TTTTCAATTAAACTTCTTACACATAGAATCTTTAATTAAACTTTTATTCATAGGTTT
* * * *
944095 TTTTCAGTTAAACCTTTTTACTCATAGAATTTTTAATT
1 TTTTCAATTAAA-CTTCTTACACATAGAATCTTTAATT
944133 TTTATTTTTG
Statistics
Matches: 77, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
57 13 0.17
58 17 0.22
59 47 0.61
ACGTcount: A:0.31, C:0.14, G:0.05, T:0.49
Consensus pattern (57 bp):
TTTTCAATTAAACTTCTTACACATAGAATCTTTAATTAAACTTTTATTCATAGGTTT
Found at i:944107 original size:29 final size:29
Alignment explanation
Indices: 944012--944112 Score: 80
Period size: 29 Copynumber: 3.4 Consensus size: 29
944002 TAGAATCTTT
*
944012 AATTAAACTTTTATTCATAGGATTTTTTTTC
1 AATTAAACTTTTATTCATATG--TTTTTTTC
* * * * *
944043 AATTCAAC-TTCATGCATATAGATTCTTT-
1 AATTAAACTTTTATTCATAT-GTTTTTTTC
*
944071 AATCAAACTTTTATTCATATGTTTTTTTC
1 AATTAAACTTTTATTCATATGTTTTTTTC
*
944100 AGTTAAACCTTTT
1 AATTAAA-CTTTT
944113 TACTCATAGA
Statistics
Matches: 52, Mismatches: 14, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
28 12 0.23
29 19 0.37
30 13 0.25
31 8 0.15
ACGTcount: A:0.30, C:0.14, G:0.06, T:0.50
Consensus pattern (29 bp):
AATTAAACTTTTATTCATATGTTTTTTTC
Found at i:944978 original size:20 final size:20
Alignment explanation
Indices: 944952--945005 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
944942 GTTTGGGACA
*
944952 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGTC-CC
* *
944972 TTGTATCGATATAATGTCCC
1 ATGTATCGATACAATGTCCC
944992 ATGTATCGATACAA
1 ATGTATCGATACAA
945006 ACAGTGGTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATGTCCC
Found at i:945078 original size:19 final size:19
Alignment explanation
Indices: 945034--945089 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
945024 CTACCAGTTT
* **
945034 CATGTATCAATACAATTGTG
1 CATGTATCGATACAA-TGAA
945054 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
945073 CATGTATTGATACAATG
1 CATGTATCGATACAATG
945090 TATCGATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:947588 original size:13 final size:13
Alignment explanation
Indices: 947572--947596 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
947562 TGATACATTG
947572 TATCGATACAAAA
1 TATCGATACAAAA
947585 TATCGATACAAA
1 TATCGATACAAA
947597 GAACATTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (13 bp):
TATCGATACAAAA
Found at i:951672 original size:13 final size:13
Alignment explanation
Indices: 951651--951683 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
951641 CCGTTAGAAG
951651 CAATGTATCGATA
1 CAATGTATCGATA
*
951664 CATTGTATCGATA
1 CAATGTATCGATA
951677 CAATGTA
1 CAATGTA
951684 CCATGTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:951772 original size:19 final size:20
Alignment explanation
Indices: 951728--951780 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
951718 CTACCAGTTT
**
951728 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
951748 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
951767 CATGTATCGATACA
1 CATGTATCGATACA
951781 TCTAGGTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:953836 original size:167 final size:165
Alignment explanation
Indices: 953328--953856 Score: 586
Period size: 167 Copynumber: 3.2 Consensus size: 165
953318 AGATCTAAAC
** * * *
953328 CAAGAAAAA-TCCTCTCGAAAAAATTTATGAAGTAGAAAACACTATGTTTTAAAAAAAAG-GGAA
1 CAAGAAAAATTCC-CTC-AAAAAATTTACAAAGTAGAAAACACTATATTTTGAAAAAAAGAGGAG
* * * ** *
953391 TTTCAAGGAAAAAATCAAAATCTCATGAAATTGAATTAATTTTTTCAAACTGAATTAATAT-GAA
64 TTTCAAGGAAAAAATCAAAA-ATCATGAAAATGAATGAATTTTTAAAAACTGAATTAATATAAAA
* * * *
953455 TCAAATAATGATGTTTGATGAATTTAAAAAATTAAAAAA
128 T-AAATAATAATATTTGATGAATTTTAAAAATTAAAAAT
* * * *
953494 CAGAGAAAAATTCCCTCAAAAAAATTTATAGAGTAGAAAACACTATATTTCGAAAAAATGA-GAG
1 CA-AGAAAAATTCCCTC-AAAAAATTTACAAAGTAGAAAACACTATATTTTGAAAAAAAGAGGAG
* * * * * *
953558 TTTTAAGGAAAAAAATAAAAAAACTCATGAAAATGAGTGAATTTTTGAAAACTAAATTAATACAA
64 TTTCAAGG-AAAAAAT-CAAAAA-TCATGAAAATGAATGAATTTTTAAAAACTGAATTAATATAA
* *
953623 AATAAAT-ATACTATTTAATGAATTTTAAAAATTAAAAAT
126 AATAAATAATAATATTTGATGAATTTTAAAAATTAAAAAT
*
953662 CAAGAAAAATTCCCTCAAAACAATTTACAAAGTAGAACACA-TCATATTTTGAAAAAAAGAGGAG
1 CAAGAAAAATTCCCTCAAAA-AATTTACAAAGTAGAAAACACT-ATATTTTGAAAAAAAGAGGAG
* *
953726 TTTCAAGGAAAAAATCAAAAATGAATGAAAATGAATGAATTTTTAAAAATTGAATTAATATAAAA
64 TTTCAAGGAAAAAATCAAAAAT-CATGAAAATGAATGAATTTTTAAAAACTGAATTAATATAAAA
* *
953791 TAAATAATAATATTTGATGGATTTTAAAAATTAAAAGT
128 TAAATAATAATATTTGATGAATTTTAAAAATTAAAAAT
*
953829 TAAGAAAAATCCTCCCT-AAAAAATTTAC
1 CAAGAAAAAT--TCCCTCAAAAAATTTAC
953857 GGAGAAGAAA
Statistics
Matches: 306, Mismatches: 43, Indels: 27
0.81 0.11 0.07
Matches are distributed among these distances:
165 1 0.00
166 53 0.17
167 152 0.50
168 52 0.17
169 45 0.15
170 3 0.01
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.28
Consensus pattern (165 bp):
CAAGAAAAATTCCCTCAAAAAATTTACAAAGTAGAAAACACTATATTTTGAAAAAAAGAGGAGTT
TCAAGGAAAAAATCAAAAATCATGAAAATGAATGAATTTTTAAAAACTGAATTAATATAAAATAA
ATAATAATATTTGATGAATTTTAAAAATTAAAAAT
Found at i:954444 original size:20 final size:19
Alignment explanation
Indices: 954395--954452 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
954385 TTTGTTTCGA
954395 TACATTGTATCGATACATG
1 TACATTGTATCGATACATG
* * *
954414 TTCACTGTATCAATACATG
1 TACATTGTATCGATACATG
954433 TACAATTGTATCGATACATG
1 TAC-ATTGTATCGATACATG
954453 AAACTATAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (19 bp):
TACATTGTATCGATACATG
Found at i:967732 original size:13 final size:13
Alignment explanation
Indices: 967714--967749 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
967704 AAATATTCTT
*
967714 AACCATATTGTTA
1 AACCATATTGTCA
967727 AACCATATTGTCA
1 AACCATATTGTCA
*
967740 AACTATATTG
1 AACCATATTG
967750 ACTTTCCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (13 bp):
AACCATATTGTCA
Found at i:968096 original size:20 final size:20
Alignment explanation
Indices: 968071--968125 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
968061 TTTTCAAAAT
968071 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
* * *
968091 TTGTATTGATATATGGTTCA
1 TTGTATCGATACATTGTTCA
968111 TTGTATCGATACATT
1 TTGTATCGATACATT
968126 CTGGGTTTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.47
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:970477 original size:50 final size:50
Alignment explanation
Indices: 970423--970547 Score: 169
Period size: 50 Copynumber: 2.5 Consensus size: 50
970413 TAAATTTCTA
* * *
970423 GATTTTTCATCTCGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATT
1 GATTTTTCATCTCGGGGATACTCCAACCCCGGCTTTATTTCGAAAACATC
* * *
970473 GATTTTTCATCTTGGGGATACTCTAACCCCGGTTTTATTTCGAAAACATC
1 GATTTTTCATCTCGGGGATACTCCAACCCCGGCTTTATTTCGAAAACATC
* *
970523 AATTTTTCATAATCGGGGATACTCC
1 GATTTTTCAT-CTCGGGGATACTCC
970548 CGTTATTTCC
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
50 53 0.83
51 11 0.17
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (50 bp):
GATTTTTCATCTCGGGGATACTCCAACCCCGGCTTTATTTCGAAAACATC
Found at i:970760 original size:79 final size:78
Alignment explanation
Indices: 970486--970780 Score: 246
Period size: 79 Copynumber: 3.8 Consensus size: 78
970476 TTTTCATCTT
* * * * *
970486 GGGGATACTCTAACCCCGGTTTTATTTCGAAAACATCAATTTTTCATAATCGGGGATACT----C
1 GGGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCATAATC-GGGATACTCCAAC
*
970547 C-CGTTA-TTTCCAA
65 CTCGTTACTTT-CGA
* * ** * * ** * * * *
970560 GGGGATACTCTAACCCCGGCTTTATTTCTAAAATATTAATTTCTCACAGTTGGGGATACTCCAAC
1 GGGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCATA-ATCGGGATACTCCAAC
* *
970625 CTCGTTATTTTTGA
65 CTCGTTACTTTCGA
* **
970639 GGGGATACTCCAACCTCGATTTTATTTTCAAAACACTGA-TTTTCTATAATCAGGGATACTCCAA
1 GGGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTC-ATAATC-GGGATACTCCAA
970703 CC-CTGTTACTTTCGA
64 CCTC-GTTACTTTCGA
* *
970718 GGGGATACTCCAACCTCGATTTTATTTCCAGAATACCAATTTTTCATAATCGAGGATACTCCA
1 GGGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCATAATCG-GGATACTCCA
970781 GCCCCGTTGT
Statistics
Matches: 179, Mismatches: 30, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
74 50 0.28
75 1 0.01
78 9 0.05
79 111 0.62
80 8 0.04
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (78 bp):
GGGGATACTCCAACCTCGATTTTATTTCCAAAACACCAATTTTTCATAATCGGGATACTCCAACC
TCGTTACTTTCGA
Found at i:972692 original size:4 final size:4
Alignment explanation
Indices: 972683--972713 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
972673 TTTTGAGGTG
972683 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
972714 TGTTTTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:974195 original size:19 final size:21
Alignment explanation
Indices: 974147--974201 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
974137 AATTTCAATA
*
974147 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
**
974168 AAATGTATCGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
974188 -TTTGTATCGATACA
1 ATTTGTATCGATACA
974202 ATATATCGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:975972 original size:52 final size:52
Alignment explanation
Indices: 975913--976300 Score: 245
Period size: 52 Copynumber: 7.4 Consensus size: 52
975903 CTCAATTGTT
*
975913 TATAATCGGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAATTTTCC
1 TATAATCGGGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTCC
* * *
975965 TTTAATCGGGGATATTCCAACTCC-GATTTTATTTCCAAAAACACCAATTTTTC
1 TATAATCGGGGATACTCCAAC-CCTGATTTTATTTCC-AAAACACCAATTTTCC
* * * * * ***** * * *
976018 -ACAATCGAGGATACTCCAACCTCGTTATCTCATCGGGGATACTCCAACCCTATTACC
1 TATAATCGGGGATACTCCAACC-C-TGATTTTATTTCCAAAACACCAA---T-TTTCC
** * ** * * ***
976075 TCCAA--GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGA-TTT-C
1 TATAATCGGGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTCC
* * * *
976123 TCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
1 T-ATAATCGGGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTCC
* * * *
976176 -ATATTCGGGGATACTCAAATCCC-GGTTTTATTTTCAAAACACCAATTTTCC
1 TATAATCGGGGATACTCCAA-CCCTGATTTTATTTCCAAAACACCAATTTTCC
* * * *
976227 TTTAATCTGGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTC
1 TATAATCGGGGATACTCCAACCCTGATTTTATTTCC-AAAACACCAATTTTCC
* *
976280 -ACAATCGAGGATACTCCAACC
1 TATAATCGGGGATACTCCAACC
976301 TCGTTATTTC
Statistics
Matches: 251, Mismatches: 66, Indels: 38
0.71 0.19 0.11
Matches are distributed among these distances:
48 2 0.01
49 4 0.02
51 78 0.31
52 94 0.37
53 40 0.16
54 11 0.04
55 1 0.00
56 15 0.06
57 3 0.01
58 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (52 bp):
TATAATCGGGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTCC
Found at i:976143 original size:51 final size:51
Alignment explanation
Indices: 976080--976300 Score: 210
Period size: 51 Copynumber: 4.3 Consensus size: 51
976070 TTACCTCCAA
* * * *
976080 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGA-TTTCTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTCCCAAAACACTAATTTTC-CATAATC
* * *
976131 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCATATTC
1 GGGGATACTCCAACCCCGGTTTTATTCCCAAAACACTAATTTTCCATAATC
* * ** * *
976182 GGGGATACTCAAATCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTCCCAAAACACTAATTTTCC-ATAATC
* * * * * * * *
976234 TGGGATACTCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTA-TTCCCAAAACACTAATTTTCCATAATC
*
976286 GAGGATACTCCAACC
1 GGGGATACTCCAACC
976301 TCGTTATTTC
Statistics
Matches: 138, Mismatches: 29, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
51 79 0.57
52 42 0.30
53 17 0.12
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTCCCAAAACACTAATTTTCCATAATC
Found at i:976311 original size:31 final size:28
Alignment explanation
Indices: 976283--976359 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
976273 ATTTTTCACA
*
976283 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
**
976311 ATCGAGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
976339 --CGAGGGAATACTCCAACCCCG
1 ATCGA-GG-ATACTCCAACCCCG
976360 GCTTTATTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.07
27 2 0.05
28 39 0.89
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:976383 original size:262 final size:262
Alignment explanation
Indices: 975918--976410 Score: 844
Period size: 262 Copynumber: 1.9 Consensus size: 262
975908 TTGTTTATAA
* *
975918 TCGGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATATTCC
1 TCGGGGATACTCAAACCCTGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCC
975983 AACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATCT
66 AACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATCT
* * *
976048 CATCGGGGATACTCCAACCCTATTACCTCCAAGGGGATACTCCAACCCCGGCTTTATTCCCAAAA
131 CATCGAGGATACTCCAACCCCATTACCTCCAAGGGAATACTCCAACCCCGGCTTTATTCCCAAAA
*
976113 TATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCAT
196 TATTGATTTCTCATAATCGAGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCAT
976178 AT
261 AT
* *
976180 TCGGGGATACTCAAATCCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCTGGGATACTC
1 TCGGGGATACTCAAA-CCCTGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTC
* *
976244 CAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATT
65 CAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATC
* * *
976309 TCATCGAGGATACTCCAACCCCGTTACCTCCGAGGGAATACTCCAACCCCGGCTTTATTTCCAAA
130 TCATCGAGGATACTCCAACCCCATTACCTCCAAGGGAATACTCCAACCCCGGCTTTATTCCCAAA
*
976374 ATATTGATTTCTCATAATTGAGGATACTCCAACCCCG
195 ATATTGATTTCTCATAATCGAGGATACTCCAACCCCG
976411 TTATTTCTGA
Statistics
Matches: 216, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
262 213 0.99
263 3 0.01
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.32
Consensus pattern (262 bp):
TCGGGGATACTCAAACCCTGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCC
AACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATCT
CATCGAGGATACTCCAACCCCATTACCTCCAAGGGAATACTCCAACCCCGGCTTTATTCCCAAAA
TATTGATTTCTCATAATCGAGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCAT
AT
Found at i:976429 original size:79 final size:77
Alignment explanation
Indices: 976313--976547 Score: 213
Period size: 79 Copynumber: 3.0 Consensus size: 77
976303 GTTATTTCAT
** * *
976313 CGAGGATACTCCAACCCCGTTACCTCCGAGGGAATACTCCAACCCCGGCTTTATTTCCAAAATAT
1 CGAGGATACTCCAACCCCGTTATTTCTGAGGG-ATACTCCAACCCC-GATTTATTTCCAAAATAT
*
976378 TGATTTCTCATAAT
64 TGATTTCTCATAAC
* * * * *
976392 TGAGGATACTCCAACCCCGTTATTTCTGAGAGGATACTCCCATCCCGATTCTATTTTC-TAATCA
