Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008033.1 Hibiscus syriacus cultivar Beakdansim tig00110515_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3048429
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 14
Found at i:250460 original size:8 final size:8
Alignment explanation
Indices: 250430--250480 Score: 52
Period size: 8 Copynumber: 6.2 Consensus size: 8
250420 TGTTTCAACA
250430 TTTTGGAT
1 TTTTGGAT
250438 ATTTTGGAT
1 -TTTTGGAT
250447 TGTTT-GATT
1 T-TTTGGA-T
250456 TTTTGGAT
1 TTTTGGAT
*
250464 TGTTGGA-
1 TTTTGGAT
250471 TTTTGGAT
1 TTTTGGAT
250479 TT
1 TT
250481 ATGATGGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
7 6 0.17
8 15 0.42
9 15 0.42
ACGTcount: A:0.14, C:0.00, G:0.25, T:0.61
Consensus pattern (8 bp):
TTTTGGAT
Found at i:250461 original size:17 final size:17
Alignment explanation
Indices: 250432--250474 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
250422 TTTCAACATT
*
250432 TTGGATATTTTGGATTG
1 TTGGATTTTTTGGATTG
*
250449 TTTGATTTTTTGGATTG
1 TTGGATTTTTTGGATTG
250466 TTGGATTTT
1 TTGGATTTT
250475 GGATTTATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.26, T:0.60
Consensus pattern (17 bp):
TTGGATTTTTTGGATTG
Found at i:251257 original size:75 final size:74
Alignment explanation
Indices: 251073--251279 Score: 238
Period size: 74 Copynumber: 2.8 Consensus size: 74
251063 CAAAGCCAAA
* * * * **
251073 AATTCCAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACTGATTCCCCCCTGAATGGT
1 AATTCCAGA-TGCTCGGAGGGAACCGA-TCCCCCCATAGGAGGAACCGATTACCCCCTAAACAGT
251138 TTGGCTCCGAG
64 TTGGCTCCGAG
* * *
251149 ATTTCTAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATT-CCCCCTAAACAGTT
1 AATTCCAG-ATGCTCGGAGGGAACCGATCCCCCCATAGGAGGAACCGATTACCCCCTAAACAGTT
* *
251213 TTGTTCCGAG
65 TGGCTCCGAG
* *
251223 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTACCCCCT
1 AATTCCAG-ATGCTCGGAGGGAACCGAT-CCCCCCATAGGAGGAACCGATTACCCCCT
251280 TGTACAACGG
Statistics
Matches: 112, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
74 56 0.50
75 33 0.29
76 22 0.20
77 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (74 bp):
AATTCCAGATGCTCGGAGGGAACCGATCCCCCCATAGGAGGAACCGATTACCCCCTAAACAGTTT
GGCTCCGAG
Found at i:259217 original size:8 final size:8
Alignment explanation
Indices: 259206--259240 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
259196 GAAATAGAAA
259206 AAAAAGAG
1 AAAAAGAG
259214 AAAAAGAG
1 AAAAAGAG
259222 -AAAAGA-
1 AAAAAGAG
259228 AAAAAGAG
1 AAAAAGAG
259236 AAAAA
1 AAAAA
259241 TAAAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 12 0.48
8 13 0.52
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (8 bp):
AAAAAGAG
Found at i:259246 original size:7 final size:7
Alignment explanation
Indices: 259186--259253 Score: 57
Period size: 7 Copynumber: 9.1 Consensus size: 7
259176 ATTATGCTTG
259186 AAGAAAA
1 AAGAAAA
259193 AATGAAATA
1 AA-GAAA-A
259202 GAA-AAAA
1 -AAGAAAA
259209 AAGAGAAA
1 AAGA-AAA
*
259217 AAGAGAA
1 AAGAAAA
259224 AAGAAAA
1 AAGAAAA
259231 AAGAGAAA
1 AAGA-AAA
*
259239 AATAAAA
1 AAGAAAA
*
259246 AATAAAA
1 AAGAAAA
259253 A
1 A
259254 TGAGGGTCAA
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
6 2 0.04
7 27 0.52
8 20 0.38
9 1 0.02
10 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (7 bp):
AAGAAAA
Found at i:259247 original size:22 final size:22
Alignment explanation
Indices: 259205--259253 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
259195 TGAAATAGAA
*
259205 AAAAAAGAGAAAAAGAGAAAAG
1 AAAAAAGAGAAAAAGAAAAAAG
* *
259227 AAAAAAGAGAAAAATAAAAAAT
1 AAAAAAGAGAAAAAGAAAAAAG
259249 AAAAA
1 AAAAA
259254 TGAGGGTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (22 bp):
AAAAAAGAGAAAAAGAAAAAAG
Found at i:260891 original size:123 final size:124
Alignment explanation
Indices: 260537--260980 Score: 688
Period size: 123 Copynumber: 3.6 Consensus size: 124
260527 TCAACATGCT
* * * * *
260537 AGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-A-TTAATAA-GAGAATAGC
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAAC
* * *
260599 TTGTTCAACCTTTTGCATGACTCTATCACAGAAGGAGAT--ATCATCATCAACTTTTCC
66 TTGTTCAACCTTTTGCATGACTCTATCACAAAAGGAGATGGATCAGCATTAACTTTTCC
*
260656 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAAC
*
260721 TTGTTCAATCTTTTGCATGACTCTATCACAAAAGGAGATGGATCAGCATTAACTTTTCC
66 TTGTTCAACCTTTTGCATGACTCTATCACAAAAGGAGATGGATCAGCATTAACTTTTCC
* * * *
260780 AAAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAATTTCAT-ATGAGAAGAGC
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAAC
260844 TTGTTCAACCTTTTGCATGACTCTATCACAAAAGGAGATGGATCAGCATTAACTTTTCC
66 TTGTTCAACCTTTTGCATGACTCTATCACAAAAGGAGATGGATCAGCATTAACTTTTCC
* *
260903 GGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-G-AAAAGAAGTTCATAATGAGAAGAAT
1 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAAC
260966 TTGTTCAACCTTTTG
66 TTGTTCAACCTTTTG
260981 TTTGAATTCA
Statistics
Matches: 299, Mismatches: 20, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
119 44 0.15
120 1 0.00
121 18 0.06
122 69 0.23
123 102 0.34
124 65 0.22
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (124 bp):
AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAAGAAGTTCATAATGAGAAGAAC
TTGTTCAACCTTTTGCATGACTCTATCACAAAAGGAGATGGATCAGCATTAACTTTTCC
Found at i:261035 original size:110 final size:111
Alignment explanation
Indices: 260912--261118 Score: 308
Period size: 111 Copynumber: 1.9 Consensus size: 111
260902 CGGAGAAAGT
* * *
260912 TCATAATGAGAAGAACTCATCTGAAGAAGAAA-AGAAGTTCATAATGAGAAGAATTTGTTCAACC
1 TCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAAAGTTCATAATAAGAAGAACTTGTTCAACC
* ** ***
260976 TTTTGTTTGAATTCATCATTTGATGGATCAGCATTCCAGGTCGAGC
66 TTTTGCTCAAATTCATCACCCGATGGATCAGCATTCCAGGTCGAGC
* *
261022 TCATAATGAGAAGAACTCATTTGAAGAGGAAAGAAAAGTTCATAATAAGAAGAACTTGTTCAACC
1 TCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAAAGTTCATAATAAGAAGAACTTGTTCAACC
261087 TTTTGCTCAAATTCATCACCCGATGGATCAGC
66 TTTTGCTCAAATTCATCACCCGATGGATCAGC
261119 GTTTCCAGAG
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
110 30 0.35
111 55 0.65
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (111 bp):
TCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAAAGTTCATAATAAGAAGAACTTGTTCAACC
TTTTGCTCAAATTCATCACCCGATGGATCAGCATTCCAGGTCGAGC
Found at i:261174 original size:111 final size:108
Alignment explanation
Indices: 260898--261163 Score: 300
Period size: 111 Copynumber: 2.4 Consensus size: 108
260888 AGCATTAACT
* * * *
260898 TTTCCGGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAAGAAGTTCATAATGAGAAG
1 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATTTGAAG-AG-AAAGAAGTTCATAATAAGAAG
* * ** ***
260963 AATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGC
64 AACTTGTTCAACCTTTTGCTCAAATTCATCACCCGATGGATCAGC
* ** *
261008 ATTCCAG-GTCGAGCTCATAATGAGAAGAACTCATTTGAAGAGGAAAGAAAAGTTCATAATAAGA
1 TTTCCAGAGAAG-GTTCATAATGAGAAGAACTCATTTGAAGA-GAAAG--AAGTTCATAATAAGA
261072 AGAACTTGTTCAACCTTTTGCTCAAATTCATCACCCGATGGATCAGC
62 AGAACTTGTTCAACCTTTTGCTCAAATTCATCACCCGATGGATCAGC
* * *
261119 GTTTCCAGAGAAGGTTCATAATGAGAATAATTTATTTGAAGAGAA
1 -TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATTTGAAGAGAA
261164 GAGCTTGTTC
Statistics
Matches: 128, Mismatches: 22, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
109 6 0.05
110 32 0.25
111 57 0.45
112 31 0.24
113 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (108 bp):
TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATTTGAAGAGAAAGAAGTTCATAATAAGAAGAA
CTTGTTCAACCTTTTGCTCAAATTCATCACCCGATGGATCAGC
Found at i:261468 original size:138 final size:135
Alignment explanation
Indices: 261232--261568 Score: 369
Period size: 135 Copynumber: 2.5 Consensus size: 135
261222 ATTTCCAGGT
* * *
261232 GAAGTTCATTAATGAGAAAAACTCATCTGAAAG-GGGAGAAGTTCATAATGAGAAGAATTTGTTC
1 GAAGTTCA-TAATGAGAAGAACTCATCTGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* ** * * * * * * *
261296 AACCTTGTATTGATTCATCTCCTATGGAATTGAATGAAAGAAGAAC-CTCATTTGAGGATCAATA
65 AACATTACATTAATTCATCACATAGGGAATTGAAT-AAACAA-AACACTCATTTGAAGATC--CA
*
261360 TTTTCAG-AG
126 TTTCCAGAAG
* *
261369 GAAGTTCATAATGAGAAGAACTCATATGAAGATGAAGAAGAAGTTCATAAAGA-AAGAATTTGTT
1 GAAGTTCATAATGAGAAGAACTCATCTGAA-A-GAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * * * *
261433 CAACATTACCTTAATTCATCACATAGGGAGTTGAATCAACAAATCACTCTTTTGAAGATCCATTT
64 CAACATTACATTAATTCATCACATAGGGAATTGAATAAACAAAACACTCATTTGAAGATCCATTT
261498 CCAGAAG
129 CCAGAAG
261505 G-AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 GAAGTTCATAATGAGAAGAACTCATCTG--AAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
261569 AACTTTTTGC
Statistics
Matches: 169, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
135 51 0.30
136 37 0.22
137 27 0.16
138 39 0.23
139 15 0.09
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.28
Consensus pattern (135 bp):
GAAGTTCATAATGAGAAGAACTCATCTGAAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
ACATTACATTAATTCATCACATAGGGAATTGAATAAACAAAACACTCATTTGAAGATCCATTTCC
AGAAG
Found at i:261803 original size:17 final size:16
Alignment explanation
Indices: 261787--261856 Score: 97
Period size: 16 Copynumber: 4.4 Consensus size: 16
261777 ATTTTTTTAT
*
261787 TTATTATTTAATTTTA
1 TTATTATTTAATATTA
261803 TTATTATTTAATATTA
1 TTATTATTTAATATTA
*
261819 TTAATATATTAATATTA
1 TTATTAT-TTAATATTA
*
261836 TTATTA-TTATTATTA
1 TTATTATTTAATATTA
261851 TTATTA
1 TTATTA
261857 ATAATAAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
15 14 0.29
16 21 0.43
17 14 0.29
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATTATTTAATATTA
Found at i:261824 original size:9 final size:9
Alignment explanation
Indices: 261804--261880 Score: 79
Period size: 9 Copynumber: 8.6 Consensus size: 9
261794 TTAATTTTAT
261804 TATTATTTAA
1 TATTA-TTAA
261814 TATTATTAA
1 TATTATTAA
261823 TA-TATTAA
1 TATTATTAA
*
261831 TATTATTAT
1 TATTATTAA
*
261840 TATTATTAT
1 TATTATTAA
261849 TATTATTAA
1 TATTATTAA
*
261858 TA--ATAAA
1 TATTATTAA
261865 TAATTATTACA
1 T-ATTATTA-A
261876 TATTA
1 TATTA
261881 CAAGCCCAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
7 5 0.09
8 9 0.16
9 30 0.52
10 12 0.21
11 2 0.03
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (9 bp):
TATTATTAA
Found at i:261873 original size:3 final size:3
Alignment explanation
Indices: 261787--261856 Score: 74
Period size: 3 Copynumber: 24.0 Consensus size: 3
261777 ATTTTTTTAT
* * *
261787 TTA TTA TT- TAA TT- TTA TTA TTA TTTA ATA TTA TTA ATA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
*
261830 ATA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
261857 ATAATAAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
2 5 0.09
3 48 0.86
4 3 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:262586 original size:25 final size:25
Alignment explanation
Indices: 262558--262614 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
262548 GACCACCGAT
262558 GACGGTGGCCGGCGGCGAGATCTGC
1 GACGGTGGCCGGCGGCGAGATCTGC
262583 GACGGTGGCCGGCGGCGAGATCTGC
1 GACGGTGGCCGGCGGCGAGATCTGC
262608 GACGGTG
1 GACGGTG
262615 ATCGACGCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.12, C:0.26, G:0.49, T:0.12
Consensus pattern (25 bp):
GACGGTGGCCGGCGGCGAGATCTGC
Found at i:264178 original size:194 final size:194
Alignment explanation
Indices: 263811--264198 Score: 712
Period size: 195 Copynumber: 2.0 Consensus size: 194
263801 ATTTTAAAAG
263811 ATTGTTTTGACCTACCTAACTCAAAAAAAAGGTCAATGCGACTCCCAAAATATTTTTAAATCAAA
1 ATTGTTTTGACCTACCTAACTCAAAAAAAAGGTCAATGCGACTCCCAAAATATTTTTAAATCAAA
263876 ATCATTTTTTCATTATTTTTCACGCCAAGTAAAAATTTCGTGCCCGGGAAAAACCGGTTACGACA
66 ATCATTTTTTCATTATTTTTCACGCCAAGTAAAAATTTCGTGCCCGGGAAAAACCGGTTACGACA
263941 TAGATATTTACAAGGCCAAAACGATGCCCATTTAGATTTACAATTGAAAC-AATTATCAATTCA
131 TAGATATTTACAAGGCCAAAACGATGCCCATTTAGATTTACAATTGAAACAAATTATCAATTCA
264004 ATTGTTTTTGACCTACCTAACTC-AAAAAAAGGTCAATGGCGACTCCCAAAATATTTTTAAATCA
1 ATTG-TTTTGACCTACCTAACTCAAAAAAAAGGTCAAT-GCGACTCCCAAAATATTTTTAAATCA
264068 AAATCATTTTTTTGCATTATTTTTCACGCCAAGTAAAAATTTCGTGCCCGGGAAAAACC-GTTAC
64 AAATCA-TTTTTT-CATTATTTTTCACGCCAAGTAAAAATTTCGTGCCCGGGAAAAACCGGTTAC
264132 GACATAGATATTTACAAGGCCAAAACGATGCCCATTTAGA-TTACAATTGAAACAAATTATCAAT
127 GACATAGATATTTACAAGGCCAAAACGATGCCCATTTAGATTTACAATTGAAACAAATTATCAAT
264196 TCA
