Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 87 of 172
Found at i:28979336 original size:15 final size:15
Alignment explanation
Indices: 28979316--28979346 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
28979306 TTTTACAACA
28979316 CTTAGGAAAAATTTT
1 CTTAGGAAAAATTTT
28979331 CTTAGGAAAAATTTT
1 CTTAGGAAAAATTTT
28979346 C
1 C
28979347 CCAAGTTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (15 bp):
CTTAGGAAAAATTTT
Found at i:28986360 original size:24 final size:23
Alignment explanation
Indices: 28986315--28986427 Score: 83
Period size: 23 Copynumber: 4.8 Consensus size: 23
28986305 AAGCTCCTCC
*
28986315 TGAGCTGATGAATAGTAAGCTCTAT
1 TGAGCTGA-AAAT-GTAAGCTCTAT
28986340 TGAGCTGAAAATGGTAAGCTCTAT
1 TGAGCTGAAAAT-GTAAGCTCTAT
*
28986364 TGAGCT-AAACA-GTAAGCTCTTT
1 TGAGCTGAAA-ATGTAAGCTCTAT
* * *
28986386 TAAGCTGAATCA-GTAAGCT-TCAA
1 TGAGCTGAA-AATGTAAGCTCT-AT
28986409 TGAGCTG-AAATAGTAAGCT
1 TGAGCTGAAAAT-GTAAGCT
28986428 TTTACAAGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
21 1 0.01
22 17 0.23
23 26 0.36
24 21 0.29
25 8 0.11
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (23 bp):
TGAGCTGAAAATGTAAGCTCTAT
Found at i:28986424 original size:46 final size:46
Alignment explanation
Indices: 28986315--28986427 Score: 115
Period size: 46 Copynumber: 2.4 Consensus size: 46
28986305 AAGCTCCTCC
* * *
28986315 TGAGCTGATGAATAGTAAGCTCTATTGAGCTGAAAATGGTAAGCTCTAT
1 TGAGCTGA--AATAGTAAGCTCTATTAAGCTG-AAATAGTAAGCTCTAA
* *
28986364 TGAGCT-AAACAGTAAGCTCTTTTAAGCTG-AATCAGTAAGCT-TCAA
1 TGAGCTGAAATAGTAAGCTCTATTAAGCTGAAAT-AGTAAGCTCT-AA
28986409 TGAGCTGAAATAGTAAGCT
1 TGAGCTGAAATAGTAAGCT
28986428 TTTACAAGCT
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
44 4 0.07
45 14 0.25
46 30 0.55
48 1 0.02
49 6 0.11
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
TGAGCTGAAATAGTAAGCTCTATTAAGCTGAAATAGTAAGCTCTAA
Found at i:29004272 original size:3 final size:3
Alignment explanation
Indices: 29004264--29004290 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
29004254 AATATAAAGT
29004264 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
29004291 AGGAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:29004353 original size:15 final size:16
Alignment explanation
Indices: 29004327--29004360 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
29004317 ATCTAAATTA
29004327 AAAAAAGAAAAGAAAG
1 AAAAAAGAAAAGAAAG
29004343 AAAAAAG-AAAGAAAG
1 AAAAAAGAAAAGAAAG
29004358 AAA
1 AAA
29004361 GGGAGAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAGAAAG
Found at i:29006049 original size:29 final size:29
Alignment explanation
Indices: 29005986--29006053 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
29005976 TAATCAACCG
29005986 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
29006015 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
29006044 CGCACACTTA
1 CGCACACTTA
29006054 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:29006223 original size:29 final size:29
Alignment explanation
Indices: 29006160--29006227 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
29006150 TAATCAACCG
29006160 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
29006189 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
29006218 CGCACACTTA
1 CGCACACTTA
29006228 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:29006369 original size:29 final size:30
Alignment explanation
Indices: 29006335--29006406 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
29006325 ATCAACCGCG
*
29006335 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
29006364 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
29006393 CACACTTAGTGCCA
1 CACACTTAGTGCCA
29006407 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:29006400 original size:173 final size:174
Alignment explanation
Indices: 29005875--29006375 Score: 941
Period size: 174 Copynumber: 2.9 Consensus size: 174
29005865 AACTCAAGGT
* *
29005875 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
29005940 GAAAATATATTTTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
29006005 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
29006049 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
29006114 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
29006179 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
29006223 ACTTACCTTTTCCGCTGTCCAAAATCAACTCGGTAAAGTCGCACCC-TAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
29006287 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
29006352 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
29006376 TGTACAATTT
Statistics
Matches: 321, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
173 105 0.33
174 216 0.67
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:29016685 original size:23 final size:22
Alignment explanation
Indices: 29016655--29016702 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 22
29016645 CATGGTATTA
29016655 CTTAAGGTCGAATACTCTTTCC
1 CTTAAGGTCGAATACTCTTTCC
29016677 NCTTAAGGTCGAATACTCTTTCC
1 -CTTAAGGTCGAATACTCTTTCC
29016700 CTT
1 CTT
29016703 TCTTGCCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.38
Consensus pattern (22 bp):
CTTAAGGTCGAATACTCTTTCC
Found at i:29017509 original size:21 final size:22
Alignment explanation
Indices: 29017469--29017509 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
29017459 TTCTAAATAA
* *
29017469 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
29017491 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
29017510 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:29018751 original size:15 final size:16
Alignment explanation
Indices: 29018724--29018753 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
29018714 AGATATTCCA
29018724 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
29018740 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
29018754 GGCAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:29023106 original size:18 final size:20
Alignment explanation
Indices: 29023069--29023106 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
29023059 ATAAGCAAAG
*
29023069 TTTAGTGTGAAAATTGAAAT
1 TTTAGTGTGAAAACTGAAAT
29023089 TTTA-TGTG-AAACTGAAAT
1 TTTAGTGTGAAAACTGAAAT
29023107 GTGTAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 4 0.24
20 4 0.24
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (20 bp):
TTTAGTGTGAAAACTGAAAT
Found at i:29029254 original size:39 final size:40
Alignment explanation
Indices: 29029154--29029338 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
29029144 TCGAATGATG
* * *
29029154 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
29029193 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
29029234 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
29029273 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
29029312 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
29029339 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:29029360 original size:79 final size:79
Alignment explanation
Indices: 29029207--29029371 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
29029197 GGACTAAGAT
* * **
29029207 CCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
29029272 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
29029286 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
29029349 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
29029365 CCGAAGG
1 CCGAAGG
29029372 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:29032060 original size:46 final size:49
Alignment explanation
Indices: 29031818--29032180 Score: 293
Period size: 46 Copynumber: 7.7 Consensus size: 49
29031808 AGGGTATAAT
* * *
29031818 GTCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCATCCATC-A-A-
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TACATCTAGAG
** * *
29031865 GTCGATGCCATGTCCCAGACATGGTCTTACACTAACTATTGAAAT-T-GAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CT-ACATCTAGAG
* * * * * * *
29031914 GCCGACGGCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCT-AGAG
* * *
29031965 CT-GATGCCATGTCCCAGACATGGTCTTACACT-G-AC-ACATCTCGTA-
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTAG-AG
29032010 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTAGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTAGAG
* * *
29032056 GTCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCA-AT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCT-AGAG
* *
29032102 G-CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATA-TG
1 GTC-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-CTAGAG
29032150 GTCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT
29032181 AGCACACAAA
Statistics
Matches: 262, Mismatches: 33, Indels: 43
0.78 0.10 0.13
Matches are distributed among these distances:
44 10 0.04
45 20 0.08
46 70 0.27
47 64 0.24
48 31 0.12
49 37 0.14
50 28 0.11
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTAGAG
Found at i:29032129 original size:94 final size:94
Alignment explanation
Indices: 29031814--29032183 Score: 329
Period size: 94 Copynumber: 3.9 Consensus size: 94
29031804 ACATAGGGTA
* * * *
29031814 TAATGTCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCATCCAT-CAA-GTCGATGCCATG
1 TAATG-CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TACATATAAGGTCGATGCCATG
* * *
29031877 TCCCAGACATGGTCTTACACTAACTATTGAAAT-
64 TCCCAGACATGGTCTTACACTAGCTCTCG---TC
* * * * * **
29031910 TGAGGCCGACGGCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAT-CCGTGCTGATGCCA
1 TAATG-CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATATAAGGT-C-GATGCCA
*
29031974 TGTCCCAGACATGGTCTTACACT-GACACATC-TC
62 TGTCCCAGACATGGTCTTACACTAG-CTC-TCGTC
* *
29032007 GTAGT-CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTAGAGGTCGATG-CATG
1 -TAATGCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATA-AGGTCGATGCCATG
29032067 TCCCAGACAT-GTCTTACACTAGCTCTCGTC
64 TCCCAGACATGGTCTTACACTAGCTCTCGTC
*
29032097 TCAATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATATGGTCGATG-CAT
1 T-AATGC-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-ATAAGGTCGATGCCAT
29032160 GTCCCAGACAT-GTCTTACACTAGC
63 GTCCCAGACATGGTCTTACACTAGC
29032184 ACACAAATAA
Statistics
Matches: 227, Mismatches: 27, Indels: 42
0.77 0.09 0.14
Matches are distributed among these distances:
89 3 0.01
90 16 0.07
91 16 0.07
92 13 0.06
93 16 0.07
94 67 0.30
95 18 0.08
96 42 0.19
97 2 0.01
98 2 0.01
99 31 0.14
100 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (94 bp):
TAATGCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATATAAGGTCGATGCCATGTC
CCAGACATGGTCTTACACTAGCTCTCGTC
Found at i:29032167 original size:140 final size:142
Alignment explanation
Indices: 29031821--29032181 Score: 450
Period size: 140 Copynumber: 2.5 Consensus size: 142
29031811 GTATAATGTC
* *
