Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007930.1 Hibiscus syriacus cultivar Beakdansim tig00110338_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: 2280901
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 12
Found at i:1932227 original size:30 final size:29
Alignment explanation
Indices: 1932193--1932290 Score: 99
Period size: 30 Copynumber: 3.3 Consensus size: 29
1932183 TTTATTTGTG
1932193 TTTTAGTCCCTTAAATTTTTGTTTATGCTA
1 TTTTAGTCCCTTAAATTTTTGTTT-TGCTA
* * * *
1932223 TTTTAATCCCTTAAGTTTTGGGTTTTGTTA
1 TTTTAGTCCCTTAAATTTT-TGTTTTGCTA
* * *
1932253 TTTTAGTCCTTTCAATTTTTGTTTTTTCTA
1 TTTTAGTCCCTTAAATTTTTG-TTTTGCTA
1932283 -TTTAGTCC
1 TTTTAGTCC
1932291 TTTATTTTAC
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
29 9 0.16
30 42 0.76
31 4 0.07
ACGTcount: A:0.16, C:0.13, G:0.11, T:0.59
Consensus pattern (29 bp):
TTTTAGTCCCTTAAATTTTTGTTTTGCTA
Found at i:1939536 original size:86 final size:86
Alignment explanation
Indices: 1939391--1939552 Score: 288
Period size: 86 Copynumber: 1.9 Consensus size: 86
1939381 TATGTTATAT
* *
1939391 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGTGCTTATATAATGTAATATGT
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1939456 AGCACTTATATAATAAAATAG
66 AGCACTTATATAATAAAATAG
*
1939477 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
*
1939542 AGCTCTTATAT
66 AGCACTTATAT
1939553 TGACTATTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 72 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (86 bp):
CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
AGCACTTATATAATAAAATAG
Found at i:1939896 original size:198 final size:196
Alignment explanation
Indices: 1939584--1940072 Score: 601
Period size: 198 Copynumber: 2.5 Consensus size: 196
1939574 GGTATATTTA
* * * *
1939584 TACCA-ATAACATTGCAAATTTACCTATTACATTATAATTATCAGTTTCGATTTTTTTTGGATCG
1 TACCAGAT-ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTC-A-ATGTTTTGGATCG
* * * *
1939648 ATACAATTT--TAAATGTATCGACACTTTATGTATGCACCTCGTTGGGCATTCATTCTAGA-AAA
63 ATAC-TTTTAATAAATGTATCGACACTTTATGCATGCACCCCGTTGGGCATTCATTATAGACAAA
* * *
1939710 AAGTATCGACACAAACTTAAAAAGTGTCGATACATTAT-TTAGACCTATTTTCTCATAAAACCGG
127 AAGTATCGACACAAACTTAAAAAGTGTCAATACATTATGCT-GACCTATTTTCTCATAAAACCGA
1939774 TATATTT
191 TATA-TT
* * * * *
1939781 CTATCGGGTACATTGTAAATTTACCTATCACATTGTAATTATCGGTTTCAATGTTTGTGGATCGA
1 -TACCAGATACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTT-TGGATCGA
* * * *
1939846 TACTTTTAATAAATGTATTGACACTTTATGCGTGCACCCCGTTTGGCATTCATTATGGACAAAAA
64 TACTTTTAATAAATGTATCGACACTTTATGCATGCACCCCGTTGGGCATTCATTATAGACAAAAA
* ** * * *
1939911 GTATCGACACAAATTTAAATGGTGTTAATACTTTATGCTGACCTATTTTCTTATAAAACCGATAT
129 GTATCGACACAAACTTAAAAAGTGTCAATACATTATGCTGACCTATTTTCTCATAAAACCGATAT
1939976 ATT
194 ATT
* *
1939979 TACCAGATACATTCTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTATTGGGATCGA
1 TACCAGATACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTT-TT-GGATCGA
1940044 TACTTTTAATAAATGTATCGACACTTTAT
64 TACTTTTAATAAATGTATCGACACTTTAT
1940073 ATTCTGGACA
Statistics
Matches: 249, Mismatches: 34, Indels: 16
0.83 0.11 0.05
Matches are distributed among these distances:
196 7 0.03
197 60 0.24
198 120 0.48
199 61 0.24
200 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (196 bp):
TACCAGATACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTGGATCGATA
CTTTTAATAAATGTATCGACACTTTATGCATGCACCCCGTTGGGCATTCATTATAGACAAAAAGT
ATCGACACAAACTTAAAAAGTGTCAATACATTATGCTGACCTATTTTCTCATAAAACCGATATAT
T
Found at i:1940196 original size:177 final size:176
Alignment explanation
Indices: 1939901--1940244 Score: 440
Period size: 177 Copynumber: 1.9 Consensus size: 176
1939891 GCATTCATTA
* ** * * *
1939901 TGGACAAAAAGTATCGACACAAATTTAAATGGTGTTAATACTTTATGCTGACCTATTTTCTTATA
1 TGGACAAAAAGTATCGACACAAATTAAAAAAGTGTCAATACATTATGCTGACCTATTTTCTAATA
*
1939966 AAACCGATATATTTACCAGATACATTCTAAATTTACCTATTACATTATAATTATCGGTTTCGATG