192 TCA
264199 CTAAATACCA
Statistics
Matches: 190, Mismatches: 0, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
193 18 0.09
194 63 0.33
195 64 0.34
196 45 0.24
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.31
Consensus pattern (194 bp):
ATTGTTTTGACCTACCTAACTCAAAAAAAAGGTCAATGCGACTCCCAAAATATTTTTAAATCAAA
ATCATTTTTTCATTATTTTTCACGCCAAGTAAAAATTTCGTGCCCGGGAAAAACCGGTTACGACA
TAGATATTTACAAGGCCAAAACGATGCCCATTTAGATTTACAATTGAAACAAATTATCAATTCA
Found at i:269721 original size:34 final size:33
Alignment explanation
Indices: 269653--269721 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 33
269643 AGATCATTAT
*
269653 ATTTACTTATTTTCATTTCATCTTAAACTATGC
1 ATTTACTTATTTTCATTTCATCCTAAACTATGC
*
269686 ATTTACTTATGTTTCATATTCATCCTGAACT-TGC
1 ATTTACTTAT-TTTCAT-TTCATCCTAAACTATGC
269720 AT
1 AT
269722 ACTTACTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
33 10 0.31
34 11 0.34
35 11 0.34
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.49
Consensus pattern (33 bp):
ATTTACTTATTTTCATTTCATCCTAAACTATGC
Found at i:272004 original size:4 final size:4
Alignment explanation
Indices: 271983--272020 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
271973 TTTTTAAACA
271983 AAAT AAA- ATAAT -AAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
272021 GAGAATAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 4 0.13
4 27 0.87
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:272267 original size:17 final size:19
Alignment explanation
Indices: 272245--272285 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
272235 GATACACTAA
272245 CTAAAAGAA-AAAAA-ATC
1 CTAAAAGAATAAAAAGATC
*
272262 CTAAAATAATAAAAAGATC
1 CTAAAAGAATAAAAAGATC
272281 CTAAA
1 CTAAA
272286 TTATCCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 5 0.24
19 8 0.38
ACGTcount: A:0.66, C:0.12, G:0.05, T:0.17
Consensus pattern (19 bp):
CTAAAAGAATAAAAAGATC
Found at i:273005 original size:17 final size:17
Alignment explanation
Indices: 272983--273023 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
272973 TATCTCTTCA
272983 TCTTCTTCTCC-TTATT
1 TCTTCTTCTCCATTATT
*
272999 TCATTCTTCTCCATTTTT
1 TC-TTCTTCTCCATTATT
273017 TCTTCTT
1 TCTTCTT
273024 ACCCTTTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 2 0.09
17 14 0.64
18 6 0.27
ACGTcount: A:0.07, C:0.29, G:0.00, T:0.63
Consensus pattern (17 bp):
TCTTCTTCTCCATTATT
Found at i:276034 original size:22 final size:21
Alignment explanation
Indices: 276008--276049 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
275998 TATTTAAACT
276008 AAATTAAATATTTTTCATATTA
1 AAATTAAATATTTTT-ATATTA
* *
276030 AAATTTATTATTTTTATATT
1 AAATTAAATATTTTTATATT
276050 TCTAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
AAATTAAATATTTTTATATTA
Found at i:276080 original size:52 final size:52
Alignment explanation
Indices: 275976--276072 Score: 128
Period size: 50 Copynumber: 1.9 Consensus size: 52
275966 AAATTTAAAA
275976 TAAAATTTATTTATATTTTACATATTTAAACTAAATTAAATATTTTTCATAT
1 TAAAATTTATTTATATTTTACATATTTAAACTAAATTAAATATTTTTCATAT
* * * *
276028 TAAAATTTA-TTAT-TTTTATAT-TTCTAAATTAAATTCAGTATTTTT
1 TAAAATTTATTTATATTTTACATATT-TAAACTAAATTAAATATTTTT
276073 TTCATATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
49 2 0.05
50 25 0.62
51 4 0.10
52 9 0.22
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.55
Consensus pattern (52 bp):
TAAAATTTATTTATATTTTACATATTTAAACTAAATTAAATATTTTTCATAT
Found at i:276904 original size:24 final size:24
Alignment explanation
Indices: 276877--276948 Score: 135
Period size: 24 Copynumber: 3.0 Consensus size: 24
276867 TCAAAGATTT
*
276877 CACTTATAGAATTGAGTTTTACTA
1 CACTTACAGAATTGAGTTTTACTA
276901 CACTTACAGAATTGAGTTTTACTA
1 CACTTACAGAATTGAGTTTTACTA
276925 CACTTACAGAATTGAGTTTTACTA
1 CACTTACAGAATTGAGTTTTACTA
276949 TGGCACTGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (24 bp):
CACTTACAGAATTGAGTTTTACTA
Found at i:280975 original size:21 final size:22
Alignment explanation
Indices: 280944--280988 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
280934 AATCTCAAAT
280944 CCATAAAAATCCCTAA-AATCAA
1 CCATAAAAATCCCTAACAAT-AA
*
280966 CCAT-AAAATCTCTAACAATAA
1 CCATAAAAATCCCTAACAATAA
280987 CC
1 CC
280989 TTACCAACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (22 bp):
CCATAAAAATCCCTAACAATAA
Found at i:281334 original size:7 final size:7
Alignment explanation
Indices: 281322--281357 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
281312 AAATACTATA
281322 TGAATAG
1 TGAATAG
281329 TGAATAG
1 TGAATAG
281336 TGAATAG
1 TGAATAG
*
281343 TGAACAG
1 TGAATAG
281350 TGAATAG
1 TGAATAG
281357 T
1 T
281358 ACGATGAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.42, C:0.03, G:0.28, T:0.28
Consensus pattern (7 bp):
TGAATAG
Found at i:282266 original size:23 final size:23
Alignment explanation
Indices: 282240--282285 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
282230 CGAAGGACCG
282240 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
282263 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
282286 TATAATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:288448 original size:25 final size:24
Alignment explanation
Indices: 288420--288515 Score: 74
Period size: 23 Copynumber: 4.0 Consensus size: 24
288410 CACCACAGCT
* *
288420 CGTATAAATTTGCACCGTAGTGCCA
1 CGTAGAAA-TTGCACCGAAGTGCCA
* *
288445 CGTAGAATTTTGTC-CCGAAG-GACCG
1 CGTAGAA-ATTG-CACCGAAGTG-CCA
*
288470 CGTAGAAA-TACACCGAAGTGCCA
1 CGTAGAAATTGCACCGAAGTGCCA
*
288493 CGTAG-AATTGCACCGTAGTGCCA
1 CGTAGAAATTGCACCGAAGTGCCA
288516 TATAATATGT
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
22 3 0.05
23 27 0.48
24 2 0.04
25 23 0.41
26 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (24 bp):
CGTAGAAATTGCACCGAAGTGCCA
Found at i:288660 original size:24 final size:24
Alignment explanation
Indices: 288628--288695 Score: 127
Period size: 24 Copynumber: 2.8 Consensus size: 24
288618 ATACATATAC
288628 GTCCCGAAGGACCACGTAGAATTT
1 GTCCCGAAGGACCACGTAGAATTT
288652 GTCCCGAAGGACCACGTAGAATTT
1 GTCCCGAAGGACCACGTAGAATTT
*
288676 GTCCCGAAGGACCGCGTAGA
1 GTCCCGAAGGACCACGTAGA
288696 CCCTTTACTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (24 bp):
GTCCCGAAGGACCACGTAGAATTT
Found at i:305844 original size:16 final size:15
Alignment explanation
Indices: 305823--305863 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
305813 CAAGGATAAT
305823 AAAGAAAAAAACAAAA
1 AAAGAAAAAAA-AAAA
*
305839 AAAGAAAGAAAAAAAT
1 AAAGAAA-AAAAAAAA
305855 AAAGAAAAA
1 AAAGAAAAA
305864 GGGAAGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 2 0.09
16 17 0.74
17 4 0.17
ACGTcount: A:0.85, C:0.02, G:0.10, T:0.02
Consensus pattern (15 bp):
AAAGAAAAAAAAAAA
Found at i:306993 original size:33 final size:32
Alignment explanation
Indices: 306867--307029 Score: 245
Period size: 32 Copynumber: 5.1 Consensus size: 32
306857 AATAGAGGGA
*
306867 ATCTTTGAAGATTCAACATCAAATGTTGGGGC
1 ATCTTTGGAGATTCAACATCAAATGTTGGGGC
*
306899 ATCTTTGGAGATTCAACATCAAATGTTGAGGC
1 ATCTTTGGAGATTCAACATCAAATGTTGGGGC
* *
306931 ATCTTTGGAGATTCAATATTAAATGTTGGGGC
1 ATCTTTGGAGATTCAACATCAAATGTTGGGGC
306963 ATCTTTGGAGATTCAACATCAAAATGTTGGGGC
1 ATCTTTGGAGATTCAACATC-AAATGTTGGGGC
* * * *
306996 ATCTTTGGAGATTCAATATCGAATATTGTGGC
1 ATCTTTGGAGATTCAACATCAAATGTTGGGGC
307028 AT
1 AT
307030 TCAATATCCT
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
32 88 0.74
33 31 0.26
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (32 bp):
ATCTTTGGAGATTCAACATCAAATGTTGGGGC
Found at i:307171 original size:34 final size:34
Alignment explanation
Indices: 307136--307290 Score: 224
Period size: 34 Copynumber: 4.6 Consensus size: 34
307126 AATTTTTTTT
* * *
307136 GTCTCACTCGAGACAATTTCTCAAAATAAAGTTT-
1 GTCTCGCTTGAGACAATTTCTCAAAACAAA-TTTC
* *
307170 GTCTTAG-TTGAGACAATTTCTCAAAACAAATTTG
1 GTC-TCGCTTGAGACAATTTCTCAAAACAAATTTC
*
307204 GTCTCGCTTGAGACCATTTCTCAAAACAAATTTC
1 GTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
307238 GTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
1 GTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
307272 GTCTCGCTTGAGACAATTT
1 GTCTCGCTTGAGACAATTT
307291 TTCTCTGAGA
Statistics
Matches: 110, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
33 5 0.05
34 104 0.95
35 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (34 bp):
GTCTCGCTTGAGACAATTTCTCAAAACAAATTTC
Found at i:307579 original size:36 final size:36
Alignment explanation
Indices: 307532--307677 Score: 211
Period size: 36 Copynumber: 4.1 Consensus size: 36
307522 TTTTTAAAGA
* * *
307532 AAATTTTATCTCTCTTGAGATAGTTTCCCTTGAAAT
1 AAATTTTATCTCCCTTGAGACAGTTTCCCTTGAAAC
**
307568 AAATTTTATCTCCCTTGAGATGGTTTCCCTTGAAAC
1 AAATTTTATCTCCCTTGAGACAGTTTCCCTTGAAAC
*
307604 AAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC
1 AAATTTTATCTCCCTTGAGACAGTTTCCCTTGAAAC
* * *
307640 AAATTTTGTCTCCCTTGAGACAGTCTCCCTTGAGAC
1 AAATTTTATCTCCCTTGAGACAGTTTCCCTTGAAAC
307676 AA
1 AA
307678 TTTCACTTGA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 102 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.38
Consensus pattern (36 bp):
AAATTTTATCTCCCTTGAGACAGTTTCCCTTGAAAC
Found at i:307619 original size:21 final size:21
Alignment explanation
Indices: 307593--307657 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
307583 TGAGATGGTT
307593 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
* *
307614 TCCCTTGAGAC--A----GTT
1 TCCCTTGAAACAAATTTTGTC
307629 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
307650 TCCCTTGA
1 TCCCTTGA
307658 GACAGTCTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 12 0.35
17 1 0.03
19 1 0.03
21 20 0.59
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (21 bp):
TCCCTTGAAACAAATTTTGTC
Found at i:307729 original size:39 final size:39
Alignment explanation
Indices: 307663--307739 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 39
307653 CTTGAGACAG
*
307663 TCTCCCTTGAGACAATTTCACTTGAAACAAAAGATTTTA
1 TCTCCCTTGAGACAATTTCACTCGAAACAAAAGATTTTA
* * * * * *
307702 TCTCGCTTGAGATAGTTTCGCTCGAAACACAATATTTT
1 TCTCCCTTGAGACAATTTCACTCGAAACAAAAGATTTT
307740 TAGAAACTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (39 bp):
TCTCCCTTGAGACAATTTCACTCGAAACAAAAGATTTTA
Found at i:307808 original size:43 final size:43
Alignment explanation
Indices: 307760--307948 Score: 256
Period size: 43 Copynumber: 4.4 Consensus size: 43
307750 GCCTGATTTT
*
307760 TAGGGGTTTCTTGAAGTAAAGCTTGAGAAACCATCGTGATATG
1 TAGGGGTTTCTTGAAGAAAAGCTTGAGAAACCATCGTGATATG
* **
307803 TAGGGGTTTCTT-AATGAAAAACTTGAGGGACCATCGTGATATG
1 TAGGGGTTTCTTGAA-GAAAAGCTTGAGAAACCATCGTGATATG
* * *
307846 TAGGGGTTCCTTGATGACAAGCTTGAGAAACCATCGTGATATG
1 TAGGGGTTTCTTGAAGAAAAGCTTGAGAAACCATCGTGATATG
* **
307889 TAGGGGTTTCTTGATGAAAAGCTTGAGGGACCATCGTGATATG
1 TAGGGGTTTCTTGAAGAAAAGCTTGAGAAACCATCGTGATATG
307932 TAGGGG-TTCTTTGAAGA
1 TAGGGGTTTC-TTGAAGA
307949 CAAATTTGAT
Statistics
Matches: 128, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
42 5 0.04
43 122 0.95
44 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (43 bp):
TAGGGGTTTCTTGAAGAAAAGCTTGAGAAACCATCGTGATATG
Found at i:307906 original size:86 final size:86
Alignment explanation
Indices: 307760--307951 Score: 323
Period size: 86 Copynumber: 2.2 Consensus size: 86
307750 GCCTGATTTT
*
307760 TAGGGGTTTCTTGAAGTA-AAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTAATGAAAAA
1 TAGGGGTTCCTTGAAG-ACAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTAATGAAAAA
307824 CTTGAGGGACCATCGTGATATG
65 CTTGAGGGACCATCGTGATATG
* * *
307846 TAGGGGTTCCTTGATGACAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGATGAAAAGC
1 TAGGGGTTCCTTGAAGACAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTAATGAAAAAC
307911 TTGAGGGACCATCGTGATATG
66 TTGAGGGACCATCGTGATATG
*
307932 TAGGGGTTCTTTGAAGACAA
1 TAGGGGTTCCTTGAAGACAA
307952 ATTTGATGAA
Statistics
Matches: 99, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
85 1 0.01
86 98 0.99
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.30
Consensus pattern (86 bp):
TAGGGGTTCCTTGAAGACAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTAATGAAAAAC
TTGAGGGACCATCGTGATATG
Found at i:308169 original size:90 final size:90
Alignment explanation
Indices: 308033--308437 Score: 618
Period size: 90 Copynumber: 4.5 Consensus size: 90