29031821 GATGCCATGTCCCAAACATGGTCTTACATTGGCTCATCCATCA-AGTCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CATCATAGTCGATG-CATGTCCCAGAC
29031885 ATGGTCTTACACTAACTATTGAAATTGAGGCCGACGGCATGTCCCAGACATGGTCTTACACTAGC
64 AT-GTCTTACACTAAC-ATTGAAATTGAGGCCGACGGCATGTCCCAGACATGGTCTTACACTAGC
**
29031950 TCTCACATATCCGTGCT
127 TCT-ACATATCAATGCT
* * *
29031967 GATGCCATGTCCCAGACATGGTCTTACACTGACACATC-TCGTAGTCGATGCATGTCCCAGACAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCATAGTCGATGCATGTCCCAGACAT
** * * *
29032031 GTCTTACACTGGC-TT-ACATCTAGAGGTCGA-TGCATGTCCCAGACAT-GTCTTACACTAGCTC
66 GTCTTACACTAACATTGAAAT-T-GAGGCCGACGGCATGTCCCAGACATGGTCTTACACTAGCTC
* *
29032092 T-CGTCTCAATGCT
129 TACATATCAATGCT
*
29032105 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATATGGTCGATGCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCATA--GTCGATGCATGTCCCAGAC
29032169 ATGTCTTACACTA
64 ATGTCTTACACTA
29032182 GCACACAAAT
Statistics
Matches: 190, Mismatches: 19, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
137 2 0.01
138 44 0.23
140 50 0.26
141 18 0.09
142 7 0.04
143 11 0.06
144 16 0.08
145 9 0.05
146 33 0.17
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (142 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCATAGTCGATGCATGTCCCAGACAT
GTCTTACACTAACATTGAAATTGAGGCCGACGGCATGTCCCAGACATGGTCTTACACTAGCTCTA
CATATCAATGCT
Found at i:29038468 original size:27 final size:27
Alignment explanation
Indices: 29038425--29038481 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
29038415 TACGCACGAG
*
29038425 GGGCAAAATAGTCATTTAACACCC-TAA
1 GGGCAAAATAGTAATTTAAC-CCCATAA
* *
29038452 GGGCAAAATGGTAATTTTACCCCATAA
1 GGGCAAAATAGTAATTTAACCCCATAA
29038479 GGG
1 GGG
29038482 TATCTCGGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 3 0.12
27 23 0.88
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
GGGCAAAATAGTAATTTAACCCCATAA
Found at i:29038534 original size:27 final size:27
Alignment explanation
Indices: 29038460--29038552 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
29038450 AAGGGCAAAA
* * * * *
29038460 TGGTAATTTTACCCCATAAGGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
29038487 CGGTAATTCTACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
29038514 TGGTAATTCTACCTTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
29038541 TGCTAATTCTAC
1 TGGTAATTCTAC
29038553 AAGTTATCCA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:29047692 original size:67 final size:67
Alignment explanation
Indices: 29047584--29048441 Score: 1664
Period size: 67 Copynumber: 12.8 Consensus size: 67
29047574 AACACATAAT
* * * * *
29047584 ACCACCCATGTGACCTAGCCA-GTTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
1 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
29047648 GA
66 GA
29047650 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
1 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
29047715 GA
66 GA
29047717 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
1 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
29047782 GA
66 GA
29047784 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
1 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
29047849 GA
66 GA
29047851 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
1 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
29047916 GA
66 GA
29047918 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
1 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
29047983 GA
66 GA
29047985 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
1 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
29048050 GA
66 GA
29048052 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
1 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
29048117 GA
66 GA
29048119 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
1 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
29048184 GA
66 GA
29048186 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
1 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
29048251 GA
66 GA
29048253 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
1 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
29048318 GA
66 GA
29048320 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
1 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
29048385 GA
66 GA
29048387 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGT
1 ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGT
29048442 ACACATAGTA
Statistics
Matches: 786, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
66 18 0.02
67 768 0.98
ACGTcount: A:0.19, C:0.31, G:0.19, T:0.30
Consensus pattern (67 bp):
ACCACGCATGCGACCTAGCTACGTATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTG
GA
Found at i:29048899 original size:18 final size:19
Alignment explanation
Indices: 29048876--29048911 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29048866 TAAACTTGGC
*
29048876 AACATAA-TCATTTAATTT
1 AACATAATTCAATTAATTT
29048894 AACATAATTCAATTAATT
1 AACATAATTCAATTAATT
29048912 CACTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (19 bp):
AACATAATTCAATTAATTT
Found at i:29049243 original size:30 final size:30
Alignment explanation
Indices: 29049209--29049267 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
29049199 TCCTTAACTC
29049209 AAACTTTTGAAAAATTACAATTTTGCCCCA
1 AAACTTTTGAAAAATTACAATTTTGCCCCA
* * * *
29049239 AAACTTTTGCATATTTACACTTTTGCCCC
1 AAACTTTTGAAAAATTACAATTTTGCCCC
29049268 TAGGCTCGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCA
Found at i:29058877 original size:27 final size:26
Alignment explanation
Indices: 29058833--29058884 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
29058823 CTCACTGCAA
*
29058833 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
29058860 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
29058885 GCAGCCTCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:29058961 original size:27 final size:27
Alignment explanation
Indices: 29058923--29059009 Score: 95
Period size: 27 Copynumber: 3.3 Consensus size: 27
29058913 CCACATATAT
*
29058923 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * * *
29058949 ATATTTGTATCTGGTGACTTTGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
29058976 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
29059003 ATATCTG
1 ATATCTG
29059010 GCAGCCTCGT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 7 0.13
27 46 0.87
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:29060487 original size:79 final size:78
Alignment explanation
Indices: 29060385--29060605 Score: 241
Period size: 79 Copynumber: 2.8 Consensus size: 78
29060375 GCTTCTCGTT
* * *
29060385 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
*
29060450 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* * *
29060465 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGAA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAA
*
29060529 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * * *
29060543 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCG
29060606 GACATCATTC
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
78 43 0.36
79 58 0.48
80 20 0.17
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAA
TTAGTAACTCGCA
Found at i:29060506 original size:39 final size:40
Alignment explanation
Indices: 29060385--29060607 Score: 262
Period size: 39 Copynumber: 5.7 Consensus size: 40
29060375 GCTTCTCGTT
* *
29060385 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
29060425 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
29060465 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
29060504 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
29060543 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
29060584 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29060608 CATCATTCAA
Statistics
Matches: 163, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 86 0.53
40 65 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:29062953 original size:27 final size:27
Alignment explanation
Indices: 29062923--29063199 Score: 401
Period size: 27 Copynumber: 10.3 Consensus size: 27
29062913 GTTACAGTAT
*
29062923 TTTTACCCTACCGGGGCATTACGGTCA
1 TTTTACCCTACAGGGGCATTACGGTCA
* *
29062950 TTTTACCCTACAGGCGCATTGCGGTCA
1 TTTTACCCTACAGGGGCATTACGGTCA
*
29062977 TTTTACCCTACAGGGGTATTACGGTCA
1 TTTTACCCTACAGGGGCATTACGGTCA
*
29063004 TTTTACCCTACAGAGGCATTACGGTCA
1 TTTTACCCTACAGGGGCATTACGGTCA
*
29063031 TTTTACCCTACAGGGGTATTACGGTCA
1 TTTTACCCTACAGGGGCATTACGGTCA
*
29063058 TTTTACCCTACAGGGGCATTACAGTCA
1 TTTTACCCTACAGGGGCATTACGGTCA
*
29063085 TCTTACCCTACAGGGGCATTACGGTCA
1 TTTTACCCTACAGGGGCATTACGGTCA
* * *
29063112 TTTTACCCTACAAGGGCATTACTGTTA
1 TTTTACCCTACAGGGGCATTACGGTCA
* *
29063139 ATTTACCCTACAGGGGCATTACAGTCA
1 TTTTACCCTACAGGGGCATTACGGTCA
* * **
29063166 TTTTACCCTACAAGAGTGTTACGGTCA
1 TTTTACCCTACAGGGGCATTACGGTCA
29063193 TTTTACC
1 TTTTACC
29063200 TATTTTGGGG
Statistics
Matches: 222, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 222 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.31
Consensus pattern (27 bp):
TTTTACCCTACAGGGGCATTACGGTCA
Found at i:29071649 original size:36 final size:36
Alignment explanation
Indices: 29071602--29071674 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
29071592 CAAATTCGTC
29071602 AAAAGGCAATAGCATCAGATCAGCAGGAAAATAGGT
1 AAAAGGCAATAGCATCAGATCAGCAGGAAAATAGGT
*
29071638 AAAAGGCAATAGCATCAGATCAGGAGGAAAATAGGT
1 AAAAGGCAATAGCATCAGATCAGCAGGAAAATAGGT
29071674 A
1 A
29071675 TCTCGAATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.48, C:0.12, G:0.26, T:0.14
Consensus pattern (36 bp):
AAAAGGCAATAGCATCAGATCAGCAGGAAAATAGGT
Found at i:29075935 original size:48 final size:48
Alignment explanation
Indices: 29075864--29076298 Score: 690
Period size: 48 Copynumber: 9.0 Consensus size: 48
29075854 CAAGATAAAT
* * *
29075864 ATATATATGTGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
29075912 ATATGTACATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
29075960 ATATGTATATGTGGTAAAGTCGAATGGCTAATATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
29076008 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
29076056 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATTTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
29076104 ATATATATATGTGGTAAAGCTGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
29076152 ATATGTATATATGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
29076200 ATATGTATATGAGGTAAAGCCGAATGGCTAGTGTGAAATATGTGATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGT-ATGAG
* *
29076249 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
29076297 AT
1 AT
29076299 GTGTGTATAT
Statistics
Matches: 356, Mismatches: 30, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
48 311 0.87
49 45 0.13