1 CGAGGATACTCCAACCCCGTTATTTCTGAG-GGATACTCCAACCCCGATT-TATTTCCAAAAT-A
* * *
976456 TTGATTTTTCACACC
63 TTGATTTCTCATAAC
* * * *
976471 CGGGGATACTCCAACCCCGTTATTT-TCAAGGGGATACTCCAACCCCGTTATTATCTCCAAAATA
1 CGAGGATACTCCAACCCCGTTATTTCT-GA-GGGATACTCCAACCCCGAT-TTATTTCCAAAATA
*
976535 TTAAATTTCTCAT
63 TT-GATTTCTCAT
976548 CGAGAAATAT
Statistics
Matches: 123, Mismatches: 25, Indels: 15
0.75 0.15 0.09
Matches are distributed among these distances:
78 7 0.06
79 102 0.83
80 14 0.11
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (77 bp):
CGAGGATACTCCAACCCCGTTATTTCTGAGGGATACTCCAACCCCGATTTATTTCCAAAATATTG
ATTTCTCATAAC
Found at i:977781 original size:190 final size:190
Alignment explanation
Indices: 977458--977841 Score: 759
Period size: 190 Copynumber: 2.0 Consensus size: 190
977448 CGTCCGAAGT
*
977458 ACTCGTAAAAAAGGTCGAGCGCACGTAGCGACAAGAAGCACCAGCTGCACTCCTATATTGGTCCT
1 ACTCGTAAAAAAGGTCGAGCGCACGTAGCGACAAGAAGCACCAGCTACACTCCTATATTGGTCCT
977523 CCGACAATTCCATTTTCGACAACTCGTCCCCTTCGTCCAAGATTTAGAGTTGTGAGATTTTGACT
66 CCGACAATTCCATTTTCGACAACTCGTCCCCTTCGTCCAAGATTTAGAGTTGTGAGATTTTGACT
977588 ATGGAGGGCCGGATTACAAGTCGAAGGTCCAGCTAGCTTTCCACGCTTGGAAACAAACCC
131 ATGGAGGGCCGGATTACAAGTCGAAGGTCCAGCTAGCTTTCCACGCTTGGAAACAAACCC
977648 ACTCGTAAAAAAGGTCGAGCGCACGTAGCGACAAGAAGCACCAGCTACACTCCTATATTGGTCCT
1 ACTCGTAAAAAAGGTCGAGCGCACGTAGCGACAAGAAGCACCAGCTACACTCCTATATTGGTCCT
977713 CCGACAATTCCATTTTCGACAACTCGTCCCCTTCGTCCAAGATTTAGAGTTGTGAGATTTTGACT
66 CCGACAATTCCATTTTCGACAACTCGTCCCCTTCGTCCAAGATTTAGAGTTGTGAGATTTTGACT
977778 ATGGAGGGCCGGATTACAAGTCGAAGGTCCAGCTAGCTTTCCACGCTTGGAAACAAACCC
131 ATGGAGGGCCGGATTACAAGTCGAAGGTCCAGCTAGCTTTCCACGCTTGGAAACAAACCC
977838 ACTC
1 ACTC
977842 CATGGAAAGG
Statistics
Matches: 193, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
190 193 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (190 bp):
ACTCGTAAAAAAGGTCGAGCGCACGTAGCGACAAGAAGCACCAGCTACACTCCTATATTGGTCCT
CCGACAATTCCATTTTCGACAACTCGTCCCCTTCGTCCAAGATTTAGAGTTGTGAGATTTTGACT
ATGGAGGGCCGGATTACAAGTCGAAGGTCCAGCTAGCTTTCCACGCTTGGAAACAAACCC
Found at i:980425 original size:11 final size:11
Alignment explanation
Indices: 980409--980450 Score: 54
Period size: 10 Copynumber: 4.1 Consensus size: 11
980399 GGAGTTGCCT
980409 AAAAAAAACAC
1 AAAAAAAACAC
*
980420 -AAAAAAATA-
1 AAAAAAAACAC
980429 AAAAAAAA-AC
1 AAAAAAAACAC
980439 AAAAAAAACAC
1 AAAAAAAACAC
980450 A
1 A
980451 CACACACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 1 0.04
10 23 0.85
11 3 0.11
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (11 bp):
AAAAAAAACAC
Found at i:980432 original size:19 final size:19
Alignment explanation
Indices: 980408--980445 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
980398 TGGAGTTGCC
*
980408 TAAAAAAAACACAAAAAAA
1 TAAAAAAAAAACAAAAAAA
980427 TAAAAAAAAAACAAAAAAA
1 TAAAAAAAAAACAAAAAAA
980446 ACACACACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.87, C:0.08, G:0.00, T:0.05
Consensus pattern (19 bp):
TAAAAAAAAAACAAAAAAA
Found at i:981786 original size:33 final size:33
Alignment explanation
Indices: 981744--982323 Score: 591
Period size: 33 Copynumber: 18.2 Consensus size: 33
981734 AAATTCTTCA
* *
981744 CATCTTTTTTCTTTAAAGTCCACGACTTAGTGG
1 CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
* * *
981777 CATCTTTTTTTTTCAAAGTCCATGACTCAATGG
1 CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
*
981810 CATCTCTTTTC-T--AAGTCCACG-CTCAGTGG
1 CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
* * *
981839 TATCTTTTTTTTTTCAAAGTCCACAACTCAGTGG
1 CATC-TTTTTTCTTCAAAGTCCACGACTCAGTGG
*
981873 CATCTCTTTT-TT--AAGTCCACGACTCAGTGG
1 CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
* * * *
981903 CA--TTTTTTGTTCCAAGTCCACGATTCAGCGG
1 CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
*
981934 CATCTTTTTTCTCCAAAGTCCACGACTCAGTGG
1 CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
* *
981967 CAT-TTTCTTTCTTCAAAGTCCACAACTCAGTGA
1 CATCTTT-TTTCTTCAAAGTCCACGACTCAGTGG
* *
982000 CATCTCTTTTC-T--AAGTCCACGACTTAGTGG
1 CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
* *
982030 CATC-CTTTTCTTCCAAGTCCACGACTCAGTGG
1 CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
*
982062 CAT-TTTTTTCTTCAAAGTCCACAACTCAGTGG
1 CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
* *
982094 CATCTCTTTTC-T--AAGTCCACGACTCAGTAG
1 CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
*
982124 CATC-TTTTTCTTCCAAGTCCACGACTCAGTGG
1 CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
* *
982156 CATCTTTTTTCTTTAAAGTCCATGACTCAGTGG
1 CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
* *
982189 CA--TATCTTC-TCAAAGTCCACGACTCAGTGG
1 CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
* *
982219 CA--TTTTTTCTTCCAAGTCCATGACTCAGTGG
1 CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
** * *
982250 CATCTTTTTTCTTCAAAGTCCATAACTTAGTAAG
1 CATCTTTTTTCTTCAAAGTCCACGACTCAGT-GG
* * * *
982284 CA--TGTTTTCTTCAAAGCCCACAACTCCGTGG
1 CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
982315 CACTCTTTT
1 CA-TCTTTT
982324 CCCTTTTAAG
Statistics
Matches: 457, Mismatches: 62, Indels: 55
0.80 0.11 0.10
Matches are distributed among these distances:
28 5 0.01
29 23 0.05
30 99 0.22
31 48 0.11
32 99 0.22
33 164 0.36
34 19 0.04
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.37
Consensus pattern (33 bp):
CATCTTTTTTCTTCAAAGTCCACGACTCAGTGG
Found at i:981956 original size:94 final size:94
Alignment explanation
Indices: 981744--982662 Score: 635
Period size: 94 Copynumber: 9.7 Consensus size: 94
981734 AAATTCTTCA
** * * *
981744 CATCTTTTTTCTTTAAAGTCCACGACTTAGTGGCATCTTTTTTTTTCAAAGTCCATGACTCAATG
1 CATCTTTTTTCTTCCAAGTCCACGACTCAGTGGCATC-TTTTTTTT-AAAGTCCACGACTCAGTG
981809 GCATCTCTTTTCTAAGTCCACG-CTCAGTGG
64 GCATCTCTTTTCTAAGTCCACGACTCAGTGG
* * * * *
981839 TATCTTTTTTTTTTCAAAGTCCACAACTCAGTGGCATCTCTTTTTT-AAGTCCACGACTCAGTGG
1 CATC-TTTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTTTTAAAGTCCACGACTCAGTGG
* * * * *
981903 CATTTTTTGTTCCAAGTCCACGATTCAGCGG
65 CATCTCTT-TTCTAAGTCCACGACTCAGTGG
*
981934 CATCTTTTTTC-TCCAAAGTCCACGACTCAGTGGCAT-TTTCTTTCTTCAAAGTCCACAACTCAG
1 CATCTTTTTTCTTCC-AAGTCCACGACTCAGTGGCATCTTT-TTT-TT-AAAGTCCACGACTCAG
* *
981997 TGACATCTCTTTTCTAAGTCCACGACTTAGTGG
62 TGGCATCTCTTTTCTAAGTCCACGACTCAGTGG
* *
982030 CATC-CTTTTCTTCCAAGTCCACGACTCAGTGGCAT-TTTTTTCTTCAAAGTCCACAACTCAGTG
1 CATCTTTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTT-TT-AAAGTCCACGACTCAGTG
*
982093 GCATCTCTTTTCTAAGTCCACGACTCAGTAG
64 GCATCTCTTTTCTAAGTCCACGACTCAGTGG
*
982124 CATC-TTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTTCTTTAAAGTCCATGACTCAGTG
1 CATCTTTTTTCTTCCAAGTCCACGACTCAGTGGCATC-TTTTT-TTTAAAGTCCACGACTCAGTG
* * *
982188 GCATATCTTCTCAAAGTCCACGACTCAGTGG
64 GCATCTCTTTTCTAAGTCCACGACTCAGTGG
* ** *
982219 CA--TTTTTTCTTCCAAGTCCATGACTCAGTGGCATCTTTTTTCTTCAAAGTCCATAACTTAGTA
1 CATCTTTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTT-TT-AAAGTCCACGACTCAGT-
* * * * * * *
982282 AGCATGTTTTCTTCAAAGCCCACAACTCCGTGG
63 GGCATCTCTT-TTCTAAGTCCACGACTCAGTGG
** ** * * * * *
982315 CACTCTTTTCCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTCCCTTTT-AAGTCCACAACTCT
1 CA-TCTTTTTTCTTCCAAGTCCACGACTCAGTGGCA-TCTTTT---TTTTAAAGTCCACGACTCA
* * * *
982379 GTGGCA-C-CCTTT-TAAGTCCATGACTCCGTAG
61 GTGGCATCTCTTTTCTAAGTCCACGACTCAGTGG
* * ** * * * * * *
982410 CACCCTTTTCTCTTTTAAAG-CCTACAACTCCGTGGCACCTTTCCTTTT-AAGTCCACAACTCTG
1 CA-TCTTTTTTC-TTCCAAGTCC-ACGACTCAGTGGCATCTTT-TTTTTAAAGTCCACGACTCAG
* ** *
982473 TGGCA-C-CCTTT-TAAGTCCATAACTCCGTGG
62 TGGCATCTCTTTTCTAAGTCCACGACTCAGTGG
* ** * * ** * *
982503 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C--CATTTT-AAGTCCACAACTCTGTGGC
1 CATCTTTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTTTTAAAGTCCACGACTCAGTGGC
*
982564 ATCT-TTTTCCTTTTAAGTCCACAACTCCA-TGG
66 ATCTCTTTT-C---TAAGTCCACGACT-CAGTGG
* * * ** * * * * * *
982596 CACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTTAAGTCCACAACTCTGTGG
1 CATCTTTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTT-TTTTAAAGTCCACGACTCAGTGG
982661 CA
65 CA
982663 CCCTTTTTCC
Statistics
Matches: 695, Mismatches: 88, Indels: 79
0.81 0.10 0.09
Matches are distributed among these distances:
87 24 0.03
88 4 0.01
90 1 0.00
91 20 0.03
92 9 0.01
93 130 0.19
94 176 0.25
95 132 0.19
96 102 0.15
97 28 0.04
98 20 0.03
99 26 0.04
100 19 0.03
102 2 0.00
103 2 0.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (94 bp):
CATCTTTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTTTTAAAGTCCACGACTCAGTGGC
ATCTCTTTTCTAAGTCCACGACTCAGTGG
Found at i:981994 original size:127 final size:124
Alignment explanation
Indices: 981750--982259 Score: 543
Period size: 127 Copynumber: 4.0 Consensus size: 124
981740 TTCACATCTT
* * * *
981750 TTTTCTTTAAAGTCCACGACTTAGTGGCATCTTTTTTTTTCAAAGTCCATGACTCAATGGCATCT
1 TTTT-TTT-AAGTCCACGACTCAGTGGCA-CTTTTTTCTTCAAAGTCCACGACTCAGTGGCAT-T
* * * *
981815 CTTTTCT--AAGTCCACG-CTCAGTGGTATCTTTTTTTTTTCAAAGTCCACAACTCAGTGGCATC
62 TTTTTCTCAAAGTCCACGACTCAGTGGCA--TTTCTTTCTTCAAAGTCCACAACTCAGTGGCATC
* * * *
981877 TCTTTTTTAAGTCCACGACTCAGTGGCA-TTTTTTGTTCCAAGTCCACGATTCAGCGGCATCTTT
1 T-TTTTTTAAGTCCACGACTCAGTGGCACTTTTTTCTTCAAAGTCCACGACTCAGTGGCAT-TTT
*
981941 TTTCTCCAAAGTCCACGACTCAGTGGCATTTTCTTTCTTCAAAGTCCACAACTCAGTGACATC
64 TTTCT-CAAAGTCCACGACTCAGTGGCA-TTTCTTTCTTCAAAGTCCACAACTCAGTGGCATC
* * * *
982004 TCTTTTCTAAGTCCACGACTTAGTGGCA-TCCTTTTCTTCCAAGTCCACGACTCAGTGGCATTTT
1 T-TTTTTTAAGTCCACGACTCAGTGGCACT-TTTTTCTTCAAAGTCCACGACTCAGTGGCATTTT
* * * * *
982068 TTTCTTCAAAGTCCACAACTCAGTGGCATCTC-TT-TTCTAAGTCCACGACTCAGTAGCATC
64 TTTC-TCAAAGTCCACGACTCAGTGGCATTTCTTTCTTCAAAGTCCACAACTCAGTGGCATC
* *
982128 TTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTTCTTTAAAGTCCATGACTCAGTGGCA-T
1 TTTTT-TT--AAGTCCACGACTCAGTGGCA-CTTTTTTCTTCAAAGTCCACGACTCAGTGGCATT
* * * **
982192 ATCTTCTCAAAGTCCACGACTCAGTGGCATTT-TTTCTTCCAAGTCCATGACTCAGTGGCATC
62 TTTTTCTCAAAGTCCACGACTCAGTGGCATTTCTTTCTTCAAAGTCCACAACTCAGTGGCATC
982254 TTTTTT
1 TTTTTT
982260 CTTCAAAGTC
Statistics
Matches: 331, Mismatches: 38, Indels: 30
0.83 0.10 0.08
Matches are distributed among these distances:
123 4 0.01
124 58 0.18
125 29 0.09
126 74 0.22
127 125 0.38
128 41 0.12
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (124 bp):
TTTTTTTAAGTCCACGACTCAGTGGCACTTTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTTT
TCTCAAAGTCCACGACTCAGTGGCATTTCTTTCTTCAAAGTCCACAACTCAGTGGCATC
Found at i:982385 original size:34 final size:33
Alignment explanation
Indices: 982301--982807 Score: 466
Period size: 34 Copynumber: 15.7 Consensus size: 33
982291 TCTTCAAAGC
*
982301 CCACAACTCCGTGGCACTCTTTTCCCTTTTAAGC
1 CCACAACTCCGTGGCAC-CTTTTCCCTTTTAAGT
*
982335 CCACAACTCTGTGGCACTCTTTTCCCTTTTAAGT
1 CCACAACTCCGTGGCAC-CTTTTCCCTTTTAAGT
*
982369 CCACAACTCTGTGGCA------CCCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTCCCTTTTAAGT
** * *
982396 CCATGACTCCGTAGCACCCTTTTCTCTTTTAAAG-
1 CCACAACTCCGTGGCA-CCTTTTCCCTTTT-AAGT
982430 CCTACAACTCCGTGGCACC-TTT-CCTTTTAAGT
1 CC-ACAACTCCGTGGCACCTTTTCCCTTTTAAGT
*
982462 CCACAACTCTGTGGCA------CCCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTCCCTTTTAAGT
* * *
982489 CCATAACTCCGTGGCATCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTCCCTTTTAAGT
*
982522 CCACAACTCCGTGGCA------CCATTTTAAGT
1 CCACAACTCCGTGGCACCTTTTCCCTTTTAAGT
* * *
982549 CCACAACTCTGTGGCATCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTCCCTTTTAAGT
*
982582 CCACAACTCCATGGCACCTTGTT-CCTTTTAAGT
1 CCACAACTCCGTGGCACCTT-TTCCCTTTTAAGT
*
982615 CCACAACTCCGTGGCACCTTTT-CTTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTCCCTTTTAAGT
* *
982647 CCACAACTCTGTGGCACCCTTTTTCCCTTTTAAGC
1 CCACAACTCCGTGGCA-CC-TTTTCCCTTTTAAGT
* * * *
982682 CCATACCTCCATGGCATCCCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCA--CCTTTTCCCTTTTAAGT
* *
982717 CCACAACTCCGTGGTACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCAC-CTTTTCCCTTTTAAGT
* * *
982751 CCACAACTCCGTGGCACCCTTTCTCTTTTTAAGC
1 CCACAACTCCGTGGCACCTTTTC-CCTTTTAAGT
* * *
982785 CCACAAGTCAGTGGCACCCTTTC
1 CCACAACTCCGTGGCACCTTTTC
982808 AAAAGCCCAC
Statistics
Matches: 397, Mismatches: 46, Indels: 60
0.79 0.09 0.12
Matches are distributed among these distances:
27 71 0.18
31 16 0.04
32 33 0.08
33 90 0.23
34 125 0.31
35 59 0.15
36 3 0.01
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.35
Consensus pattern (33 bp):
CCACAACTCCGTGGCACCTTTTCCCTTTTAAGT
Found at i:982471 original size:93 final size:92
Alignment explanation
Indices: 982305--982772 Score: 511
Period size: 93 Copynumber: 4.9 Consensus size: 92
982295 CAAAGCCCAC
* * *
982305 AACTCCGTGGCACTCTTTTCCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTCCCTTTTAAGTC
1 AACTCCGTGGCACCCTTTT-CCTTTTAAGTCCACAACTCCGTGGCAC-CTTTT-CCTTTTAAGTC
982370 CACAACTCTGTGGCACCCTTTTAAGTCCAT
63 CACAACTCTGTGGCACCCTTTTAAGTCCAT
* *
982400 GACTCCGTAGCACCCTTTTCTCTTTTAAAG-CCTACAACTCCGTGGCACC-TTTCCTTTTAAGTC
1 AACTCCGTGGCACCCTTTTC-CTTTT-AAGTCC-ACAACTCCGTGGCACCTTTTCCTTTTAAGTC
982463 CACAACTCTGTGGCACCCTTTTAAGTCCAT
63 CACAACTCTGTGGCACCCTTTTAAGTCCAT
* * *
982493 AACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C----CATTTTAAGTCCAC
1 AACTCCGTGGCACCCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCAC
*
982553 AACTCTGTGGCATCTTTTTCCTTTTAAGTCCAC
66 AACTCTGTGGCA-C-----CCTTTTAAGTCCAT
* *
982586 AACTCCATGGCA-CCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCTTTTTAAGTCCA
1 AACTCCGTGGCACCCTT-TTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCA
*
982650 CAACTCTGTGGCACCCTTTTTCCCTTTTAAGCCCAT
65 CAACTCTGTGGCA--------CCCTTTTAAGTCCAT
* * *
982686 ACCTCCATGGCATCCCTTTTTCCTTTTAAGTCCACAACTCCGTGGTACTCTTTTTCCTTTTAAGT
1 AACTCCGTGGCA-CCC-TTTTCCTTTTAAGTCCACAACTCCGTGGCAC-C-TTTTCCTTTTAAGT
*
982751 CCACAACTCCGTGGCACCCTTT
62 CCACAACTCTGTGGCACCCTTT
982773 CTCTTTTTAA
Statistics
Matches: 326, Mismatches: 19, Indels: 55
0.81 0.05 0.14
Matches are distributed among these distances:
87 25 0.08
88 1 0.00
90 1 0.00
91 17 0.05
92 10 0.03
93 109 0.33
94 5 0.02
95 24 0.07
96 23 0.07
98 25 0.08
100 23 0.07
102 30 0.09
103 3 0.01
104 28 0.09
105 2 0.01
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.35
Consensus pattern (92 bp):
AACTCCGTGGCACCCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCAC
AACTCTGTGGCACCCTTTTAAGTCCAT
Found at i:982520 original size:60 final size:60
Alignment explanation
Indices: 982433--982806 Score: 331