308023 ATTTTCAAGA
* ** *
308033 GTTTCTTGATTTTTAAGTCCTTCGGGTCATCCATAAGACCAACAGTGAAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
308098 GATCTAAGAAACTGAGCCTTCGAGG
66 GATCTAAGAAACTGAGCCTTCGAGG
* *
308123 GTTTCTTGATTTTTAAGTCCTTTGGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
308188 GATCTAAGAAACTGAGCCTTCG-GTG
66 GATCTAAGAAACTGAGCCTTCGAG-G
* *
308213 GTTTCTTGATTTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAGTGCATGATGTTTTCAAATG
1 GTTTCTTGA-TTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATG
*
308278 AGATCTAAGAAACTGAGCCTTCGGGG
65 AGATCTAAGAAACTGAGCCTTCGAGG
*
308304 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGACCTTCAGTGCAGGATGTTTTCAAATGA
1 GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
* * *
308369 GATTTAAGAAATTAAGCCTTC-AGG
66 GATCTAAGAAACTGAGCCTTCGAGG
* * *
308393 GTTTCTTGATTTTTTAAGTCTTTCAGG-CAACCATAAGACCTTCAG
1 GTTTCTTGA-TTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAG
308438 GTAAAATGCT
Statistics
Matches: 290, Mismatches: 21, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
89 28 0.10
90 177 0.61
91 84 0.29
92 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (90 bp):
GTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGA
GATCTAAGAAACTGAGCCTTCGAGG
Found at i:308346 original size:181 final size:180
Alignment explanation
Indices: 308033--308437 Score: 670
Period size: 181 Copynumber: 2.3 Consensus size: 180
308023 ATTTTCAAGA
**
308033 GTTTCTTGA-TTTTTAAGTCCTTCGGGTCATCCATAAGACCAACAGTGAAGGATGTTTTCAAATG
1 GTTTCTTGATTTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAGTGAAGGATGTTTTCAAATG
*
308097 AGATCTAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTAAGTCCTTTGGGCCATCCGTAAGAC
66 AGATCTAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGAC
* *
308162 CTTCAGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTGAGCCTTCGGTG
131 CTTCAGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTAAGCCTTCAG-G
* *
308213 GTTTCTTGATTTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAGTGCATGATGTTTTCAAATG
1 GTTTCTTGATTTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAGTGAAGGATGTTTTCAAATG
*
308278 AGATCTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGAC
66 AGATCTAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGAC
* *
308343 CTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAATTAAGCCTTCAGG
131 CTTCAGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTAAGCCTTCAGG
* * *
308393 GTTTCTTGATTTTTTAAGTCTTTCAGG-CAACCATAAGACCTTCAG
1 GTTTCTTGATTTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAG
308438 GTAAAATGCT
Statistics
Matches: 211, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
179 17 0.08
180 35 0.17
181 159 0.75
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (180 bp):
GTTTCTTGATTTTTTAAGTCCTTCGGGTCATCCATAAGACCTTCAGTGAAGGATGTTTTCAAATG
AGATCTAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCGTAAGAC
CTTCAGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTAAGCCTTCAGG
Found at i:308639 original size:3 final size:3
Alignment explanation
Indices: 308624--308660 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
308614 GGTTAAAAAA
*
308624 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
308661 AGTGTGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 1 0.03
3 30 0.97
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:314670 original size:24 final size:24
Alignment explanation
Indices: 314643--314704 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
314633 CGCTGACCTA
* *
314643 ACCTGATCCGACCCGAACTGTTTG
1 ACCTGACCCGACCCAAACTGTTTG
*
314667 ACCTGACCCTACCCAAACTGTTTG
1 ACCTGACCCGACCCAAACTGTTTG
**
314691 ACCCAACCCGACCC
1 ACCTGACCCGACCC
314705 GTTAACTGTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.24, C:0.42, G:0.15, T:0.19
Consensus pattern (24 bp):
ACCTGACCCGACCCAAACTGTTTG
Found at i:314772 original size:16 final size:16
Alignment explanation
Indices: 314751--314797 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
314741 GACTCGACCC
314751 GTTGACTTTAACCAGA
1 GTTGACTTTAACCAGA
* *
314767 GTTGACTTTGATCAGA
1 GTTGACTTTAACCAGA
314783 GTTGACTTTGAACCA
1 GTTGACTTT-AACCA
314798 AAAAGTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 23 0.88
17 3 0.12
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (16 bp):
GTTGACTTTAACCAGA
Found at i:317156 original size:55 final size:55
Alignment explanation
Indices: 316947--317259 Score: 373
Period size: 55 Copynumber: 5.7 Consensus size: 55
316937 TACCGAATGA
* *
316947 GCACTATATGTGCAA-CCCAAGAAATTCATAATAAGTTTATGAATTTTCGTATTG
1 GCACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTG
* * *
317001 ACACTACGTGTGCAACCCCCACGAAATTCATAATGAGTTTATGAA-TTTCTGTATTG
1 GCACTATGTGTGCAA-CCCCAAGAAATTCATAATGAGTTTATGAATTTTC-GTATTG
* * * *
317057 GCACTATGTGTGCAA-TCTAAGGAATTCATAATAAGTTTATGAATTTTCGTATTG
1 GCACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTG
* *
317111 GCACTATGTGTGCAACCTCACGAAATTCATAATGAGTTTATGAATTTTCGTATTG
1 GCACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTG
* * * * * * *
317166 GCACTATGTGTGCAACCCCATGTACTTCATAACGAGTTTATGAATTATCATATAG
1 GCACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTG
* **
317221 GCACTAAGTGTGCAGAAACCATAGAAATT-ATAATGAGTT
1 GCACTATGTGTGCA-ACCCCA-AGAAATTCATAATGAGTT
317260 GTAATACTCA
Statistics
Matches: 219, Mismatches: 33, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
54 56 0.26
55 101 0.46
56 58 0.26
57 4 0.02
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (55 bp):
GCACTATGTGTGCAACCCCAAGAAATTCATAATGAGTTTATGAATTTTCGTATTG
Found at i:320196 original size:16 final size:16
Alignment explanation
Indices: 320175--320207 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
320165 CCCATTTATC
320175 ATTTTAAAACACACTT
1 ATTTTAAAACACACTT
320191 ATTTTAAAACACACTT
1 ATTTTAAAACACACTT
320207 A
1 A
320208 AAACCACTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTTTAAAACACACTT
Found at i:321881 original size:21 final size:21
Alignment explanation
Indices: 321855--321894 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
321845 CAGAACCCCA
*
321855 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
321876 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
321895 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:321929 original size:20 final size:21
Alignment explanation
Indices: 321875--321937 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
321865 GATTCCCCTG
321875 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
321899 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
321919 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
321938 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:331205 original size:22 final size:22
Alignment explanation
Indices: 331180--331224 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
331170 CTGAACCGGT
* *
331180 CCGACCCGACCCGACCGTTGAC
1 CCGACCCGAACCGACAGTTGAC
331202 CCGACCCGAACCGACAGTTGAC
1 CCGACCCGAACCGACAGTTGAC
331224 C
1 C
331225 GTTGACCGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.47, G:0.22, T:0.09
Consensus pattern (22 bp):
CCGACCCGAACCGACAGTTGAC
Found at i:331274 original size:29 final size:29
Alignment explanation
Indices: 331232--331384 Score: 121
Period size: 29 Copynumber: 5.3 Consensus size: 29
331222 ACCGTTGACC
* **
331232 GGTGATATTCTGGGAATTAATTCGATTTT
1 GGTGCTATTCTGGGAATTAATTCGAAATT
331261 GGTGCTATTCTGGGAATTAATTCGAAATT
1 GGTGCTATTCTGGGAATTAATTCGAAATT
* ** ** **
331290 GGTGCTATTTTGATAATTTTTTCGAAAAAG
1 GGTGCTATTCTGGGAATTAATTCG-AAATT
* *
331320 GGTGATATTCTAGGAATTAATTCGAAA-T
1 GGTGCTATTCTGGGAATTAATTCGAAATT
* * * * **
331348 -ATGCTATTTTGGTAATTAATTTGAAAAG
1 GGTGCTATTCTGGGAATTAATTCGAAATT
331376 GGTGCTATT
1 GGTGCTATT
331385 TTGGTTATTA
Statistics
Matches: 95, Mismatches: 26, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
27 20 0.21
29 55 0.58
30 20 0.21
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTCGAAATT
Found at i:331389 original size:29 final size:29
Alignment explanation
Indices: 331261--331415 Score: 113
Period size: 29 Copynumber: 5.3 Consensus size: 29
331251 ATTCGATTTT
* * * **
331261 GGTGCTATTCTGGGAATTAATTCGAAATT
1 GGTGCTATTTTGGTAATTAATTTGAAAAG
* *
331290 GGTGCTATTTTGATAATT-TTTTCGAAAAAG
1 GGTGCTATTTTGGTAATTAATTT-G-AAAAG
* * *
331320 GGTGATATTCTAGG-AATTAATTCGAAATA-
1 GGTGCTATT-TTGGTAATTAATTTGAAA-AG
331349 --TGCTATTTTGGTAATTAATTTGAAAAG
1 GGTGCTATTTTGGTAATTAATTTGAAAAG
* * *
331376 GGTGCTATTTTGGTTATTATTTTAAAAAG
1 GGTGCTATTTTGGTAATTAATTTGAAAAG
331405 TGGTGCTATTT
1 -GGTGCTATTT
331416 ATTTAAAATG
Statistics
Matches: 98, Mismatches: 18, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
26 4 0.04
27 18 0.18
28 2 0.02
29 43 0.44
30 27 0.28
31 4 0.04
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (29 bp):
GGTGCTATTTTGGTAATTAATTTGAAAAG
Found at i:332166 original size:14 final size:14
Alignment explanation
Indices: 332149--332186 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
332139 ACATGATACG
332149 TGATTTCTGAATAT-
1 TGATTTCTG-ATATC
332163 TGATTTCCTGATATC
1 TGATTT-CTGATATC
332178 TGATTTCTG
1 TGATTTCTG
332187 TATTTCGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.21, C:0.13, G:0.16, T:0.50
Consensus pattern (14 bp):
TGATTTCTGATATC
Found at i:332680 original size:19 final size:18
Alignment explanation
Indices: 332641--332674 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
332631 ATTTGCTGTC
332641 GTTTTGGATATATATTTT
1 GTTTTGGATATATATTTT
*
332659 GTTTTGTAT-TATATTT
1 GTTTTGGATATATATTT
332675 AATGTTCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.65
Consensus pattern (18 bp):
GTTTTGGATATATATTTT
Found at i:332930 original size:20 final size:20
Alignment explanation
Indices: 332905--332944 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
332895 CGCTTACTTT
332905 GCAGGTTGTTTGCCTCCTTC
1 GCAGGTTGTTTGCCTCCTTC
332925 GCAGGTTGTTTGCCTCCTTC
1 GCAGGTTGTTTGCCTCCTTC
332945 CTAGATCCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.05, C:0.30, G:0.25, T:0.40
Consensus pattern (20 bp):
GCAGGTTGTTTGCCTCCTTC
Found at i:337050 original size:105 final size:105
Alignment explanation
Indices: 336864--338040 Score: 1853
Period size: 105 Copynumber: 11.3 Consensus size: 105
336854 GCATTGTTCA
* * ** *
336864 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
336924 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
336964 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
*
337029 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * *
337069 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
337134 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
337174 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
*
337239 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
337279 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAAATTGAGAA---GTTATTGATAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
337341 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
337381 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
337446 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
337486 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA---GTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
*
337548 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
337588 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
337653 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
337693 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA---GTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
337755 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
337795 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCACTGAAATTGAGAAGTTGTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
337860 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
337900 GAGTCTAATATCCTTCGTTGTGAAATTGAAATTAGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAG
* * * *
337965 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
338006 GAGTGCCACGATATCC-TCCTTCGTGGAGTTGAAAT
1 GAGT-CCA--ATATCCTTCGTT-GTGAAGTTGAAAT
338041 CGCAGATGGC
Statistics
Matches: 1004, Mismatches: 54, Indels: 29
0.92 0.05 0.03
Matches are distributed among these distances:
100 35 0.03
101 1 0.00
102 295 0.29
103 2 0.00
104 2 0.00
105 596 0.59
106 50 0.05
107 2 0.00