66 AAACCGATATATTTACCAGATACATTCTAAATTTACCTATTACATTATAATTATCGGTTTCGATA
1940031 TTATTGGGATCGATACTTTTA-ATAAATGTATCGACACTTTATATTC
131 TTATTGGGATCGATACTTTTAGA-AAATGTATCGACACTTTATATTC
* * * * *
1940077 TGGACAATAAGTATCGACACAAATTAAAAAAGTGTCGATACATTATGTTGACTTGTTTTCTAAT-
1 TGGACAAAAAGTATCGACACAAATTAAAAAAGTGTCAATACATTATGCTGACCTATTTTCTAATA
* * * * * * * *
1940141 TAACCGGTATATTTATACCGGTTACATTGTTAATTTACTTATTACATTATAATTATTGGTTTCGA
66 AAACCGATATA-TT-TACCAGATACATTCTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * *
1940206 TATTTTTGGGGTCGATACTTTTAGAAAATGTATGGACAC
129 TATTATTGGGATCGATACTTTTAGAAAATGTATCGACAC
1940245 CTATTTAGCT
Statistics
Matches: 142, Mismatches: 23, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
175 9 0.06
176 55 0.39
177 77 0.54
178 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (176 bp):
TGGACAAAAAGTATCGACACAAATTAAAAAAGTGTCAATACATTATGCTGACCTATTTTCTAATA
AAACCGATATATTTACCAGATACATTCTAAATTTACCTATTACATTATAATTATCGGTTTCGATA
TTATTGGGATCGATACTTTTAGAAAATGTATCGACACTTTATATTC
Found at i:1942755 original size:19 final size:19
Alignment explanation
Indices: 1942710--1942758 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1942700 TTACATTCAC
1942710 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCTT
**
1942729 ATGTAAAATTATAAATCTT
1 ATACAAAATTATAAATCTT
1942748 ATACAAAATTA
1 ATACAAAATTA
1942759 ACCATGCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (19 bp):
ATACAAAATTATAAATCTT
Found at i:1944723 original size:199 final size:199
Alignment explanation
Indices: 1944366--1945167 Score: 965
Period size: 199 Copynumber: 4.0 Consensus size: 199
1944356 TTAAAAAGTG
* * * * * *
1944366 TCGACAAAAATTTAAAAGTGTCGATACATTAAGTTGACCTATTCTCTCATAAAATCGGTATATTT
1 TCGACACAAATCTAAAAGTGTCGATACATTATGTTCACCTATTCTCTCATAAAACCGGTAAATTT
*
1944431 ATACCAGTTACATTGTAAATTTACCTATTACGTTATAATTATCGGTTTCGATGTTTTT-GTGATC
66 ATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGT-ATC
*
1944495 GATACAATTT-CAAATGTATCGACACTTTTTGCCTGCACCCCGTTTGGCATTCATTCTGGACAAA
130 GATACAATTTACAAATGTATCGACACTTTATGCCTGCACCCCGTTTGGCATTCATTCTGGACAAA
*
1944559 ATATA
195 ATGTA
* * *
1944564 TCAACACAAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCAGTAAATT
1 TCGACACAAATCTAAAA-GTGTCGATACATTATGTTCACCTATTCTCTCATAAAACCGGTAAATT
* *
1944629 TATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTTGATGTTTTTGGTATC
65 TATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGTATC
* * * ** *
1944694 GATACAATTT-CAAATGTATCGACACTTTTTTCCTGAACAACGTTTGTCATTCATTCTGGACAAA
130 GATACAATTTACAAATGTATCGACACTTTATGCCTGCACCCCGTTTGGCATTCATTCTGGACAAA
1944758 ATGTA
195 ATGTA
* * * *
1944763 TCGACACAAATCTAAAACGTGTTGATACATTATGTTCACCTATTTTCTTATAAAACTGGTAAATT
1 TCGACACAAATCTAAAA-GTGTCGATACATTATGTTCACCTATTCTCTCATAAAACCGGTAAATT
* * * * *
1944828 TATACTAGTTGCATTGT-AATTTACCTATTATATTATAATTATCAGTTTCGATGTTTTTGGGATC
65 TATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGTATC
* ** * * * * *
1944892 GATGCTTTTTAAAAATGTATCGACACTTTATGCGTGCAACCC-TTCT-GCATTCATTTTAGACAA
130 GATACAATTTACAAATGTATCGACACTTTATGCCTGCACCCCGTT-TGGCATTCATTCTGGACAA
1944955 AA-GTA
194 AATGTA
* * * ** * *
1944960 TCGACACAAATTCCACAAGTGTCAATACATTATGTAGACCTATTCTCTCATAAAACCGGTATAGT
1 TCGACACAAA-TCTAAAAGTGTCGATACATTATGTTCACCTATTCTCTCATAAAACCGGTAAATT
* * * *
1945025 TATACCGGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTCTAGG-AT
65 TATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT-TTGGTAT
** * * * ** *
1945089 CGATACTTTTTATAAATGTATCGACACTTTATGCGTTCA-CCATTTTGGGCATTCATTCTGGATA
129 CGATACAATTTACAAATGTATCGACACTTTATGCCTGCACCCCGTTT-GGCATTCATTCTGGACA
*
1945153 AAAAGTA
193 AAATGTA
1945160 TCGACACA
1 TCGACACA
1945168 TTATGTAAAC
Statistics
Matches: 523, Mismatches: 70, Indels: 20
0.85 0.11 0.03
Matches are distributed among these distances:
197 67 0.13
198 163 0.31
199 280 0.54
200 13 0.02
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (199 bp):