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:29080143 original size:33 final size:34
Alignment explanation
Indices: 29080100--29080165 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
29080090 ATAGTGCATG
* *
29080100 TAGTAACAGTCTGAGCCTGAGCCTTATTCAGTAT
1 TAGTAACAGTCTGAGCCTGAGCCCTATACAGTAT
* *
29080134 TAGT-ACAGTCTGGGCCTTAGCCCTATACAGTA
1 TAGTAACAGTCTGAGCCTGAGCCCTATACAGTA
29080166 ACAGTGTGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (34 bp):
TAGTAACAGTCTGAGCCTGAGCCCTATACAGTAT
Found at i:29080198 original size:28 final size:28
Alignment explanation
Indices: 29080138--29080198 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
29080128 CAGTATTAGT
* * *
29080138 ACAGTCTGGGCCTTAGCCCTATACAGTA
1 ACAGTCTGGGCCTAAGCCCAATACAATA
*
29080166 ACAGTGTGGGCCTAAGCCCAATACAATA
1 ACAGTCTGGGCCTAAGCCCAATACAATA
*
29080194 TCAGT
1 ACAGT
29080199 ATAGTGTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (28 bp):
ACAGTCTGGGCCTAAGCCCAATACAATA
Found at i:29080430 original size:27 final size:27
Alignment explanation
Indices: 29080356--29080431 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
29080346 CTTCCAAAAT
* *
29080356 AGTAAGTGTGACA-AAGCCACCAGTATC
1 AGTAATTGTGACACAA-CCACCAGTAAC
*
29080383 AGTAATTGTGGCACAACCACCAGTAAC
1 AGTAATTGTGACACAACCACCAGTAAC
* *
29080410 AGTGAA-TGTGACATAATCACCA
1 AGT-AATTGTGACACAACCACCA
29080432 CTACAATACT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 37 0.90
28 4 0.10
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (27 bp):
AGTAATTGTGACACAACCACCAGTAAC
Found at i:29080626 original size:27 final size:27
Alignment explanation
Indices: 29080596--29080692 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 27
29080586 ATACGGGGGT
* * *
29080596 ATTATGGTGATTTTACCCTAGAGGGAC
1 ATTACGGTCATTTTACCCTACAGGGAC
*
29080623 ATTACGGTCATTTTA-CCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGAC
* * *
29080649 ACTACGGTCATTTTACCCTACAAGGAT
1 ATTACGGTCATTTTACCCTACAGGGAC
* *
29080676 GTTACGATCATTTTACC
1 ATTACGGTCATTTTACC
29080693 TATTTTGGGG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 23 0.40
27 35 0.60
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGAC
Found at i:29080654 original size:26 final size:27
Alignment explanation
Indices: 29080605--29080670 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 27
29080595 TATTATGGTG
* *
29080605 ATTTTACCCTAGAGGGACATTACGGTC
1 ATTTTACCCTACAGGGACACTACGGTC
*
29080632 ATTTTA-CCTACAGGGGCACTACGGTC
1 ATTTTACCCTACAGGGACACTACGGTC
29080658 ATTTTACCCTACA
1 ATTTTACCCTACA
29080671 AGGATGTTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
26 23 0.66
27 12 0.34
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (27 bp):
ATTTTACCCTACAGGGACACTACGGTC
Found at i:29083706 original size:44 final size:42
Alignment explanation
Indices: 29083642--29083808 Score: 131
Period size: 42 Copynumber: 3.9 Consensus size: 42
29083632 TAGTATTCTG
29083642 ATATGTGATTCGTGTAAGACCACATCTGGGACGTTGGCATCA
1 ATATGTGATTCGTGTAAGACCACATCTGGGACGTTGGCATCA
* ** * *
29083684 ATTTGTGATTTACGTGTAAGACCATGTCTGGGACATCGGCATC-
1 ATATGTGA-TT-CGTGTAAGACCACATCTGGGACGTTGGCATCA
* * * ** *
29083727 GTATATGAGTTTGTGTAAGACCTTATCTGGGACAG-TGGCATTA
1 ATATGTGA-TTCGTGTAAGACCACATCTGGGAC-GTTGGCATCA
* ** * *
29083770 ATATGTGATTACATGTAAGACTGCGTCTTGGACGTTGGC
1 ATATGTGATT-CGTGTAAGACCACATCTGGGACGTTGGC
29083809 GTTTTACGAG
Statistics
Matches: 95, Mismatches: 24, Indels: 11
0.73 0.18 0.08
Matches are distributed among these distances:
42 34 0.36
43 34 0.36
44 27 0.28
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (42 bp):
ATATGTGATTCGTGTAAGACCACATCTGGGACGTTGGCATCA
Found at i:29085651 original size:6 final size:6
Alignment explanation
Indices: 29085640--29085671 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
29085630 AATCTGTATT
29085640 TTTTTA TTTTTA TTTTTA -TTTTA -TTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
29085672 CACAAATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:29087584 original size:119 final size:120
Alignment explanation
Indices: 29087402--29087624 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
29087392 TCCTCGTTCA
*
29087402 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
29087467 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
29087522 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
29087584 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
29087625 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:29087624 original size:40 final size:40
Alignment explanation
Indices: 29087400--29087624 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
29087390 GCTCCTCGTT
* *
29087400 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
29087440 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
29087480 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
29087520 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
29087559 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
29087600 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29087625 CATCATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:29093682 original size:79 final size:79
Alignment explanation
Indices: 29093591--29093748 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 79
29093581 CGCTATACTG
29093591 TAAGTTCCTAGTCGAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCATC
1 TAAGTTCCTAGTCGAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCATC
29093656 TAGGCAGATTCTTA
66 TAGGCAGATTCTTA
*
29093670 TAAGTTCCTAGTCGAGCATATGACCTGTTGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCATC
1 TAAGTTCCTAGTCGAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCATC
29093735 TAGGCAGATTCTTA
66 TAGGCAGATTCTTA
29093749 CTTTACTTAA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.39
Consensus pattern (79 bp):
TAAGTTCCTAGTCGAGCATATGACCTGTAGACAGATTTTTGGTAGTTTCTAAATGTTTGGTCATC
TAGGCAGATTCTTA
Found at i:29096837 original size:147 final size:147
Alignment explanation
Indices: 29096570--29096841 Score: 334
Period size: 147 Copynumber: 1.9 Consensus size: 147
29096560 CATTTCATCT
* * * *
29096570 CATTTCAAACCTTGATGCTCGAACACAACAATGTCCCCTCCACAAGGCCCGGAGCTTCACATATC
1 CATTTCAAACATTGATGCTCAAACACAACAATATCACCTCCACAAGGCCCGGAGCTTCACATATC
* * * **** ** *
29096635 ATGGTTTGTACCTAGCAATACTGGATTGTGGAATCTAATGAAAATTCCATTTCCCTATCCCTCGG
66 ACGGTTTGAACCTAGCAAAACTGGATTCCAAAATCTAACAAAAACTCCATTTCCCTATCCCTCGG
29096700 CCTATTCCTCTATTTTC
131 CCTATTCCTCTATTTTC
* * * *
29096717 CATTTCTAACATTGATGCTCAAACATC-ACAATATCACCTCTACAAGGTCTGGAGCTTCACATAT
1 CATTTCAAACATTGATGCTCAAACA-CAACAATATCACCTCCACAAGGCCCGGAGCTTCACATAT
29096781 CACGGTTTGCAACC-AGCAAGAAC-GGATTCCAAAATCTAACAAAAACTCCATTTCCCTATCC
65 CACGGTTTG-AACCTAGCAA-AACTGGATTCCAAAATCTAACAAAAACTCCATTTCCCTATCC
29096842 ATCTCATCAA
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
147 98 0.94
148 6 0.06
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (147 bp):
CATTTCAAACATTGATGCTCAAACACAACAATATCACCTCCACAAGGCCCGGAGCTTCACATATC
ACGGTTTGAACCTAGCAAAACTGGATTCCAAAATCTAACAAAAACTCCATTTCCCTATCCCTCGG
CCTATTCCTCTATTTTC
Found at i:29097255 original size:20 final size:20
Alignment explanation
Indices: 29097230--29097275 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
29097220 AGAAAAATAA
29097230 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
*
29097250 TTTCT-GAAAATGGTTTACT
1 TTTCTGGAAAATGATTTACT
29097269 TTTCTGG
1 TTTCTGG
29097276 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:29100542 original size:46 final size:45
Alignment explanation
Indices: 29100483--29100649 Score: 174
Period size: 46 Copynumber: 3.6 Consensus size: 45
29100473 GCCCATAAGC
*
29100483 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATACGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCATACGT
* * * * * **
29100529 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCATCCA-TACGT
* * *
29100576 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCATACGT
*
29100622 TAACTCGGACTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGTTCGG
29100650 ATGCTCAACC
Statistics
Matches: 96, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
45 1 0.01
46 59 0.61
47 34 0.35
48 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCATCCATACGT
Found at i:29100641 original size:93 final size:93
Alignment explanation
Indices: 29100482--29100653 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
29100472 CGCCCATAAG
* * * *
29100482 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATACGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29100547 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* *
29100575 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTTAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29100640 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
29100654 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:29102050 original size:39 final size:40
Alignment explanation
Indices: 29101973--29102052 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 40
29101963 AACCATAAAC
*
29101973 AGTCTAAGCTTCAATTGCAATATTCTCCATACACATTATG
1 AGTCTAAGCTTCAAGTGCAATATTCTCCATACACATTATG
* *
29102013 AGTCTGAA-CTTCAAGTGCAA-ATTCTCTATACAGATTATG
1 AGTCT-AAGCTTCAAGTGCAATATTCTCCATACACATTATG
29102052 A
1 A
29102053 AAGCATATCA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 18 0.50
40 16 0.44
41 2 0.06
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (40 bp):
AGTCTAAGCTTCAAGTGCAATATTCTCCATACACATTATG
Found at i:29120764 original size:17 final size:18
Alignment explanation
Indices: 29120742--29120777 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
29120732 TATAGTTTGA
*
29120742 TATTCG-GTTATTTGAAT
1 TATTCGAGTTATTCGAAT
29120759 TATTCGAGTTATTCGAAT
1 TATTCGAGTTATTCGAAT
29120777 T
1 T
29120778 TGAAAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:29131362 original size:47 final size:47
Alignment explanation
Indices: 29131293--29131641 Score: 323
Period size: 47 Copynumber: 7.5 Consensus size: 47
29131283 ATTCATTAGT
29131293 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
** * * *
29131340 GAACTCGGACTCAACTCAACGAG-TTTGA--AC-A-TTCACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
*
29131386 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
** * * *
29131433 GAACTCGGACTCAACTCAACGAG-TTTGA--AC-A-TTCACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
*
29131479 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
** * * *
29131526 GAACTCGGACTCAACTCAACGAG-TTTGA--AC-A-TTCACATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
*
29131572 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
29131619 GAACTCGGACTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
29131642 TTTGAACATT
Statistics
Matches: 239, Mismatches: 36, Indels: 54
0.73 0.11 0.16
Matches are distributed among these distances:
42 6 0.03
43 15 0.06
44 6 0.03
45 6 0.03
46 75 0.31
47 98 0.41
48 6 0.03