108 4 0.00
109 17 0.02
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:337392 original size:207 final size:208
Alignment explanation
Indices: 336864--338004 Score: 1898
Period size: 207 Copynumber: 5.5 Consensus size: 208
336854 GCATTGTTCA
* * ** *
336864 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTG-AA-TGA-AATTTTGTTGACAAGCA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
* *
336926 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
* * * *
336991 AAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
337056 CTTGCATTGTCTG
196 CTTGCGTTGTCTG
** *
337069 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--TGTTGTTGACAAG
*
337134 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAG
*
337199 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
129 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTG
*
337264 AACTTGCGTTGTCTC
194 AACTTGCGTTGTCTG
* * * *
337279 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAAATTGAGAA-GTTATTGATAGGCA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
337343 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
337408 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAA
337473 CTTGCGTTGTCTG
196 CTTGCGTTGTCTG
*
337486 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-GTTGTTGACAGGCA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
*
337550 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAAAGTCCAATATCCTTCATTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
337615 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAA
337680 CTTGCGTTGTCTG
196 CTTGCGTTGTCTG
*
337693 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-GTTGTTGACAGGCA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
337757 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
*
337822 GAAATTGGCACTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAA
337887 CTTGCGTTGTCTG
196 CTTGCGTTGTCTG
* * * *
337900 GAGTCTAATATCCTTCGTTGTGAAATTGAAATTAGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--TG-TTGTTGACAA
* * *
337965 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
63 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
338005 CGAGTGCCAC
Statistics
Matches: 890, Mismatches: 37, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
205 36 0.04
206 1 0.00
207 607 0.68
208 2 0.00
210 198 0.22
211 46 0.05
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (208 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAA
CTTGCGTTGTCTG
Found at i:338734 original size:68 final size:65
Alignment explanation
Indices: 338644--338801 Score: 190
Period size: 68 Copynumber: 2.4 Consensus size: 65
338634 AAGATATCTG
* * ** *
338644 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATATTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATT-TATTTTAAGGGAAATAAATTCAAAG-G
338709 TT
64 TT
* * * * *
338711 TGTGTTTCAAGAGTAACTGTCTCAAGGGAGATAAAATTTGTTTTAGGGGAAATAAATTCAAAGGT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTATTTTAAGGGAAATAAATTCAAAGGT
338776 T
65 T
*
338777 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
338802 ATAGACGAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
65 22 0.28
66 3 0.04
67 22 0.28
68 31 0.40
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTATTTTAAGGGAAATAAATTCAAAGGTT
Found at i:338813 original size:65 final size:66
Alignment explanation
Indices: 338645--338826 Score: 170
Period size: 68 Copynumber: 2.7 Consensus size: 66
338635 AGATATCTGT
* * * * * ** *
338645 TGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATATTTTAAGGGAAATAAATTTGAAGATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-T-TGTTTTAAGGGAAATAAATTCAAAGAGT
338710 TTG
64 TTG
* * * *
338713 TGTTTCAAGAGTAACTGTCTCAAGGGAGATAAAATTTGTTTTAGGGGAAATAAATTCAAAG-GTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTGTTTTAAGGGAAATAAATTCAAAGAGTT
338777 T-
65 TG
* * * * *
338778 TGTTTCAAGGGAAACTGTCTCAAGATAGACGAAATTGTTTCAAGAGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTGTTTTAAGGGAAA
338827 CTGTCTCAAG
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
64 12 0.13
65 28 0.29
66 3 0.03
67 21 0.22
68 31 0.33
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (66 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTGTTTTAAGGGAAATAAATTCAAAGAGTTT
G
Found at i:338874 original size:137 final size:137
Alignment explanation
Indices: 338725--339037 Score: 412
Period size: 137 Copynumber: 2.3 Consensus size: 137
338715 TTTCAAGAGT
* * * * * *
338725 AACTGTCTCAAGGGAGATAAAATTTGTTTTAGGGGAAATAAATTCAAAGGTTTTGTTTCAAGGGA
1 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTCTGTTTCAAGGGA
* * *
338790 AACTGTCTCAAGATAGACGAAA-TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTT
66 AACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTAGTT
338854 CCAAAAGA
130 CCAAAAGA
** * * * *
338862 AACTGTCTCAAGGGAGACGGAATTTGTTTCAAAGAAAACATATTCAAATATTCTGTTTCAAGGGA
1 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTCTGTTTCAAGGGA
* * * * *
338927 AACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGTTT
66 AACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTTC
*
338992 CAAGAGA
131 CAAAAGA
*
338999 AACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC
1 AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
339038 TGTCTCAAGA
Statistics
Matches: 149, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
137 118 0.79
138 31 0.21
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.27
Consensus pattern (137 bp):
AACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTCTGTTTCAAGGGA
AACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTTC
CAAAAGA
Found at i:338964 original size:36 final size:36
Alignment explanation
Indices: 338906--339056 Score: 248
Period size: 36 Copynumber: 4.1 Consensus size: 36
338896 AAAACATATT
338906 CAAATATTCTGTTTCAAGGGAAACTGTCTCAAGAGAGA
1 CAAA-ATT-TGTTTCAAGGGAAACTGTCTCAAGAGAGA
* *
338944 CAAAATTTATTTCAAGGGAAACTGTCTCAAGATAGA
1 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
* *
338980 CGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
1 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
339016 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
1 CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
339052 CAAAA
1 CAAAA
339057 CTCTTCTAGT
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
36 98 0.93
37 3 0.03
38 4 0.04
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (36 bp):
CAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
Found at i:339000 original size:102 final size:102
Alignment explanation
Indices: 338813--339000 Score: 288
Period size: 102 Copynumber: 1.8 Consensus size: 102
338803 TAGACGAAAT
*
338813 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGAG
*
338878 ACGGAATTTGTTTCAAAGAAAACATATTCAAATATTC
66 ACGAAATTTGTTTCAAAGAAAACATATTCAAATATTC
* * * ** *
338915 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTA-TTTCAAGGGAAACTGTCTCAAGATAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGAG
338979 ACGAAATTTGTTTCAAGAGAAA
66 ACGAAATTTGTTTCAA-AGAAA
339001 CTGTCTCAAG
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 36 0.47
102 41 0.53
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (102 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGAG
ACGAAATTTGTTTCAAAGAAAACATATTCAAATATTC
Found at i:339986 original size:22 final size:22
Alignment explanation
Indices: 339960--340057 Score: 169
Period size: 22 Copynumber: 4.5 Consensus size: 22
339950 TATGTTTGGC
339960 CAAAGGTTTGGCATTTGATGCT
1 CAAAGGTTTGGCATTTGATGCT
*
339982 CAAAGGTTTAGCATTTGATGCT
1 CAAAGGTTTGGCATTTGATGCT
340004 CAAAGGTTTGGCATTTGATGCT
1 CAAAGGTTTGGCATTTGATGCT
*
340026 CATAGGTTTGGCATTTGATGCT
1 CAAAGGTTTGGCATTTGATGCT
*
340048 CAACGGTTTG
1 CAAAGGTTTG
340058 ATGGGGTAGC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 71 1.00
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (22 bp):
CAAAGGTTTGGCATTTGATGCT
Found at i:340670 original size:20 final size:21
Alignment explanation
Indices: 340645--340708 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
340635 TTTGCATGTG
340645 TTTTTTGTCCCTTTTTTTT-TT
1 TTTTTTGT-CCTTTTTTTTCTT
* *
340666 TTTTTTGTTCTTTTTTTGCTT
1 TTTTTTGTCCTTTTTTTTCTT
*
340687 TTTTTT-TTC-TTTTTTTCTT
1 TTTTTTGTCCTTTTTTTTCTT
340706 TTT
1 TTT
340709 GCCCTTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
19 12 0.31
20 11 0.28
21 16 0.41
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (21 bp):
TTTTTTGTCCTTTTTTTTCTT
Found at i:340715 original size:28 final size:29
Alignment explanation
Indices: 340646--340717 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
340636 TTGCATGTGT
*
340646 TTTTTGTCCCTTTTTTTTTTTTTTTTGTTC
1 TTTTTG-CCCTTTTTTTTTTCTTTTTGTTC
***
340676 TTTTTTTGCTTTTTTTTTTCTTTTT-TTC
1 TTTTTGCCCTTTTTTTTTTCTTTTTGTTC
340704 TTTTTGCCCTTTTT
1 TTTTTGCCCTTTTT
340718 ATTCTGATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
28 14 0.40
29 16 0.46
30 5 0.14
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.81
Consensus pattern (29 bp):
TTTTTGCCCTTTTTTTTTTCTTTTTGTTC
Found at i:340716 original size:26 final size:28
Alignment explanation
Indices: 340658--340722 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 28
340648 TTTGTCCCTT
* **
340658 TTTTTTTTTTTTTTGTTCTTTTTTTGCTT
1 TTTTTTTTCTTTTTGTTC-TTTTTTGCCC
340687 TTTTTTTTCTTTTT-TTC-TTTTTGCCC
1 TTTTTTTTCTTTTTGTTCTTTTTTGCCC
*
340713 TTTTTATTCT
1 TTTTTTTTCT
340723 GATTAAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 16 0.50
28 3 0.09
29 13 0.41
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.82
Consensus pattern (28 bp):
TTTTTTTTCTTTTTGTTCTTTTTTGCCC
Found at i:340717 original size:1 final size:1
Alignment explanation
Indices: 340656--340708 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
340646 TTTTTGTCCC
* * ** * *
340656 TTTTTTTTTTTTTTTTGTTCTTTTTTTGCTTTTTTTTTTCTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
340709 GCCCTTTTTA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.89
Consensus pattern (1 bp):
T
Found at i:341903 original size:8 final size:8
Alignment explanation
Indices: 341887--341925 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
341877 ATTGTAGATG
341887 AAAATGCA
1 AAAATGCA
*
341895 AAAAGGCA
1 AAAATGCA
341903 AAAATGC-
1 AAAATGCA
341910 AAAATGCA
1 AAAATGCA
*
341918 AGAATGCA
1 AAAATGCA
341926 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:341913 original size:15 final size:15
Alignment explanation
Indices: 341887--341925 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
341877 ATTGTAGATG
341887 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
341903 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
341918 AGAATGCA
1 AAAATGCA
341926 TGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:343320 original size:5 final size:5
Alignment explanation
Indices: 343310--343338 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
343300 GCAAGTGATG
343310 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
343339 GAAAGATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:345067 original size:18 final size:17
Alignment explanation
Indices: 345044--345086 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
345034 ATATATACAT
345044 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
345062 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
345079 ATAA-AATA
1 ATAATAATA
345087 TCCATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:345862 original size:22 final size:23
Alignment explanation
Indices: 345837--345887 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
345827 CAAAATATGT
345837 CAAG-CGAGCTTGACATATTTTG
1 CAAGTCGAGCTTGACATATTTTG
**
345859 CAAGTTCTCGCTTGACATATTTTG
1 CAAG-TCGAGCTTGACATATTTTG
345883 CAAGT
1 CAAGT
345888 TCGATTGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.16
23 1 0.04
24 20 0.80
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (23 bp):
CAAGTCGAGCTTGACATATTTTG
Found at i:345871 original size:24 final size:24
Alignment explanation
Indices: 345844--345889 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
345834 TGTCAAGCGA
345844 GCTTGACATATTTTGCAAGTTCTC
1 GCTTGACATATTTTGCAAGTTCTC
345868 GCTTGACATATTTTGCAAGTTC
1 GCTTGACATATTTTGCAAGTTC