TCGACACAAATCTAAAAGTGTCGATACATTATGTTCACCTATTCTCTCATAAAACCGGTAAATTT
ATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGTATCG
ATACAATTTACAAATGTATCGACACTTTATGCCTGCACCCCGTTTGGCATTCATTCTGGACAAAA
TGTA
Found at i:1945049 original size:198 final size:197
Alignment explanation
Indices: 1944359--1945499 Score: 935
Period size: 199 Copynumber: 5.9 Consensus size: 197
1944349 GTGTTATTTA
* * * * * * *
1944359 AAAAGTGTCGACAAAAATT-TAAAAGTGTCGATACATTAAGTTGACCTATTCTCTCATAAAATCG
1 AAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCG
* *
1944423 GTATATTTATACCAGTTACATTGTAAATTTACCTATTACGTTATAATTATCGGTTTCGATGTTTT
66 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* ** * * *
1944488 TGTGATCGATACAATTT-CAAATGTATCGACACTTTTTGCCTGCACCCCGTTTGGCATTCATTCT
131 TGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCA-CCC-TTTGGCATTCATTCT
1944552 GGAC
194 GGAC
* * *
1944556 AAAATATATCAACACAAA-TCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAAC
1 AAAA-GTATCGACACAAATTCCAAAA-GTGTCGATACATTATGTTCACCTATTTTCTCATAAAAC
* * *
1944620 CAGTAAATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTTGATGTT
64 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* ** * * * * * * *
1944685 TTTGGTATCGATACAATTT-CAAATGTATCGACACTTTTTTCCTGAACAACGTTTGTCATTCATT
129 TTTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTG--CACCCTTTGGCATTCATT
1944749 CTGGAC
192 CTGGAC
* * *
1944755 AAAATGTATCGACACAAA-TCTAAAACGTGTTGATACATTATGTTCACCTATTTTCTTATAAAAC
1 AAAA-GTATCGACACAAATTCCAAAA-GTGTCGATACATTATGTTCACCTATTTTCTCATAAAAC
* * ** * * *
1944819 TGGTAAATTTATACTAGTTGCATTGT-AATTTACCTATTATATTATAATTATCAGTTTCGATGTT
64 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
*
1944883 TTTGGGATCGATGCTTTTTAAAAATGTATCGACACTTTATGCGTGCAACCCTTCT-GCATTCATT
129 TTTGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGC-ACCCTT-TGGCATTCATT
* *
1944947 TTAGAC
192 CTGGAC
* * ** *
1944953 AAAAGTATCGACACAAATTCCACAAGTGTCAATACATTATGTAGACCTATTCTCTCATAAAACCG
1 AAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCG
* * * *
1945018 GTATAGTTATACCGGTTACATTATAAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTC
66 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * *
1945083 TAGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCATTTTGGGCATTCATTCT
131 TGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACC-CTTT-GGCATTCATTCT
*
1945148 GGATA
194 GGA-C
* * * *** ** *
1945153 AAAAGTATCGACAC--ATT-----A-TGT--AAAC-CTAT-TCTCACATAAAATC-GGT-ATA--
1 AAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGT-TCACCTATTTTCTCATAAAACC
** * ** * ** * ** *
1945202 TTTATATTGATTA--TATTACAAAAT-TACCTATTA-C-ATTATAATTATGGCTT-TC-G-AT-G
65 GGTATATTTA-TACCGGTTAC--ATTGTAAAT-TTACCTATTA-CATTAT-AATTATCGGTTTCG
* *
1945258 -T-TTTTGGGATCGAT--ACT--TTTT-AAAAATGTATCGACACTGTATGCGTGCACCACGTTTG
124 ATGTTTTTGG---GATCGA-TACTTTTTAAAAATGTATCGACACTTTATGCGTGCACC-C-TTTG
*
1945316 GCATTCATTTTGGAC
183 GCATTCATTCTGGAC
* * * *
1945331 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTAT-ATCTATTTTCTCAAAAAAT
1 -AAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGT-TCACCTATTTTCTCATAAAAC
* *
1945395 CGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTTTCGGTTT-GATGTT
64 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
1945459 TTTGGGATCGATAC-TTTTAAAACATGTATCGACACTTTATG
129 TTTGGGATCGATACTTTTTAAAA-ATGTATCGACACTTTATG
1945500 GGAAACTTTA
Statistics
Matches: 754, Mismatches: 131, Indels: 116
0.75 0.13 0.12
Matches are distributed among these distances:
179 56 0.07
180 11 0.01
181 5 0.01
182 2 0.00
183 4 0.01
184 9 0.01
185 16 0.02
186 10 0.01
187 5 0.01
188 2 0.00
189 12 0.02
190 11 0.01
191 2 0.00
192 5 0.01
193 10 0.01
194 18 0.02
195 12 0.02
196 3 0.00
197 79 0.10
198 180 0.24
199 285 0.38
200 15 0.02
201 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (197 bp):
AAAAGTATCGACACAAATTCCAAAAGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCG
GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
TGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCCTTTGGCATTCATTCTGG
AC
Found at i:1945287 original size:179 final size:179
Alignment explanation
Indices: 1944986--1945346 Score: 535
Period size: 179 Copynumber: 2.0 Consensus size: 179
1944976 AAGTGTCAAT
* * * * *
1944986 ACATTATGTAGACCTATTCTCTCATAAAACCGGTATAGTTATACCGGTTACATTATAAATTTACC
1 ACATTATGTAAACCTATTCTCACATAAAACCGGTATAGTTATACCGATTACATTACAAAATTACC
* *
1945051 TATTACATTATAATTATGGGTTTCGATGTTTCTAGGATCGATACTTTTTATAAATGTATCGACAC
66 TATTACATTATAATTATGGCTTTCGATGTTTCTAGGATCGATACTTTTTAAAAATGTATCGACAC
* * * *
1945116 TTTATGCGTTCACCA-TTTTGGGCATTCATTCTGGATAAAAAGTATCGAC
131 TGTATGCGTGCACCACGTTT-GGCATTCATTCTGGACAAAAAGTATCGAC
* * ** *
1945165 ACATTATGTAAACCTATTCTCACATAAAATCGGTATATTTATATTGATTATATTACAAAATTACC
1 ACATTATGTAAACCTATTCTCACATAAAACCGGTATAGTTATACCGATTACATTACAAAATTACC
* *
1945230 TATTACATTATAATTATGGCTTTCGATGTTTTTGGGATCGATACTTTTTAAAAATGTATCGACAC
66 TATTACATTATAATTATGGCTTTCGATGTTTCTAGGATCGATACTTTTTAAAAATGTATCGACAC
*
1945295 TGTATGCGTGCACCACGTTTGGCATTCATTTTGGACAAAAAGTATCGAC
131 TGTATGCGTGCACCACGTTTGGCATTCATTCTGGACAAAAAGTATCGAC
1945344 ACA
1 ACA
1945347 AATTCCACAA
Statistics
Matches: 162, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
179 159 0.98
180 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (179 bp):
ACATTATGTAAACCTATTCTCACATAAAACCGGTATAGTTATACCGATTACATTACAAAATTACC
TATTACATTATAATTATGGCTTTCGATGTTTCTAGGATCGATACTTTTTAAAAATGTATCGACAC
TGTATGCGTGCACCACGTTTGGCATTCATTCTGGACAAAAAGTATCGAC
Found at i:1945867 original size:24 final size:24
Alignment explanation
Indices: 1945812--1945857 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1945802 CGAAATTTAT
*
1945812 ATTGAAACTCAAACTCAAATTAAA
1 ATTGAAATTCAAACTCAAATTAAA
* *
1945836 ATTTAAATTCAAACTCCAATTA
1 ATTGAAATTCAAACTCAAATTA
1945858 CATATGAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.30
Consensus pattern (24 bp):
ATTGAAATTCAAACTCAAATTAAA
Found at i:1947117 original size:3 final size:3
Alignment explanation
Indices: 1947102--1947142 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
1947092 ACTTATTTAG
* * *
1947102 ATC ATC ATA ATC ATC ATC ATC ATC TTC ATC ATC ATC TTC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1947143 TGACCTCTTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (3 bp):
ATC
Found at i:1947134 original size:12 final size:12
Alignment explanation
Indices: 1947103--1947142 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
1947093 CTTATTTAGA
* *
1947103 TCATCATAATCA
1 TCATCATCATCT
1947115 TCATCATCATCT
1 TCATCATCATCT
1947127 TCATCATCATCT
1 TCATCATCATCT
1947139 TCAT
1 TCAT
1947143 TGACCTCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (12 bp):
TCATCATCATCT
Found at i:1948969 original size:198 final size:199
Alignment explanation
Indices: 1948621--1949771 Score: 1371
Period size: 198 Copynumber: 5.8 Consensus size: 199
1948611 TTTTAAAATG
* * * * * * * * *
1948621 GTATTGACACAAATT-TAATAATTGTTGATACTTTATGTTGACCTATTTTCTCATAAAACGTTAT
1 GTATCGACACAAATTCCAA-AAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACGGTAT
* ** * *
1948685 ATTTATATCGGTTACATTGGAAATTTACCTATTACATTATAATTACT-GGTTTCGATGTTTTTGG
65 ATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTA-TGGGTTTCGATGTTTCTGG
* * *
1948749 GATCGACACTTTTTAAAAATGTATCGACACTTAATGGGTGCACCCTTTT-GGCATTCATTCTGGA
129 GATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGA
1948813 CAAAAA
194 CAAAAA
* * * * * *
1948819 GTATCGAAACAAATTCCAGATGTGTCGATACATTTTCTAGACCTATTCTCGCATAAAACAGGTAT
1 GTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAAC-GGTAT
* * * *
1948884 A-ATATACCTGTTACATTGA-AAAATTACCTATTACATTATAATCATGGGTTTTGATGTTTCTGG
65 ATTTATACCGGTTACATT-ACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGG
* * *
1948947 GATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCATTTTTTGGGCATTTATTCTG
129 GATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCA--TTTTGGGCATTCATTCTG