49 6 0.03
50 15 0.06
51 6 0.03
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:29131406 original size:93 final size:93
Alignment explanation
Indices: 29131247--29131697 Score: 821
Period size: 93 Copynumber: 4.8 Consensus size: 93
29131237 GCCCATAAGT
* * ** * * * * *
29131247 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATTCATTAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTTGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
29131312 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
29131340 GAACTCGGACTCAACTCAACGAGTTTGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTTGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
29131405 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
29131433 GAACTCGGACTCAACTCAACGAGTTTGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTTGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
29131498 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
29131526 GAACTCGGACTCAACTCAACGAGTTTGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTTGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
29131591 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
29131619 GAACTCGGACTCAACTCAACGAGTTTGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTTGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
29131684 CGAGCTCGGATGCC
66 CGAGCTCGGATGCC
29131698 CAAATATTCC
Statistics
Matches: 349, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 349 1.00
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTTGAACATTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:29134024 original size:53 final size:53
Alignment explanation
Indices: 29133957--29134063 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
29133947 GGACCATTGC
*
29133957 CTTTTGACAGTGAGATTGAAAGCACAACTCATAGAAACCGAAGAGAAATAAGG
1 CTTTTGACAATGAGATTGAAAGCACAACTCATAGAAACCGAAGAGAAATAAGG
29134010 CTTTTGACAATGAGATTGAAAGCACAACTCATAGAAACCGAAGAGAAATAAGG
1 CTTTTGACAATGAGATTGAAAGCACAACTCATAGAAACCGAAGAGAAATAAGG
29134063 C
1 C
29134064 GAAACCTAAG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.19
Consensus pattern (53 bp):
CTTTTGACAATGAGATTGAAAGCACAACTCATAGAAACCGAAGAGAAATAAGG
Found at i:29138860 original size:19 final size:19
Alignment explanation
Indices: 29138831--29138873 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
29138821 ATATGGGTAT
*
29138831 AATAA-TTCTAGTCCTCAA
1 AATAACTTCTAGACCTCAA
29138849 AATAACTTCTAGACCTCAA
1 AATAACTTCTAGACCTCAA
29138868 AATAAC
1 AATAAC
29138874 CCATACAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (19 bp):
AATAACTTCTAGACCTCAA
Found at i:29140799 original size:42 final size:41
Alignment explanation
Indices: 29140683--29140802 Score: 100
Period size: 43 Copynumber: 2.9 Consensus size: 41
29140673 GTCTGAGACA
* * * *
29140683 TCGTGTAAGACCGTGTTTGGGACATAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATT-AGATT
* * *
29140725 TACATATAAGACCATGTCTGGAACATCA-GCATCGTATCT-GATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCG-AT-TAGATT
* *
29140768 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGAT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT
29140803 ATTGAATTAC
Statistics
Matches: 61, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
41 3 0.05
42 26 0.43
43 28 0.46
44 3 0.05
45 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTAGATT
Found at i:29141255 original size:14 final size:13
Alignment explanation
Indices: 29141235--29141264 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
29141225 TTTTGAAAGT
*
29141235 GTATTTTTGTTAA
1 GTATTTTTCTTAA
29141248 GTATTTTTCTTAA
1 GTATTTTTCTTAA
29141261 GTAT
1 GTAT
29141265 GGCGTGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.60
Consensus pattern (13 bp):
GTATTTTTCTTAA
Found at i:29149503 original size:30 final size:30
Alignment explanation
Indices: 29149459--29149527 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
29149449 TAAAGATAAC
*
29149459 AAGAAAACC-GAATAAAGAAATCCAAG-ATA
1 AAGAAACCCAGAATAAAGAAAT-CAAGAATA
* *
29149488 GAGAAACCCAGAATAAAGAAATCTAGAATA
1 AAGAAACCCAGAATAAAGAAATCAAGAATA
29149518 AAGAAACCCA
1 AAGAAACCCA
29149528 AGATATGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 10 0.29
30 24 0.71
ACGTcount: A:0.59, C:0.16, G:0.14, T:0.10
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCAAGAATA
Found at i:29149507 original size:15 final size:15
Alignment explanation
Indices: 29149459--29149527 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 15
29149449 TAAAGATAAC
*
29149459 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
29149473 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
29149488 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
* *
29149503 AAGAAATCTAGAATA
1 AAGAAACCCAGAATA
29149518 AAGAAACCCA
1 AAGAAACCCA
29149528 AGATATGATA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
14 9 0.20
15 34 0.77
16 1 0.02
ACGTcount: A:0.59, C:0.16, G:0.14, T:0.10
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:29152539 original size:47 final size:47
Alignment explanation
Indices: 29152485--29152834 Score: 358
Period size: 47 Copynumber: 7.5 Consensus size: 47
29152475 TCCATAAGTG
29152485 AACTCGGACTCAACTCAACGAGTTGGGATGCCTAGTTACATCTCACA
1 AACTCGGACTCAACTCAACGAGTTGGGATGCCTAGTTACATCTCACA
* * *
29152532 AACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCATC-CATAA
1 AACTCGGACTCAACTCAACGAGTTGGGATGCCTAGTT-ACATCTCA-CA
29152575 GTGAACTCGGACTCAACTCAACGAGTTGGGATGCCTAGTTACATCTCACA
1 ---AACTCGGACTCAACTCAACGAGTTGGGATGCCTAGTTACATCTCACA
* * *
29152625 AACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCATC-CATAA
1 AACTCGGACTCAACTCAACGAGTTGGGATGCCTAGTT-ACATCTCA-CA
29152668 GTGAACTCGGACTCAACTCAACGAGTTGGGATGCCTAGTTACATCTCACA
1 ---AACTCGGACTCAACTCAACGAGTTGGGATGCCTAGTTACATCTCACA
* * *
29152718 AACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCATC-CATAA
1 AACTCGGACTCAACTCAACGAGTTGGGATGCCTAGTT-ACATCTCA-CA
29152761 GTGAACTCGGACTCAACTCAACGAGTTGGGATGCCTAGTTACATCTCACA
1 ---AACTCGGACTCAACTCAACGAGTTGGGATGCCTAGTTACATCTCACA
29152811 AACTCGGACTCAACTCAACGAGTT
1 AACTCGGACTCAACTCAACGAGTT
29152835 CGGACGTTCG
Statistics
Matches: 252, Mismatches: 18, Indels: 66
0.75 0.05 0.20
Matches are distributed among these distances:
42 15 0.06
43 15 0.06
44 3 0.01
46 81 0.32
47 105 0.42
49 3 0.01
50 15 0.06
51 15 0.06
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (47 bp):
AACTCGGACTCAACTCAACGAGTTGGGATGCCTAGTTACATCTCACA
Found at i:29152596 original size:93 final size:93
Alignment explanation
Indices: 29152437--29152890 Score: 854
Period size: 93 Copynumber: 4.9 Consensus size: 93
29152427 CGCCCATAAG
* * * * *
29152437 CAAACTCAGACTCAACCCAAGGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
29152502 ACGAGTTGGGATGCCTAGTTACATCTCA
66 ACGAGTTGGGATGCCTAGTTACATCTCA
29152530 CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
29152595 ACGAGTTGGGATGCCTAGTTACATCTCA
66 ACGAGTTGGGATGCCTAGTTACATCTCA
29152623 CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
29152688 ACGAGTTGGGATGCCTAGTTACATCTCA
66 ACGAGTTGGGATGCCTAGTTACATCTCA
29152716 CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
29152781 ACGAGTTGGGATGCCTAGTTACATCTCA
66 ACGAGTTGGGATGCCTAGTTACATCTCA
29152809 CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
29152874 ACGAGTTCGGATGCCTA
66 ACGAGTTGGGATGCCTA
29152891 AATATCCGAA
Statistics
Matches: 355, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 355 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CAAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTGGGATGCCTAGTTACATCTCA
Found at i:29160720 original size:20 final size:19
Alignment explanation
Indices: 29160692--29160729 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
29160682 TTTTAAAGAC
*
29160692 TTTACTTTATTTTTATTTG
1 TTTACTTTATCTTTATTTG
29160711 TTTACTTTTATCTTTATTT
1 TTTAC-TTTATCTTTATTT
29160730 ACATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (19 bp):
TTTACTTTATCTTTATTTG
Found at i:29160773 original size:24 final size:25
Alignment explanation
Indices: 29160723--29160774 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
29160713 TACTTTTATC
*
29160723 TTTATTTACATTTTTAAAATTACTT
1 TTTATTTACATTTTTAAAACTACTT
* *
29160748 TTTATTT-TATTTTTAAGACTA-TT
1 TTTATTTACATTTTTAAAACTACTT
29160771 TTTA
1 TTTA
29160775 CTTCATCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.25
24 11 0.46
25 7 0.29
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTATTTACATTTTTAAAACTACTT
Found at i:29170115 original size:25 final size:25
Alignment explanation
Indices: 29170081--29170135 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
29170071 ACACACAGAG
29170081 TAAGCTTGAATAGCTTAGTAAGTCA
1 TAAGCTTGAATAGCTTAGTAAGTCA
29170106 TAAGCTTGAATAGCTTAGTAAGTCA
1 TAAGCTTGAATAGCTTAGTAAGTCA
29170131 TAAGC
1 TAAGC
29170136 AAATAAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (25 bp):
TAAGCTTGAATAGCTTAGTAAGTCA
Found at i:29174546 original size:698 final size:697
Alignment explanation
Indices: 29172664--29174758 Score: 3942
Period size: 699 Copynumber: 3.0 Consensus size: 697
29172654 GGCCACACGG
*
29172664 GCGTGTGTCCCTTGTTTTGAGAAAAACAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGCC
1 GCGTGTGTCCCTTGTTTAGAGAAAAA-AATTATAAGTGTAACACCCCGTACCCGAGACCGTTGCC
29172729 GGAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCCA
65 GGAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCCA
29172794 GACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAAA
130 GACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAAA
* *
29172859 CAAGTTTCGTAATTTTTTCTGAAACTAGACTCATATGTCCATCTAAAAATTTTTTTCTATAATTT
195 CAAGTTCCGTAATTTTTTCTGAAACTAGACTCATATGTCCATCTACAAATTTTTTTCTATAATTT
29172924 TTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCTCT
260 TTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCTCT
*
29172989 GACCTTCATGCATTACGACTTATATATCTCCCTGTACAGGGCTTCAATACTTATGCTGTTTGTTT
325 GACCTTCATGCATTACGACTTATATATCTCCCTGTACAGGGCTTCAATACTTATGCCGTTTGTTT
*
29173054 CTAACGAAACTAGACTCAAAAAGAAATCTATAAATATATGGCATGACCTCTAATTATCTCTGGTT
390 CTAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGCATGACCTCTAATTATCTCTGGTT
*
29173119 AATTTATAGTGAATTTCCAAAGTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCCACGA
455 AATTTATAGTGAATTTCCAAATTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCCACGA
* * *
29173184 AAACTTAAATATCCCTTAAAATACAACTCATATGATCGTTTCGTTTCTTCCGTATGAAAGTAGAT
520 AAACTTAAATATCCCTTAAAATACAACTCATATGATCATTTCGTTTCTTTCATATGAAAGTAGAT
* *
29173249 TCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCATTTCCACTATTTTTAGTGATTT
585 TCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCTATTCCCACTATTTTTAGTGATTT
*
29173314 TTCAAATTTACGCCACTGCTGCTGTTAGCATCTGCCTTTAAGGTAGAC
650 TTCAAATTTACGCCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGAC
*