345890 GATTGTATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (24 bp):
GCTTGACATATTTTGCAAGTTCTC
Found at i:346820 original size:19 final size:18
Alignment explanation
Indices: 346782--346830 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
346772 GTTGTTTTAA
*
346782 AAATAAAAAATAAGAATT
1 AAATAAAAAAAAAGAATT
*
346800 AAATAAAAGAAAAATAATT
1 AAATAAAA-AAAAAGAATT
346819 AAATAAAAAAAA
1 AAATAAAAAAAA
346831 TTAAAGAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (18 bp):
AAATAAAAAAAAAGAATT
Found at i:347225 original size:12 final size:12
Alignment explanation
Indices: 347208--347248 Score: 64
Period size: 12 Copynumber: 3.3 Consensus size: 12
347198 ACGTTTGGAA
347208 TTGAGCCTTCGC
1 TTGAGCCTTCGC
347220 TTGAGCCTTCGC
1 TTGAGCCTTCGC
*
347232 TTTAGCCTTCGGC
1 TTGAGCCTTC-GC
347245 TTGA
1 TTGA
347249 AAGAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.10, C:0.29, G:0.24, T:0.37
Consensus pattern (12 bp):
TTGAGCCTTCGC
Found at i:347636 original size:76 final size:75
Alignment explanation
Indices: 347474--347648 Score: 181
Period size: 76 Copynumber: 2.3 Consensus size: 75
347464 CTAAAATACC
* * * * * * * **
347474 TAAAAAATAATATAATATTCTAAATCCTAATTAAAACACTAAAACCTGTTTCAACTAAAATACCT
1 TAAAATATAAAATAATATCCTAAAACCTAATTAAAACACAAAAACCTATTTAAACTAAAATACAA
347539 AATACAAAGA
66 AATACAAAGA
* *
347549 TAAAATATAAAAATAATATCCTAAAACTTAATTAAAATACAAAAACCTATTTAAACTAAAATACA
1 TAAAATAT-AAAATAATATCCTAAAACCTAATTAAAACACAAAAACCTATTTAAACTAAAATACA
*
347614 AAGATA-AAATA
65 AA-ATACAAAGA
** * *
347625 TAATGTTTAAAATATTATCCTAAA
1 TAAAATATAAAATAATATCCTAAA
347649 CTTGAGTTTA
Statistics
Matches: 82, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
75 22 0.27
76 57 0.70
77 3 0.04
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (75 bp):
TAAAATATAAAATAATATCCTAAAACCTAATTAAAACACAAAAACCTATTTAAACTAAAATACAA
AATACAAAGA
Found at i:349310 original size:14 final size:14
Alignment explanation
Indices: 349288--349329 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
349278 GCATTTGATA
349288 AAATAAAATAAAAT
1 AAATAAAATAAAAT
*
349302 AAATGAAATAAAAT
1 AAATAAAATAAAAT
*
349316 AAATAAAATGAAAT
1 AAATAAAATAAAAT
349330 GGGTTGTCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:349312 original size:19 final size:19
Alignment explanation
Indices: 349288--349329 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
349278 GCATTTGATA
349288 AAATAAAATAAA-ATAAATG
1 AAATAAAATAAATA-AAATG
349307 AAATAAAATAAATAAAATG
1 AAATAAAATAAATAAAATG
349326 AAAT
1 AAAT
349330 GGGTTGTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 21 0.95
20 1 0.05
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (19 bp):
AAATAAAATAAATAAAATG
Found at i:349330 original size:5 final size:5
Alignment explanation
Indices: 349285--349329 Score: 58
Period size: 5 Copynumber: 9.4 Consensus size: 5
349275 TAAGCATTTG
* *
349285 ATAAA ATAAA ATAAA AT-AA ATGAA ATAAA AT-AA ATAAA ATGAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
349330 GGGTTGTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
4 8 0.22
5 28 0.78
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:353931 original size:29 final size:29
Alignment explanation
Indices: 353906--354019 Score: 176
Period size: 29 Copynumber: 4.0 Consensus size: 29
353896 AATTGTCATT
*
353906 TTTTTCACAAAAATTCCCAGAATGTCACC
1 TTTTTCACAAAAAATCCCAGAATGTCACC
*
353935 TTTTCCACAAAAAATCCCAGAATGTCA-C
1 TTTTTCACAAAAAATCCCAGAATGTCACC
*
353963 TTTTTCACAAAAAATCTCAGAATGTCACC
1 TTTTTCACAAAAAATCCCAGAATGTCACC
* *
353992 TTTTTCACAAAAATTCTCAGAATGTCAC
1 TTTTTCACAAAAAATCCCAGAATGTCAC
354020 TGGGTTGGGT
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
28 26 0.33
29 53 0.67
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (29 bp):
TTTTTCACAAAAAATCCCAGAATGTCACC
Found at i:353974 original size:57 final size:57
Alignment explanation
Indices: 353906--354020 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 57
353896 AATTGTCATT
*
353906 TTTTTCACAAAAATTCCCAGAATGTCACCTTTTCCACAAAAAATCCCAGAATGTCAC
1 TTTTTCACAAAAAATCCCAGAATGTCACCTTTTCCACAAAAAATCCCAGAATGTCAC
* * * *
353963 TTTTTCACAAAAAATCTCAGAATGTCACCTTTTTCACAAAAATTCTCAGAATGTCAC
1 TTTTTCACAAAAAATCCCAGAATGTCACCTTTTCCACAAAAAATCCCAGAATGTCAC
354020 T
1 T
354021 GGGTTGGGTC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (57 bp):
TTTTTCACAAAAAATCCCAGAATGTCACCTTTTCCACAAAAAATCCCAGAATGTCAC
Found at i:354077 original size:19 final size:17
Alignment explanation
Indices: 354055--354101 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 17
354045 GGTCGGGTCA
354055 GACCGGTCAACCAGGTTC
1 GACCGGTCAACCA-GTTC
354073 GGACCGGTCAAACCAGTTC
1 -GACCGGTC-AACCAGTTC
354092 GACCGGTCAA
1 GACCGGTCAA
354102 ACTGGTCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 2 0.07
18 8 0.30
19 12 0.44
20 5 0.19
ACGTcount: A:0.26, C:0.32, G:0.28, T:0.15
Consensus pattern (17 bp):
GACCGGTCAACCAGTTC
Found at i:354097 original size:18 final size:20
Alignment explanation
Indices: 354055--354103 Score: 77
Period size: 18 Copynumber: 2.6 Consensus size: 20
354045 GGTCGGGTCA
354055 GACCGGTC-AACCAGGTTCG
1 GACCGGTCAAACCAGGTTCG
354074 GACCGGTCAAACCA-GTTC-
1 GACCGGTCAAACCAGGTTCG
354092 GACCGGTCAAAC
1 GACCGGTCAAAC
354104 TGGTCATAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 12 0.41
19 12 0.41
20 5 0.17
ACGTcount: A:0.27, C:0.33, G:0.27, T:0.14
Consensus pattern (20 bp):
GACCGGTCAAACCAGGTTCG
Found at i:361076 original size:29 final size:29
Alignment explanation
Indices: 361031--361136 Score: 133
Period size: 29 Copynumber: 3.7 Consensus size: 29
361021 TCCACATTCG
**
361031 AAAATTCCCA-AATTGTCATTTTTTTCACA
1 AAAATTCCCAGAA-TGTCACATTTTTCACA
**
361060 AAAATTCCCAGAATGTCACATTTCCCACA
1 AAAATTCCCAGAATGTCACATTTTTCACA
* *
361089 AAAATTCACAGAATGTCACCTTTTTCACA
1 AAAATTCCCAGAATGTCACATTTTTCACA
*
361118 AATATTCCCAGAATGTCAC
1 AAAATTCCCAGAATGTCAC
361137 TAGGTCGGGT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
29 64 0.97
30 2 0.03
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (29 bp):
AAAATTCCCAGAATGTCACATTTTTCACA
Found at i:361172 original size:12 final size:12
Alignment explanation
Indices: 361155--361186 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
361145 GTCAACTGGT
361155 CGGGTCGGTCAA
1 CGGGTCGGTCAA
361167 CGGGTCGGTCAA
1 CGGGTCGGTCAA
361179 CGGGTCGG
1 CGGGTCGG
361187 GTCGGGTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.25, G:0.47, T:0.16
Consensus pattern (12 bp):
CGGGTCGGTCAA
Found at i:361191 original size:17 final size:18
Alignment explanation
Indices: 361139--361174 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
361129 AATGTCACTA
*
361139 GGTCGGGTCAACTGGTCG
1 GGTCGGGTCAACGGGTCG
361157 GGTC-GGTCAACGGGTCG
1 GGTCGGGTCAACGGGTCG
361174 G
1 G
361175 TCAACGGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.11, C:0.22, G:0.47, T:0.19
Consensus pattern (18 bp):
GGTCGGGTCAACGGGTCG
Found at i:361218 original size:19 final size:19
Alignment explanation
Indices: 361196--361259 Score: 92
Period size: 19 Copynumber: 3.4 Consensus size: 19
361186 GGTCGGGTTA
361196 GACCGGTCAACCTGGTTTG
1 GACCGGTCAACCTGGTTTG
*
361215 GACCGGTCAACCTGGTTCG
1 GACCGGTCAACCTGGTTTG
* * *
361234 GACCGGTCAAGCTAGTTTA
1 GACCGGTCAACCTGGTTTG
361253 GACCGGT
1 GACCGGT
361260 TTGGACCGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.23
Consensus pattern (19 bp):
GACCGGTCAACCTGGTTTG
Found at i:362061 original size:19 final size:18
Alignment explanation
Indices: 362042--362090 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
362032 GTTGTTTTTA
362042 AAATAAAAAATAAGAATT
1 AAATAAAAAATAAGAATT
* *
362060 AAATAAAATAAAAATAATT
1 AAATAAAA-AATAAGAATT
362079 AAATAAACAAAT
1 AAATAAA-AAAT
362091 TAAAGAGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.31
19 17 0.65
20 1 0.04
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (18 bp):
AAATAAAAAATAAGAATT
Found at i:362085 original size:23 final size:22
Alignment explanation
Indices: 362040--362094 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
362030 AAGTTGTTTT
*
362040 TAAAATAAAAAATAAGAATTAAA
1 TAAAAT-AAAAATAAGAAATAAA
*
362063 TAAAATAAAAATAATTAAATAAA
1 TAAAATAAAAATAA-GAAATAAA
* *
362086 CAAATTAAA
1 TAAAATAAA
362095 GAGAATGAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (22 bp):
TAAAATAAAAATAAGAAATAAA
Found at i:362748 original size:64 final size:64
Alignment explanation
Indices: 362677--362855 Score: 324
Period size: 64 Copynumber: 2.8 Consensus size: 64
362667 TAAAACTTCT
362677 TAAATCCTAATTAAAACACTTAAAACTATCTAAACTAAAATACCTAAAAAATAATACAATATTC
1 TAAATCCTAATTAAAACACTTAAAACTATCTAAACTAAAATACCTAAAAAATAATACAATATTC
362741 TAAATCCTAATTAAAACACTTAAAACTATCTAAACTAAAATACCTAAAAAATAATACAATATTC
1 TAAATCCTAATTAAAACACTTAAAACTATCTAAACTAAAATACCTAAAAAATAATACAATATTC
* *
362805 TAAATCCTAATTAAAACAC-TAAAACCTATTTCAACTAAAATACCTAAAAAA
1 TAAATCCTAATTAAAACACTTAAAA-CTATCTAAACTAAAATACCTAAAAAA
362856 AGATAAAATA
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
63 5 0.04
64 107 0.96
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (64 bp):
TAAATCCTAATTAAAACACTTAAAACTATCTAAACTAAAATACCTAAAAAATAATACAATATTC
Found at i:367837 original size:3 final size:3
Alignment explanation
Indices: 367829--367874 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
367819 TATAAAACAT
* * *
367829 AAC AAC AAC AAC AAC AAA AAC AAC AAC AAC AAT AAT AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
367875 TCATATAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.70, C:0.26, G:0.00, T:0.04
Consensus pattern (3 bp):
AAC
Found at i:373544 original size:11 final size:10
Alignment explanation
Indices: 373530--373596 Score: 59
Period size: 11 Copynumber: 6.7 Consensus size: 10
373520 CTGAAAATTC
373530 AATAAAAATGA
1 AATAAAAAT-A
*
373541 AATAAATATA
1 AATAAAAATA
373551 TAATAAAAATA
1 -AATAAAAATA
373562 AAT--AAATA
1 AATAAAAATA
*
373570 AATTAAAATA
1 AATAAAAATA
*
373580 AAT-TAAATA
1 AATAAAAATA
373589 AATGAAAA
1 AAT-AAAA
373597 CAAAAATGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
8 8 0.17
9 8 0.17
10 12 0.26
11 19 0.40
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (10 bp):
AATAAAAATA
Found at i:373564 original size:4 final size:4
Alignment explanation
Indices: 373535--373591 Score: 51
Period size: 4 Copynumber: 13.0 Consensus size: 4
373525 AATTCAATAA
* *
373535 AAAT GAAAT AAAT ATAT AATAA AAAT AAAT AAAT AAATT AAAAT AAATT
1 AAAT -AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAA-T -AAAT AAA-T
373584 AAAT AAAT
1 AAAT AAAT
373592 GAAAACAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
4 28 0.64
5 13 0.30
6 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:373566 original size:13 final size:14
Alignment explanation
Indices: 373535--373590 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 14
373525 AATTCAATAA
*
373535 AAATGAAATAAATAT
1 AAAT-AAATAAAAAT
373550 ATAATAAA-AATAAAT
1 A-AATAAATAA-AAAT
*
373565 AAATAAATTAAAAT
1 AAATAAATAAAAAT
373579 AAATTAAATAAA
1 AAA-TAAATAAA
373591 TGAAAACAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 15 0.44
15 16 0.47
16 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (14 bp):
AAATAAATAAAAAT
Found at i:373586 original size:19 final size:18
Alignment explanation
Indices: 373535--373596 Score: 74
Period size: 19 Copynumber: 3.5 Consensus size: 18
373525 AATTCAATAA
*
373535 AAATG-AAATAAATATAT
1 AAATGAAAATAAATAAAT
*
373552 -AATAAAAATAAATAAAT
1 AAATGAAAATAAATAAAT
*
373569 AAATTAAAATAAATTAAAT
1 AAATGAAAATAAA-TAAAT
373588 AAATGAAAA
1 AAATGAAAA
373597 CAAAAATGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
16 3 0.08
17 11 0.29
18 11 0.29
19 13 0.34
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AAATGAAAATAAATAAAT
Found at i:373587 original size:9 final size:9
Alignment explanation
Indices: 373557--373591 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
373547 TATATAATAA
373557 AAATAAA-T
1 AAATAAATT
373565 AAATAAATT
1 AAATAAATT
373574 AAAATAAATT
1 -AAATAAATT
373584 AAATAAAT
1 AAATAAAT
373592 GAAAACAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 7 0.28
9 9 0.36
10 9 0.36
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAATAAATT
Found at i:374615 original size:57 final size:56
Alignment explanation
Indices: 374519--375402 Score: 703
Period size: 56 Copynumber: 15.7 Consensus size: 56
374509 CAAATATGGG
* *