1949012 GA-AAAATA
192 GACAAAA-A
*
1949020 -TATCGACACATAATT-AAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTA
1 GTATCGACACA-AATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAA-CGGTA
* * *
1949083 TATTTATATCGGTTACATTACAAAATTACCTATTACATTATAATTATGGG-TTCGATGTCTAT-G
64 TATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGG
* * *
1949146 GATCGACACTTTTTAAAAATGTATTGACACTTTATGCTTTCACCATTTTGGGCATTCATT-TGGA
129 GATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGA
1949210 CAAAAA
194 CAAAAA
* * * *
1949216 GTATCGACACCAATTTC-AAATTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGATAT
1 GTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAA-CGGTAT
* * * * *
1949280 ATTTATACCGATTACATTACAAAATTGCCTATTACAATATAATTATGGGTTTCGATGTCTCTAGG
65 ATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
** ** * * *
1949345 ATCGACACTTTAAAAAAATGTATCGACACTTTATTTGTACACCCTTTTGGGCATTCCTTCTGGAC
130 ATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGAC
*
1949410 AAACA
195 AAAAA
* *
1949415 GTATCGACACAAATTCCATAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAATCGGTAT
1 GTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAA-CGGTAT
* * * *
1949480 AGTTT-TATCGGTTACGTTGA-AAAATTACCTATTATATTATAATTATGGGTTTTGATGTTTCTG
65 A-TTTATACCGGTTACATT-ACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
* * * * *
1949543 GGATCGATACTTGTT-ATAATGTATCGACACTTTATGTGTTCACCATTTTGGG-ATTCATTCTGG
128 GGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGG
*
1949606 AAAAAAA
193 ACAAAAA
* * * * *
1949613 GTATCGACACCAATTTCAAAAGTGTCGATACATTATATAGACATATTCTCACATAAAACTGATAT
1 GTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAAC-GGTAT
* * * *
1949678 ATTTATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGGTTTCGATGTTTTTGGG
65 ATTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
* *
1949743 ATCGATACTTTTTATAAATGTATCGACAC
130 ATCGACACTTTTTAAAAATGTATCGACAC
1949772 ATCTGCTTAC
Statistics
Matches: 816, Mismatches: 112, Indels: 49
0.84 0.11 0.05
Matches are distributed among these distances:
196 99 0.12
197 44 0.05
198 321 0.39
199 117 0.14
200 170 0.21
201 65 0.08
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (199 bp):
GTATCGACACAAATTCCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACGGTATA
TTTATACCGGTTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGGA
TCGACACTTTTTAAAAATGTATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGGACA
AAAA
Found at i:1949747 original size:398 final size:398
Alignment explanation
Indices: 1948621--1949771 Score: 1511
Period size: 397 Copynumber: 2.9 Consensus size: 398
1948611 TTTTAAAATG
* * * * * * *
1948621 GTATTGACACAAATTTAATAATTGTTGATACTTTATGTTGACCTATTTTCTCATAAAACGTTATA
1 GTATCGACACAAA-TTAATAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACGGTATA
* * *
1948686 TTTATATCGGTTACATTGGAAATTTACCTATTACATTATAATTACT-GGTTTCGATGTTTTTGGG
65 TTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTA-TGGGTTTCGATGTTTATGGG
* * * * *
1948750 ATCGACACTTTTTAAAAATGTATCGACACTTAATGGGTGCACCCTTTTGGCATTCATTCTGGACA
129 ATCGACACTTTTTAAAAATGTATCGACACTTTATGTGTTCACCATTTTGGGATTCATTCTGGACA
* * * * * * * *
1948815 AAAAGTATCGAAACAAATTCCAGATGTGTCGATACATTTTCTAGACCTATTCTCGCATAAAACAG
194 AAAAGTATCGACACCAATTTCAAAAGTGTCGATACATTATATAGACCTATTCTCACATAAAACAG
* * * *
1948880 GTATA-ATATACCTG-TTACATTGA-AAAATTACCTATTACATTATAATCATGGGTTTTGATGTT
259 ATATATTTATACC-GATTACATT-ACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
* * *
1948942 TCTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCATTTTTTGGGCATTTA
322 TCTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTACACCA-CTTTTGGGCATTCA
*
1949007 TTCTGGAAAAATA
386 TTCTGGAAAAACA
* *
1949020 -TATCGACACATAATTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTAT
1 GTATCGACACA-AATTAATAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAA-CGGTAT
*
1949084 ATTTATATCGGTTACATT-ACAAAATTACCTATTACATTATAATTATGGG-TTCGATGTCTAT-G