29173362 GCGTGTGTCCCTTGTTTTGAGAAAAAAAAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGC
1 GCGTGTGTCCCTTG-TTT-AGAGAAAAAAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGC
*
29173427 CGGAGTCAAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCC
64 CGGAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCC
29173492 AGACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAA
129 AGACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAA
*
29173557 ACAAGTTCCGTAATTTTTTCCTGGAACTAGACTCATATGTCCATCTAC-AATTTTTTTCTATAAT
194 ACAAGTTCCGTAATTTTTT-CTGAAACTAGACTCATATGTCCATCTACAAATTTTTTTCTATAAT
29173621 TTTTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCT
258 TTTTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCT
29173686 CTGACCTTCATGCATTACGACTTATATATCTCCCTGTACAGGGCTTCAATACTTATGCCGTTTGT
323 CTGACCTTCATGCATTACGACTTATATATCTCCCTGTACAGGGCTTCAATACTTATGCCGTTTGT
29173751 TTCTAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGCATGACCTCTAATTATCTCTGG
388 TTCTAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGCATGACCTCTAATTATCTCTGG
29173816 TTAATTTATAGTGAATTTCCAAAGTT-AGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCCA
453 TTAATTTATAGTGAATTTCCAAA-TTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCCA
29173880 CGAAAACTTAAATATCCCTTAAAATACAACTCATATGATCATTTCGTTTCTTTCATATGAAAGTA
517 CGAAAACTTAAATATCCCTTAAAATACAACTCATATGATCATTTCGTTTCTTTCATATGAAAGTA
29173945 GATTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCTATTCCCACTATTTTTAGTGA
582 GATTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCTATTCCCACTATTTTTAGTGA
29174010 TTTTTCAAATTTACGCCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGAC
647 TTTTTCAAATTTACGCCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGAC
29174061 GCGTGTGTCCCTTGTTTAGAGAAAAAAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGCCG
1 GCGTGTGTCCCTTGTTTAGAGAAAAAAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGCCG
29174126 GAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCCAG
66 GAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCCAG
29174191 ACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAAAC
131 ACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAAAC
29174256 AAGTTCCGTAATTTTTTCATGAAACTAGACTCATATGTCCATCTACAAATTTTTTTCTATAATTT
196 AAGTTCCGTAATTTTTTC-TGAAACTAGACTCATATGTCCATCTACAAATTTTTTTCTATAATTT
29174321 TTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCTCT
260 TTGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCTCT
* * *
29174386 GACCTTCATGCATTACGACTTATATATCTCCTTGTACAGGGCTTTAATACTTATGCCGTTTTTTT
325 GACCTTCATGCATTACGACTTATATATCTCCCTGTACAGGGCTTCAATACTTATGCCGTTTGTTT
*
29174451 CTAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGAATGACCTCTAATTATCTCTGGTT
390 CTAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGCATGACCTCTAATTATCTCTGGTT
29174516 AATTTATAGTGAATTTCCAAATTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCCACGA
455 AATTTATAGTGAATTTCCAAATTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCCACGA
29174581 AAACTTAAATATCCCTTAAAATACAACTCATATGATCATTTCGTTTCTTTCATATGAAAGTAGAT
520 AAACTTAAATATCCCTTAAAATACAACTCATATGATCATTTCGTTTCTTTCATATGAAAGTAGAT
29174646 TCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCTATTCCCACTATTTTTAGTGATTT
585 TCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCTATTCCCACTATTTTTAGTGATTT
*
29174711 TTCAAATTTACACCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGAC
650 TTCAAATTTACGCCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGAC
29174759 TTTACCTATT
Statistics
Matches: 1367, Mismatches: 23, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
696 1 0.00
697 221 0.16
698 465 0.34
699 646 0.47
700 34 0.02
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (697 bp):
GCGTGTGTCCCTTGTTTAGAGAAAAAAATTATAAGTGTAACACCCCGTACCCGAGACCGTTGCCG
GAGTCGAACACGAGGTGCTAACAGACTTATTTCATTGTAAAACACAGTTCATTTAAAATTTCCAG
ACAAGCTGGCTAACTGCGTCACTGTCACCTTAAAAATCATATCTCGAGTTCCAAAACTCGAAAAC
AAGTTCCGTAATTTTTTCTGAAACTAGACTCATATGTCCATCTACAAATTTTTTTCTATAATTTT
TGGTCAGGCCAATTAGTACAGTTTATTAGTTAAATTCTCCCCTGTTTCAGGGTTCGACTGCTCTG
ACCTTCATGCATTACGACTTATATATCTCCCTGTACAGGGCTTCAATACTTATGCCGTTTGTTTC
TAACGAAACTAGACTCAAAAAGGAATCTATAAATATATGGCATGACCTCTAATTATCTCTGGTTA
ATTTATAGTGAATTTCCAAATTCAGATCAGGGGATCCAGAAATCGCTCTGGCCCTGTTCCACGAA
AACTTAAATATCCCTTAAAATACAACTCATATGATCATTTCGTTTCTTTCATATGAAAGTAGATT
CATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCTATTCCCACTATTTTTAGTGATTTT
TCAAATTTACGCCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGAC
Found at i:29175530 original size:40 final size:40
Alignment explanation
Indices: 29175447--29175666 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
29175437 ACCCAATTAT
** * *
29175447 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
29175485 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
29175525 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
29175565 CTTCGGGTCTTAGCCCAGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
29175605 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
29175645 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
29175667 CATTCTAATA
Statistics
Matches: 152, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.11
40 123 0.81
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:29182422 original size:15 final size:16
Alignment explanation
Indices: 29182396--29182451 Score: 82
Period size: 15 Copynumber: 3.7 Consensus size: 16
29182386 CAAGGAAACC
29182396 GAATAAAGAAATCCAA
1 GAATAAAGAAATCCAA
*
29182412 G-ATAGAGAAATCC-A
1 GAATAAAGAAATCCAA
29182426 GAATAAAGAAATCC-A
1 GAATAAAGAAATCCAA
29182441 GAATAAAGAAA
1 GAATAAAGAAA
29182452 CCTAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 34 0.92
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (16 bp):
GAATAAAGAAATCCAA
Found at i:29185423 original size:46 final size:46
Alignment explanation
Indices: 29185356--29185484 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
29185346 TGTAACCCGC
* * * *
29185356 CCATAAGTGATCTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
29185402 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
29185448 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
29185485 TGCCCAAATA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:29191008 original size:43 final size:43
Alignment explanation
Indices: 29190947--29191123 Score: 291
Period size: 43 Copynumber: 4.1 Consensus size: 43
29190937 ATGAAACTCA
*
29190947 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
* *
29190990 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGACTTTGTGCCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
*
29191033 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
* **
29191076 GTGATATGTATTCGGGTCTTCGTGCCTAGCAGGCTTAATGCCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
29191119 GTGAT
1 GTGAT
29191124 TCAAGCAAGG
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 124 1.00
ACGTcount: A:0.13, C:0.23, G:0.32, T:0.32
Consensus pattern (43 bp):
GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
Found at i:29191341 original size:29 final size:28
Alignment explanation
Indices: 29191303--29191385 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
29191293 AAATTCCGTT
29191303 AACCGAGCACTATGTGTGCGAGATCAGT-
1 AACCGAGCACTATGTGTGCGAGATC-GTC
** * * *
29191331 AATTGAGGCACTGTGTGTGCGAGTTCTTC
1 AACCGA-GCACTATGTGTGCGAGATCGTC
29191360 AACCGAGCACTATGTGTGCGAGATCG
1 AACCGAGCACTATGTGTGCGAGATCG
29191386 ATCAGTGGGC
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
28 22 0.51
29 21 0.49
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (28 bp):
AACCGAGCACTATGTGTGCGAGATCGTC
Found at i:29191397 original size:28 final size:27
Alignment explanation
Indices: 29191309--29191405 Score: 77
Period size: 28 Copynumber: 3.4 Consensus size: 27
29191299 CGTTAACCGA
* *
29191309 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCA-TCACTG-G
* * * * *
29191338 GCACTGTGTGTGCGAGTTCTTCAACCGA
1 GCACTATGTGTGCGAGATCATC-ACTGG
*
29191366 GCACTATGTGTGCGAGATCGATCAGTGG
1 GCACTATGTGTGCGAGATC-ATCACTGG
*
29191394 GCACTAAGTGTG
1 GCACTATGTGTG
29191406 TGAAATAAGA
Statistics
Matches: 52, Mismatches: 14, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
28 31 0.60
29 21 0.40
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.27
Consensus pattern (27 bp):
GCACTATGTGTGCGAGATCATCACTGG
Found at i:29192990 original size:104 final size:104
Alignment explanation
Indices: 29192857--29193070 Score: 401
Period size: 104 Copynumber: 2.0 Consensus size: 104
29192847 GTTTGATATT
29192857 ATTCTTTGAGATTCATGTATATTTTAAGTTGTAAGTTTGAAATCTACCTAGCCATGGCTCAAACT
1 ATTC-TTGAGATTCATGTATATTTTAAGTTGTAAGTTTGAAATCTACCTAGCCATGGCTCAAACT
29192922 TTGTTAAATGATAGAGGTGATATTCGGCCATGCATGTTAC
65 TTGTTAAATGATAGAGGTGATATTCGGCCATGCATGTTAC
*
29192962 ATTCTTGAGATTCATGTATATTTTAAGTTGTAAGTTTGAAATCTACCTAGCCATGGTTCAAACTT
1 ATTCTTGAGATTCATGTATATTTTAAGTTGTAAGTTTGAAATCTACCTAGCCATGGCTCAAACTT
*
29193027 TGTTAAATGATGGAGGTGATATTCGGCCATGCATGTTAC
66 TGTTAAATGATAGAGGTGATATTCGGCCATGCATGTTAC
29193066 ATTCT
1 ATTCT
29193071 GGGTTGGTAT
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
104 103 0.96
105 4 0.04
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (104 bp):
ATTCTTGAGATTCATGTATATTTTAAGTTGTAAGTTTGAAATCTACCTAGCCATGGCTCAAACTT
TGTTAAATGATAGAGGTGATATTCGGCCATGCATGTTAC
Found at i:29193229 original size:57 final size:57
Alignment explanation
Indices: 29193165--29193277 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
29193155 CCATTGCATG
29193165 CTAAATATGAAGCTTGTTAATGATGCATGTGATGGTGGATTGATGATTCTTAAATCT
1 CTAAATATGAAGCTTGTTAATGATGCATGTGATGGTGGATTGATGATTCTTAAATCT
*
29193222 CTAAATATGAAGCTTGTTAATGATGCATGTGATGGTGGATTGATGATTCTTGAATC
1 CTAAATATGAAGCTTGTTAATGATGCATGTGATGGTGGATTGATGATTCTTAAATC
29193278 CCTTTTTTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (57 bp):
CTAAATATGAAGCTTGTTAATGATGCATGTGATGGTGGATTGATGATTCTTAAATCT
Found at i:29201389 original size:29 final size:29
Alignment explanation
Indices: 29201354--29201430 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
29201344 CATGAGATTG
* *
29201354 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGGGTTTAAAGTGCACA
* **
29201383 GCACTAAGTGTGCGAGTTTAAAGTGCATG
1 GCACTAAGTGTGCGGGTTTAAAGTGCACA
29201412 GCACTAAGTGTGCGCGGTT
1 GCACTAAGTGTGCG-GGTT
29201431 GATTATTAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
29 38 0.93
30 3 0.07
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTTAAAGTGCACA
Found at i:29201648 original size:174 final size:174
Alignment explanation
Indices: 29201383--29201710 Score: 638
Period size: 174 Copynumber: 1.9 Consensus size: 174
29201373 AAATTGTACA
29201383 GCACTAAGTGTGCGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
29201448 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
29201513 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