Period size: 60 Copynumber: 5.9 Consensus size: 60
982423 TTTAAAGCCT
* *
982433 ACAACTCCGTGGCA-C-CTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCC
1 ACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
982491 ATAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCATTTTAAGTCC
1 ACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
982551 ACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCATGGCACCTTGTTCCTTTTAAGTC
1 ACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-C-----CCTTTTAAGTC
982616 C
60 C
* * *
982617 ACAACTCCGTGGCA-CCTTTTCTTTTTAAGTCCACAACTCTGTGGCACCCTTTTTCCCTTTTAAG
1 ACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA--------CCCTTTTAAG
*
982681 CCC
58 TCC
* * * *
982684 ATACCTCCATGGCATCCCTTTTTCCTTTTAAGTCCACAACTCCGTGGTACTCTTTTTCCTTTTAA
1 ACAACTCCGTGGCAT--CTTTTTCCTTTTAAGTCCACAACTCCGTGG--CAC-----CCTTTTAA
982749 GTCC
57 GTCC
* * * * * *
982753 ACAACTCCGTGGCACCCTTTCTCTTTTTAAGCCCACAAGTCAGTGGCACCCTTT
1 ACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
982807 CAAAAGCCCA
Statistics
Matches: 257, Mismatches: 33, Indels: 49
0.76 0.10 0.14
Matches are distributed among these distances:
58 13 0.05
59 1 0.00
60 84 0.33
61 6 0.02
64 1 0.00
65 28 0.11
66 26 0.10
67 22 0.09
68 25 0.10
69 22 0.09
70 27 0.11
72 2 0.01
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.35
Consensus pattern (60 bp):
ACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
Found at i:982521 original size:33 final size:33
Alignment explanation
Indices: 981744--982800 Score: 530
Period size: 33 Copynumber: 33.1 Consensus size: 33
981734 AAATTCTTCA
* * * **
981744 CATCTTTTTTCTTTAAAGTCCACGACTTAGTGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
** **
981777 CATCTTTTT--TTTTCAAAGTCCATGACTCAATGG
1 CATCTTTTTCCTTTT--AAGTCCACAACTCCGTGG
* *
981810 CATCTCTTTT-C---TAAGTCCAC-GCTCAGTGG
1 CATCT-TTTTCCTTTTAAGTCCACAACTCCGTGG
* * *
981839 TATCTTTTT-TTTTTCAAAGTCCACAACTCAGTGG
1 CATCTTTTTCCTTTT--AAGTCCACAACTCCGTGG
* * *
981873 CATC-TCTT--TTTTAAGTCCACGACTCAGTGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
* ** * * * *
981903 CAT-TTTTT-GTTCCAAGTCCACGATTCAGCGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
* *** * *
981934 CATCTTTTTTCTCCAAAGTCCACGACTCAGTGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
* ** * *
981967 CAT-TTTCTTTCTTCAAAGTCCACAACTCAGTGA
1 CATCTTT-TTCCTTTTAAGTCCACAACTCCGTGG
* **
982000 CATCTCTTTT-C---TAAGTCCACGACTTAGTGG
1 CATCT-TTTTCCTTTTAAGTCCACAACTCCGTGG
* ** * *
982030 CATCCTTTT-CTTCCAAGTCCACGACTCAGTGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
* ** *
982062 CAT-TTTTTTCTTCAAAGTCCACAACTCAGTGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
* * *
982094 CATCTCTTTT-C---TAAGTCCACGACTCAGTAG
1 CATCT-TTTTCCTTTTAAGTCCACAACTCCGTGG
** * *
982124 CATCTTTTT-CTTCCAAGTCCACGACTCAGTGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
* * ** *
982156 CATCTTTTTTCTTTAAAGTCCATGACTCAGTGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
* * ** * *
982189 CAT-ATCTT-C-TCAAAGTCCACGACTCAGTGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
** ** *
982219 CAT-TTTTT-CTTCCAAGTCCATGACTCAGTGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
* ** * ** *
982250 CATCTTTTTTCTTCAAAGTCCATAACTTAGTAAG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGT-GG
* ** *
982284 CAT-GTTTT-CTTCAAAGCCCACAACTCCGTGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
* * *
982315 CACTCTTTTCCCTTTTAAGCCCACAACTCTGTGG
1 CA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGG
* *
982349 CACTCTTTTCCCTTTTAAGTCCACAACTCTGTGG
1 CA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGG
** *
982383 CA-C-----CCTTTTAAGTCCATGACTCCGTAG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
* *
982410 CACCCTTTTCTCTTTTAAAG-CCTACAACTCCGTGG
1 CATCTTTTTC-CTTTT-AAGTCC-ACAACTCCGTGG
* *
982445 CA-C-CTTTCCTTTTAAGTCCACAACTCTGTGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
*
982476 CA-C-----CCTTTTAAGTCCATAACTCCGTGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
982503 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
* *
982536 CA-C-----CATTTTAAGTCCACAACTCTGTGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
*
982563 CATCTTTTTCCTTTTAAGTCCACAACTCCATGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
* *
982596 CACCTTGTTCCTTTTAAGTCCACAACTCCGTGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
* * *
982629 CA-CCTTTTCTTTTTAAGTCCACAACTCTGTGG
1 CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
* * * * *
982661 CACCCTTTTTCCCTTTTAAGCCCATACCTCCATGG
1 CA-TCTTTTT-CCTTTTAAGTCCACAACTCCGTGG
982696 CATCCCTTTTTCCTTTTAAGTCCACAACTCCGTGG
1 CAT--CTTTTTCCTTTTAAGTCCACAACTCCGTGG
*
982731 TACTCTTTTTCCTTTTAAGTCCACAACTCCGTGG
1 CA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGG
* * * * * *
982765 CACCCTTTCTCTTTTTAAGCCCACAAGTCAGTGG
1 CA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGG
982799 CA
1 CA
982801 CCCTTTCAAA
Statistics
Matches: 850, Mismatches: 112, Indels: 123
0.78 0.10 0.11
Matches are distributed among these distances:
27 70 0.08
28 7 0.01
29 21 0.02
30 96 0.11
31 72 0.08
32 146 0.17
33 221 0.26
34 153 0.18
35 57 0.07
36 7 0.01
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.36
Consensus pattern (33 bp):
CATCTTTTTCCTTTTAAGTCCACAACTCCGTGG
Found at i:983000 original size:39 final size:39
Alignment explanation
Indices: 982957--983277 Score: 237
Period size: 39 Copynumber: 7.5 Consensus size: 39
982947 ATGTCATTAT
*
982957 CCTTGAATCAGCACATTGGCATAAGCCCAATATCGTTGG
1 CCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGG
* *
982996 CCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATATCGCTGG
1 CCTTGAATCAGCACATTGGCA---------TAAGCCCAATATCGCTGG
*
983044 CCTTGAATCAGCACATTGGCATAAGCCCAATATCGTTGG
1 CCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGG
* *** * *
983083 CCTTGAATCAGCATATTGGCACCTTGTCTTTAAAATCAATGTCGATGG
1 CCTTGAATCAGCACATTGGCA---------TAAGCCCAATATCGCTGG
*
983131 CCTTGAATCAGCACATTGGCATAAGCCCAACATCGCTGG
1 CCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGG
* * *
983170 CCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGG
1 CCTTGAATCAGCACATTGGCA---------TAAGCCCAATATCGCTGG
* *
983218 CCTTGAATCAGCACATTGGCACAAGCCCAATATCGTTGG
1 CCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGG
* *
983257 CCTTGAATTAGCATATTGGCA
1 CCTTGAATCAGCACATTGGCA
983278 CCACCATCTT
Statistics
Matches: 225, Mismatches: 30, Indels: 54
0.73 0.10 0.17
Matches are distributed among these distances:
39 121 0.54
48 104 0.46
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (39 bp):
CCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTGG
Found at i:983048 original size:87 final size:87
Alignment explanation
Indices: 982898--983324 Score: 674
Period size: 87 Copynumber: 4.9 Consensus size: 87
982888 TCTTGAGTCT
* * ** **
982898 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCATTATCCTTGA
1 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGA
982963 ATCAGCACATTGGCATAAGCCC
66 ATCAGCACATTGGCATAAGCCC
* *
982985 AATATCGTTGGCCTTGAATCAGCATATTGGCACTTTGTCTTTAAGACCAATATCGCTGGCCTTGA
1 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGA
983050 ATCAGCACATTGGCATAAGCCC
66 ATCAGCACATTGGCATAAGCCC
* * *
983072 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAATCAATGTCGATGGCCTTGA
1 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGA
983137 ATCAGCACATTGGCATAAGCCC
66 ATCAGCACATTGGCATAAGCCC
* *
983159 AACATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGA
1 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGA
*
983224 ATCAGCACATTGGCACAAGCCC
66 ATCAGCACATTGGCATAAGCCC
* *** *
983246 AATATCGTTGGCCTTGAATTAGCATATTGGCACCACCATCTTTAAGACTAATGTCGCTGGCCTTG
1 AATATCGTTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACCAATGTCGCTGGCCTTG
983311 AATCAGCACATTGG
65 AATCAGCACATTGG
983325 GACCTTAACC
Statistics
Matches: 313, Mismatches: 26, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
87 273 0.87
88 40 0.13
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (87 bp):
AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGA
ATCAGCACATTGGCATAAGCCC
Found at i:983409 original size:49 final size:49
Alignment explanation
Indices: 983244--983621 Score: 346
Period size: 49 Copynumber: 7.6 Consensus size: 49
983234 TGGCACAAGC
* * * * ** *
983244 CCAATATCGTTGGCCTTGAATTAGCATATTGGCACCACCATCTTTAAGA
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* *
983293 CTAATGTCGCTGGCCTTGAATCAGCACATTGGGACCTTAACCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT---CATCTTTAAGT
* * *
983345 CCAATGTCGCCGGCCTTGAATCAGCACATTGGCATCTTCATCTGTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * * * *
983394 CCGATATTGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * *
983443 CTAATGTCACTGGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * * * * *
983492 CCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGC
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC-TT--TAAGT
* ** * * *
983544 CCAATGTTGCTGGCCTTGTCTCAGCACATTGGCA--TTCTTATTCAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * *
983591 CTAATGTCACTGGCCATGAATCAGTACATTG
1 CCAATGTCGCTGGCCTTGAATCAGCACATTG
983622 TCATTCTTCG
Statistics
Matches: 262, Mismatches: 61, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
47 27 0.10
49 155 0.59
50 4 0.02
52 76 0.29
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
Found at i:983554 original size:150 final size:148
Alignment explanation
Indices: 983240--983621 Score: 448
Period size: 150 Copynumber: 2.6 Consensus size: 148
983230 ACATTGGCAC
* * * * * * *
983240 AAGCCCAATATCGTTGGCCTTGAATTAGCATATTGGCACCACCATCTTTAAGACTAATGTCGCTG
1 AAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCATCATCTTCAAGTCTAATGTCACTG
* *
983305 GCCTTGAATCAGCACATTGGGACCTTAACCATCTTTAAGTCCAATGTCGCCGGCCTTGAATCAGC
66 GCCTTGAATCAGCACATTGGCACCTT-A-CATCTTTAAGTCCAATATCGCCGGCCTTGAATCAGC
*
983370 ACATTGGCATCTTCATCTGT
129 ACATTGGCATCTTCATCTCT
* * *
983390 AAGTCCGATATTGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTCAAGTCTAATGTCACTG
1 AAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCATCATCTTCAAGTCTAATGTCACTG
* ** *
983455 GCCTTAAATCAGCACATTGGCACCTT-CATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCAT
66 GCCTTGAATCAGCACATTGGCACCTTACATCTTTAAGTCCAATATCGCCGGCCTTGAATCAGCAC
983519 ATTGGCATCTTTAACAT-TCCT
131 ATTGGCATC-TT--CATCT-CT
* ** * * * *
983540 AAGCCCAATGTTGCTGGCCTTGTCTCAGCACATTGGCA--TTCTTATTCAAGTCTAATGTCACTG
1 AAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCATCATCTTCAAGTCTAATGTCACTG
* *
983603 GCCATGAATCAGTACATTG
66 GCCTTGAATCAGCACATTG
983622 TCATTCTTCG
Statistics
Matches: 199, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
147 43 0.22
148 40 0.20
149 1 0.01
150 115 0.58
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (148 bp):
AAGCCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCATCATCTTCAAGTCTAATGTCACTG
GCCTTGAATCAGCACATTGGCACCTTACATCTTTAAGTCCAATATCGCCGGCCTTGAATCAGCAC
ATTGGCATCTTCATCTCT
Found at i:996060 original size:11 final size:11
Alignment explanation
Indices: 996044--996073 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
996034 TTTTTATAAG
996044 AAAAACAACAA
1 AAAAACAACAA
996055 AAAAACAACAA
1 AAAAACAACAA
996066 AAAAACAA
1 AAAAACAA
996074 AGAGAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACAACAA
Found at i:996081 original size:12 final size:12
Alignment explanation
Indices: 996041--996082 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
996031 TTTTTTTTAT
996041 AAGAAAAACAAC
1 AAGAAAAACAAC
996053 AA-AAAAACAAC
1 AAGAAAAACAAC
996064 AA-AAAAACAA-
1 AAGAAAAACAAC
996074 AGAGAAAAA
1 A-AGAAAAA
996083 AAGAGAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 20 0.71
12 7 0.25
ACGTcount: A:0.81, C:0.12, G:0.07, T:0.00
Consensus pattern (12 bp):
AAGAAAAACAAC
Found at i:997232 original size:61 final size:61
Alignment explanation
Indices: 997071--997732 Score: 829
Period size: 61 Copynumber: 10.9 Consensus size: 61
997061 TTTCACCTTC
* * * *
997071 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTT
* * * * * *
997133 AATCCTCAAGGAGCAGAATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * *
997195 AGTTCTCAAAGAGCAGGACGCCTTTT-CTTTTCAAAGCCCACATAAGTTGGTGGCACCTCTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTT
* * **
997256 AGTCCTCAAAGAGTAGGATGCCTTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCA----TT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTT
* * * *
997314 --TCTTCAAGGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * * *
997373 AGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
997434 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * *
997494 CAGTCCTCAAGGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTTT
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * *
997556 AGTCCTCAAAGAGCAAGACGCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * ** *
997616 CAGTCCTTAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGTGCTTTTCT
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-T
* * * * *
997679 AGCCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCAACACAAATTGGTGGC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
997733 GCTCTTATTT
Statistics
Matches: 525, Mismatches: 61, Indels: 28
0.86 0.10 0.05
Matches are distributed among these distances:
55 22 0.04
56 25 0.05
58 2 0.00
59 2 0.00
60 12 0.02
61 307 0.58
62 146 0.28
63 9 0.02
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
Found at i:997952 original size:13 final size:13
Alignment explanation
Indices: 997934--997958 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
997924 CATTTTATGG
997934 TGTATCGATACAA
1 TGTATCGATACAA
997947 TGTATCGATACA
1 TGTATCGATACA
997959 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:997974 original size:32 final size:33
Alignment explanation
Indices: 997912--997978 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
997902 GTTACAAGCA
**
997912 AATGTATCGATACATTTTATGGTGTATCGATAC
1 AATGTATCGATACATACTATGGTGTATCGATAC
*
997945 AATGTATCGATACATACTGT-GTGTATCGATAC
1 AATGTATCGATACATACTATGGTGTATCGATAC
997977 AA
1 AA
997979 GTTTAGCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 14 0.45
33 17 0.55
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (33 bp):
AATGTATCGATACATACTATGGTGTATCGATAC
Found at i:1004501 original size:161 final size:162
Alignment explanation