64 ATTTATATCGGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTATGG
*
1949146 GATCGACACTTTTTAAAAATGTATTGACACTTTATGCT-TTCACCATTTTGGGCATTCATT-TGG
128 GATCGACACTTTTTAAAAATGTATCGACACTTTATG-TGTTCACCATTTTGGG-ATTCATTCTGG
* *
1949209 ACAAAAAGTATCGACACCAATTTC-AAATTGTCGATACATTATGTAGACCTATTCTCACATAAAA
191 ACAAAAAGTATCGACACCAATTTCAAAAGTGTCGATACATTATATAGACCTATTCTCACATAAAA
* * *
1949273 CCGATATATTTATACCGATTACATTACAAAATTGCCTATTACAATATAATTATGGGTTTCGATGT
256 CAGATATATTTATACCGATTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGT
* * * ** * ** *
1949338 CTCTAGGATCGACACTTTAAAAAAATGTATCGACACTTTATTTGTACACC-CTTTTGGGCATTCC
321 TTCTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTACACCACTTTTGGGCATTCA
*
1949402 TTCTGGACAAACA
386 TTCTGGAAAAACA
*
1949415 GTATCGACACAAATTCCATAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAATCGGTAT
1 GTATCGACACAAATT-AATAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAA-CGGTAT
* * * *
1949480 AGTTT-TATCGGTTACGTTGAAAAATTACCTATTATATTATAATTATGGGTTTTGATGTTTCTGG
64 A-TTTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTATGG
* * * *
1949544 GATCGATACTTGTT-ATAATGTATCGACACTTTATGTGTTCACCATTTTGGGATTCATTCTGGAA
128 GATCGACACTTTTTAAAAATGTATCGACACTTTATGTGTTCACCATTTTGGGATTCATTCTGGAC
* *
1949608 AAAAAGTATCGACACCAATTTCAAAAGTGTCGATACATTATATAGACATATTCTCACATAAAACT
193 AAAAAGTATCGACACCAATTTCAAAAGTGTCGATACATTATATAGACCTATTCTCACATAAAACA
* *
1949673 GATATATTTATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGGTTTCGATGTTT
258 GATATATTTATACCGATTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
*
1949738 TTGGGATCGATACTTTTTATAAATGTATCGACAC
323 CTGGGATCGATACTTTTTATAAATGTATCGACAC
1949772 ATCTGCTTAC
Statistics
Matches: 656, Mismatches: 78, Indels: 37
0.85 0.10 0.05
Matches are distributed among these distances:
395 26 0.04
396 146 0.22
397 230 0.35
398 203 0.31
399 51 0.08
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (398 bp):
GTATCGACACAAATTAATAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACGGTATAT
TTATATCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTATGGGAT
CGACACTTTTTAAAAATGTATCGACACTTTATGTGTTCACCATTTTGGGATTCATTCTGGACAAA
AAGTATCGACACCAATTTCAAAAGTGTCGATACATTATATAGACCTATTCTCACATAAAACAGAT
ATATTTATACCGATTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTG
GGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTACACCACTTTTGGGCATTCATTCTG
GAAAAACA
Found at i:1949811 original size:15 final size:15
Alignment explanation
Indices: 1949787--1949825 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1949777 CTTACCTATT
*
1949787 TTTGGAAACTTTACG
1 TTTGGGAACTTTACG
*
1949802 TTTGGGAACTTTACT
1 TTTGGGAACTTTACG
1949817 TTTGGGAAC
1 TTTGGGAAC
1949826 CATACTGGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.41
Consensus pattern (15 bp):
TTTGGGAACTTTACG
Found at i:1950161 original size:19 final size:19
Alignment explanation
Indices: 1950139--1950187 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1950129 CATAAGACAC
1950139 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
1950158 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1950177 ATACAAAATTA
1 ATACAAAATTA
1950188 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1952204 original size:20 final size:20
Alignment explanation
Indices: 1952176--1952230 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
1952166 AAATTTTGAA
1952176 GGTGCATCGATGCATTAAGG
1 GGTGCATCGATGCATTAAGG
*
1952196 GGTGTATCGATGCATTAAGG
1 GGTGCATCGATGCATTAAGG
1952216 GGTGCATCGATGCAT
1 GGTGCATCGATGCAT
1952231 GGATATTTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.27
Consensus pattern (20 bp):
GGTGCATCGATGCATTAAGG
Found at i:1957929 original size:19 final size:19
Alignment explanation
Indices: 1957905--1957941 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1957895 TGTTCATTAA
1957905 TGTTCATACCGTATAGTAT
1 TGTTCATACCGTATAGTAT
1957924 TGTTCATACCGTATAGTA