29201557 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
29201622 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
29201687 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
29201711 ACCTTGAGTT
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 152 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:29205705 original size:48 final size:48
Alignment explanation
Indices: 29205634--29205737 Score: 172
Period size: 48 Copynumber: 2.2 Consensus size: 48
29205624 CAAGATAAAT
* * *
29205634 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
29205682 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
29205730 ATGTGTAT
1 ATATGTAT
29205738 TTATTGTGGC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:29205923 original size:37 final size:37
Alignment explanation
Indices: 29205873--29205944 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
29205863 GAAATATATT
*
29205873 CCGGGTAAGACCCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
29205910 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
29205945 TCGAGCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:29208786 original size:53 final size:54
Alignment explanation
Indices: 29208705--29208912 Score: 249
Period size: 53 Copynumber: 3.9 Consensus size: 54
29208695 TTTTCTTTTT
* * * *
29208705 GAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* **
29208758 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * *
29208812 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * * *
29208867 AAACTTATCAATACCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
29208913 ATCTTACCAA
Statistics
Matches: 134, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
52 2 0.01
53 45 0.34
54 41 0.31
55 44 0.33
56 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:29208901 original size:54 final size:54
Alignment explanation
Indices: 29208716--29208912 Score: 245
Period size: 55 Copynumber: 3.6 Consensus size: 54
29208706 AACTTACCAT
* * * *
29208716 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAAAACTCATCAA
* ** *
29208769 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA-AAACTCATCAA
* * *
29208824 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAAAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAAAACTCATCAA
* *
29208878 TACCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTT
29208913 ATCTTACCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 36 0.29
54 40 0.32
55 44 0.35
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAAAACTCATCAA
Found at i:29208991 original size:47 final size:47
Alignment explanation
Indices: 29208892--29209099 Score: 169
Period size: 47 Copynumber: 4.5 Consensus size: 47
29208882 ATGCCTTGGC
* * *** *
29208892 ATGGTCTTACATGATATCCTTATCTTA--CCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTACCTTATGCC-AATGCCATGTT-TTGAT
*
29208939 ATGGTCTTACATGGTATCCTTACCTTAGTGCCAATG-CATATTTTGAT
1 ATGGTCTTACATGGTATCCTTACCTTA-TGCCAATGCCATGTTTTGAT
* * * ** *
29208986 GTGGTCTTACATGG-AGTCCTTA-ATCAATGCTGATGCCATGTCTTGAT
1 ATGGTCTTACATGGTA-TCCTTACCT-TATGCCAATGCCATGTTTTGAT
* * * *
29209033 ATGGTCTTACACGGGATCCTTGCCTTA--CCAATGCCATGTTTTGAC
1 ATGGTCTTACATGGTATCCTTACCTTATGCCAATGCCATGTTTTGAT
29209078 ATGGTCTTACATGGTATCCTTA
1 ATGGTCTTACATGGTATCCTTA
29209100 ACCGTCAATT
Statistics
Matches: 127, Mismatches: 26, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
45 33 0.26
46 8 0.06
47 73 0.57
48 7 0.06
49 4 0.03
50 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (47 bp):
ATGGTCTTACATGGTATCCTTACCTTATGCCAATGCCATGTTTTGAT
Found at i:29215297 original size:25 final size:25
Alignment explanation
Indices: 29215243--29215297 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
29215233 AAACATTAAA
*
29215243 TTTAATTTAATATTAAGAGAATCAC
1 TTTAATTTAATATTAAGAAAATCAC
*
29215268 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAATATTAAGAAAATCAC
29215292 TATTAA
1 T-TTAA
29215298 GATAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATCAC
Found at i:29215331 original size:37 final size:36
Alignment explanation
Indices: 29215269--29215344 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
29215259 GAGAATCACT
*
29215269 TTAATATTAAATTAATAAAATACTATTAAGATAAATA
1 TTAATATTAAATTAATAAAATACTATTAAAATAAA-A
*
29215306 TTAA-ATTAAATTTAATATCAA-ACTATTAAAATAAAA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAAAA
29215342 TTA
1 TTA
29215345 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 10 0.29
37 23 0.66
38 2 0.06
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAAAA
Found at i:29215386 original size:21 final size:21
Alignment explanation
Indices: 29215361--29215402 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
29215351 GAATAGTTAA
29215361 TTTGAAATCAAATTCTCTAGT
1 TTTGAAATCAAATTCTCTAGT
29215382 TTTGAAATCAAATTCTCTAGT
1 TTTGAAATCAAATTCTCTAGT
29215403 AGAGTCCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (21 bp):
TTTGAAATCAAATTCTCTAGT
Found at i:29220736 original size:46 final size:44
Alignment explanation
Indices: 29220636--29220743 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
29220626 TGTCTTTGAC
** * * *
29220636 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
* *
29220680 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCAAATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCC--ATATATAAT
29220726 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
29220744 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 30 0.55
46 25 0.45
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:29222132 original size:27 final size:27
Alignment explanation
Indices: 29222073--29222161 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
29222063 GTGCAAACCA
* * *
29222073 GTGTTTACTATCCCAATGGAC-ACCCT
1 GTGTTTACTATCTCAATGGGCTACCCC
29222099 GTGTTTACTATCTCAATGGGCTACCCC
1 GTGTTTACTATCTCAATGGGCTACCCC
* *
29222126 ATGTTTACTATCTCGATGGGCTACCCC
1 GTGTTTACTATCTCAATGGGCTACCCC
*
29222153 GTGGTTACT
1 GTGTTTACT
29222162 GGCCCGGTGA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 19 0.35
27 36 0.65
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (27 bp):
GTGTTTACTATCTCAATGGGCTACCCC
Found at i:29227000 original size:228 final size:228
Alignment explanation
Indices: 29226603--29227058 Score: 903
Period size: 228 Copynumber: 2.0 Consensus size: 228
29226593 TTTAGATTTT
29226603 CTTGTTGAATGCCTTTAGTTTCATGTTCTTTAAGTTTCTTTGCAGAAAAATCTAAACCTTTATAT
1 CTTGTTGAATGCCTTTAGTTTCATGTTCTTTAAGTTTCTTTGCAGAAAAATCTAAACCTTTATAT
29226668 TTTTCTTAAGCTTCACTTTAATGGTTTCTTTACTTTTCATTTCCATGTCCATTATCTTTATTTTC
66 TTTTCTTAAGCTTCACTTTAATGGTTTCTTTACTTTTCATTTCCATGTCCATTATCTTTATTTTC
29226733 AATAGAGTAGGTAAACCTCAAAGGGGGTGGTTGAAGACATGTGGGTAAGTTGATTTTTTTGGACA
131 AATAGAGTAGGTAAACCTCAAAGGGGGTGGTTGAAGACATGTGGGTAAGTTGATTTTTTTGGACA
29226798 AGGGACTAAAATTGTAATAAATTGGATTAAATC
196 AGGGACTAAAATTGTAATAAATTGGATTAAATC
*
29226831 CTTGTTGAATGCCTTTAGTTTCATGTTCTTTAAGTTTCTTTGCATAAAAATCTAAACCTTTATAT
1 CTTGTTGAATGCCTTTAGTTTCATGTTCTTTAAGTTTCTTTGCAGAAAAATCTAAACCTTTATAT
29226896 TTTTCTTAAGCTTCACTTTAATGGTTTCTTTACTTTTCATTTCCATGTCCATTATCTTTATTTTC
66 TTTTCTTAAGCTTCACTTTAATGGTTTCTTTACTTTTCATTTCCATGTCCATTATCTTTATTTTC
29226961 AATAGAGTAGGTAAACCTCAAAGGGGGTGGTTGAAGACATGTGGGTAAGTTGATTTTTTTGGACA
131 AATAGAGTAGGTAAACCTCAAAGGGGGTGGTTGAAGACATGTGGGTAAGTTGATTTTTTTGGACA
29227026 AGGGACTAAAATTGTAATAAATTGGATTAAATC
196 AGGGACTAAAATTGTAATAAATTGGATTAAATC
29227059 TTATAGACCT
Statistics
Matches: 227, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
228 227 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (228 bp):
CTTGTTGAATGCCTTTAGTTTCATGTTCTTTAAGTTTCTTTGCAGAAAAATCTAAACCTTTATAT
TTTTCTTAAGCTTCACTTTAATGGTTTCTTTACTTTTCATTTCCATGTCCATTATCTTTATTTTC
AATAGAGTAGGTAAACCTCAAAGGGGGTGGTTGAAGACATGTGGGTAAGTTGATTTTTTTGGACA
AGGGACTAAAATTGTAATAAATTGGATTAAATC
Found at i:29245608 original size:23 final size:22
Alignment explanation
Indices: 29245578--29245623 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
29245568 TGTAAGTCAA
29245578 CAAAAGCTGAAACCTCGGCATT
1 CAAAAGCTGAAACCTCGGCATT
**
29245600 NCAAAAGCTGAAGTCTCGGCATT
1 -CAAAAGCTGAAACCTCGGCATT
29245623 C
1 C
29245624 GGGGCCTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (22 bp):
CAAAAGCTGAAACCTCGGCATT
Found at i:29246412 original size:22 final size:22
Alignment explanation
Indices: 29246384--29246452 Score: 95
Period size: 22 Copynumber: 3.1 Consensus size: 22
29246374 ATTACTGTGA
29246384 TGTCTACGGTGTTGAGCTATCC
1 TGTCTACGGTGTTGAGCTATCC
*
29246406 TGTCTACGGTGTTGAGCCATCC
1 TGTCTACGGTGTTGAGCTATCC
* *
29246428 TGTCTATGGCGTTGAGCCT-TCC
1 TGTCTACGGTGTTGAG-CTATCC
29246450 TGT
1 TGT
29246453 TGACTTATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 41 0.98
23 1 0.02
ACGTcount: A:0.12, C:0.25, G:0.28, T:0.36
Consensus pattern (22 bp):
TGTCTACGGTGTTGAGCTATCC
Found at i:29246615 original size:27 final size:27
Alignment explanation
Indices: 29246585--29246637 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
29246575 ACATCTGATA
*
29246585 CTGATTCTG-CACTGGGCTTAGGCCCAC
1 CTGATTCTGTCAATGGGC-TAGGCCCAC
*
29246612 CTGATTCTGTTAATGGGCTAGGCCCA
1 CTGATTCTGTCAATGGGCTAGGCCCA
29246638 ACTGTTACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.28
Consensus pattern (27 bp):
CTGATTCTGTCAATGGGCTAGGCCCAC
Found at i:29249325 original size:53 final size:53
Alignment explanation
Indices: 29249222--29249326 Score: 129
Period size: 53 Copynumber: 2.0 Consensus size: 53
29249212 TTCCTTTTCA
* * * * *
29249222 AACTTACCATTGCCATGTCTTGACACGGTCTTACGCGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGCCTTGACACGGTCTTACACGGGATCCTTACCTTATG
* * * *
29249275 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTACCTTAT
1 AACTCACCATTGCCATGCCTTGACACGGTCTTACACGGGATCCTTACCTTAT
29249327 CGTAGTTTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (53 bp):
AACTCACCATTGCCATGCCTTGACACGGTCTTACACGGGATCCTTACCTTATG
Found at i:29273579 original size:79 final size:81
Alignment explanation
Indices: 29273443--29273627 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
29273433 TTGAATGATG
*
29273443 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
29273507 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
29273522 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
29273584 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
29273602 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29273628 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:29273641 original size:40 final size:40
Alignment explanation
Indices: 29273444--29273627 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
29273434 TGAATGATGT
* * * *
29273444 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
29273484 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
29273524 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
29273562 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