Indices: 1004170--1004611 Score: 649
Period size: 165 Copynumber: 2.7 Consensus size: 162
1004160 TGATTAAATA
** * *
1004170 TAATTTTATTTATTTTTGAAAATACCATTTTGTA-CTCTAATGGAAGCCCGAAAGGATAAGAAAT
1 TAATTTTATTTATTTTCAAAAATACCATTTTGTATC-CTAATGGAAGCTCGAAAGGATAA-AAAG
*
1004234 GTTTTTGAAATCTTTTATATCCCCACGGATGCCCATAGGAATATAAAAGATTAAAAAAATAAATA
64 GTTTTTGAAATCTTTTATA-CCCTACGGATGCCCATAGGAATATAAAAGATTAAAAAAATAAAT-
* * *
1004299 AATATTAGAATTTATCCTAAGGATACCAATTCAATT
127 AATATAAGAATTCATCCCAAGGATACCAATTCAATT
* * * *
1004335 TAATTTTATTTATTTACAAAAATACCATTTTGTATCCTAATAGAAGCTCGAAAAGATGCAAAAGG
1 TAATTTTATTTATTTTCAAAAATACCATTTTGTATCCTAATGGAAGCTCGAAAGGAT-AAAAAGG
*
1004400 TTTTTGAAATCTTTTATACCTCTATGGATGCCCATAGGAATATAAAAGATTAAAAAAATAAAT-A
65 TTTTTGAAATCTTTTATACC-CTACGGATGCCCATAGGAATATAAAAGATTAAAAAAATAAATAA
1004464 T-TAAG-ATTCATCCCAAGGATACCAATTCAATT
129 TATAAGAATTCATCCCAAGGATACCAATTCAATT
**
1004496 TAATTTTATTTATTTTCAAAAATACCATTTCATATCCTAATGGAAGCTCGAAAGGATATAAAAGG
1 TAATTTTATTTATTTTCAAAAATACCATTTTGTATCCTAATGGAAGCTCGAAAGGATA-AAAAGG
*
1004561 TTTTTGAAATCTTTTACACCCTACGGATGCCCATAGGAATATAAAAGATTA
65 TTTTTGAAATCTTTTATACCCTACGGATGCCCATAGGAATATAAAAGATTA
1004612 CGCAAATAAT
Statistics
Matches: 252, Mismatches: 21, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
160 30 0.12
161 102 0.40
162 3 0.01
163 2 0.01
164 2 0.01
165 111 0.44
166 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (162 bp):
TAATTTTATTTATTTTCAAAAATACCATTTTGTATCCTAATGGAAGCTCGAAAGGATAAAAAGGT
TTTTGAAATCTTTTATACCCTACGGATGCCCATAGGAATATAAAAGATTAAAAAAATAAATAATA
TAAGAATTCATCCCAAGGATACCAATTCAATT
Found at i:1005416 original size:12 final size:12
Alignment explanation
Indices: 1005401--1005452 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
1005391 TTTCTACCTA
1005401 TTTTCTCTCTTT
1 TTTTCTCTCTTT
*
1005413 TTTTCTCTCCTT
1 TTTTCTCTCTTT
*
1005425 TCTT-TCTCTTT
1 TTTTCTCTCTTT
* *
1005436 TTTTCCCTCTCT
1 TTTTCTCTCTTT
1005448 TTTTC
1 TTTTC
1005453 AGCTGACCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTCTCTCTTT
Found at i:1006319 original size:167 final size:168
Alignment explanation
Indices: 1006061--1006999 Score: 1046
Period size: 167 Copynumber: 5.6 Consensus size: 168
1006051 GAAAACTTGG
* * * * * * ** *
1006061 TTTTCGAAAAAAGAGAAATTTCAAAGGAAAAAA-ACCAAAATTTATGAAAAGGAATTGATCTTTT
1 TTTTGGAAAAAAGAGGAATTTC-AAGGAAAAAATTCAAAAACTCATGAAAATAAATTAAT-TTTT
* * *
1006125 G-AAACTGATTTAATATGAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAACTAAGAA
64 GAAAAATGATTTAATATAAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAA
* *
1006189 AAATCCCCCCGAAAAAATTTATGAAGTAGAAAACAATGT-
129 AAATCCCCCCGAAAAAATTTACGAAGTAGAAAACAACGTA
* * * *
1006228 TTTTGGAAAAAAAAGAAATTTCAAGGAAAAAATTCAAAAACTTAT-AGAAATAAATTAATTCTTG
1 TTTTGGAAAAAAGAGGAATTTCAAGGAAAAAATTCAAAAACTCATGA-AAATAAATTAATTTTTG
* * *
1006292 AAAACTGATTTAATATAAAATAAATAATGGTATTTTATGAATTTTAAAAATTAAAAACCAAGAAA
65 AAAAATGATTTAATATAAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAA
* * * *
1006357 AATCCCCCTGAAAAAAATTACGAAGTAGAAAATAATGTA
130 AATCCCCCCGAAAAAATTTACGAAGTAGAAAACAACGTA
* * * * * * * *
1006396 TTTCGG-TAAAATAGGAGTTTCACGGAAAAAAATCAAAATCCCATGAAAATAAATTAATTTTTGA
1 TTTTGGAAAAAAGAGGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATAAATTAATTTTTGA
* * *
1006460 AAAATAATTTAATATGAAATAAATAATGATATTTGATGAATTTTAAAAATTAGAAACCAAG-AAA
66 AAAATGATTTAATATAAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAA
* * *
1006524 ATCCCCCCCAAAAAATTTATGTAGTAGAAAACAACGTA
131 ATCCCCCCGAAAAAATTTACGAAGTAGAAAACAACGTA
* * * * * *
1006562 --TTCGATAAAAGGGGAATTTTAAGGAAAAAATTTAAAAACTCATGAAAATAAATTAATTTTTAA
1 TTTTGGAAAAAAGAGGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATAAATTAATTTTTGA
* *
1006625 AAAAT-ATTTTAATATAAAATAAATAATGATATTTGATGAATTTTCAAAATTAAAAACCAAAAAA
66 AAAATGA-TTTAATATAAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAA
* * * *
1006689 AATCTCCTC-AAAAAAATTACGAAGTAGAAAATAACGTA
130 AATCCCCCCGAAAAAATTTACGAAGTAGAAAACAACGTA
* * * * ** * *
1006727 CTTCGG-TAAAAGGGGAGGTTCAAGGGAAAAA-TCAAAAACCCATGAAAATAAATTAATTTTT-A
1 TTTTGGAAAAAAGAGGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATAAATTAATTTTTGA
* *
1006789 AAAATAGATTTAATATAAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAACAAAAAAA
66 AAAAT-GATTTAATATAAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAA
* *** *
1006854 AATCTCTTTGAAAAAATTTACGAAGTAGAAAATAACGTA
130 AATCCCCCCGAAAAAATTTACGAAGTAGAAAACAACGTA
* * * *
1006893 TTTAGGCAAAAAA-A-GAGTTTC-ATGAAAAAATTCAAAAACTCATGAAAATAAATTAATTTTTC
1 TTTTGG-AAAAAAGAGGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATAAATTAATTTTTG
* * * *
1006955 AAAACTGATTTAATATAACATAAATGATAATATTTGATGAATTTT
65 AAAAATGATTTAATATAAAATAAATAATGATATTTGATGAATTTT
1007000 TATGTTTGAA
Statistics
Matches: 667, Mismatches: 88, Indels: 35
0.84 0.11 0.04
Matches are distributed among these distances:
164 9 0.01
165 225 0.34
166 183 0.27
167 240 0.36
168 10 0.01
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (168 bp):
TTTTGGAAAAAAGAGGAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATAAATTAATTTTTGA
AAAATGATTTAATATAAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAA
ATCCCCCCGAAAAAATTTACGAAGTAGAAAACAACGTA
Found at i:1006638 original size:165 final size:165
Alignment explanation
Indices: 1006132--1006999 Score: 1021
Period size: 165 Copynumber: 5.2 Consensus size: 165
1006122 TTTGAAACTG
* *
1006132 ATTTAATATGAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCC
1 ATTTAATATAAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAACCAAG-AAAATCCCC
* * * * * * *
1006197 CCGAAAAAATTTATGAAGTAGAAAACAATGT-TTTTGGAAAAAAAAGAAATTTCAAGGAAAAAAT
65 CTGAAAAAATTTACGAAGTAGAAAATAACGTATTTCGG-TAAAAAAGGAATTTCAAGGAAAAAAT
* * *
1006261 TCAAAAACTTAT-AGAAATAAATTAATTCTTGAAAACT
129 TCAAAAACTCATGA-AAATAAATTAATTTTTGAAAAAT
* *
1006298 GATTTAATATAAAATAAATAATGGTATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCC
1 -ATTTAATATAAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAACCAAG-AAAATCCC
* * * * * *
1006363 CCTGAAAAAAATTACGAAGTAGAAAATAATGTATTTCGGTAAAATAGGAGTTTCACGGAAAAAAA
64 CCTGAAAAAATTTACGAAGTAGAAAATAACGTATTTCGGTAAAAAAGGAATTTCAAGGAAAAAAT
* *
1006428 TCAAAATCCCATGAAAATAAATTAATTTTTGAAAAAT
129 TCAAAAACTCATGAAAATAAATTAATTTTTGAAAAAT
* *
1006465 AATTTAATATGAAATAAATAATGATATTTGATGAATTTTAAAAATTAGAAACCAAGAAAATCCCC
1 -ATTTAATATAAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAATCCCC
** * * * * ** *
1006530 CCCAAAAAATTTATGTAGTAGAAAACAACGTA-TTCGATAAAAGGGGAATTTTAAGGAAAAAATT
65 CTGAAAAAATTTACGAAGTAGAAAATAACGTATTTCGGTAAAAAAGGAATTTCAAGGAAAAAATT
* *
1006594 TAAAAACTCATGAAAATAAATTAATTTTTAAAAAAT
130 CAAAAACTCATGAAAATAAATTAATTTTTGAAAAAT
* * *
1006630 ATTTTAATATAAAATAAATAATGATATTTGATGAATTTTCAAAATTAAAAACCAAAAAAAAT-CT
1 A-TTTAATATAAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAACC-AAGAAAATCCC
* * * ** ** *
1006694 CCTCAAAAAAATTACGAAGTAGAAAATAACGTACTTCGGTAAAAGGGGAGGTTCAAGGGAAAAA-
64 CCTGAAAAAATTTACGAAGTAGAAAATAACGTATTTCGGTAAAAAAGGAATTTCAAGGAAAAAAT
*
1006758 TCAAAAACCCATGAAAATAAATTAATTTTT-AAAAAT
129 TCAAAAACTCATGAAAATAAATTAATTTTTGAAAAAT
* * *
1006794 AGATTTAATATAAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAACAAAAAAAAATCT
1 --ATTTAATATAAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAAC-CAAGAAAATCC
** * * * * *
1006859 CTTTGAAAAAATTTACGAAGTAGAAAATAACGTATTTAGGCAAAAAAAGAGTTTC-ATGAAAAAA
63 CCCTGAAAAAATTTACGAAGTAGAAAATAACGTATTTCGGTAAAAAAGGAATTTCAAGGAAAAAA
* *
1006923 TTCAAAAACTCATGAAAATAAATTAATTTTTCAAAACT
128 TTCAAAAACTCATGAAAATAAATTAATTTTTGAAAAAT
* * *
1006961 GATTTAATATAACATAAATGATAATATTTGATGAATTTT
1 -ATTTAATATAAAATAAATAATGATATTTGATGAATTTT
1007000 TATGTTTGAA
Statistics
Matches: 608, Mismatches: 82, Indels: 23
0.85 0.12 0.03
Matches are distributed among these distances:
164 7 0.01
165 226 0.37
166 175 0.29
167 194 0.32
168 6 0.01
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (165 bp):
ATTTAATATAAAATAAATAATGATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAATCCCCC
TGAAAAAATTTACGAAGTAGAAAATAACGTATTTCGGTAAAAAAGGAATTTCAAGGAAAAAATTC
AAAAACTCATGAAAATAAATTAATTTTTGAAAAAT
Found at i:1007720 original size:27 final size:27
Alignment explanation
Indices: 1007682--1007737 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
1007672 TCTACACATG
*
1007682 AATGCTACTAAAGCCCGAAGAATTTTA
1 AATGCTACTAAAGCCCAAAGAATTTTA
1007709 AATGCTACTAAAGCCCAAAGAATTTTA
1 AATGCTACTAAAGCCCAAAGAATTTTA
1007736 AA
1 AA
1007738 AGAGGTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (27 bp):
AATGCTACTAAAGCCCAAAGAATTTTA
Found at i:1012576 original size:39 final size:40
Alignment explanation
Indices: 1012461--1012582 Score: 119
Period size: 39 Copynumber: 3.1 Consensus size: 40
1012451 CATTTTTCTA
1012461 TCAAAACAT-ATCCATTAAGGTCATTTTAGTAATTTTACA-
1 TCAAAACATGATCCATTAAGGTCATTTTAGTAATTTTA-AG
* * * * *
1012500 T-AAAA-ATTGAGTCCTTTAAAGTCATGTTAGCACTTTTAAG
1 TCAAAACA-TGA-TCCATTAAGGTCATTTTAGTAATTTTAAG
* *
1012540 TCAAAACATGA-CCATTAAGGTTATTTTAGTAATTTTATG
1 TCAAAACATGATCCATTAAGGTCATTTTAGTAATTTTAAG
1012579 TCAA
1 TCAA
1012583 TCCGATCCTT
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
37 1 0.02
38 5 0.08
39 28 0.43
40 23 0.35
41 7 0.11
42 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (40 bp):
TCAAAACATGATCCATTAAGGTCATTTTAGTAATTTTAAG
Found at i:1015680 original size:26 final size:25
Alignment explanation
Indices: 1015650--1015698 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
1015640 AAAAATTTAT
* *
1015650 TACTAAAGCTTTAGCAACCTTTTAAC
1 TACTAAACCTATAGCAA-CTTTTAAC
1015676 TACTAAACCTATAGCAACTTTTA
1 TACTAAACCTATAGCAACTTTTA
1015699 TTATAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (25 bp):
TACTAAACCTATAGCAACTTTTAAC
Found at i:1017296 original size:21 final size:21
Alignment explanation
Indices: 1017271--1017311 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1017261 AATTAAGAAA
*
1017271 AAACATAAAAATCCAAAAAAT
1 AAACATAAAAATCAAAAAAAT
*
1017292 AAACATAAATATCAAAAAAA
1 AAACATAAAAATCAAAAAAA
1017312 AATCTCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (21 bp):
AAACATAAAAATCAAAAAAAT
Found at i:1021434 original size:13 final size:13
Alignment explanation
Indices: 1021416--1021441 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1021406 CAATTTTTTA
1021416 TGTATCGATACAT
1 TGTATCGATACAT
1021429 TGTATCGATACAT
1 TGTATCGATACAT
1021442 ACTTGCTGTA
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:1021527 original size:20 final size:20
Alignment explanation
Indices: 1021502--1021574 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1021492 ATCTTTTTTT
1021502 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1021522 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1021543 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1021563 ATGTATCGATAC
1 ATGTATCGATAC
1021575 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1021553 original size:41 final size:42
Alignment explanation
Indices: 1021480--1021574 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1021470 CTGCCAAGAA
*
1021480 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1021522 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1021563 ATGTATCGATAC
1 ATGTATCGATAC
1021575 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:1022211 original size:16 final size:16
Alignment explanation
Indices: 1022180--1022225 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
1022170 CTCTCCTTTG
1022180 TCTCCCCCGTTTAAAAAA
1 TCTCCCCC--TTAAAAAA
1022198 TCTCCCCCTTAAAAAA
1 TCTCCCCCTTAAAAAA
1022214 TCTCCCCCTTAA
1 TCTCCCCCTTAA
1022226 TCAAGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 20 0.71
18 8 0.29
ACGTcount: A:0.30, C:0.39, G:0.02, T:0.28
Consensus pattern (16 bp):
TCTCCCCCTTAAAAAA
Found at i:1024048 original size:13 final size:13
Alignment explanation
Indices: 1024030--1024068 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1024020 ATAATCACCC
*
1024030 TGTATCGATACAG
1 TGTATCGATACAA
1024043 TGTATCGATACAA
1 TGTATCGATACAA
1024056 TGTATCGATACAA
1 TGTATCGATACAA
1024069 CAAAAAATGT
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:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1024079 original size:20 final size:20
Alignment explanation
Indices: 1024054--1024132 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
1024044 GTATCGATAC
1024054 AATGTATCGATACAACAAAA
1 AATGTATCGATACAACAAAA
* *
1024074 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACA-ACAA----AA
*
1024099 GATGTATCGATAC-ACAAAA
1 AATGTATCGATACAACAAAA
1024118 ACATGTATCGATACA
1 A-ATGTATCGATACA
1024133 TTTTGGACAT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
19 1 0.02
20 26 0.57
21 3 0.07
23 3 0.07
25 13 0.28
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAACAAAA
Found at i:1026163 original size:15 final size:15
Alignment explanation
Indices: 1026143--1026173 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1026133 ATTTCGTTTG
*
1026143 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1026158 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1026173 G
1 G
1026174 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1030253 original size:13 final size:13
Alignment explanation
Indices: 1030235--1030260 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1030225 CAATTTTTTG
1030235 TGTATCGATACAT
1 TGTATCGATACAT
1030248 TGTATCGATACAT
1 TGTATCGATACAT
1030261 ACTTGCTGTA
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:1030346 original size:20 final size:20
Alignment explanation
Indices: 1030321--1030393 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1030311 ATCTTTTTTT
1030321 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1030341 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1030362 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1030382 ATGTATCGATAC
1 ATGTATCGATAC
1030394 TTTGAGTTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1030372 original size:41 final size:42
Alignment explanation
Indices: 1030299--1030393 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1030289 CTGCCAAGAA
*
1030299 ATGTATCGATACATCTTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1030341 ATGTATCGATACATC-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
1030382 ATGTATCGATAC
1 ATGTATCGATAC
1030394 TTTGAGTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 37 0.71
42 15 0.29
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (42 bp):