1 TGTTCATACCGTATAGTA
1957942 CTATTCATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (19 bp):
TGTTCATACCGTATAGTAT
Found at i:1957948 original size:19 final size:19
Alignment explanation
Indices: 1957907--1957950 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
1957897 TTCATTAATG
* *
1957907 TTCATACCGTATAGTATTG
1 TTCATACCGTATAGTACTA
1957926 TTCATACCGTATAGTACTA
1 TTCATACCGTATAGTACTA
1957945 TTCATA
1 TTCATA
1957951 GATACATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (19 bp):
TTCATACCGTATAGTACTA
Found at i:1958474 original size:18 final size:18
Alignment explanation
Indices: 1958451--1958507 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
1958441 TCCTCTTCAT
*
1958451 TTCCTCCATCTTTTCTTC
1 TTCCTCCTTCTTTTCTTC
1958469 TTCCTCCTTCTTTTCTTC
1 TTCCTCCTTCTTTTCTTC
*
1958487 TTCATCCTTCTTTTCTTC
1 TTCCTCCTTCTTTTCTTC
1958505 TTC
1 TTC
1958508 ATATTTTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.04, C:0.37, G:0.00, T:0.60
Consensus pattern (18 bp):
TTCCTCCTTCTTTTCTTC
Found at i:1958811 original size:21 final size:21
Alignment explanation
Indices: 1958759--1958802 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
1958749 CCCCTTATGC
*
1958759 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTCTCTCTTCGACT
1958780 CTCTCAAGTCTCTCTTCGACT
1 CTCTCAAGTCTCTCTTCGACT
1958801 CT
1 CT
1958803 TGATTGTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.36, G:0.11, T:0.39
Consensus pattern (21 bp):
CTCTCAAGTCTCTCTTCGACT
Found at i:1961698 original size:181 final size:181
Alignment explanation
Indices: 1961205--1961731 Score: 727
Period size: 182 Copynumber: 2.9 Consensus size: 181
1961195 TTATTACGTG
* * * * *
1961205 TACTTAT-TAAAGTATCGACACTTTAAATATATCTGGTAGCGCTTTACCGATTTTGTCATTTCGA
1 TACTTATATAAAGTATCGACACTTTAAATATATCCGGTAGCTCTATACCGATTTTGTCCTTTAGA
*
1961269 GACCGATTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCG
66 GACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCG
* * * * *
1961334 AAACTTTATAGGCT-TTAAAACTACTTCTCTTTTAAATTCAAAAAGTGTCGA
131 ACACTTTAT-GGGTGCTAAAACTGCTTCTCTTTTAAATTCAAAAAGTGACGA
* * * * *
1961385 TACTTATATTAAAGTATCGACACTTTAAATATATTCGGTCGTTCTATATCGGTTTTGTCCTTTAG
1 TACTTATA-TAAAGTATCGACACTTTAAATATATCCGGTAGCTCTATACCGATTTTGTCCTTTAG
*
1961450 AGACCGGGTTTTGTCATATTTTTACCTGTTATATCGTTTTGGATC-ATACATTGTTATAAAGTAT
65 AGACC-GGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTAT
*
1961514 CGACACTTTATGGGTGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGACGA
129 CGACACTTTATGGGTGCTAAAACTGCTTCTCTTTTAAATTCAAAAAGTGACGA
* * * *
1961567 TACTTATATAAAGTATCAACACTTTCAATATATCCGGTTGCTCTATACCGATTTTATCCTTTAGA
1 TACTTATATAAAGTATCGACACTTTAAATATATCCGGTAGCTCTATACCGATTTTGTCCTTTAGA
* * * * *
1961632 GACCGGTTTTGTCATATTTTTATCTGTTATATTGTTGTAGATCGATACATTATTATAAATTATCG
66 GACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCG
* * * *
1961697 ACACTTTATAGGCGCTAAAACTGCCTCTCTCTTAA
131 ACACTTTATGGGTGCTAAAACTGCTTCTCTTTTAA
1961732 TTATCCAAAA
Statistics
Matches: 306, Mismatches: 36, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
180 42 0.14
181 106 0.35
182 121 0.40
183 37 0.12
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (181 bp):
TACTTATATAAAGTATCGACACTTTAAATATATCCGGTAGCTCTATACCGATTTTGTCCTTTAGA
GACCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCG
ACACTTTATGGGTGCTAAAACTGCTTCTCTTTTAAATTCAAAAAGTGACGA
Found at i:1961901 original size:211 final size:210
Alignment explanation
Indices: 1961532--1961910 Score: 557
Period size: 211 Copynumber: 1.8 Consensus size: 210
1961522 TATGGGTGCT
*
1961532 AAAACTGCTTCTCTTTTAAATTCACAAAGTGACGATACTTATATAAAGTATCAACACTTTCAATA
1 AAAACTGCTTCTCTTTTAAATTCACAAAGTGACGATACTTATATAAAGTATCAACACTTGCAATA
* * * *
1961597 TATCCGGTTGCTCTATACCGATTTTATCCTTTAGAGACCGGTTTTGTCATATTTTTATCTGTTAT
66 TATCCGGTTGCTCTATACAGATTTTATCCTTTAGAGACCGATTTTGTCATATTTGTACCTGTTAT
* *
1961662 ATTGTTGTAGATCGATACATTATTATAAATTATCGACACTTTATAGGCGCTAAAACTGCCTCTCT