29273603 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
29273628 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:29273649 original size:79 final size:79
Alignment explanation
Indices: 29273444--29273660 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
29273434 TGAATGATGT
** * * * **
29273444 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
29273507 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
29273524 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
29273589 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
29273603 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
29273661 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:29296394 original size:5 final size:6
Alignment explanation
Indices: 29296380--29296410 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
29296370 ACCTTGTGGC
29296380 AAAAGA AAAAGA AAAAGA AAAAG- AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
29296411 GTGATGGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:29313777 original size:43 final size:43
Alignment explanation
Indices: 29313729--29313885 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
29313719 TATGTGTTAT
*
29313729 CGTGTAAGACCATGTGTGGGACGTTGGCATCGAT-TTGAGATTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATT-AGATTA
* * *
29313772 CGTGTAAGACCATGTCTGGGACATCGGCATC-ATATT-GATTT
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTAGATTA
* *
29313813 TGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTCA-ATTA
1 CGTGTAAGACCATGTCTGGGAC-GTTGGCATCGATATT-AGATTA
* * * *
29313856 CATGTAAGACCACGTCTAGGATGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
29313886 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
41 30 0.32
42 8 0.09
43 55 0.59
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGATATTAGATTA
Found at i:29318663 original size:47 final size:47
Alignment explanation
Indices: 29318609--29318755 Score: 213
Period size: 47 Copynumber: 3.1 Consensus size: 47
29318599 TTAGGATTTT
** * *
29318609 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
29318656 ATGTGATGAATGTGAACATGCATATATGTGAAAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
29318703 ATGTGATGAATGTGAACATACATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
29318750 ATGTGA
1 ATGTGA
29318756 AATATGTATG
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 90 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:29319070 original size:37 final size:37
Alignment explanation
Indices: 29318965--29319070 Score: 167
Period size: 37 Copynumber: 2.9 Consensus size: 37
29318955 AATATATTCT
*
29318965 GGGTAAGACCCGATGACTACGTGTGGAGATTATATCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTATCC
*
29319002 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTATCC
* * *
29319039 GGGTAAGACCCGATAACTTCATGTGGAGATTT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTT
29319071 CGTCTAAGCT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.26
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTATCC
Found at i:29320453 original size:41 final size:41
Alignment explanation
Indices: 29320359--29320473 Score: 117
Period size: 41 Copynumber: 2.8 Consensus size: 41
29320349 ACTCGATATC
* * *
29320359 TCGCACACTAAGTGTTGTACATAGCCGAATCTA-TCTCAAA
1 TCGCACACTAAGTGTCGTACATAGCCAAAGCTATTCTCAAA
* * **
29320399 TCACACACTAAGTGTCGTACGTAGCCAAAGCTATTC-CGATT
1 TCGCACACTAAGTGTCGTACATAGCCAAAGCTATTCTC-AAA
* * *
29320440 TCGCACACTAAGTGCCATATATAGCCAAAGCTAT
1 TCGCACACTAAGTGTCGTACATAGCCAAAGCTAT
29320474 CTCGATCTCG
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
40 29 0.48
41 32 0.52
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (41 bp):
TCGCACACTAAGTGTCGTACATAGCCAAAGCTATTCTCAAA
Found at i:29320493 original size:41 final size:41
Alignment explanation
Indices: 29320402--29320505 Score: 129
Period size: 41 Copynumber: 2.5 Consensus size: 41
29320392 TCTCAAATCA
* * ** *
29320402 CACACTAAGTGTCGTACGTAGCCAAAGCTATTCCGATTTCG
1 CACACTAAGTGCCATATATAGCCAAAGCTATTCCGATCTCG
29320443 CACACTAAGTGCCATATATAGCCAAAGCTA-TCTCGATCTCG
1 CACACTAAGTGCCATATATAGCCAAAGCTATTC-CGATCTCG
* *
29320484 TACATTAAGTGCCATATATAGC
1 CACACTAAGTGCCATATATAGC
29320506 TGAAGTTATG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 2 0.04
41 53 0.96
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (41 bp):
CACACTAAGTGCCATATATAGCCAAAGCTATTCCGATCTCG
Found at i:29322744 original size:16 final size:16
Alignment explanation
Indices: 29322725--29322755 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29322715 CTTCTTCACT
29322725 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
29322741 TACTTACTTACTTAA
1 TACTCACTTACTTAA
29322756 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:29322761 original size:20 final size:20
Alignment explanation
Indices: 29322722--29322761 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
29322712 AAACTTCTTC
* *
29322722 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
29322742 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
29322762 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:29322872 original size:23 final size:24
Alignment explanation
Indices: 29322834--29322878 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
29322824 TTTGCTCTTC
*
29322834 TAGTATGAACTTGTCTTACCTTTT
1 TAGTATGAACTCGTCTTACCTTTT
29322858 TAGTAT-AACTCGTCTTACCTT
1 TAGTATGAACTCGTCTTACCTT
29322879 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (24 bp):
TAGTATGAACTCGTCTTACCTTTT
Found at i:29323142 original size:108 final size:108
Alignment explanation
Indices: 29323016--29323841 Score: 1609
Period size: 108 Copynumber: 7.6 Consensus size: 108
29323006 CGATGTCTCA
29323016 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
29323081 ATGAGACCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
66 ATGAGACCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
29323124 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
29323189 ATGAGACCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
66 ATGAGACCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
29323232 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
29323297 ATGAGACCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
66 ATGAGACCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
29323340 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
29323405 ATGAGACCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
66 ATGAGACCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
29323448 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
29323513 ATGAGACCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
66 ATGAGACCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
29323556 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
29323621 ATGAGACCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
66 ATGAGACCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
29323664 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
29323729 ATGAGACCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
66 ATGAGACCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
*
29323772 ACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTTACCAATTGCCATGCCTTGGCATGGTCT
1 ACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA-TGCCATGCCTTGGCATGGTCT
29323836 TACATG
63 TACATG
29323842 GTATCCTTAA
Statistics
Matches: 714, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
107 1 0.00
108 679 0.95
109 7 0.01
110 27 0.04
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (108 bp):
ACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
ATGAGACCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
Found at i:29334685 original size:16 final size:16
Alignment explanation
Indices: 29334666--29334696 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29334656 CTTCTTCACT
29334666 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
29334682 TACTTACTTACTTAA
1 TACTCACTTACTTAA
29334697 TCAAATTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:29334702 original size:20 final size:20
Alignment explanation
Indices: 29334663--29334702 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
29334653 AAACTTCTTC
* *
29334663 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
29334683 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
29334703 TCATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:29334813 original size:23 final size:24
Alignment explanation
Indices: 29334775--29334819 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
29334765 TTTGCTCTTC
*
29334775 TAGTATGAACTTGTCTTACCTTTT
1 TAGTATGAACTCGTCTTACCTTTT
29334799 TAGTAT-AACTCGTCTTACCTT
1 TAGTATGAACTCGTCTTACCTT
29334820 ACTTACCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (24 bp):
TAGTATGAACTCGTCTTACCTTTT
Found at i:29335016 original size:53 final size:54
Alignment explanation
Indices: 29334887--29335141 Score: 258
Period size: 55 Copynumber: 4.8 Consensus size: 54
29334877 ACATGGGTAC
* * * *
29334887 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTAT-C---CCTT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
29334936 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
29334989 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * *
29335044 CTTATCAATGCCATGTCTTGACATGGTCTTACATAGTATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
29335097 CCTTACCAATTGCCACGCCTT-AGCATGATCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGA-CATGGTCTTACATGGTATCCTT
29335142 AAACCATAAT
Statistics
Matches: 172, Mismatches: 22, Indels: 18
0.81 0.10 0.08
Matches are distributed among these distances:
49 35 0.20
50 1 0.01
52 2 0.01
53 50 0.29
54 11 0.06
55 71 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:29335083 original size:108 final size:110
Alignment explanation
Indices: 29334934--29335134 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
29334924 ATCCCTTTGA
* *
29334934 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATAGTATCCTTGCCTTA-GAAACCTCACCAA
* * *
29334997 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCACGCCTTAGCATGATCTTACATGGGACCTTTGCCTTATAGT
* * *
29335042 AACTTATCAATGCCATGTCTTGACATGGTCTTACATAGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATAGTATCCTTGCCTTAGAAACCTCACCAAT
29335107 TGCCACGCCTTAGCATGATCTTACATGG
66 TGCCACGCCTTAGCATGATCTTACATGG
29335135 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.60
109 7 0.09
110 25 0.30
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATAGTATCCTTGCCTTAGAAACCTCACCAAT
TGCCACGCCTTAGCATGATCTTACATGGGACCTTTGCCTTATAGT
Found at i:29337610 original size:44 final size:43
Alignment explanation
Indices: 29337562--29337644 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 43
29337552 AAATAATTAG
*
29337562 CCGAAGCTATAAT-GATATCGCATACTTAGTGCCATCATATTAAA
1 CCGAAGCTATAATGGA-ATCGCACACTTAGTGCCA-CATATTAAA