ATGTATCGATACATCTTTTTTCATGTATCGATACATTGCAAC
Found at i:1032378 original size:33 final size:33
Alignment explanation
Indices: 1032341--1032407 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1032331 TTCAACGATT
1032341 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1032374 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1032407 T
1 T
1032408 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1032379 original size:13 final size:13
Alignment explanation
Indices: 1032361--1032385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1032351 CATAAAATGT
1032361 TGTATCGATACAA
1 TGTATCGATACAA
1032374 TGTATCGATACA
1 TGTATCGATACA
1032386 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1032469 original size:13 final size:13
Alignment explanation
Indices: 1032451--1032475 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1032441 ATTACTCACA
1032451 TGTATCGATACAT
1 TGTATCGATACAT
1032464 TGTATCGATACA
1 TGTATCGATACA
1032476 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1032540 original size:52 final size:52
Alignment explanation
Indices: 1032484--1032608 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
1032474 CACTGATCTT
* *
1032484 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
*
1032536 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
*
1032588 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1032609 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1035322 original size:15 final size:15
Alignment explanation
Indices: 1035302--1035331 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1035292 TTTTTCTCTC
*
1035302 CATTCTTTCTTTATT
1 CATTCTTTATTTATT
1035317 CATTCTTTATTTATT
1 CATTCTTTATTTATT
1035332 TTTACTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (15 bp):
CATTCTTTATTTATT
Found at i:1041382 original size:28 final size:28
Alignment explanation
Indices: 1041342--1041400 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
1041332 ATTACACAGC
1041342 ATTTTCAAAAATAGGAAGTCCG-GATATA
1 ATTTTCAAAAATAGGAAG-CCGAGATATA
1041370 ATTTTCAAAAATAGGAAGCCGAGATATA
1 ATTTTCAAAAATAGGAAGCCGAGATATA
1041398 ATT
1 ATT
1041401 GATCTGTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 3 0.10
28 27 0.90
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (28 bp):
ATTTTCAAAAATAGGAAGCCGAGATATA
Found at i:1045833 original size:13 final size:13
Alignment explanation
Indices: 1045810--1045845 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1045800 TAATCATAGT
*
1045810 TAAATAATAATAA
1 TAAAAAATAATAA
*
1045823 TAATAAATAATAA
1 TAAAAAATAATAA
1045836 TAAAAAATAA
1 TAAAAAATAA
1045846 AAAATATGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAAAATAATAA
Found at i:1049061 original size:52 final size:52
Alignment explanation
Indices: 1048991--1049163 Score: 283
Period size: 52 Copynumber: 3.3 Consensus size: 52
1048981 GAAAATTTAT
* *
1048991 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1049043 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
* * * * *
1049095 TTGCATTTATCGATACATTTTATAATGTATCAATACATCTGAGTAAATTTGC
1 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1049147 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1049164 ATGTATCGAT
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 112 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1049169 original size:13 final size:13
Alignment explanation
Indices: 1049151--1049176 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1049141 ATTTGCCTGC
1049151 ATGTATCGATACA
1 ATGTATCGATACA
1049164 ATGTATCGATACA
1 ATGTATCGATACA
1049177 TTTGAGTAAT
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:1049254 original size:33 final size:33
Alignment explanation
Indices: 1049217--1049283 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1049207 AGTAGCTTAA
1049217 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1049250 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1049283 A
1 A
1049284 AATGTTGAAA
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:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1049257 original size:13 final size:13
Alignment explanation
Indices: 1049239--1049263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1049229 CAAAAAAATA
1049239 TGTATCGATACAT
1 TGTATCGATACAT
1049252 TGTATCGATACA
1 TGTATCGATACA
1049264 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1050866 original size:79 final size:78
Alignment explanation
Indices: 1050783--1051269 Score: 512
Period size: 79 Copynumber: 6.2 Consensus size: 78
1050773 AAAGGGGCTC
* * * * *
1050783 GGAGTACCCCCTCAAAAATAACAGGGTTGGGGTATCCCCAATGGTGGAAAATCGATGTTTTTAAA
1 GGAGTATCCCCTCAAAAATAAC-GGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGAAA
*
1050848 ATAAAACTAAGGTT
65 ATAAAACCAAGGTT
** * *
1050862 GGAGTATCCTTTCAAAAATAATGGGGTTGGAGTATCCCTAATTGTGAAAAATCGATGTTTT-AGA
1 GGAGTATCCCCTCAAAAATAA-CGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGA-A
*
1050926 AATAACA-CAGAGGTT
64 AATAAAACCA-AGGTT
** ** * *
1050941 GGAGTATCTTCTCGGAAATAACGAAGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGAAA
1 GGAGTATCCCCTCAAAAATAACG-GGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGAAA
*
1051006 ATAAAACCGAGGTT
65 ATAAAACCAAGGTT
* * *
1051020 GGAGTATCCCTTCAAAAATAACGGGCTTGGAGTATCCCCAATTGTGAAAAATCGGTGTTTTGGAA
1 GGAGTATCCCCTCAAAAATAACGGG-TTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGAAA
**
1051085 ATAAAACCGGGGTT
65 ATAAAACCAAGGTT
* * * * *
1051099 GGAGTATCTCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTGTGCAAAATTGGTGTTTTCG-A
1 GGAGTATCCCCTCAAAAATAAC-GGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTT-GAA
* *
1051163 AATAAAATCAGGGTT
64 AATAAAACCAAGGTT
* * * * * *
1051178 GGAGTATCCCCTCAAACATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGAAA
1 GGAGTATCCCCTCAAAAATAAC-GGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGAAA
* **
1051243 ATAAAATCGGGGTT
65 ATAAAACCAAGGTT
*
1051257 TGAGTATCCCCTC
1 GGAGTATCCCCTC
1051270 GGAAATAAAA
Statistics
Matches: 351, Mismatches: 47, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
78 5 0.01
79 340 0.97
80 6 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (78 bp):
GGAGTATCCCCTCAAAAATAACGGGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGAAAA
TAAAACCAAGGTT
Found at i:1051071 original size:158 final size:155
Alignment explanation
Indices: 1050798--1051277 Score: 586
Period size: 158 Copynumber: 3.0 Consensus size: 155
1050788 ACCCCCTCAA
* * * * * *
1050798 AAATAACAGGGTTGGGGTATCCCCAATGGTGGAAAATCGATGTTTTTAAAATAAAACTAAGGTTG
1 AAATAACAGAGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGAAAATAAAAC-CAGGTTG
* * * *
1050863 GAGTATCCTTTCAAAAATAATGGGGTTGGAGTATCCCTAATTGTGAAAAATCGATGTTTTAGAAA
65 GAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATCGGTGTTTT-GAAA
* * *
1050928 TAACACAGAGGTTGGAGTATCTTCTCGG
129 TAAAAC-GGGGTTGGAGTATCTCCTCGG
*
1050956 AAATAAC-GAAGTTGGAGTATCCCCGATTGTGAAAAATCGATGTTTTGAAAATAAAACCGAGGTT
1 AAATAACAG-AGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGAAAATAAAACC-AGGTT
*
1051020 GGAGTATCCCTTCAAAAATAACGGGCTTGGAGTATCCCCAATTGTGAAAAATCGGTGTTTTGGAA
64 GGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATCGGTGTTTT-GAA
*
1051085 ATAAAACCGGGGTTGGAGTATCTCCTCGA
128 ATAAAA-CGGGGTTGGAGTATCTCCTCGG
* * * * *
1051114 AAATAACAGGGTTGGAGTATCCCCAATTGTGCAAAATTGGTGTTTTCG-AAATAAAATCAGGGTT
1 AAATAACAGAGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTT-GAAAATAAAACCA-GGTT
* * * * * *
1051178 GGAGTATCCCCTCAAACATAACGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGAAA
64 GGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATCGGTGTTTTG-AA
* *
1051243 ATAAAATCGGGGTTTGAGTATCCCCTCGG
128 ATAAAA-CGGGGTTGGAGTATCTCCTCGG
1051272 AAATAA
1 AAATAA
1051278 AAACATGAAT
Statistics
Matches: 281, Mismatches: 34, Indels: 14
0.85 0.10 0.04
Matches are distributed among these distances:
157 3 0.01
158 275 0.98
159 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (155 bp):
AAATAACAGAGTTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTGAAAATAAAACCAGGTTGG
AGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATCGGTGTTTTGAAATA
AAACGGGGTTGGAGTATCTCCTCGG
Found at i:1051209 original size:237 final size:237
Alignment explanation
Indices: 1050783--1051269 Score: 613
Period size: 237 Copynumber: 2.1 Consensus size: 237
1050773 AAAGGGGCTC
* * * *
1050783 GGAGTACCCCCTCAAAAATAACAGGGTTGGGGTATCCCCAATGGTGGAAAATCGATGTTTTTAAA
1 GGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTGAAA
* * ** *
1050848 ATAAAACTAAGGTTGGAGTATCCTTTCAAAAATAATGGGGTTGGAGTATCCCTAATTGTGAAAAA
66 ATAAAACCAAGGTTGGAGTATCCTCTCAAAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAAA
* ** *
1050913 TCGATGTTTTAGAAATAACACAGAGGTTGGAGTATCTTCTCGGAAATAACGAAGTTGGAGTATCC
131 TCGATGTTTTAGAAATAAAACAGAGGTTGGAGTATCCCCTCGAAAATAACGAAGTTGGAGTATCC
*
1050978 CCGATTGTGAAAAATCGATGTTTTGAAAATAAAACCGAGGTT
196 CCGATTATGAAAAATCGATGTTTTGAAAATAAAACCGAGGTT
* * * *
1051020 GGAGTATCCCTTCAAAAATAAC-GGGCTTGGAGTATCCCCAATTGTGAAAAATCGGTGTTTTGGA
1 GGAGTATCCCCTCAAAAATAACAGGG-TTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTGAA
** * *
1051084 AATAAAACCGGGGTTGGAGTAT-CTCCTCGAAAATAACAGGGTTGGAGTATCCCCAATTGTGCAA
65 AATAAAACCAAGGTTGGAGTATCCT-CTCAAAAATAACAGGGTTGGAGTATCCCCAATTGTGAAA
* * * **
1051148 AATTGGTGTTTTCGAAATAAAATCAG-GGTTGGAGTATCCCCTC-AAACATAACGGGGTTGGAGT
129 AATCGATGTTTTAGAAATAAAA-CAGAGGTTGGAGTATCCCCTCGAAA-ATAACGAAGTTGGAGT
* * * * *
1051211 ATCCTCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGGGTT
192 ATCCCCGATTATGAAAAATCGATGTTTTGAAAATAAAACCGAGGTT
*
1051257 TGAGTATCCCCTC
1 GGAGTATCCCCTC
1051270 GGAAATAAAA
Statistics
Matches: 212, Mismatches: 34, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
236 7 0.03
237 202 0.95
238 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (237 bp):
GGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCAATGGTGAAAAATCGATGTTTTGAAA
ATAAAACCAAGGTTGGAGTATCCTCTCAAAAATAACAGGGTTGGAGTATCCCCAATTGTGAAAAA
TCGATGTTTTAGAAATAAAACAGAGGTTGGAGTATCCCCTCGAAAATAACGAAGTTGGAGTATCC
CCGATTATGAAAAATCGATGTTTTGAAAATAAAACCGAGGTT
Found at i:1053674 original size:50 final size:50
Alignment explanation
Indices: 1053614--1053748 Score: 164
Period size: 50 Copynumber: 2.7 Consensus size: 50
1053604 AAAAATGCTT
* * *
1053614 GAATGCATCGATACATTGAGA-AATGTATCGATACATATGGGTAAAACCCA
1 GAATACATCGATACAATGA-ACAATGTATCGATACATATAGGTAAAACCCA
* * * * *
1053664 GAATATATCGATACAATGAACAATGTATCAATATATCTAGGTGAAACCCA
1 GAATACATCGATACAATGAACAATGTATCGATACATATAGGTAAAACCCA
* *
1053714 GAATGCATCGATACAATGAATAATGTATCGATACA
1 GAATACATCGATACAATGAACAATGTATCGATACA
1053749 AATTGTGAAA
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 1 0.01
50 70 0.99
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (50 bp):
GAATACATCGATACAATGAACAATGTATCGATACATATAGGTAAAACCCA
Found at i:1056399 original size:18 final size:18
Alignment explanation
Indices: 1056376--1056410 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1056366 TTTTCATGCC
1056376 ATAGAAATCCCAAATCAT
1 ATAGAAATCCCAAATCAT
1056394 ATAGAAATCCCAAATCA
1 ATAGAAATCCCAAATCA
1056411 CGAGGGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.23, G:0.06, T:0.20
Consensus pattern (18 bp):
ATAGAAATCCCAAATCAT
Found at i:1057920 original size:34 final size:35
Alignment explanation
Indices: 1057882--1057948 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
1057872 CCTTACAACA
*
1057882 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAAATAG-AACCTCTCTCT
1057916 CTATCTTTTTCAAAGGCTAAAATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAAATAGAACCTCTC
1057949 AATCACTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.41
37 12 0.41
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAAATAGAACCTCTCTCT
Found at i:1061080 original size:24 final size:23
Alignment explanation
Indices: 1061051--1061101 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 23
1061041 TGAAAATTTG
1061051 TATGTATGTATCAATACATTTCA
1 TATGTATGTATCAATACATTTCA
*
1061074 TA-G--TGTATCGATACATTTCA
1 TATGTATGTATCAATACATTTCA
1061094 TAGTGTAT
1 TA-TGTAT
1061102 CGATACATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
20 18 0.78
22 2 0.09
23 2 0.09
24 1 0.04
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (23 bp):
TATGTATGTATCAATACATTTCA
Found at i:1061082 original size:20 final size:20
Alignment explanation
Indices: 1061057--1061109 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
1061047 TTTGTATGTA
*
1061057 TGTATCAATACATTTCATAG
1 TGTATCGATACATTTCATAG
1061077 TGTATCGATACATTTCATAG
1 TGTATCGATACATTTCATAG
1061097 TGTATCGATACAT
1 TGTATCGATACAT
1061110 CTGGGCAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTTCATAG
Found at i:1061138 original size:52 final size:52
Alignment explanation
Indices: 1061077--1061192 Score: 205
Period size: 52 Copynumber: 2.2 Consensus size: 52
1061067 CATTTCATAG
*
1061077 TGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTGCCTGTA
1 TGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTGCCTGCA
* *
1061129 TGTATCGATACATTTTATAGTGTATCGATATATCTGGGCAAATTTGCCTGCA
1 TGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTGCCTGCA
1061181 TGTATCGATACA
1 TGTATCGATACA
1061193 AAGATCAGTG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (52 bp):
TGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTGCCTGCA
Found at i:1061203 original size:52 final size:52
Alignment explanation
Indices: 1061077--1061212 Score: 184
Period size: 52 Copynumber: 2.6 Consensus size: 52
1061067 CATTTCATAG
*** *
1061077 TGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAATTTGCCTGTA
1 TGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTGCA
*** *
1061129 TGTATCGATACATTTTATAGTGTATCGATATATCTGGGCAAATTTGCCTGCA
1 TGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTGCA
1061181 TGTATCGATACA-AAGATCAGTGTATCGATACA
1 TGTATCGATACATAAGAT-AGTGTATCGATACA
1061213 ATGTATCGAT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
51 2 0.03
52 74 0.97
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (52 bp):
TGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCCTGCA
Found at i:1061219 original size:13 final size:13
Alignment explanation
Indices: 1061201--1061225 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1061191 CAAAGATCAG
1061201 TGTATCGATACAA
1 TGTATCGATACAA
1061214 TGTATCGATACA
1 TGTATCGATACA