374519 AGTTTGAATAGCATTGTAATGCTTAACTTATCCAAGTTGTTACATTCAAAGAT-AGA
1 AGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGA-A
* * *
374575 AGTTTGGATAACATTGTAATGTCTTAACTTA-CTGAAGTTGTTATATTCCAAA-ATGAA
1 AGTTTGAATAACATTGTAATGT-TTAACTTATC-CAAGTTGTTACATT-CAAAGATGAA
* * * * *
374632 AGTTTGAATAACATTTTAAT-TTCCTAACTTATCTAAGTTATTACATTCAAATATGGA
1 AGTTTGAATAACATTGTAATGTT--TAACTTATCCAAGTTGTTACATTCAAAGATGAA
* ** * * **
374689 AGTTTCAATAATGTTGTAATGTTTAACATATCCAAGTTGTTACATTCAAAG-GGGT
1 AGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGAA
* * * * * *
374744 AG-TTGAGTAGCGTTGTAGA-GTTTAACTTATCCATGTTGTTACATTGAAAGATAAA
1 AGTTTGAATAACATTGTA-ATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGAA
* * *
374799 AGTTTGAATAACATTGTAATGTTTAACTCATCCAACTTGTTTCATTCAAAGATGAA
1 AGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGAA
* * * *
374855 AGGTTGAATAACGTTGTAATGTTTAATTTATCCAAGTTGTTACATTCAAGGATGAA
1 AGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGAA
* * * *
374911 AGTTTTAATAGCGTTGTAATGTTTAAGTTATCCAAGTTGTTACATTCAAAGATAGAA
1 AGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGAT-GAA
* * * ** * * *
374968 AATTTGAATAGCATTGTAACGTTTATGTTTTTCCAAGTTGTTACATCCAAAGATGGA
1 AGTTTGAATAACATTGTAATGTTTA-ACTTATCCAAGTTGTTACATTCAAAGATGAA
* ** * * * * *
375025 AGTTTAAATAATGTTTTAAAGTTTAACTTATCCAAGCTGTTACATACAAAAACT-AA
1 AGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGA-TGAA
* * * * * * *
375081 AGCTTAAATAGCGTTGTAATGTCTTAAATTATCCAAGTCGTTACATTCAAATATGGAA
1 AGTTTGAATAACATTGTAATGT-TTAACTTATCCAAGTTGTTACATTCAAAGAT-GAA
* * * * * * * *
375139 A-CTTGAATAGCGTTGTAATGTCTTAGCTTGTTCAAGTTGTTACATTTAAAGATGGA
1 AGTTTGAATAACATTGTAATGT-TTAACTTATCCAAGTTGTTACATTCAAAGATGAA
* * * ** * * *
375195 AGATTGATTAGCATTGTAGGGTTTAACTTAT-CATGCTTGCTACATTCAAAGACGAA
1 AGTTTGAATAACATTGTAATGTTTAACTTATCCAAG-TTGTTACATTCAAAGATGAA
** * * * * * * * * * *
375251 AGCCTGAATAACATTTTACTATTTGACTTATCCAACTTATGACATACAAAAATGGA
1 AGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGAA
* * * * * * *
375307 AGTTTCAATAGCATTGT-ATGGTTTAGCTTAT-CATATTTGATACATTAAAAGATGGA
1 AGTTTGAATAACATTGTAAT-GTTTAACTTATCCA-AGTTGTTACATTCAAAGATGAA
*
375363 AGTTTGAATAGCATTGTAATGTTTAACTTATCCAAGTTGT
1 AGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGT
375403 GACACAAAAA
Statistics
Matches: 657, Mismatches: 145, Indels: 52
0.77 0.17 0.06
Matches are distributed among these distances:
54 39 0.06
55 15 0.02
56 354 0.54
57 214 0.33
58 35 0.05
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (56 bp):
AGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGAA
Found at i:375096 original size:170 final size:167
Alignment explanation
Indices: 374532--375196 Score: 601
Period size: 170 Copynumber: 3.9 Consensus size: 167
374522 TTGAATAGCA
* ** * *
374532 TTGTAATGCTTAACTTATCCAAGTTGTTACATTCAAAGATAGAAGTTTGGATAACATTGTAATGT
1 TTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATA-AAG-TTAAATAGCGTTGTAATGT
* * * * * *
374597 CTTAACTTA-CTGAAGTTGTTATATTCCAAA-AT-GAAAGTTTGAATAACATTTTAAT-TTCCTA
64 -TTAAATTATC-CAAGTTGTTACATT-CAAAGATAGAAAATTTGAATAGCATTGTAATGTT--T-
* * * * * *
374658 ACTT-ATCTAAGTTATTACATTCAAATATGGAAGTTTCAATAATG
123 AGTTCTTCCAAGTTGTTACATTCAAAGATGGAAGTTTAAATAATG
* **** * *
374702 TTGTAATGTTTAACATATCCAAGTTGTTACATTCAAAGGGGTAGTTGAGTAGCGTTGTAGA-GTT
1 TTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATAAAGTTAAATAGCGTTGTA-ATGTT
* * * * * ** *
374766 TAACTTATCCATGTTGTTACATTGAAAGATA-AAAGTTTGAATAACATTGTAATGTTTAACTCAT
65 TAAATTATCCAAGTTGTTACATTCAAAGATAGAAAATTTGAATAGCATTGTAATGTTTAGTTCTT
* * * * * *
374830 CCAACTTGTTTCATTCAAAGATGAAAGGTTGAATAACG
130 CCAAGTTGTTACATTCAAAGATGGAAGTTTAAATAATG
* * *
374868 TTGTAATGTTTAATTTATCCAAGTTGTTACATTCAAGGATGAAAGTTTTAATAGCGTTGTAATGT
1 TTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGAT-AAAG-TTAAATAGCGTTGTAATGT
* * *
374933 TTAAGTTATCCAAGTTGTTACATTCAAAGATAGAAAATTTGAATAGCATTGTAACGTTTATGTTT
64 TTAAATTATCCAAGTTGTTACATTCAAAGATAGAAAATTTGAATAGCATTGTAATGTTTA-GTTC
*
374998 TTCCAAGTTGTTACATCCAAAGATGGAAGTTTAAATAATG
128 TTCCAAGTTGTTACATTCAAAGATGGAAGTTTAAATAATG
* * * * *
375038 TTTTAAAGTTTAACTTATCCAAGCTGTTACATACAAAAACTAAAGCTTAAATAGCGTTGTAATGT
1 TTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGA-TAAAG-TTAAATAGCGTTGTAATGT
* * * * *
375103 CTTAAATTATCCAAGTCGTTACATTCAAATAT-GGAAACTTGAATAGCGTTGTAATGTCTTAGCT
64 -TTAAATTATCCAAGTTGTTACATTCAAAGATAGAAAATTTGAATAGCATTGTAATGT-TTAG-T
* *
375167 TGTT-CAAGTTGTTACATTTAAAGATGGAAG
126 TCTTCCAAGTTGTTACATTCAAAGATGGAAG
375197 ATTGATTAGC
Statistics
Matches: 409, Mismatches: 71, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
165 2 0.00
166 70 0.17
167 45 0.11
168 60 0.15
169 27 0.07
170 169 0.41
171 36 0.09
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (167 bp):
TTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATAAAGTTAAATAGCGTTGTAATGTTT
AAATTATCCAAGTTGTTACATTCAAAGATAGAAAATTTGAATAGCATTGTAATGTTTAGTTCTTC
CAAGTTGTTACATTCAAAGATGGAAGTTTAAATAATG
Found at i:377902 original size:31 final size:31
Alignment explanation
Indices: 377864--377942 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
377854 AGGGTCGAGG
377864 GTTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATAGACT
*
377895 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATAGACT
* *
377926 GATTACCTAGGTTCTTC
1 GTTTACCTATGTTCTTC
377943 TGAATATATG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATAGACT
Found at i:383558 original size:31 final size:31
Alignment explanation
Indices: 383470--383560 Score: 137
Period size: 31 Copynumber: 2.9 Consensus size: 31
383460 AGGGTTGAGG
** * *
383470 GTTTACCTACATTCTTCGGGACATATAGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
383501 GTTTACCTATGTTCTTCGAGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
383532 GTTTACCTATGTTCTTCGGGACATATGGA
1 GTTTACCTATGTTCTTCGGGACATATGGA
383561 ATGATTACTT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:384428 original size:12 final size:12
Alignment explanation
Indices: 384408--384441 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
384398 AACATTTGGT
*
384408 TACTGTTCACAT
1 TACTGTTCACAG
*
384420 TATTGTTCACAG
1 TACTGTTCACAG
384432 TACTGTTCAC
1 TACTGTTCAC
384442 TAATGTTCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (12 bp):
TACTGTTCACAG
Found at i:389225 original size:31 final size:31
Alignment explanation
Indices: 389137--389227 Score: 137
Period size: 31 Copynumber: 2.9 Consensus size: 31
389127 AGGGTTGAGG
** * *
389137 GTTTACCTACATTCTTCGGGACATATAGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
389168 GTTTACCTATGTTCTTCGAGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
389199 GTTTACCTATGTTCTTCGGGACATATGGA
1 GTTTACCTATGTTCTTCGGGACATATGGA
389228 ATGATTACTT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:390094 original size:12 final size:12
Alignment explanation
Indices: 390074--390107 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
390064 AACATTTGGT
390074 TACTGTTCACAG
1 TACTGTTCACAG
*
390086 TATTGTTCACAG
1 TACTGTTCACAG
390098 TACTGTTCAC
1 TACTGTTCAC
390108 TAATGTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (12 bp):
TACTGTTCACAG
Found at i:394896 original size:31 final size:31
Alignment explanation
Indices: 394808--394898 Score: 137
Period size: 31 Copynumber: 2.9 Consensus size: 31
394798 AGGGTTGAGG
** * *
394808 GTTTACCTACATTCTTCGGGACATATAGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
394839 GTTTACCTATGTTCTTCGAGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
394870 GTTTACCTATGTTCTTCGGGACATATGGA
1 GTTTACCTATGTTCTTCGGGACATATGGA
394899 ATGATTACTT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:395766 original size:12 final size:12
Alignment explanation
Indices: 395746--395779 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
395736 AACATTTGGT
395746 TACTGTTCACAG
1 TACTGTTCACAG
*
395758 TATTGTTCACAG
1 TACTGTTCACAG
395770 TACTGTTCAC
1 TACTGTTCAC
395780 TAATGTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (12 bp):
TACTGTTCACAG
Found at i:397336 original size:2 final size:2
Alignment explanation
Indices: 397329--397414 Score: 172
Period size: 2 Copynumber: 43.0 Consensus size: 2
397319 ACAGGAAAGA
397329 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
397371 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
397413 AT
1 AT
397415 GGATAGTTTG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:398336 original size:56 final size:56
Alignment explanation
Indices: 398264--398649 Score: 261
Period size: 56 Copynumber: 6.9 Consensus size: 56
398254 TAATGTTGTT
* * * *
398264 ATGTTTAACTTATCCAAGTTGTTACATTCAAAAATGGAAGTTTGAATAGTGTTATA
1 ATGTTTAATTTATCCAAGTTGTTACATTCAAAAATGAAAGTTTGAATAGTATTTTA
* * * *
398320 GA-GTTCAATTTATCCAATTTGTCACATT-AAAAGATGAAAGTTTGAATAGCATTTTA
1 -ATGTTTAATTTATCCAAGTTGTTACATTCAAAA-ATGAAAGTTTGAATAGTATTTTA
* *
398376 ATGTTTAATTT-TCCCAAGTTGTTATATTCAAAGATGAAAGTTTGAATA-TCATTTTA
1 ATGTTTAATTTAT-CCAAGTTGTTACATTCAAAAATGAAAGTTTGAATAGT-ATTTTA
* * * *
398432 ATGTTTAATTT-TCCCAAGTTGTTACATTCAAAAATGGAAGTTTAAATAATGTTTTA
1 ATGTTTAATTTAT-CCAAGTTGTTACATTCAAAAATGAAAGTTTGAATAGTATTTTA
* * * ** * * * * * ** *
398488 AAGTTTAACTTATCCATGTTACTACATACAAAAGTTAAAGCTTAAATAGCGTTGTA
1 ATGTTTAATTTATCCAAGTTGTTACATTCAAAAATGAAAGTTTGAATAGTATTTTA
* * * ** *
398544 ATGTCTTACA-TTATCCAAGTCT-TTATATTCAAATATGGAAA--TTGAGTAGCGTTGTA
1 ATGT-TTA-ATTTATCCAAGT-TGTTACATTCAAAAAT-GAAAGTTTGAATAGTATTTTA
* * * * *
398600 AGGTCTT-ATCTTGTCCAAGTTGTTACATTTAAACATGGAAGTTTGAATAG
1 ATGT-TTAAT-TTATCCAAGTTGTTACATTCAAAAATGAAAGTTTGAATAG
398650 CATTGTGATA
Statistics
Matches: 264, Mismatches: 49, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
54 1 0.00
55 10 0.04
56 214 0.81
57 34 0.13
58 5 0.02
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (56 bp):
ATGTTTAATTTATCCAAGTTGTTACATTCAAAAATGAAAGTTTGAATAGTATTTTA
Found at i:408974 original size:56 final size:56
Alignment explanation
Indices: 408895--409254 Score: 285
Period size: 56 Copynumber: 6.4 Consensus size: 56
408885 CATATTCGCT
** * * * *
408895 ACATTCAAAGATGGAAGCCTGAATAACATTCTAATGTTTGACTTATCAAAGTTATG
1 ACATTCAAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTG
* * * * *** * *
408951 ACATACAAAAATGGAAGTTTGAATAGCATGGT-ATGGTTTAACTTATTGTATTTGTT
1 ACATTCAAAGATGGAAGTTTGAATAACATTGTAAT-GTTTAACTTATCCAAGTTGTG
* * *
409007 ACATTCAAAGATGGAAGATTGAATAACGTTGTAATGTTTAAATTATCCAAGTTGTG
1 ACATTCAAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTG
* * ** * * *
409063 ACATTTAAAGATGTAAGTTTGAATAATGTTGTAATGTTTAATTTATCCAAGTTTTC
1 ACATTCAAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTG
* * *** * * * *
409119 ACTTTCAAAAAATGGAAGTTT-AGATAGTGTTCTAATTTTTTAACTCATCCAAGTTGTT
1 ACATTC-AAAGATGGAAGTTTGA-ATAACATTGTAA-TGTTTAACTTATCCAAGTTGTG
* * * * * * *
409177 ACATTCAAAGATGGAAGTTTGTATATCGTTATAGA-GTTTAAATTTTCCAAGTTGTT
1 ACATTCAAAGATGGAAGTTTGAATAACATTGTA-ATGTTTAACTTATCCAAGTTGTG
409233 ACATTCAAAGATGGAAGTTTGA
1 ACATTCAAAGATGGAAGTTTGA
409255 GTAGCGTTGG
Statistics
Matches: 242, Mismatches: 55, Indels: 14
0.78 0.18 0.05
Matches are distributed among these distances:
55 2 0.01
56 172 0.71
57 45 0.19
58 23 0.10
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (56 bp):
ACATTCAAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTGTG
Found at i:409556 original size:56 final size:56
Alignment explanation
Indices: 409415--409695 Score: 250
Period size: 56 Copynumber: 5.0 Consensus size: 56
409405 AGAGTTTTAG
* * * **
409415 TTATCCAAGTTGTTACATGCAAATATGGAAGTTTGAATAATGTTGTAATGTTTAAC
1 TTATCTAAGTTGTTACATTCAAAAATGGAAGTTTGAATAGCGTTGTAATGTTTAAC
* * ** * *
409471 TTAT-TCAATTTGTTACATTCTAAGCTGGAAGTTTGAATAACATTGTAATGTTTAAC
1 TTATCT-AAGTTGTTACATTCAAAAATGGAAGTTTGAATAGCGTTGTAATGTTTAAC
* * * * * *
409527 TTAT-TAGAGTTGTTACATTAAAAAATGGAAG-ATGAAATAGTGTTTTAATGTCATAAT
1 TTATCTA-AGTTGTTACATTCAAAAATGGAAGTTTG-AATAGCGTTGTAATGT-TTAAC
* * *
409584 TTATCTAAGTTGTTATATT-AAAAGATGGAAGTTTGAATAGCGTTGTAGA-ATTTAAT
1 TTATCTAAGTTGTTACATTCAAAA-ATGGAAGTTTGAATAGCGTTGTA-ATGTTTAAC
* * *
409640 TTATCCAAGTT-TTACATTCAAAAATGAAAGTTTGAATAGCATTGTAATGTCTTAAC
1 TTATCTAAGTTGTTACATTCAAAAATGGAAGTTTGAATAGCGTTGTAATGT-TTAAC
409696 AAAATACTTT
Statistics
Matches: 182, Mismatches: 32, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
54 1 0.01
55 31 0.17
56 109 0.60
57 36 0.20
58 5 0.03
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (56 bp):