**
29337606 CCGAAGCTATCTTGGAATCGCACACTTAGTGCCACATAT
1 CCGAAGCTATAATGGAATCGCACACTTAGTGCCACATAT
29337645 AGCTGTAGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 5 0.14
44 28 0.80
45 2 0.06
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
CCGAAGCTATAATGGAATCGCACACTTAGTGCCACATATTAAA
Found at i:29356583 original size:39 final size:41
Alignment explanation
Indices: 29356488--29356671 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
29356478 TTGAATGATG
*
29356488 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
29356527 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
29356567 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
29356606 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
29356646 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29356672 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:29356623 original size:79 final size:81
Alignment explanation
Indices: 29356488--29356671 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
29356478 TTGAATGATG
29356488 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
29356551 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
29356566 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
29356627 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
29356646 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29356672 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:29356693 original size:79 final size:79
Alignment explanation
Indices: 29356540--29356704 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
29356530 GGACTAAGAT
* ** *
29356540 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
29356605 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
29356619 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
29356681 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
29356698 CCGAAGG
1 CCGAAGG
29356705 TACATGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:29357446 original size:32 final size:33
Alignment explanation
Indices: 29357401--29357473 Score: 112
Period size: 32 Copynumber: 2.2 Consensus size: 33
29357391 TGCTGACAGC
29357401 AGCAGTGAGGTAGATTTAGAAAATCACTAAAAAT
1 AGCAG-GAGGTAGATTTAGAAAATCACTAAAAAT
*
29357435 AGCAGGA-GTAGATTTGGAAAATCACTAAAAAT
1 AGCAGGAGGTAGATTTAGAAAATCACTAAAAAT
*
29357467 AGTAGGA
1 AGCAGGA
29357474 ATGGAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 30 0.81
33 2 0.05
34 5 0.14
ACGTcount: A:0.47, C:0.08, G:0.23, T:0.22
Consensus pattern (33 bp):
AGCAGGAGGTAGATTTAGAAAATCACTAAAAAT
Found at i:29358927 original size:14 final size:14
Alignment explanation
Indices: 29358908--29358946 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
29358898 AAAGACTATT
*
29358908 AAATTTAATTAAAG
1 AAATTTAATTAAAC
*
29358922 AAATTTTATTAAAC
1 AAATTTAATTAAAC
29358936 AAATTTTAATT
1 AAA-TTTAATT
29358947 TTCCAACAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (14 bp):
AAATTTAATTAAAC
Found at i:29359965 original size:98 final size:98
Alignment explanation
Indices: 29359796--29359986 Score: 319
Period size: 98 Copynumber: 1.9 Consensus size: 98
29359786 AACGTGTACG
* * *
29359796 AAGATTTGATGTCTGACCTCATTGATTGTTTGTGTCCATTATCATCATGTCATTTATGCCAGACA
1 AAGATTTGATGTCTGACCTCATTGATTGTCTATGTCCATTATCATCATCTCATTTATGCCAGACA
29359861 TGATAGACTCATCAACGATTAACAAGACGTATA
66 TGATAGACTCATCAACGATTAACAAGACGTATA
* * *
29359894 AAGATTTTATGTTTGACCTCATTGATTGTCTATGTCCATTATCATCATCTCATTTATGCCAGGCA
1 AAGATTTGATGTCTGACCTCATTGATTGTCTATGTCCATTATCATCATCTCATTTATGCCAGACA
*
29359959 TGATAGACTCATCAATGATTAACAAGAC
66 TGATAGACTCATCAACGATTAACAAGAC
29359987 ATTTATCAAT
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 86 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (98 bp):
AAGATTTGATGTCTGACCTCATTGATTGTCTATGTCCATTATCATCATCTCATTTATGCCAGACA
TGATAGACTCATCAACGATTAACAAGACGTATA
Found at i:29367298 original size:45 final size:45
Alignment explanation
Indices: 29367173--29367366 Score: 225
Period size: 44 Copynumber: 4.4 Consensus size: 45
29367163 AGGAGGAAGG
* *
29367173 ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTCAGTAAAA
1 ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTCTGTAAAT
* *
29367218 ATTGGTGGTTT-ATCCACAACCTACATTGCATCTTGTCTGTAAAT
1 ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTCTGTAAAT
* * * * * *
29367262 ATTGGTAGTTTCATCCCCGACCTACATGGCAACTTGTCTATGAAT
1 ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTCTGTAAAT
* * *
29367307 -TTGGAGGTTT-ATCCACAACCTACATGACAGCTTG-CTTGTGAAT
1 ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTC-TGTAAAT
*
29367350 ATTGGTGGCTTCATCCA
1 ATTGGTGGTTTCATCCA
29367367 ATTATATATT
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
42 1 0.01
43 26 0.21
44 55 0.44
45 43 0.34
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (45 bp):
ATTGGTGGTTTCATCCACAACCTACATGGCAGCTTGTCTGTAAAT
Found at i:29378344 original size:27 final size:27
Alignment explanation
Indices: 29378314--29378491 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
29378304 ATATTGAGTC
* * * *
29378314 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
29378341 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29378368 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
29378396 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
29378423 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
29378450 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29378477 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29378492 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:29378453 original size:82 final size:81
Alignment explanation
Indices: 29378335--29378490 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
29378325 TGCTATATAA
* *
29378335 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
29378400 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
29378417 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
29378481 CACTTAGTGC
65 CACTTAGTGC
29378491 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:29386408 original size:27 final size:27
Alignment explanation
Indices: 29386378--29386555 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
29386368 ATATTGAGTC
* * * *
29386378 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
29386405 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29386432 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
29386460 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
29386487 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
29386514 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29386541 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29386556 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:29386517 original size:82 final size:81
Alignment explanation
Indices: 29386399--29386554 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
29386389 TGCTATATAA
* *
29386399 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
29386464 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
29386481 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
29386545 CACTTAGTGC
65 CACTTAGTGC
29386555 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:29389465 original size:27 final size:27
Alignment explanation
Indices: 29389435--29389612 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
29389425 ATATTGAGTC
* * * *
29389435 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
29389462 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29389489 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
29389517 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
29389544 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
29389571 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
29389598 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
29389613 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:29389574 original size:82 final size:81
Alignment explanation
Indices: 29389456--29389611 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
29389446 TGCTATATAA
* *
29389456 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
29389521 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
29389538 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
29389602 CACTTAGTGC
65 CACTTAGTGC
29389612 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:29392806 original size:47 final size:47
Alignment explanation
Indices: 29392743--29393200 Score: 880
Period size: 47 Copynumber: 9.7 Consensus size: 47
29392733 ATGATAGTAT
29392743 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
29392790 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
29392837 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
29392884 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
29392931 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
29392978 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
29393025 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
29393072 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
29393119 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
29393168 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
29393201 CCCGAAGGGC
Statistics
Matches: 407, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
47 362 0.89
49 41 0.10
50 4 0.01
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:29393374 original size:37 final size:37
Alignment explanation
Indices: 29393318--29393396 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
29393308 CCGAGCTCTA
* * *
29393318 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
29393355 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
29393392 AAGAC
1 AAGAC
29393397 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:29396959 original size:46 final size:46
Alignment explanation
Indices: 29396902--29397122 Score: 182
Period size: 46 Copynumber: 4.7 Consensus size: 46
29396892 GGGTCACTGG
29396902 TGTA-AGCTAGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATTA
1 TGTAGAGCTAGTGTAAGACATGTCTGGGACATGCATCG-CCACGA-TA
* * * *
29396948 TG-AGAGCTAGTGTAAGACATTTCTGGGACATGGCATCGACATTGAGA
1 TGTAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGCCA-CGATA
* * * ** * * *
29396995 CG-AGTGCTAGTGTAAGACAAGTCTGAAAGATGCATCAGCCTCGAGA
1 TGTAGAGCTAGTGTAAGACATGTCTGGGACATGCATC-GCCACGATA
* * *
29397041 TGTA-AGCCAGTGTAAGACATGTCTGGGACATGGCATTGGCATCGATA
1 TGTAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGCCA-CGATA
*
29397088 TGCTAGAGCTTGTGTAAGACCATGTCTGGGACATG
1 TG-TAGAGCTAGTGTAAGA-CATGTCTGGGACATG
29397123 GCGTCGGCAC
Statistics
Matches: 137, Mismatches: 27, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
45 1 0.01
46 63 0.46
47 44 0.32
48 3 0.02
49 12 0.09
50 14 0.10
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
TGTAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGCCACGATA
Done.