1061226 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1061292 original size:19 final size:18
Alignment explanation
Indices: 1061268--1061365 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
1061258 TAGCTTACAT
1061268 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1061287 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1061300 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1061319 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1061332 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
1061352 TGTATCGATACAAA
1 TGTATCGATACAAA
1061366 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1061304 original size:32 final size:32
Alignment explanation
Indices: 1061263--1061363 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
1061253 GGCAGTAGCT
*
1061263 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1061295 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1061327 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
1061360 TACA
1 TACA
1061364 AATCGTTGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 52 0.78
33 15 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:1061305 original size:13 final size:13
Alignment explanation
Indices: 1061287--1061343 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1061277 ACAAAACTTA
1061287 TGTATCGATACAT
1 TGTATCGATACAT
1061300 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
1061318 ATGTATCGATACAT
1 -TGTATCGATACAT
1061332 TGTATCGATACA
1 TGTATCGATACA
1061344 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1062008 original size:26 final size:22
Alignment explanation
Indices: 1061949--1061991 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1061939 TTAAATGGTG
1061949 TGAACAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
1061971 TGAACAGTGATGTATCGATAC
1 TGAACAGTGATGTATCGATAC
1061992 TGTGATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (22 bp):
TGAACAGTGATGTATCGATACA
Found at i:1062136 original size:13 final size:13
Alignment explanation
Indices: 1062118--1062142 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1062108 TGCCAATGCT
1062118 ATGTATCGATACA
1 ATGTATCGATACA
1062131 ATGTATCGATAC
1 ATGTATCGATAC
1062143 TTAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1063143 original size:43 final size:43
Alignment explanation
Indices: 1063060--1063673 Score: 309
Period size: 43 Copynumber: 14.5 Consensus size: 43
1063050 AATTTTTTTT
* * ** * * *
1063060 GTTGGTACATATGGTTTCATCCTCGCCAACACCCTACTAACTC
1 GTTGGTTCGTATGGTTTTGTCCTAGCCAACACCTTTCTAACTC
* * * *
1063103 GTTGGTTTGTATGGTTTTGTCCT-GACCAATACCTTCCTAACTT
1 GTTGGTTCGTATGGTTTTGTCCTAG-CCAACACCTTTCTAACTC
* * * * * * * *
1063146 GTTAGTACATGTGGTTTTGTCCCAACCAACACCCTTCTAACTT
1 GTTGGTTCGTATGGTTTTGTCCTAGCCAACACCTTTCTAACTC
* ** *
1063189 GTTGGTTCATATGGTTTCATCCTAGTCAACACCTTTCTAACTC
1 GTTGGTTCGTATGGTTTTGTCCTAGCCAACACCTTTCTAACTC
* * *
1063232 ATTGGTTTGTATGGTTTTGT-CTCAGCCAATACCTTTCTAACTC
1 GTTGGTTCGTATGGTTTTGTCCT-AGCCAACACCTTTCTAACTC
* * *
1063275 ATTGGTTCGTATGGTTTTGTCC-CGACCAATACCTTTCTAACTC
1 GTTGGTTCGTATGGTTTTGTCCTAG-CCAACACCTTTCTAACTC
* * *
1063318 GTTGGTTCGTATAGTTTCGTCCTAGCTAACACCTTTCTAACTC
1 GTTGGTTCGTATGGTTTTGTCCTAGCCAACACCTTTCTAACTC
* * * * *
1063361 GTTAGTTTGTATGGTTTCAT-TCCGA-CAAACACCTTTC---CTTT
1 GTTGGTTCGTATGGTTT--TGTCCTAGCCAACACCTTTCTAAC-TC
* ** * *** *
1063402 TTTGACTCGTATGGTTTCGTCCT-GGTTA-A--TTTGCT--TTC
1 GTTGGTTCGTATGGTTTTGTCCTAGCCAACACCTTT-CTAACTC
* * * *
1063440 ATTGGTAT-TTATGGTTTTTTCCCAGCCAACACCTTTCTAACT-
1 GTTGGT-TCGTATGGTTTTGTCCTAGCCAACACCTTTCTAACTC
* * * * * *
1063482 ATTGGTACCTATGGTTTCGT-CTCAGCCAACGCCTTTTTAACTC
1 GTTGGTTCGTATGGTTTTGTCCT-AGCCAACACCTTTCTAACTC
* * ** * * *
1063525 GTTAGTTCATATAATTTTGTCTTGGCCAACACCTTTTTAACTC
1 GTTGGTTCGTATGGTTTTGTCCTAGCCAACACCTTTCTAACTC
* * * *
1063568 GTTGATAT-GTATGGTTTTGTCC-CGACCAACACCTTTATAACTT
1 GTTGGT-TCGTATGGTTTTGTCCTAG-CCAACACCTTTCTAACTC
** * *
1063611 GTTGACTCGTATGGTTTCGT-CTCGGCCAACACC--TCTAACTC
1 GTTGGTTCGTATGGTTTTGTCCT-AGCCAACACCTTTCTAACTC
* * *
1063652 GTTGGTTTGTATGATTTCGTCC
1 GTTGGTTCGTATGGTTTTGTCC
1063674 CGACTAACAC
Statistics
Matches: 432, Mismatches: 109, Indels: 61
0.72 0.18 0.10
Matches are distributed among these distances:
37 3 0.01
38 16 0.04
39 4 0.01
40 6 0.01
41 38 0.09
42 43 0.10
43 313 0.72
44 9 0.02
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.40
Consensus pattern (43 bp):
GTTGGTTCGTATGGTTTTGTCCTAGCCAACACCTTTCTAACTC
Found at i:1063290 original size:129 final size:128
Alignment explanation
Indices: 1063058--1063377 Score: 408
Period size: 129 Copynumber: 2.5 Consensus size: 128
1063048 TCAATTTTTT
* * * *
1063058 TTGTTGGTACATATGGTTTCATCCTCGCCAACACCCTACTAACTCGTTGGTTTGTATGGTTTTGT
1 TTGTTGGTTCATATGGTTTCATCCTAG-CAACACCTTTCTAACTCGTTGGTTTGTATGGTTTTGT
* ** *
1063123 CCTGACCAATACCTTCCTAACTTGTTAGTACATGTGGTTTTGTCCCAACCAACACCCTTCTAAC
65 CCAGACCAATACCTTCCTAACTCATTAGTACATATGGTTTTGTCCCAACCAACACCCTTCTAAC
*
1063187 TTGTTGGTTCATATGGTTTCATCCTAGTCAACACCTTTCTAACTCATTGGTTTGTATGGTTTTGT
1 TTGTTGGTTCATATGGTTTCATCCTAG-CAACACCTTTCTAACTCGTTGGTTTGTATGGTTTTGT
* * * * * * *
1063252 CTCAG-CCAATACCTTTCTAACTCATTGGTTCGTATGGTTTTGTCCCGACCAATACCTTTCTAAC
65 C-CAGACCAATACCTTCCTAACTCATTAGTACATATGGTTTTGTCCCAACCAACACCCTTCTAAC
* * * * *
1063316 TCGTTGGTTCGTATAGTTTCGTCCTAGCTAACACCTTTCTAACTCGTTAGTTTGTATGGTTT
1 TTGTTGGTTCATATGGTTTCATCCTAGC-AACACCTTTCTAACTCGTTGGTTTGTATGGTTT
1063378 CATTCCGACA
Statistics
Matches: 166, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
128 1 0.01
129 163 0.98
130 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.40
Consensus pattern (128 bp):
TTGTTGGTTCATATGGTTTCATCCTAGCAACACCTTTCTAACTCGTTGGTTTGTATGGTTTTGTC
CAGACCAATACCTTCCTAACTCATTAGTACATATGGTTTTGTCCCAACCAACACCCTTCTAAC
Found at i:1065459 original size:21 final size:19
Alignment explanation
Indices: 1065420--1065471 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
1065410 ATTGAAGCAC
1065420 AAAAAAA-AAAAAAACAAG
1 AAAAAAACAAAAAAACAAG
*
1065438 AAAAAATACAAAAACACTAAG
1 AAAAAA-ACAAAAAAAC-AAG
1065459 AAAAAAAACAAAA
1 -AAAAAAACAAAA
1065472 TTTCCACCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.21
19 1 0.03
20 7 0.24
21 9 0.31
22 6 0.21
ACGTcount: A:0.83, C:0.10, G:0.04, T:0.04
Consensus pattern (19 bp):
AAAAAAACAAAAAAACAAG
Found at i:1067046 original size:154 final size:155
Alignment explanation
Indices: 1066618--1067096 Score: 551
Period size: 156 Copynumber: 3.1 Consensus size: 155
1066608 CCATATAAGT
* * * * * * *
1066618 ATTTTCATAATTTT-TCAAAACCGAGTCCT-AGGTTGTCACCGGGTCCGCTTTTATACTGAAGGT
1 ATTTTCATAATTTTCT-AGAATCGAGTCCTAAGG-TGTCACCAGGTTCGCTTTTATGCCGAAAGT
* * * * *
1066681 GGGTATTTAGGATCGGTTCATCTCATCTATAATCCTTTTTAGGTCCTTTAGGGGTATCG-GACAC
64 GGGTATTTAGGATAGGTTCATCCCATCTAAAATCCTTTTTAAGTCCTTTAGGGGTATCGAGATAC
* * *
1066745 TTCTACGTCGAAGGTATCCCTTAGGAGT
129 TTTTACGTCGAAGGTATCCCCTAGG-GC
* * *
1066773 ATTTTCATAATTTTCTTAGAATCGAGTCCTAAGATATCACCA-GATCTGCTTTTATGCC-AAAGG
1 ATTTTCATAATTTTC-TAGAATCGAGTCCTAAGGTGTCACCAGGTTC-GCTTTTATGCCGAAA-G
* * *
1066836 TGTGTATTTAGGATAGGTTCATCCCATCTACAATCCTTTTTAAGTCCTTTAAGGGTATCGAG-TA
63 TGGGTATTTAGGATAGGTTCATCCCATCTAAAATCCTTTTTAAGTCCTTTAGGGGTATCGAGATA
1066900 CTTTTACGTCGAAGGTATCCCCTATGGGC
128 CTTTTACGTCGAAGGTATCCCCTA-GGGC
*
1066929 ATTTTCATAATTTTCTAGAATCAAGTCCTAAGGTGTCACCAGGTTCGC-TTTATGCCGAAAGTGG
1 ATTTTCATAATTTTCTAGAATCGAGTCCTAAGGTGTCACCAGGTTCGCTTTTATGCCGAAAGTGG
* * * * * *
1066993 GCATTTAGGATAGGTTCTTCCCTTTTAAAATCCTTCTTAAGTCTTTTAGGGGTATC-AGATACTT
66 GTATTTAGGATAGGTTCATCCCATCTAAAATCCTTTTTAAGTCCTTTAGGGGTATCGAGATACTT
* * *
1067057 TTGCATCGAAGATATCCCCTAGGGGC
131 TTACGTCGAAGGTATCCCCTA-GGGC
1067083 ATTTTCATAATTTT
1 ATTTTCATAATTTT
1067097 TCTTGAACTT
Statistics
Matches: 277, Mismatches: 37, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
153 2 0.01
154 100 0.36
155 46 0.17
156 123 0.44
157 6 0.02
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (155 bp):
ATTTTCATAATTTTCTAGAATCGAGTCCTAAGGTGTCACCAGGTTCGCTTTTATGCCGAAAGTGG
GTATTTAGGATAGGTTCATCCCATCTAAAATCCTTTTTAAGTCCTTTAGGGGTATCGAGATACTT
TTACGTCGAAGGTATCCCCTAGGGC
Found at i:1069625 original size:153 final size:153
Alignment explanation
Indices: 1069111--1069667 Score: 506
Period size: 153 Copynumber: 3.6 Consensus size: 153
1069101 TATTTTCGAG
* * * * * * * * *
1069111 ATACGGAGTTTTCTATTTCGTAAA-TTCTTTTGTAGGATTTCTCTTAGTTTATAATTTTCAAAAT
1 ATACGGAGTTTTCTACTCCATAAATTTCTCTAGTAGTATTTTTCTAAGTTTATAAATTTCAAAAT
* * * * *
1069175 TCTTAAAATATTATTGTTTAAAT-AATAGTAAATCAATTTTAAAAAATTCAATTCA-TTTATGAG
66 TCTTCAAATATTATTATTTAATTCAA-ATTAAATCAATTTTAAAAAATT-AATTCATTTTATAAG
* * *
1069238 TTTCAGAATTTTTCCTATTAGCAAA
129 TTTTAAAATTTTTCCTATTACCAAA
* * * *
1069263 TTACGGAGTTTTCTACTCCATAAATTTCT-TCGATAGGATTTTTCTAAATTTAT-AATTTCCAAA
1 ATACGGAGTTTTCTACTCCATAAATTTCTCTAG-TAGTATTTTTCTAAGTTTATAAATTT-CAAA
* * * *
1069326 ATTTTTCAAAGATTATTATTTAATTCAAATTAAATCAATTTTGAAAAACTCAATTCATTTTATAA
64 ATTCTTCAAATATTATTATTTAATTCAAATTAAATCAATTTT-AAAAAATTAATTCATTTTATAA
* * ** *
1069391 ATTTTATAATTTTTCCTATTACTGAG
128 GTTTTAAAATTTTTCCTATTACCAAA
* * *
1069417 ATATGGAGTCTTCTACTCCATAAATTTTTCCTA-T-GTGATTTTTCTAAGTTTATAAATTTCAAA
1 ATACGGAGTTTTCTACTCCATAAATTTCT-CTAGTAGT-ATTTTTCTAAGTTTATAAATTTCAAA
* * * *
1069480 ATTCTTCAAATATTATTGTTTAATT-ATATTAAATCAGTTTTAAAAAAATTAATTTATTTTATAA
64 ATTCTTCAAATATTATTATTTAATTCAAATTAAATCAATTTT-AAAAAATTAATTCATTTTATAA
* *
1069544 GTTTTAAAATTTTTTCTATTTCCAAA
128 GTTTTAAAATTTTTCCTATTACCAAA
* * *** * **
1069570 ATACAGAGTTTTTTTACTTTGTAAATTTCTCTAGTAGTA-TTTTCGAAGTTTATAAATTTTGAAA
1 ATACGGAG-TTTTCTACTCCATAAATTTCTCTAGTAGTATTTTTCTAAGTTTATAAATTTCAAAA
*
1069634 TTCATT-AAATATT-TTCATTAAATTCAAATTAAAT
65 TTC-TTCAAATATTATT-ATTTAATTCAAATTAAAT
1069668 TAGTTTTTGA
Statistics
Matches: 327, Mismatches: 62, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
152 28 0.09
153 164 0.50
154 127 0.39
155 7 0.02
156 1 0.00
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (153 bp):
ATACGGAGTTTTCTACTCCATAAATTTCTCTAGTAGTATTTTTCTAAGTTTATAAATTTCAAAAT
TCTTCAAATATTATTATTTAATTCAAATTAAATCAATTTTAAAAAATTAATTCATTTTATAAGTT
TTAAAATTTTTCCTATTACCAAA
Found at i:1072223 original size:32 final size:33
Alignment explanation
Indices: 1072166--1072230 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1072156 TTTCAACGAT
*
1072166 TTGTATCGATATATAAAGTGTTGTATCGATACA
1 TTGTATCGATACATAAAGTGTTGTATCGATACA
* *
1072199 TTGTATTGATACAT-AAGTTTTGTATCGATACA
1 TTGTATCGATACATAAAGTGTTGTATCGATACA
1072231 ATCTAAGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (33 bp):
TTGTATCGATACATAAAGTGTTGTATCGATACA
Found at i:1072335 original size:52 final size:52
Alignment explanation
Indices: 1072267--1072421 Score: 249
Period size: 52 Copynumber: 3.0 Consensus size: 52
1072257 CGATACATTA
* ***
1072267 CTCAAATGTATCGATACACTGAT-CTTTGTATCGATACATGCAGGCAAATTTG
1 CTCAGATGTATCGATACACT-ATAAAATGTATCGATACATGCAGGCAAATTTG
1072319 CTCAGATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTG
1 CTCAGATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTG
*
1072371 CCCAGATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTT
1 CTCAGATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTT
1072422 TCATATTTCG
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 2 0.02
52 95 0.98
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (52 bp):
CTCAGATGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTG
Found at i:1074562 original size:24 final size:26
Alignment explanation
Indices: 1074535--1074583 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
1074525 ATCAAAATTT
1074535 ATTCAT-C-GGGGACACTCCAACCTC
1 ATTCATCCAGGGGACACTCCAACCTC
*
1074559 ATTCCTCCGAGGGGACACTCCAACC
1 ATTCATCC-AGGGGACACTCCAACC
1074584 CCGTTTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 1 0.05
27 15 0.71
ACGTcount: A:0.24, C:0.39, G:0.18, T:0.18
Consensus pattern (26 bp):
ATTCATCCAGGGGACACTCCAACCTC
Found at i:1079041 original size:34 final size:35
Alignment explanation
Indices: 1079003--1079069 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1078993 CCTTACAACA
1079003 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1079037 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1079070 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1084866 original size:13 final size:13
Alignment explanation
Indices: 1084848--1084873 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1084838 CAATTTTTTG
1084848 TGTATCGATACAT
1 TGTATCGATACAT
1084861 TGTATCGATACAT
1 TGTATCGATACAT
1084874 ACTTGCTGTA
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:1088642 original size:12 final size:12
Alignment explanation
Indices: 1088622--1088684 Score: 54
Period size: 12 Copynumber: 4.8 Consensus size: 12
1088612 GCGTCCTCCA
1088622 CAAAAAAAAAAC
1 CAAAAAAAAAAC
*
1088634 CAAATAAAAAAATGAA
1 C-AA-AAAAAAA--AC
*
1088650 GAAAAAAACAAAAC
1 CAA-AAAA-AAAAC
1088664 CAAAAAAAAAAC
1 CAAAAAAAAAAC
1088676 CAAAAAAAA
1 CAAAAAAAA
1088685 CAAAAACAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
12 15 0.37
13 6 0.15
14 10 0.24
15 6 0.15
16 4 0.10
ACGTcount: A:0.81, C:0.13, G:0.03, T:0.03
Consensus pattern (12 bp):
CAAAAAAAAAAC
Found at i:1090204 original size:56 final size:56
Alignment explanation
Indices: 1090126--1090497 Score: 501
Period size: 56 Copynumber: 6.5 Consensus size: 56
1090116 TATTCCTCAC
*
1090126 CCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
1 CCTTC-AAAGCCCACAAATCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
** *
1090183 CCTTCAAAGCCCACAAATCAGTGGCATCCTTCTCCCAAAGCCCACAAGTCAGTAGCAA
1 CCTTCAAAGCCCACAAATCAGTGGCAT-CTT-TTTCAAAGCCCACAAGTCAGTGGCAA
* * *
1090241 CCTTCAAAGCCCAAAAATCAGTGGCACCCTTTTCCCAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAGCCCACAAATCAGTGGCA-TCTTTT-TCAAAGCCCACAAGTCAGTGGCAA
* *
1090299 CCTTCAAAAGCCCACAAGTTAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
1 CCTTC-AAAGCCCACAAATCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
*
1090356 CCTTCAAAGCCCACAAATCAGTGGCATCTTTTTCAAAGCCCACAAGTCAATGGCAA
1 CCTTCAAAGCCCACAAATCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
* * * * * *
1090412 CCTTCAAAGCCCACAAATCAGTGGCACCCTTCTCAAAAGCCCACAAGTTACTGGCAC
1 CCTTCAAAGCCCACAAATCAGTGGCATCTTTTTC-AAAGCCCACAAGTCAGTGGCAA
*
1090469 CCTTTTCAAAAGCCCACAAGTCAGTGGCA
1 CC--TTC-AAAGCCCACAAATCAGTGGCA
1090498 ACCTTCAAAA
Statistics
Matches: 283, Mismatches: 23, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
56 100 0.35
57 58 0.20
58 84 0.30
59 21 0.07
60 20 0.07