TTATCTAAGTTGTTACATTCAAAAATGGAAGTTTGAATAGCGTTGTAATGTTTAAC
Found at i:409790 original size:421 final size:422
Alignment explanation
Indices: 409002--409770 Score: 962
Period size: 421 Copynumber: 1.8 Consensus size: 422
408992 CTTATTGTAT
*
409002 TTGTTACATTCAAAGATGGAAGATTGAATAACGTTGTAATGTTTAAATTATCCAAGTTGTGACAT
1 TTGTTACATGCAAAGATGGAAGATTGAATAACGTTGTAATGTTTAAATTATCCAAGTTGTGACAT
* ** * *
409067 TTAAAGATGTAAGTTTGAATAATGTTGTAATGTTTAATTTATCCAAGTTTTCACTTTCAAAAAAT
66 TTAAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTTTCACATTCAAAAAAT
* * * * ** *
409132 GGAAGTTTAGATAGTGTTCTAATTTTTTAACTCATCCAAGTTGTTACATTCAAAGATGGAAGTTT
131 GGAAGATGAAATAGTGTTCTAATGTCATAACTCATCCAAGTTGTTACATTAAAAGATGGAAGTTT
* * * * * * *
409197 GTATATCGTTATAGAGTTTAAATTTTCCAAGTTGTTACATTCAAAGATGGAAGTTTGAGTAGCGT
196 GAATAGCGTTATAGAATTTAAATTTTCCAAGTTGTTACATTCAAAAATGAAAGTTTGAATAGCAT
* * * * *
409262 TGGAATTTTTGAATAACCAATTAGATGTTTATGAATTAAAGAGTTTAACTTATCCAAGTTGTTAA
261 TGGAATTCTTGAACAACAAATTAGATGTTTACGAACTAAAGAGTTTAACTTATCCAAGTTGTTAA
* *
409327 ATTTAAAGATTGAAGTTTAAATAGAATTGTAGAATTTAACTTAGTCAAATTTTTCTACTGAAAGA
326 ATTAAAAAATTGAAGTTTAAATAGAATTGTAGAATTTAACTTAGTCAAATTTTTCTACTGAAAGA
409392 TAGAAGTTTAAATAGAGTTTTAGTTATCCAAG
391 TAGAAGTTTAAATAGAGTTTTAGTTATCCAAG
* * * * * * *
409424 TTGTTACATGCAAATATGGAAGTTTGAATAATGTTGTAATGTTTAACTTATTCAATTTGTTACAT
1 TTGTTACATGCAAAGATGGAAGATTGAATAACGTTGTAATGTTTAAATTATCCAAGTTGTGACAT
* *
409489 TCT-AAGCTGGAAGTTTGAATAACATTGTAATGTTTAACTTAT-TAGAGTTGTT-ACATT-AAAA
66 T-TAAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCA-AGTT-TTCACATTCAAAA
* * * * *
409550 AATGGAAGATGAAATAGTGTTTTAATGTCATAATTTATCTAAGTTGTTATATTAAAAGATGGAAG
128 AATGGAAGATGAAATAGTGTTCTAATGTCATAACTCATCCAAGTTGTTACATTAAAAGATGGAAG
*
409615 TTTGAATAGCGTTGTAGAATTT-AATTTATCCAAGTT-TTACATTCAAAAATGAAAGTTTGAATA
193 TTTGAATAGCGTTATAGAATTTAAATTT-TCCAAGTTGTTACATTCAAAAATGAAAGTTTGAATA
* * * * *
409678 GCATTGTAATGTCTT-AACAA-AATACTTTGATGTTTACGAACTAAAGAGTTTAGCTTATCGATG
257 GCATTGGAAT-TCTTGAACAACAA-A-TTAGATGTTTACGAACTAAAGAGTTTAACTTATCCAAG
* *
409741 TTGTTACATTAAAAAA-TGTAAGTTTTAATA
319 TTGTTAAATTAAAAAATTG-AAGTTTAAATA
409771 ATGTTGTAAT
Statistics
Matches: 290, Mismatches: 49, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
419 1 0.00
420 44 0.15
421 142 0.49
422 100 0.34
423 3 0.01
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.40
Consensus pattern (422 bp):
TTGTTACATGCAAAGATGGAAGATTGAATAACGTTGTAATGTTTAAATTATCCAAGTTGTGACAT
TTAAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTTTCACATTCAAAAAAT
GGAAGATGAAATAGTGTTCTAATGTCATAACTCATCCAAGTTGTTACATTAAAAGATGGAAGTTT
GAATAGCGTTATAGAATTTAAATTTTCCAAGTTGTTACATTCAAAAATGAAAGTTTGAATAGCAT
TGGAATTCTTGAACAACAAATTAGATGTTTACGAACTAAAGAGTTTAACTTATCCAAGTTGTTAA
ATTAAAAAATTGAAGTTTAAATAGAATTGTAGAATTTAACTTAGTCAAATTTTTCTACTGAAAGA
TAGAAGTTTAAATAGAGTTTTAGTTATCCAAG
Found at i:409799 original size:23 final size:23
Alignment explanation
Indices: 409765--409809 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
409755 AATGTAAGTT
*
409765 TTAATAATGTTGTAATATTTAAC
1 TTAATAATGTTGTAACATTTAAC
*
409788 TTAACTAA-GTTGTTACATTTAA
1 TTAA-TAATGTTGTAACATTTAA
409810 AAATGGAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.47
Consensus pattern (23 bp):
TTAATAATGTTGTAACATTTAAC
Found at i:409812 original size:56 final size:56
Alignment explanation
Indices: 409740--409862 Score: 174
Period size: 56 Copynumber: 2.2 Consensus size: 56
409730 GCTTATCGAT
* * *
409740 GTTGTTACATTAAAAAATGTAAGTTTTAATAATGTTGTAATATTTAACTTAACTAA
1 GTTGTTACATTAAAAAATGGAAGTTTAAATAATGTTGTAATATTCAACTTAACTAA
* * * *
409796 GTTGTTACATTTAAAAATGGAAGTTTAAATAGTGTTGTAATGTTCAACTTATCTAA
1 GTTGTTACATTAAAAAATGGAAGTTTAAATAATGTTGTAATATTCAACTTAACTAA
*
409852 TTTGTTACATT
1 GTTGTTACATT
409863 GAATAGAGTT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.44
Consensus pattern (56 bp):
GTTGTTACATTAAAAAATGGAAGTTTAAATAATGTTGTAATATTCAACTTAACTAA
Found at i:409821 original size:421 final size:422
Alignment explanation
Indices: 409002--410038 Score: 940
Period size: 421 Copynumber: 2.5 Consensus size: 422
408992 CTTATTGTAT
*
409002 TTGTTACATTCAAAGATGGAAGATTGAATAACGTTGTAATGTTTAAATTATCCAAGTTGTGACAT
1 TTGTTACATGCAAAGATGGAAGATTGAATAACGTTGTAATGTTTAAATTATCCAAGTTGTGACAT
* ** * *
409067 TTAAAGATGTAAGTTTGAATAATGTTGTAATGTTTAATTTATCCAAGTTTTCACTTTCAAAAAAT
66 TTAAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTTTCACATTCAAAAAAT
* * * * ** *
409132 GGAAGTTTAGATAGTGTTCTAATTTTTTAACTCATCCAAGTTGTTACATTCAAAGATGGAAGTTT
131 GGAAGATGAAATAGTGTTCTAATGTCATAACTCATCCAAGTTGTTACATTAAAAGATGGAAGTTT
* * * * * * *
409197 GTATATCGTTATAGAGTTTAAATTTTCCAAGTTGTTACATTCAAAGATGGAAGTTTGAGTAGCGT
196 GAATAGCGTTATAGAATTTAAATTTTCCAAGTTGTTACATTCAAAAATGAAAGTTTGAATAGCAT
* * * * *
409262 TGGAATTTTTGAATAACCAATTAGATGTTTATGAATTAAAGAGTTTAACTTATCCAAGTTGTTAA
261 TGGAATTCTTGAACAACAAATTAGATGTTTACGAACTAAAGAGTTTAACTTATCCAAGTTGTTAA
* * * * *
409327 ATTTAAAGATTGAAGTTTAAATAGAATTGTAGAATTTAACTTAGTCAAATTTTTCTACTGAAAGA
326 ATTAAAAAATTGAAGTTTAAATAGAATTGTAGAATTTAACTTACTCAAATTTTACTACTGAAAAA
409392 TAGAAGTTTAAATAGAGTTTTAGTTATCCAAG
391 TAGAAGTTTAAATAGAGTTTTAGTTATCCAAG
* * * * * * *
409424 TTGTTACATGCAAATATGGAAGTTTGAATAATGTTGTAATGTTTAACTTATTCAATTTGTTACAT
1 TTGTTACATGCAAAGATGGAAGATTGAATAACGTTGTAATGTTTAAATTATCCAAGTTGTGACAT
* *
409489 TCT-AAGCTGGAAGTTTGAATAACATTGTAATGTTTAACTTAT-TAGAGTTGTT-ACATT-AAAA
66 T-TAAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCA-AGTT-TTCACATTCAAAA
* * * * *
409550 AATGGAAGATGAAATAGTGTTTTAATGTCATAATTTATCTAAGTTGTTATATTAAAAGATGGAAG
128 AATGGAAGATGAAATAGTGTTCTAATGTCATAACTCATCCAAGTTGTTACATTAAAAGATGGAAG
*
409615 TTTGAATAGCGTTGTAGAATTT-AATTTATCCAAGTT-TTACATTCAAAAATGAAAGTTTGAATA
193 TTTGAATAGCGTTATAGAATTTAAATTT-TCCAAGTTGTTACATTCAAAAATGAAAGTTTGAATA
* * * * *
409678 GCATTGTAATGTCTT-AACAA-AATACTTTGATGTTTACGAACTAAAGAGTTTAGCTTATCGATG
257 GCATTGGAAT-TCTTGAACAACAA-A-TTAGATGTTTACGAACTAAAGAGTTTAACTTATCCAAG
* * * *
409741 TTGTTACATTAAAAAA-TGTAAGTTTTAATA-ATGTTGTA-ATATTTAACTTAACT-AAGTTGTT
319 TTGTTAAATTAAAAAATTG-AAGTTTAAATAGA-ATTGTAGA-ATTTAACTT-ACTCAAATT-TT
* * * * * *
409802 AC-ATTTAAAAATGGAAGTTTAAATAGTGTTGTAATGT-T-CAA-
379 ACTACTGAAAAATAGAAGTTTAAATAGAGTTTTAGT-TATCCAAG
* * ** ** * * * *
409843 --CTT--AT-CTAATTTGTTACATTGAATAGA-GTTGTAATGTGTT-AATATATCCAATTTATTA
1 TTGTTACATGCAAAGATGGAAGATTGAATA-ACGTTGTAATGT-TTAAAT-TATCCAAGTTGTGA
* * * *
409901 CATTCAAAAAAGGAAGTTTGAATAACATTGTAATGTTTAACTTAACCAAGTTGTT-ACATTC-AA
63 CATTTAAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTT-TTCACATTCAAA
* * * ** * * * * * *
409964 AGATAGAAGTTTTAATAGTATTGTAGAGGT-A-AAATTATCCAAGTTGTTACATTCAAAAAATGG
127 AAATGGAAGATGAAATAGTGTTCTA-ATGTCATAACTCATCCAAGTTGTTACATT-AAAAGATGG
*
410027 AAGTTGGAATAG
190 AAGTTTGAATAG
410039 TGTTGTAATG
Statistics
Matches: 505, Mismatches: 89, Indels: 49
0.79 0.14 0.08
Matches are distributed among these distances:
414 45 0.09
415 108 0.21
416 4 0.01
417 2 0.00
419 1 0.00
420 49 0.10
421 187 0.37
422 106 0.21
423 3 0.01
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (422 bp):
TTGTTACATGCAAAGATGGAAGATTGAATAACGTTGTAATGTTTAAATTATCCAAGTTGTGACAT
TTAAAGATGGAAGTTTGAATAACATTGTAATGTTTAACTTATCCAAGTTTTCACATTCAAAAAAT
GGAAGATGAAATAGTGTTCTAATGTCATAACTCATCCAAGTTGTTACATTAAAAGATGGAAGTTT
GAATAGCGTTATAGAATTTAAATTTTCCAAGTTGTTACATTCAAAAATGAAAGTTTGAATAGCAT
TGGAATTCTTGAACAACAAATTAGATGTTTACGAACTAAAGAGTTTAACTTATCCAAGTTGTTAA
ATTAAAAAATTGAAGTTTAAATAGAATTGTAGAATTTAACTTACTCAAATTTTACTACTGAAAAA
TAGAAGTTTAAATAGAGTTTTAGTTATCCAAG
Found at i:409919 original size:98 final size:105
Alignment explanation
Indices: 409794--410074 Score: 279
Period size: 98 Copynumber: 2.7 Consensus size: 105
409784 TAACTTAACT
* * * * * *
409794 AAGTTGTTACATTTAAAAATGGAAGTTTAAATAGTGTTGTAATGTTCAACTTATCTAATTTGTTA
1 AAGTTATTACATTCAAAAAAGGAAGTTTGAATAGTGTTGTAATGTTTAACTTATCTAAGTTGTTA
* *
409859 CATT-GA-ATAG-AGTTGTAAT-G-TGT-TAATA-TATCC
66 CATTAAAGATAGAAGTTGTAATAGTTGTGTAAAATTATCC
* *** * *
409892 AATTTATTACATTCAAAAAAGGAAGTTTGAATAACATTGTAATGTTTAACTTAACCAAGTTGTTA
1 AAGTTATTACATTCAAAAAAGGAAGTTTGAATAGTGTTGTAATGTTTAACTTATCTAAGTTGTTA
*
409957 CATTCAAAGATAGAAGTTTTAATAGTATTGTAGAGGTAAAATTATCC
66 CATT-AAAGATAGAAGTTGTAATAG--TTGT----GTAAAATTATCC
* *
410004 AAGTTGTTACATTCAAAAAATGGAAGTTGGAATAGTGTTGTAATGTCTTAACTTATCTAAGTTGT
1 AAGTTATTACATTCAAAAAA-GGAAGTTTGAATAGTGTTGTAATGT-TTAACTTATCTAAGTTGT
410069 TACATT
64 TACATT
410075 CAATGACGAC
Statistics
Matches: 144, Mismatches: 23, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
98 57 0.40
100 1 0.01
101 4 0.03
102 8 0.06
103 1 0.01
106 3 0.02
111 4 0.03
112 23 0.16
113 21 0.15
114 22 0.15
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (105 bp):
AAGTTATTACATTCAAAAAAGGAAGTTTGAATAGTGTTGTAATGTTTAACTTATCTAAGTTGTTA
CATTAAAGATAGAAGTTGTAATAGTTGTGTAAAATTATCC
Found at i:409973 original size:56 final size:56
Alignment explanation
Indices: 409861--410993 Score: 848
Period size: 56 Copynumber: 20.1 Consensus size: 56
409851 ATTTGTTACA
* * * *
409861 TTGAATAGA-GTTGTAATGTGTTAA-TATATCCAATTTATTACATTCAAAAAAGGAAGT
1 TTGAATA-ACGTTGTAATGT-TTAACT-TATCCAAGTTGTTACATTCAAAGATGGAAGT
* * *
409918 TTGAATAACATTGTAATGTTTAACTTAACCAAGTTGTTACATTCAAAGATAGAAGT
1 TTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGT
* *** * * * *
409974 TTTAATAGTATTGTAGA-GGTAAAATTATCCAAGTTGTTACATTCAAAAAATGGAAGT
1 TTGAATAACGTTGTA-ATGTTTAACTTATCCAAGTTGTTACATTC-AAAGATGGAAGT
* ** * * * *
410031 TGGAATAGTGTTGTAATGTCTTAACTTATCTAAGTTGTTACATTCAATGA-CGACTGT
1 TTGAATAACGTTGTAATGT-TTAACTTATCCAAGTTGTTACATTCAAAGATGGA-AGT
** * * *
410088 TTGAATAACACTGTAATGTATTAACTTATCAAAGTTGTTATATTCAAAAATGGAAGT
1 TTGAATAACGTTGTAATGT-TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGT
* * * * * * * *
410145 TTGAATAGCTTTGTAATGTCTACACATATCCAAGTT-TTGATATCCAAAGATGGTAGC
1 TTGAATAACGTTGTAATGTTTA-ACTTATCCAAGTTGTT-ACATTCAAAGATGGAAGT
* * * * ***
410202 TTGAATAATGTTGTAATGTTTAACTATTTTCAAGTTGTTACATTCAAGGATTTTAGT
1 TTGAATAACGTTGTAATGTTTAACT-TATCCAAGTTGTTACATTCAAAGATGGAAGT
* * * * * * * *
410259 TTGAGTAGCGTTATAGA-GCTTAACTTGTCCAATTTGTTACATTGAAAGATGCAAGT
1 TTGAATAACGTTGTA-ATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGT
* * * *
410315 TTGAATAACATTGTAATGTTTAACTCATCCAAGTTGTTAAACTCAAAGATGGAA-T
1 TTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGT
* * * *
410370 ATTGAATAACGCTT-TAATGTTTAACTCATCCAAGTTGTTACACTCAAAGATAGAAGA
1 -TTGAATAACG-TTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGT
* * * *
410427 ATGAATAACTTTGTAATGTTTAGCTTATCCAAGTTGTTACATTCAAATATGGAAGT
1 TTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGT
** ** * * *
410483 TTGAATAGTGTTCCAGA-GTTTAATTTATCCAAGTTATTATATTCAAAGATGGAAGT
1 TTGAATAACGTTGTA-ATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGT
* * * * * *
410539 TT-AACTAACATTTTAAAGTTTAACTTATCCAAGTTGTTATATACAAA-ATTGAA-T
1 TTGAA-TAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGT
* * * * ** *
410593 ATAAATTAGCATTGTAATGTTTTAAAATATCCAAGTTGTTACATTCAAATATGGAAGT
1 TTGAA-TAACGTTGTAATG-TTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGT
** * * * * * *
410651 TTGAATAGTGTTGTAATGTCTTAACTTGTCCAAGTTGTTATACTCAAAGACGAAACT
1 TTGAATAACGTTGTAATGT-TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGT
* * * * * * *
410708 TTGAATAACTTTGT-ATGATATAAATTATCTAATTTGTTGCATCCAAAGAT-GAGAGT
1 TTGAATAACGTTGTAATG-TTTAACTTATCCAAGTTGTTACATTCAAAGATGGA-AGT
* * ** * *
410764 ATGAATAAC-TTGTAATGTTTAACTTATCTAA-TATGCGACATTCAAATATGAAAGT
1 TTGAATAACGTTGTAATGTTTAACTTATCCAAGT-TGTTACATTCAAAGATGGAAGT
* *
410819 TTGAATAATGTTGTAATGTTTAACTTATCCAAGTTGTCACATTCAAA-ATGGAAGT
1 TTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGT
** * * *
410874 TT-ACATTGCGTTATAATGTCTTAACCTATCCAAGTTGTTACATTCAAACATGGAAGT
1 TTGA-ATAACGTTGTAATGT-TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGT
* * * * * *
410931 TTGAATATCTTTATAGA-GTGTAACATATCCAAGTTGTTACATTCAAAGAT-TAATGT
1 TTGAATAACGTTGTA-ATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAA-GT
410987 TTGAATA
1 TTGAATA
410994 GAGTTGCAAT
Statistics
Matches: 852, Mismatches: 185, Indels: 79
0.76 0.17 0.07
Matches are distributed among these distances:
54 4 0.00
55 84 0.10
56 466 0.55
57 265 0.31
58 33 0.04
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (56 bp):
TTGAATAACGTTGTAATGTTTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGT
Found at i:410218 original size:171 final size:170
Alignment explanation
Indices: 409916--410248 Score: 394
Period size: 171 Copynumber: 2.0 Consensus size: 170
409906 AAAAAAGGAA
* * * *
409916 GTTTGAATAACATTGTAATGTTTAACTTAACCAAGTTGTTACATTCAAAGATAGAAGTTTTAATA
1 GTTTGAATAACACTGTAATGTTTAACTTAACAAAGTTGTTACATTCAAAAATAGAAGTTTGAATA
* *
409981 GTATTGTAGAGGTAAAATTATCCAAGTTGTTACATTCAAAAAATGGAAGTTGGAATAGTGTTGTA
66 GTATTGTAGAGCTAAAATTATCCAAGTTGTTACATTCAAAAAATGGAAGTTGGAATAATGTTGTA
410046 ATGTCTTAACT-TATCT-AAGTTGTTACATTCAATGACGACT
131 ATGT-TTAACTAT-TCTCAAGTTGTTACATTCAATGACGACT
* * *
410086 GTTTGAATAACACTGTAATGTATTAACTTATCAAAGTTGTTATATTCAAAAATGGAAGTTTGAAT
1 GTTTGAATAACACTGTAATGT-TTAACTTAACAAAGTTGTTACATTCAAAAATAGAAGTTTGAAT
* * * * *
410151 AGCT-TTGTA-ATGTCTACACA-TATCCAAGTT-TT-GATATCCAAAGATGGTAGCTT-GAATAA
65 AG-TATTGTAGA-G-CTA-AAATTATCCAAGTTGTTACAT-TCAAAAAATGGAAG-TTGGAATAA
*
410210 TGTTGTAATGTTTAACTATTTTCAAGTTGTTACATTCAA
124 TGTTGTAATGTTTAACTATTCTCAAGTTGTTACATTCAA
410249 GGATTTTAGT
Statistics
Matches: 139, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
170 31 0.22
171 91 0.65
172 15 0.11
173 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (170 bp):
GTTTGAATAACACTGTAATGTTTAACTTAACAAAGTTGTTACATTCAAAAATAGAAGTTTGAATA
GTATTGTAGAGCTAAAATTATCCAAGTTGTTACATTCAAAAAATGGAAGTTGGAATAATGTTGTA
ATGTTTAACTATTCTCAAGTTGTTACATTCAATGACGACT
Found at i:410333 original size:170 final size:168
Alignment explanation
Indices: 410108--410416 Score: 367
Period size: 170 Copynumber: 1.8 Consensus size: 168
410098 CTGTAATGTA
* * * *
410108 TTAACTTATCAAAGTTGTTATATTCAAAAATGGAAGTTTGAATAGCTTTGTAATGTCTACACAT-
1 TTAACTTATCAAAGTTGTTACATTCAAAAATGCAAGTTTGAATAACATTGTAATGTCTA-AC-TC
* * * * *
410172 ATCCAAGTT-TTGATA-TCCAAAGATGGTAGCTTGAATAATG-TTGTAATGTTTAACT-ATTTTC
64 ATCCAAGTTGTT-AAACT-CAAAGATGGAAGATTGAATAACGCTT-TAATGTTTAACTCA--TCC
*
410233 AAGTTGTTACATTCAAGGATTTTAGTTTGAGTAGCGTTATAGAGC
124 AAGTTGTTACACTCAAGGATTTTAGTTTGAGTAGCGTTATAGAGC
* * * * * *
410278 TTAACTTGTCCAATTTGTTACATTGAAAGATGCAAGTTTGAATAACATTGTAATGTTTAACTCAT
1 TTAACTTATCAAAGTTGTTACATTCAAAAATGCAAGTTTGAATAACATTGTAATGTCTAACTCAT
*
410343 CCAAGTTGTTAAACTCAAAGATGGAATATTGAATAACGCTTTAATGTTTAACTCATCCAAGTTGT
66 CCAAGTTGTTAAACTCAAAGATGGAAGATTGAATAACGCTTTAATGTTTAACTCATCCAAGTTGT
410408 TACACTCAA
131 TACACTCAA
410417 AGATAGAAGA
Statistics
Matches: 117, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
168 18 0.15
169 44 0.38
170 55 0.47
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.38
Consensus pattern (168 bp):
TTAACTTATCAAAGTTGTTACATTCAAAAATGCAAGTTTGAATAACATTGTAATGTCTAACTCAT
CCAAGTTGTTAAACTCAAAGATGGAAGATTGAATAACGCTTTAATGTTTAACTCATCCAAGTTGT
TACACTCAAGGATTTTAGTTTGAGTAGCGTTATAGAGC
Found at i:411122 original size:93 final size:94
Alignment explanation
Indices: 410945--411167 Score: 256
Period size: 93 Copynumber: 2.4 Consensus size: 94
410935 ATATCTTTAT
* * * * *
410945 AGAGTGTAACATATCCAAGTTGTTACATTCAAAGAT-TAATGTTTGAATAGAGTTGCAATAACTT
1 AGAGTTTAACTTAGCCAAGTTGTTACATTTAAAGATGGAATGTTTGAATAGAGTTGCAATAACTT
* *
411009 AACAAAATAGATTGATGTTTACGAACTAA
66 AACAAAATACATTGACGTTTACGAACTAA
* * * * **
411038 ATAGTTTAA-TATAGCCAAGTCGTTACATTTAAAGATGGAAT-TTTGAATAGCGTTGTAATTTC-
1 AGAGTTTAACT-TAGCCAAGTTGTTACATTTAAAGATGGAATGTTTGAATAGAGTTGCAATAACT
*
411100 TAGACAAAATACTTTGACGTTTACGAACTAA
65 TA-ACAAAATACATTGACGTTTACGAACTAA
* *
411131 AGAGTTTAACTTATCCAAGTTGTTATATTTAAAGATG
1 AGAGTTTAACTTAGCCAAGTTGTTACATTTAAAGATG
411168 TAAGTTTTAA
Statistics
Matches: 108, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
92 2 0.02
93 102 0.94
94 4 0.04
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (94 bp):
AGAGTTTAACTTAGCCAAGTTGTTACATTTAAAGATGGAATGTTTGAATAGAGTTGCAATAACTT
AACAAAATACATTGACGTTTACGAACTAA
Found at i:411252 original size:56 final size:57
Alignment explanation
Indices: 411133--411271 Score: 158
Period size: 56 Copynumber: 2.5 Consensus size: 57
411123 CGAACTAAAG
* * * * *
411133 AGTTTAACTTATCCAAGTTGTTATATTTAAAGATGTAAGTTTTAATAACTTTGAAAT
1 AGTTTAACTTATCCAAGTTGTTACATTAAAAAATGGAAGTTTAAATAACTTTGAAAT
* **
411190 AG-TTAACTTATCCAAGTTGTTACATTAAAAAATGGAAGTTTAAAT-AGTGTTTTAAT
1 AGTTTAACTTATCCAAGTTGTTACATTAAAAAATGGAAGTTTAAATAACT-TTGAAAT
* *
411246 -GTTTAACTTATCTAATTTGTTACATT
1 AGTTTAACTTATCCAAGTTGTTACATT
411272 GATTAATGTT
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
55 3 0.04
56 65 0.93
57 2 0.03
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (57 bp):
AGTTTAACTTATCCAAGTTGTTACATTAAAAAATGGAAGTTTAAATAACTTTGAAAT
Found at i:411364 original size:98 final size:98
Alignment explanation
Indices: 411191--411369 Score: 225
Period size: 98 Copynumber: 1.8 Consensus size: 98
411181 CTTTGAAATA
* * * * * *
411191 GTTAACTTATCCAAGTTGTTACATTAAAAAATGGAAGTTTAAATAGTGTTTTAATGTTTAACTTA
1 GTTAACATATCCAAGTTATTACATTAAAAAATAGAAGATTAAATACTGTTGTAATGTTTAACTTA
* * *
411256 TCTAATTTGTTACATTGATTAATGTTGTAATGT
66 CCCAAGTTGTTACATTGATTAATGTTGTAATGT
* * *
411289 GTTAACATATCCAAGTTATTACATTCAAAGATAGAAGATTGAATAACT-TTGTAATGTTTAACTT
1 GTTAACATATCCAAGTTATTACATTAAAAAATAGAAGATTAAAT-ACTGTTGTAATGTTTAACTT
*
411353 CCCCAAGTTGTTACATT
65 ACCCAAGTTGTTACATT
411370 CAAAGATGGA
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
98 65 0.97
99 2 0.03
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (98 bp):
GTTAACATATCCAAGTTATTACATTAAAAAATAGAAGATTAAATACTGTTGTAATGTTTAACTTA
CCCAAGTTGTTACATTGATTAATGTTGTAATGT
Found at i:411367 original size:56 final size:57
Alignment explanation
Indices: 411280--411389 Score: 159
Period size: 56 Copynumber: 1.9 Consensus size: 57
411270 TTGATTAATG
*
411280 TTGTAATGTGTTAACATATCCAAGTTATTACATTCAAAGATAGAAGATTGAATAACT
1 TTGTAATGTGTTAACATACCCAAGTTATTACATTCAAAGATAGAAGATTGAATAACT
* * * * *
411337 TTGTAATGT-TTAACTTCCCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATA
1 TTGTAATGTGTTAACATACCCAAGTTATTACATTCAAAGATAGAAGATTGAATA
411390 GCATTTTAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
56 38 0.81
57 9 0.19
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (57 bp):
TTGTAATGTGTTAACATACCCAAGTTATTACATTCAAAGATAGAAGATTGAATAACT
Found at i:411420 original size:154 final size:154
Alignment explanation
Indices: 411136--411423 Score: 348
Period size: 154 Copynumber: 1.9 Consensus size: 154
411126 ACTAAAGAGT
* * * * * * *
411136 TTAACTTATCCAAGTTGTTATATTTAAAGATGTAAGTTTTAATAACTTTGAAATAGTTAACTTAT
1 TTAACATATCCAAGTTATTACATTCAAAGATGTAAGATTGAATAACTTTGAAATAGTTAACTTAC
** * * * *
411201 CCAAGTTGTTACATTAAAAAATGGAAGTTTAAATAGTGTTTTAATGTTTAACTTATCTAATTTGT
66 CCAAGTTGTTACATTAAAAAATGGAAGTTTAAATAGCATTTTAATGTTGAACTCATCCAAGTTGT
411266 TACATTGATTAATGTTGTAATGTG
131 TACATTGATTAATGTTGTAATGTG
*
411290 TTAACATATCCAAGTTATTACATTCAAAGATAG-AAGATTGAATAACTTTGTAAT-GTTTAACTT
1 TTAACATATCCAAGTTATTACATTCAAAGAT-GTAAGATTGAATAACTTTGAAATAG-TTAACTT
* * * * * *
411353 CCCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAGCATTTTAGA-GTTGGAGTCATCCAAGT
64 ACCCAAGTTGTTACATTAAAAAATGGAAGTTTAAATAGCATTTTA-ATGTTGAACTCATCCAAGT
411417 TGTTACA
128 TGTTACA
411424 ATAAAAAATT
Statistics
Matches: 111, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
153 1 0.01
154 108 0.97
155 2 0.02
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (154 bp):
TTAACATATCCAAGTTATTACATTCAAAGATGTAAGATTGAATAACTTTGAAATAGTTAACTTAC
CCAAGTTGTTACATTAAAAAATGGAAGTTTAAATAGCATTTTAATGTTGAACTCATCCAAGTTGT
TACATTGATTAATGTTGTAATGTG
Found at i:419002 original size:22 final size:23
Alignment explanation
Indices: 418963--419012 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
418953 GAGTTCAAAG
* * *
418963 AAAAAAAGTAGAAGAAGA-ATTC
1 AAAAAAAGAAAAAAAAGAGATTC
*
418985 AAAAAAAGAAAAAAAAGAGTTTC
1 AAAAAAAGAAAAAAAAGAGATTC
419008 AAAAA
1 AAAAA
419013 GAAATCAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.70, C:0.04, G:0.14, T:0.12
Consensus pattern (23 bp):
AAAAAAAGAAAAAAAAGAGATTC
Found at i:424816 original size:112 final size:112
Alignment explanation
Indices: 424523--425135 Score: 434
Period size: 112 Copynumber: 5.5 Consensus size: 112
424513 TTTATAGAGC
* * * ** *
424523 TTAACTTATTCAAGTTGTTACATTGAAAGATGCATA-TTTGAATAACATTGTA-ATGATTATGTT
1 TTAACTTATCCAAGTTGTTACATTCAAAGATGGA-AGTTTGAATAATGTTGTAGA-GATTAAGTT
* * * * ** * *
424586 ATCCAAGTTGTTATATTCAAAGATTGAAGATTGAGTAATATTTTAATGT
64 ATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAACGTTGTAAAGT
** * * ** * * * *
424635 TTAACTCGTCCAAGTTGTTACACTCAAAGATGGAAGATTGAATAACATTGTA-ATATTTTACTCG
1 TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAATGTTGTAGAGA-TTAAGT-T
** **
424699 A-CCAAGTTGTTACACTGGAAA-ATGGAAGAATGAATAACGTTGTAAAGT
64 ATCCAAGTTGTTACA-TTCAAAGATGGAAGTTTGAATAACGTTGTAAAGT
* * * *
424747 TTAACTTATCGATGTTGTTACATTCAAAGATGGAAGTTTGAATAGTGTTGTAGAGATTAATTTAT
1 TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAATGTTGTAGAGATTAAGTTAT
* * * * * * *
424812 CCAAGTTATTATATTCAAAGATGAAAGTTTAAATAATGTTTTGAAGT
66 CCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAACGTTGTAAAGT
* * ** * * * * ** *
424859 TTAATTTATCCAAGATGTTACAAACAAAAATTGAA-TATAAATTAGGGTTGTA-ATATCTTAAGT
1 TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAA-TAATGTTGTAGAGA--TTAAGT
* * * * *
424922 TATCCAAGTTGTTACATTAAAATATGGAAGTTTGTATAGCGTTGTAATGT
63 TATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAACGTTGTAAAGT
* * * * *
424972 CTTAACTTGTCCAAGTTGTTACATTCAAAGATGAAAGTTTGAA-AACGTTGTAGGGTTTAAGTTA
1 -TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAATGTTGTAGAGATTAAGTTA
* * * * * * **
425036 TTCTATTTGTTACATTCAAAGA-CGAGAGTCTGAATAACATTGTAATTT
65 TCCAAGTTGTTACATTCAAAGATGGA-AGTTTGAATAACGTTGTAAAGT
* **
425084 TTAACTTATCCAAATTGCGACATTCAAAGATGGAAGTTTGAATAATGTTGTA
1 TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAATGTTGTA
425136 ATGTTTAACT
Statistics
Matches: 383, Mismatches: 103, Indels: 30
0.74 0.20 0.06
Matches are distributed among these distances:
111 52 0.14
112 243 0.63
113 57 0.15
114 27 0.07
115 4 0.01
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.37
Consensus pattern (112 bp):
TTAACTTATCCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAATGTTGTAGAGATTAAGTTAT
CCAAGTTGTTACATTCAAAGATGGAAGTTTGAATAACGTTGTAAAGT
Found at i:425053 original size:55 final size:56
Alignment explanation
Indices: 424523--425182 Score: 320
Period size: 56 Copynumber: 11.8 Consensus size: 56
424513 TTTATAGAGC
* * * * * * *
424523 TTAACTTATTCAAGTTGTTACATTGAAAGATGCATA-TTTGAATAACATTGTAATGA
1 TTAACTTATCCAAATTGTTACATTCAAAGATG-AAAGTTTGAATAACGTTGTAAGGT
** * * * * ** * *
424579 TTATGTTATCCAAGTTGTTATATTCAAAGATTG-AAGATTGAGTAATATTTTAATGT
1 TTAACTTATCCAAATTGTTACATTCAAAGA-TGAAAGTTTGAATAACGTTGTAAGGT
** * * * * * **
424635 TTAACTCGTCCAAGTTGTTACACTCAAAGATGGAAGATTGAATAACATTGTAATAT
1 TTAACTTATCCAAATTGTTACATTCAAAGATGAAAGTTTGAATAACGTTGTAAGGT
* * * ** * ** *
424691 TTTACTCGA-CCAAGTTGTTACACTGGAAA-ATGGAAGAATGAATAACGTTGTAAAGT
1 TTAACT-TATCCAAATTGTTACA-TTCAAAGATGAAAGTTTGAATAACGTTGTAAGGT
* ** * ** *
424747 TTAACTTATCGATGTTGTTACATTCAAAGATGGAAGTTTGAATAGTGTTGT-AGAGA
1 TTAACTTATCCAAATTGTTACATTCAAAGATGAAAGTTTGAATAACGTTGTAAG-GT
* * * * * * *
424803 TTAATTTATCCAAGTTATTATATTCAAAGATGAAAGTTTAAATAATGTTTTGAA-GT
1 TTAACTTATCCAAATTGTTACATTCAAAGATGAAAGTTTGAATAACGTTGT-AAGGT
* ** * * * ** **
424859 TTAATTTATCCAAGA-TGTTACAAACAAAAATTG-AA-TATAAATTAGGGTTGTAATAT
1 TTAACTTATCCAA-ATTGTTACATTCAAAGA-TGAAAGTTTGAA-TAACGTTGTAAGGT
* * * * * * * *
424915 CTTAAGTTATCCAAGTTGTTACATTAAAATATGGAAGTTTGTATAGCGTTGTAATGT
1 -TTAACTTATCCAAATTGTTACATTCAAAGATGAAAGTTTGAATAACGTTGTAAGGT
* * *
424972 CTTAACTTGTCCAAGTTGTTACATTCAAAGATGAAAGTTTGAA-AACGTTGTAGGGT
1 -TTAACTTATCCAAATTGTTACATTCAAAGATGAAAGTTTGAATAACGTTGTAAGGT
* * * * * * * * **
425028 TTAAGTTATTCTATTTGTTACATTCAAAGACGAGAGTCTGAATAACATTGTAATTT
1 TTAACTTATCCAAATTGTTACATTCAAAGATGAAAGTTTGAATAACGTTGTAAGGT
** * * *
425084 TTAACTTATCCAAATTGCGACATTCAAAGATGGAAGTTTGAATAATGTTGTAATGT
1 TTAACTTATCCAAATTGTTACATTCAAAGATGAAAGTTTGAATAACGTTGTAAGGT
* * *
425140 TTAACTAATCCAAGTT-TT-CATATGCAAA-ATGAAAGTTTTAATA
1 TTAACTTATCCAAATTGTTACAT-T-CAAAGATGAAAGTTTGAATA
425183 GCATTTGTCA
Statistics
Matches: 468, Mismatches: 115, Indels: 43
0.75 0.18 0.07
Matches are distributed among these distances:
54 3 0.01
55 64 0.14
56 316 0.68
57 81 0.17
58 4 0.01
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (56 bp):
TTAACTTATCCAAATTGTTACATTCAAAGATGAAAGTTTGAATAACGTTGTAAGGT
Done.