ACGTcount: A:0.32, C:0.33, G:0.16, T:0.20
Consensus pattern (56 bp):
CCTTCAAAGCCCACAAATCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
Found at i:1090519 original size:173 final size:172
Alignment explanation
Indices: 1090126--1090514 Score: 588
Period size: 173 Copynumber: 2.3 Consensus size: 172
1090116 TATTCCTCAC
1090126 CCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCATC-TTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAA
*
1090191 GCCCACAAATCAGTGGCATCCTTCTCCCAAAGCCCACAAGTCAGTAGCAACCTTCAAAGCCCAAA
65 GCCCACAAATCAGTGGCATCCTTCTCCCAAAGCCCACAAGTCAATAGCAACCTTCAAAGCCCAAA
* * *
1090256 AATCAGTGGCACCCTTTTCCCAAAGCCCACAAGTCAGTGGCAA
130 AATCAGTGGCACCCTTCTCCAAAAGCCCACAAGTCACTGGCAA
*
1090299 CCTTCAAAAGCCCACAAGTTAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCATC-TTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAA
** * *
1090364 GCCCACAAATCAGTGGCAT-CTT-TTTCAAAGCCCACAAGTCAATGGCAACCTTCAAAGCCCACA
65 GCCCACAAATCAGTGGCATCCTTCTCCCAAAGCCCACAAGTCAATAGCAACCTTCAAAGCCCAAA
* *
1090427 AATCAGTGGCACCCTTCT-CAAAAGCCCACAAGTTACTGGCAC
130 AATCAGTGGCACCCTTCTCCAAAAGCCCACAAGTCACTGGCAA
* *
1090469 CCTTTTCAAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACA
1 CC--TTCAAAAGCCCACAAGTCAGTGGCATCTTTTC-AAAGCCCACA
1090515 CAAGTTGGTG
Statistics
Matches: 199, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
170 25 0.13
171 63 0.32
172 28 0.14
173 83 0.42
ACGTcount: A:0.33, C:0.33, G:0.15, T:0.19
Consensus pattern (172 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAG
CCCACAAATCAGTGGCATCCTTCTCCCAAAGCCCACAAGTCAATAGCAACCTTCAAAGCCCAAAA
ATCAGTGGCACCCTTCTCCAAAAGCCCACAAGTCACTGGCAA
Found at i:1090527 original size:30 final size:27
Alignment explanation
Indices: 1090126--1090514 Score: 391
Period size: 27 Copynumber: 13.6 Consensus size: 27
1090116 TATTCCTCAC
*
1090126 CCTTCAAAAGCCCACAAGTCAGTGGCAT
1 CCTTC-AAAGCCCACAAGTCAGTGGCAA
*
1090154 CTTTTTCAAAGCCCACAAGTCAGTGGCAA
1 C--CTTCAAAGCCCACAAGTCAGTGGCAA
* *
1090183 CCTTCAAAGCCCACAAATCAGTGGCAT
1 CCTTCAAAGCCCACAAGTCAGTGGCAA
*
1090210 CCTTCTCCCAAAGCCCACAAGTCAGTAGCAA
1 CC-T-T--CAAAGCCCACAAGTCAGTGGCAA
* * *
1090241 CCTTCAAAGCCCAAAAATCAGTGGCAC
1 CCTTCAAAGCCCACAAGTCAGTGGCAA
1090268 CCTTTTCCCAAAGCCCACAAGTCAGTGGCAA
1 CC--TT--CAAAGCCCACAAGTCAGTGGCAA
* *
1090299 CCTTCAAAAGCCCACAAGTTAGTGGCAT
1 CCTTC-AAAGCCCACAAGTCAGTGGCAA
*
1090327 CTTTTTCAAAGCCCACAAGTCAGTGGCAA
1 C--CTTCAAAGCCCACAAGTCAGTGGCAA
* *
1090356 CCTTCAAAGCCCACAAATCAGTGGCAT
1 CCTTCAAAGCCCACAAGTCAGTGGCAA
* *
1090383 CTTTTTCAAAGCCCACAAGTCAATGGCAA
1 C--CTTCAAAGCCCACAAGTCAGTGGCAA
* *
1090412 CCTTCAAAGCCCACAAATCAGTGGCAC
1 CCTTCAAAGCCCACAAGTCAGTGGCAA
* * *
1090439 CCTTCTCAAAAGCCCACAAGTTACTGGCAC
1 CC-T-TC-AAAGCCCACAAGTCAGTGGCAA
1090469 CCTTTTCAAAAGCCCACAAGTCAGTGGCAA
1 CC--TTC-AAAGCCCACAAGTCAGTGGCAA
1090499 CCTTCAAAAGCCCACA
1 CCTTC-AAAGCCCACA
1090515 CAAGTTGGTG
Statistics
Matches: 305, Mismatches: 37, Indels: 38
0.80 0.10 0.10
Matches are distributed among these distances:
27 95 0.31
28 38 0.12
29 74 0.24
30 52 0.17
31 46 0.15
ACGTcount: A:0.33, C:0.33, G:0.15, T:0.19
Consensus pattern (27 bp):
CCTTCAAAGCCCACAAGTCAGTGGCAA
Found at i:1090606 original size:49 final size:49
Alignment explanation
Indices: 1090548--1090897 Score: 435
Period size: 49 Copynumber: 7.3 Consensus size: 49
1090538 AATCCAATAA
*
1090548 CGCTAGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGT
1 CGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGT
* * * * *
1090597 CGTTGGCCTTGAACCAACACATTGGCA----C--CTTTAAGTCCAATAT
1 CGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGT
*
1090640 CGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGT
1 CGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGT
* * * * *
1090689 CGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATAT
1 CGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGT
* * *
1090738 CGTTGGCTTTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGT
1 CGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGT
* * * *
1090787 CGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATGT
1 CGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGT
* * *
1090836 CGTTGGCTTTGAATCAACATATTGGCACCGTCATCTTTAAGAT-CAATGT
1 CGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAG-TCCAATGT
*
1090885 CGCTGGCCATGAA
1 CGCTGGCCTTGAA
1090898 GCTGCAATCA
Statistics
Matches: 251, Mismatches: 43, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
43 37 0.15
45 1 0.00
47 1 0.00
49 211 0.84
50 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (49 bp):
CGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGT
Found at i:1090772 original size:98 final size:98
Alignment explanation
Indices: 1090556--1090897 Score: 543
Period size: 98 Copynumber: 3.6 Consensus size: 98
1090546 AACGCTAGCC
* * * *
1090556 TTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGTCGTTGGCCTTGAACCAACACATTG
1 TTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
* * *
1090621 GCA----C--CTTTAAGTCCAATATCGCTGGCC
66 GCATCTTCATCTTTAAGTCCGATATCGTTGGCT
1090648 TTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
1 TTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
1090713 GCATCTTCATCTTTAAGTCCGATATCGTTGGCT
66 GCATCTTCATCTTTAAGTCCGATATCGTTGGCT
1090746 TTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
1 TTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
*
1090811 GCATCTTCATCTTTAAGTCCGATGTCGTTGGCT
66 GCATCTTCATCTTTAAGTCCGATATCGTTGGCT
* * *
1090844 TTGAATCAACATATTGGCACCGTCATCTTTAAGATCAATGTCGCTGGCCATGAA
1 TTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAA
1090898 GCTGCAATCA
Statistics
Matches: 233, Mismatches: 11, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
92 64 0.27
96 1 0.00
98 168 0.72
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (98 bp):
TTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
GCATCTTCATCTTTAAGTCCGATATCGTTGGCT
Found at i:1091393 original size:56 final size:56
Alignment explanation
Indices: 1091315--1091686 Score: 492
Period size: 56 Copynumber: 6.5 Consensus size: 56
1091305 TATTCCTCAC
*
1091315 CCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
1 CCTTC-AAAGCCCACAAATCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
** *
1091372 CCTTCAAAGCCCACAAATCAGTGGCATCCTTCTCCCAAAGCCCACAAGTCAGTAGCAA
1 CCTTCAAAGCCCACAAATCAGTGGCAT-CTT-TTTCAAAGCCCACAAGTCAGTGGCAA
* * *
1091430 CCTTCAAAGCCCAAAAATCAGTGGCACCCTTTTCCCAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAGCCCACAAATCAGTGGCA-TCTTTT-TCAAAGCCCACAAGTCAGTGGCAA
* * *
1091488 CCTTCAAAAGCCCACAAGTTAGTGGCATCTTTTTCAAAGCCCATAAGTCAGTGGCAA
1 CCTTC-AAAGCCCACAAATCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
*
1091545 CCTTCAAAGCCCACAAATCAGTGGCATCTTTTTCAAAGCCCACAAGTCAATGGCAA
1 CCTTCAAAGCCCACAAATCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
* * * * * *
1091601 CCTTCAAAGCCCACAAATCAGTGGCACCCTTCTCAAAAGCCCACAAGTTACTGGCAC
1 CCTTCAAAGCCCACAAATCAGTGGCATCTTTTTC-AAAGCCCACAAGTCAGTGGCAA
*
1091658 CCTTTTCAAAAGCCCACAAGTCAGTGGCA
1 CC--TTC-AAAGCCCACAAATCAGTGGCA
1091687 ACCTTCAAAA
Statistics
Matches: 281, Mismatches: 25, Indels: 15
0.88 0.08 0.05
Matches are distributed among these distances:
56 99 0.35
57 57 0.20
58 84 0.30
59 21 0.07
60 20 0.07
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (56 bp):
CCTTCAAAGCCCACAAATCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
Found at i:1091430 original size:58 final size:57
Alignment explanation
Indices: 1091315--1091703 Score: 491
Period size: 58 Copynumber: 6.8 Consensus size: 57
1091305 TATTCCTCAC
* *
1091315 CCTTCAAAAGCCCACAAGTCAGTGGCAT-CTTTTTCAAAGCCCACAAGTCAGTGGCAA
1 CCTTC-AAAGCCCACAAATCAGTGGCATCCTTTTCCAAAGCCCACAAGTCAGTGGCAA
* *
1091372 CCTTCAAAGCCCACAAATCAGTGGCATCCTTCTCCCAAAGCCCACAAGTCAGTAGCAA
1 CCTTCAAAGCCCACAAATCAGTGGCATCCTT-TTCCAAAGCCCACAAGTCAGTGGCAA
* *
1091430 CCTTCAAAGCCCAAAAATCAGTGGCACCCTTTTCCCAAAGCCCACAAGTCAGTGGCAA
1 CCTTCAAAGCCCACAAATCAGTGGCATCCTTTT-CCAAAGCCCACAAGTCAGTGGCAA
* * * *
1091488 CCTTCAAAAGCCCACAAGTTAGTGGCAT-CTTTTTCAAAGCCCATAAGTCAGTGGCAA
1 CCTTC-AAAGCCCACAAATCAGTGGCATCCTTTTCCAAAGCCCACAAGTCAGTGGCAA
* *
1091545 CCTTCAAAGCCCACAAATCAGTGGCAT-CTTTTTCAAAGCCCACAAGTCAATGGCAA
1 CCTTCAAAGCCCACAAATCAGTGGCATCCTTTTCCAAAGCCCACAAGTCAGTGGCAA
* * * * * *
1091601 CCTTCAAAGCCCACAAATCAGTGGCACCCTTCTCAAAAGCCCACAAGTTACTGGCAC
1 CCTTCAAAGCCCACAAATCAGTGGCATCCTTTTCCAAAGCCCACAAGTCAGTGGCAA
* * *
1091658 CCTTTTCAAAAGCCCACAAGTCAGTGGCAACC--TTCAAAAGCCCACA
1 CC--TTC-AAAGCCCACAAATCAGTGGCATCCTTTTCCAAAGCCCACA
1091704 CAAGTTGGTG
Statistics
Matches: 296, Mismatches: 28, Indels: 15
0.87 0.08 0.04
Matches are distributed among these distances:
56 94 0.32
57 61 0.21
58 98 0.33
59 21 0.07
60 22 0.07
ACGTcount: A:0.33, C:0.33, G:0.15, T:0.20
Consensus pattern (57 bp):
CCTTCAAAGCCCACAAATCAGTGGCATCCTTTTCCAAAGCCCACAAGTCAGTGGCAA
Found at i:1091716 original size:30 final size:29
Alignment explanation
Indices: 1091317--1091703 Score: 395
Period size: 27 Copynumber: 13.5 Consensus size: 29
1091307 TTCCTCACCC
* *
1091317 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-CT
1091347 TTC-AAAGCCCACAAGTCAGTGGCAACC-
1 TTCAAAAGCCCACAAGTCAGTGGCAACCT
* *
1091374 TTC-AAAGCCCACAAATCAGTGGCATCCT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCT
* *
1091402 TCTCCCAAAGCCCACAAGTCAGTAGCAACC-
1 T-T-CAAAAGCCCACAAGTCAGTGGCAACCT
* * *
1091432 TTC-AAAGCCCAAAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
*
1091461 TTCCCAAAGCCCACAAGTCAGTGGCAACC-
1 TT-CAAAAGCCCACAAGTCAGTGGCAACCT
* * *
1091490 TTCAAAAGCCCACAAGTTAGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-CT
*
1091520 TTC-AAAGCCCATAAGTCAGTGGCAACC-
1 TTCAAAAGCCCACAAGTCAGTGGCAACCT
* * *
1091547 TTC-AAAGCCCACAAATCAGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAAC-CT
*
1091576 TTC-AAAGCCCACAAGTCAATGGCAACC-
1 TTCAAAAGCCCACAAGTCAGTGGCAACCT
* *
1091603 TTC-AAAGCCCACAAATCAGTGGCACCCT
1 TTCAAAAGCCCACAAGTCAGTGGCAACCT
* * *
1091631 TCTCAAAAGCCCACAAGTTACTGGCACCCTT
1 T-TCAAAAGCCCACAAGTCAGTGGCAACC-T
1091662 TTCAAAAGCCCACAAGTCAGTGGCAACC-
1 TTCAAAAGCCCACAAGTCAGTGGCAACCT
1091690 TTCAAAAGCCCACA
1 TTCAAAAGCCCACA
1091704 CAAGTTGGTG
Statistics
Matches: 302, Mismatches: 39, Indels: 34
0.81 0.10 0.09
Matches are distributed among these distances:
27 92 0.30
28 39 0.13
29 73 0.24
30 54 0.18
31 44 0.15
ACGTcount: A:0.33, C:0.32, G:0.15, T:0.20
Consensus pattern (29 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCT
Found at i:1091795 original size:49 final size:49
Alignment explanation
Indices: 1091737--1092097 Score: 430
Period size: 49 Copynumber: 7.5 Consensus size: 49
1091727 AATCCAATAA
* *
1091737 CGCTAGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGT
1 CGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAGTCCAATGT
* * * *
1091786 CGTTGGCCTTGAACCAACACATTGGCA----C--CTTTAAGTCCAATAT
1 CGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAGTCCAATGT
* *
1091829 CGCTGGCCTTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGT
1 CGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAGTCCAATGT
* * * * *
1091878 CGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATAT
1 CGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAGTCCAATGT
* * * *
1091927 CGTTGGCTTTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGT
1 CGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAGTCCAATGT
* * *
1091976 CGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATGT
1 CGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAGTCCAATGT
* * * *
1092025 CGTTGGCTTTGAATCAACATATTGGCACCGTCATCTTTAAGAT-CAATGT
1 CGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAG-TCCAATGT
* *
1092074 CGCTGGCCATGAAGCAGCACATTG
1 CGCTGGCCTTGAATCAGCACATTG
1092098 TCATTCTTCG
Statistics
Matches: 257, Mismatches: 48, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
43 37 0.14
45 1 0.00
47 1 0.00
49 217 0.84
50 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (49 bp):
CGCTGGCCTTGAATCAGCACATTGGCACCGTCATCTTTAAGTCCAATGT
Found at i:1091836 original size:43 final size:43
Alignment explanation
Indices: 1091771--1091857 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
1091761 GCACCGTCAT
* *
1091771 CTTTAAGTCCAATGTCGTTGGCCTTGAACCAACACATTGGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAACCAACACATTGGCAC
* * *
1091814 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAACCAACACATTGGCAC
1091857 C
1 C
1091858 GTCATCTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (43 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAACCAACACATTGGCAC
Found at i:1091961 original size:98 final size:98
Alignment explanation
Indices: 1091745--1092106 Score: 547
Period size: 98 Copynumber: 3.7 Consensus size: 98
1091735 AACGCTAGCC
* * * *
1091745 TTGAATCAGCATATTGGCACCGTCATCTTTAAGTCCAATGTCGTTGGCCTTGAACCAACACATTG
1 TTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
* * *
1091810 GCA----C--CTTTAAGTCCAATATCGCTGGCC
66 GCATCTTCATCTTTAAGTCCGATATCGTTGGCT
*
1091837 TTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATTG
1 TTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
1091902 GCATCTTCATCTTTAAGTCCGATATCGTTGGCT
66 GCATCTTCATCTTTAAGTCCGATATCGTTGGCT
1091935 TTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
1 TTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
*
1092000 GCATCTTCATCTTTAAGTCCGATGTCGTTGGCT
66 GCATCTTCATCTTTAAGTCCGATATCGTTGGCT
* * * *
1092033 TTGAATCAACATATTGGCACCGTCATCTTTAAGATCAATGTCGCTGGCCATGAAGCAGCACATTG
1 TTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
*
1092098 TCATTCTTC
66 GCA-TCTTC
1092107 GCATCTTCGA
Statistics
Matches: 248, Mismatches: 15, Indels: 7
0.92 0.06 0.03
Matches are distributed among these distances:
92 63 0.25
96 1 0.00
98 179 0.72
99 5 0.02
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (98 bp):
TTGAATCAGCATATTGGCACCGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTG
GCATCTTCATCTTTAAGTCCGATATCGTTGGCT
Found at i:1092886 original size:32 final size:33
Alignment explanation
Indices: 1092825--1092889 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
1092815 TTTCAACGAT
1092825 TTGTATCGATACATAAAGTGTTGTATCGATACA
1 TTGTATCGATACATAAAGTGTTGTATCGATACA
* *
1092858 TTGTATTGATACAT-AAGTTTTGTATCGATACA
1 TTGTATCGATACATAAAGTGTTGTATCGATACA
1092890 ATTTAAGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (33 bp):
TTGTATCGATACATAAAGTGTTGTATCGATACA
Found at i:1092929 original size:13 final size:13
Alignment explanation
Indices: 1092911--1092935 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1092901 TACCAAAAAA
1092911 TGTATCGATACAT
1 TGTATCGATACAT
1092924 TGTATCGATACA
1 TGTATCGATACA
1092936 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1093002 original size:52 final size:52
Alignment explanation
Indices: 1092944--1093072 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1092934 CACTGATCTT
* *
1092944 TGTATCGATACATGTAGGCAAATTTGCCTAAATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
*
1092996 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
1093048 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1093073 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:1097979 original size:20 final size:20
Alignment explanation
Indices: 1097954--1098024 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
1097944 AGACATAATG
*
1097954 TATCGATACATTGCAGAATA
1 TATCGATACATTGCAAAATA
* *
1097974 TATCGATACATT-CATACATG
1 TATCGATACATTGCA-AAATA
* *
1097994 TATCGATATATTG-AAAAAA
1 TATCGATACATTGCAAAATA
1098013 GTATCGATACAT
1 -TATCGATACAT
1098025 CTGGGTAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 4 0.10
20 36 0.90
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (20 bp):
TATCGATACATTGCAAAATA
Found at i:1098018 original size:40 final size:39
Alignment explanation
Indices: 1097947--1098024 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
1097937 GGTAAAAAGA
* *
1097947 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGCAAAAAATATCGATACATT
*
1097986 CATACATGTATCGATATATTG-AAAAAAGTATCGATACAT
1 CATA-ATGTATCGATACATTGCAAAAAA-TATCGATACAT
1098025 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 8 0.24
40 26 0.76
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (39 bp):
CATAATGTATCGATACATTGCAAAAAATATCGATACATT
Found at i:1098724 original size:28 final size:28
Alignment explanation
Indices: 1098579--1100044 Score: 1460
Period size: 28 Copynumber: 51.1 Consensus size: 28
1098569 TTTTTTTAAA
* *
1098579 AAAATGTGCCACTAACTTGTGTAGGCTTTG
1 AAAAGGTGCCACTGACTTGTG--GGCTTTG
* * *
1098609 AAAAAAGTTGCCACCGACACATGTGGGCTTTG
1 --AAAAGGTGCCACTG--ACTTGTGGGCTTTG
* * *
1098641 AAAAGAGTTACTACTGGCTTGTGGGCTTTG
1 AAAAG-G-TGCCACTGACTTGTGGGCTTTG
*
1098671 AAAAGAGTGTCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
1098700 AAAAGGTGCCATTGACTTGTGGGCTTT-
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
1098727 TAAAGGATGCCACTAACTTGTGGGCTTTGG
1 AAAAGG-TGCCACTGACTTGTGGGCTTT-G
1098757 AAAA-GTGCCACTGACTTGTGGGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1098783 AAAAAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1098811 AAAAAGTGCCACTGACTTGTGGGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1098838 AAAA-GTGCCACTCACTTGTGGGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * **
1098864 AAATGGTGCCATTGACTCATGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * **
1098892 AAAGGGTGTCACTGACTCATGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1098920 AAAGGAGTGCCACTGACTTGCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTT--GTGGGCTTTG
*
1098951 AAAAGAGTGCTACTGACTTGCGTGGGCTTT-
1 AAAAG-GTGCCACTGACTT--GTGGGCTTTG
1098981 AAAAGGGTGCCACTGACTTGCGTGGGCTTTG
1 AAAA-GGTGCCACTGACTT--GTGGGCTTTG
* *
1099012 -AAAGGATGCCACTAACTTGTGGGTTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
**
1099040 -AAAGAGTGCCACTGACTCATGGGC-TTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
1099067 AAAATGTGCCACTGACTTGCGTGGGCTTT-
1 AAAAGGTGCCACTGACTT--GTGGGCTTTG
1099096 AAAAGGGTGCCACTGACTTGCATGGGCTTTG
1 AAAA-GGTGCCACTGACTTG--TGGGCTTTG
*
1099127 -AAAGGATGCCATTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* *
1099155 -GAAGAGTGCCACTGACTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
1099183 AAAAAGTGCCACTGACTTGCGTGGGCTTT-
1 AAAAGGTGCCACTGACTT--GTGGGCTTTG
* *
1099212 AAAAGGGTTCCACTGACATGCGTGGGCTTTG
1 AAAA-GGTGCCACTGAC-T-TGTGGGCTTTG
*
1099243 -AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
1099271 -AAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
1099299 AAAAAGGTGCCACTAACTCGTGGGCTTTG
1 -AAAAGGTGCCACTGACTTGTGGGCTTTG
1099328 AAAAGGTGCCACTGACTTGCGTGGGCTTTG
1 AAAAGGTGCCACTGACTT--GTGGGCTTTG
*
1099358 -AAAGAGTGCCACTGACTCGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
1099386 AAAAGGTGCCACTGACTCGTGAGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* * *
1099413 AAAGGGTGCCACTAACTCGTGGGCTTT-
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
1099440 AAAGGGTGCCACTGACTTATGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
1099468 AAAAAAGTGCCACTGACTTGTAGGCTTTG
1 -AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1099497 AAAGGAGTTGCCACTGACTTGTGTGGGCTTTG
1 AAA--AGGTGCCACTGAC-T-TGTGGGCTTTG
*
1099529 AAAAAAGTGCCACTGACTTGTGGGCTTTG
1 -AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1099558 AAAGGAGTTGCCACTGACTTGTGTGGGCTTTG
1 AAA--AGGTGCCACTGAC-T-TGTGGGCTTTG
* *
1099590 AAAGGAGTGCCACTAACTTGTATGGGCTTTG
1 AAAAG-GTGCCACTGACTTG--TGGGCTTTG
1099621 -AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGG-TGCCACTGACTTGTGGGCTTTG
* * *
1099649 -AAAGAGTGCAACTGAATTGTGGGCTTCG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* * *
1099677 AAAGGGTCCCACTGACTTGTGAGC-TTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
* *
1099704 AAAAGGTGCCACTAACTTGTAGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
** *
1099732 -AAAGAGTGCTGCTGACTTGTCGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
1099760 -AAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
1099788 -AAAGAGTGCCACTGACTTGTGGGC-TTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
1099815 AAAAGGTGCCACTAACTTGTAGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
** *
1099843 -AAAGAGTGCTGCTGACTTGTCGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
1099871 -AAAGAGTGCCACTGACTTGTCGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
1099899 -AAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
1099927 AAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTG
*
1099955 AAAAGAGTGCCACTAACTTGTGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
*
1099984 AAAAGGGTGCCACTGACTCGTGGGCTTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTG
**
1100013 AAAAGAGTGCCACTGACTCATGGGCTTTG
1 AAAAG-GTGCCACTGACTTGTGGGCTTTG
1100042 AAA
1 AAA
1100045 GGGATGAACA
Statistics
Matches: 1239, Mismatches: 125, Indels: 143
0.82 0.08 0.09
Matches are distributed among these distances:
26 29 0.02
27 160 0.13
28 502 0.41
29 211 0.17
30 212 0.17
31 70 0.06
32 46 0.04
33 3 0.00
34 6 0.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (28 bp):
AAAAGGTGCCACTGACTTGTGGGCTTTG
Found at i:1099496 original size:111 final size:113
Alignment explanation
Indices: 1098584--1100044 Score: 1557
Period size: 111 Copynumber: 12.7 Consensus size: 113
1098574 TTAAAAAAAT
* * * * *
1098584 GTGCCACTAACTTGTGTAGGCTTTGAAAAAAGTTGCCACCGACACATGTGGGCTTTGAAAAGAGT
1 GTGCCACTGACTTGTG--GGCTTTG-AAAGAG-TGCCACTGACTC--GTGGGCTTTG-AAAG-GG
* * * * *
1098649 TACTACTGGCTTGTGGGCTTTGAAAAGAGTGTCACTGACTTGTGGGCTTTGAAA-A
58 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGA
* * * * *
1098704 GGTGCCATTGACTTGTGGGCTTTTAAAG-GATGCCACTAACTTGTGGGCTTTGGAAA-AGTGCCA
1 -GTGCCACTGACTTGTGGGCTTTGAAAGAG-TGCCACTGACTCGTGGGCTTT-GAAAGGGTGCCA
* *
1098767 CTGACTTGTGGGC-TTGAAAA-AGTGCCACTGACTTGTGGGCTTTGAAAAA
63 CTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGA
* * * *
1098816 GTGCCACTGACTTGTGGGC-TTGAAA-AGTGCCACTCACTTGTGGGC-TTGAAATGGTGCCATTG
1 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTG
** * * * **
1098878 ACTCATGGGCTTTG-AAAGGGTGTCACTGACTCATGGGCTTTGAAAGGA
66 ACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAA-GA
* *
1098926 GTGCCACTGACTTGCGTGGGCTTTGAAAAGAGTGCTACTGACTTGCGTGGGCTTTAAAAGGGTGC
1 GTGCCACTGACTT--GTGGGCTTTG-AAAGAGTGCCACTGAC-T-CGTGGGCTTTGAAAGGGTGC
* *
1098991 CACTGACTTGCGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGTTTTGAAAGA
61 CACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGA
** *
1099045 GTGCCACTGACTCATGGGC-TTGAAA-ATGTGCCACTGACTTGCGTGGGCTTTAAAAGGGTGCCA
1 GTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGAC-T-CGTGGGCTTTGAAAGGGTGCCA
* * * *
1099108 CTGACTTGCATGGGCTTTGAAAGGA-TGCCATTGACTTGTGGGCTTTGGAAGA
63 CTGACTTG--TGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGA
* * * *
1099160 GTGCCACTGACTCGTGGGCTTTGAAAAAGTGCCACTGACTTGCGTGGGCTTTAAAAGGGTTCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGAC-T-CGTGGGCTTTGAAAGGGTGCCAC
* *
1099225 TGACATGCGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAAGA
64 TGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGA
* * *
1099276 GTGCCACTGACTTGTGGGCTTTGAAAAAGGTGCCACTAACTCGTGGGCTTTGAAAAGGTGCCACT
1 GTGCCACTGACTTGTGGGCTTTGAAAGA-GTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACT
* *
1099341 GACTTGCGTGGGCTTTG-AAAGAGTGCCACTGACTCGTGGGCTTTGAAA-A
65 GACTT--GTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGA
* * * *
1099390 GGTGCCACTGACTCGTGAGC-TTGAAAGGGTGCCACTAACTCGTGGGCTTT-AAAGGGTGCCACT
1 -GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACT
* * * *
1099453 GACTTATGGGCTTTGAAAAAAGTGCCACTGACTTGTAGGCTTTGAAAGGA
65 GACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAA-GA
* *
1099503 GTTGCCACTGACTTGTGTGGGCTTTGAAAAAAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTTG
1 G-TGCCACTGAC-T-TGTGGGCTTTG-AAAGAGTGCCACTGACTCGTGGGCTTTGAAAGG-G-TG
*
1099568 CCACTGACTTGTGTGGGCTTTGAAAGGAGTGCCACTAACTTGTATGGGCTTTGAAAG-
60 CCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTAACTTG--TGGGCTTTGAAAGA
* * * * *
1099625 GATGCCACTGACTTGTGGGCTTTGAAAGAGTGCAACTGAATTGTGGGCTTCGAAAGGGTCCCACT
1 G-TGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACT
* *
1099690 GACTTGTGAGC-TTGAAAAG-GTGCCACTAACTTGTAGGCTTTGAAAGA
65 GACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGA
** * * *
1099737 GTGCTGCTGACTTGTCGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTG
1 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTG
*
1099802 ACTTGTGGGC-TTGAAAAG-GTGCCACTAACTTGTAGGCTTTGAAAGA
66 ACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGA
** * * * *
1099848 GTGCTGCTGACTTGTCGGCTTTGAAAGAGTGCCACTGACTTGTCGGCTTTGAAAGAGTGCCACTG
1 GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTG
*
1099913 ACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGA
66 ACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGA
* * *
1099961 GTGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCACTGACTCGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTCGTGGGCTTTG-AAAGGGTGCCAC
**
1100026 TGACTCATGGGCTTTGAAA
64 TGACTTGTGGGCTTTGAAA
1100045 GGGATGAACA
Statistics
Matches: 1175, Mismatches: 113, Indels: 109
0.84 0.08 0.08
Matches are distributed among these distances:
107 4 0.00
108 21 0.02
109 43 0.04
110 29 0.02
111 263 0.22
112 58 0.05
113 90 0.08
114 49 0.04
115 234 0.20
116 124 0.11
117 64 0.05
118 27 0.02
119 50 0.04
120 50 0.04
121 19 0.02
122 38 0.03
123 1 0.00
124 11 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (113 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAGGGTGCCACTG
ACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGA
Found at i:1101298 original size:20 final size:19
Alignment explanation
Indices: 1101275--1101313 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
1101265 TTTTGCCATT
1101275 TTTTCTTGGTTTTTTTTTTG
1 TTTT-TTGGTTTTTTTTTTG
*
1101295 TTTTTTTGTTTTTTTTTTG
1 TTTTTTGGTTTTTTTTTTG
1101314 GGTGTAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.85
Consensus pattern (19 bp):
TTTTTTGGTTTTTTTTTTG
Found at i:1105585 original size:20 final size:20
Alignment explanation
Indices: 1105562--1105635 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
1105552 ACAATTCAAA
1105562 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
* ****
1105582 GTATCAATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1105603 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1105623 GTATCGATACATG
1 GTATCGATACATG
1105636 AAAAAGATGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1105606 original size:21 final size:21
Alignment explanation
Indices: 1105580--1105650 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
1105570 ACATGTTGCA
*
1105580 ATGTATCAATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1105601 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
1105621 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
1105642 ATGTATCGA
1 ATGTATCGA
1105651 CCCAAGAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 16 0.40
21 24 0.60
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.28
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1105612 original size:41 final size:41
Alignment explanation
Indices: 1105562--1105650 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
1105552 ACAATTCAAA
1105562 GTATCGATACATGTTGCAATGTATCAATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCAATACATGAAAAAGAT
*
1105603 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCAATACATGAAAAAGAT
1105644 GTATCGA
1 GTATCGA
1105651 CCCAAGAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.29
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCAATACATGAAAAAGAT
Found at i:1105659 original size:21 final size:21
Alignment explanation
Indices: 1105621--1105660 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1105611 ACATGTTGCA
* *
1105621 ATGTATCGATACATGAAAAAG
1 ATGTATCGACACAAGAAAAAG
*
1105642 ATGTATCGACCCAAGAAAA
1 ATGTATCGACACAAGAAAA
1105661 TTTGGGTACC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (21 bp):
ATGTATCGACACAAGAAAAAG
Found at i:1106794 original size:13 final size:13
Alignment explanation
Indices: 1106776--1106805 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1106766 ATTTTTCCAG
1106776 ATTGTATCGATAC
1 ATTGTATCGATAC
1106789 ATTGTATCGATAC
1 ATTGTATCGATAC
1106802 ATTG
1 ATTG
1106806 CTTCAGTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:1108591 original size:20 final size:20
Alignment explanation
Indices: 1108568--1108641 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1108558 ACAATTCAAA
1108568 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1108588 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1108609 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1108629 GTATCGATACATG
1 GTATCGATACATG
1108642 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Done.