131 ATTGATGTAGATCGATACATTATTATAAAGTATCGACACTTTATAGGCGCTAAAACTGCCTCTCT
1961727 CTTAATTATCCAAAA
196 CTTAATTATCCAAAA
* * *
1961742 AAAACTGCTTCTCTTTTAAATTCACAAATTGTCGATACTTATATTAAAGTATCGACACTTGCAAT
1 AAAACTGCTTCTCTTTTAAATTCACAAAGTGACGATACTTATA-TAAAGTATCAACACTTGCAAT
* * * *
1961807 ATATCTGGTATCGCT-T-TACTAG-TTTTGTCTTTTCGAGACCGATTTTGTCATATTTGTACCTG
65 ATATCCGGT-T-GCTCTATAC-AGATTTTATCCTTTAGAGACCGATTTTGTCATATTTGTACCTG
* *
1961869 TTATATTGATGTGGATCGATACATTTTTATAAAGTATCGACA
127 TTATATTGATGTAGATCGATACATTATTATAAAGTATCGACA
1961911 TAAACCACCA
Statistics
Matches: 149, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
210 41 0.28
211 102 0.68
212 3 0.02
213 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (210 bp):
AAAACTGCTTCTCTTTTAAATTCACAAAGTGACGATACTTATATAAAGTATCAACACTTGCAATA
TATCCGGTTGCTCTATACAGATTTTATCCTTTAGAGACCGATTTTGTCATATTTGTACCTGTTAT
ATTGATGTAGATCGATACATTATTATAAAGTATCGACACTTTATAGGCGCTAAAACTGCCTCTCT
CTTAATTATCCAAAA
Found at i:1964791 original size:20 final size:19
Alignment explanation
Indices: 1964754--1964794 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
1964744 AAAACAAGTA
1964754 AATGCAAAAGATAATTTTT
1 AATGCAAAAGATAATTTTT
* *
1964773 AATGCAAAAGGTAAATTTT
1 AATGCAAAAGATAATTTTT
1964792 AAT
1 AAT
1964795 CTACCATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (19 bp):
AATGCAAAAGATAATTTTT
Found at i:1978446 original size:7 final size:7
Alignment explanation
Indices: 1978434--1978458 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1978424 AGAAGTTGTA
1978434 TTTTGAG
1 TTTTGAG
1978441 TTTTGAG
1 TTTTGAG
1978448 TTTTGAG
1 TTTTGAG
1978455 TTTT
1 TTTT
1978459 TTTTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.64
Consensus pattern (7 bp):
TTTTGAG
Found at i:1982317 original size:23 final size:23
Alignment explanation
Indices: 1982291--1982368 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
1982281 CACCACAGCT
1982291 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
1982314 CATATAATTGCACCGGAA-TGCCA
1 CATATAATTGCACC-GAAGTGCCA
* * * *
1982337 CGTAGAATTGTACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
1982360 TATAATAAT
1 CAT-ATAAT
1982369 GTCCATAAGG
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
22 2 0.04
23 36 0.80
24 7 0.16
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:1982546 original size:103 final size:103
Alignment explanation
Indices: 1982375--1982695 Score: 570
Period size: 103 Copynumber: 3.1 Consensus size: 103
1982365 TAATGTCCAT
* * * *
1982375 AAGGACCACATATCATCCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1982440 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* * *
1982478 AATGACCATATATTATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
1982543 GACTTCACACATGTTTCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1982581 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1982646 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1982684 AAGGACCACATA
1 AAGGACCACATA
1982696 GACCCTCGAC
Statistics
Matches: 206, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 206 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1983571 original size:19 final size:19
Alignment explanation
Indices: 1983547--1983594 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
1983537 AAAAGAGTGA
* * *
1983547 ATCGATGCACTATCTGTTC
1 ATCGATACACTACCTGTGC
1983566 ATCGATACACTACCTGTGC
1 ATCGATACACTACCTGTGC
1983585 ATCGATACAC
1 ATCGATACAC
1983595 CTTCAAACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (19 bp):
ATCGATACACTACCTGTGC
Found at i:1987845 original size:23 final size:23
Alignment explanation
Indices: 1987819--1987896 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
1987809 CACCACAGCT
1987819 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
1987842 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* *
1987865 CATAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
1987888 TATAATAAT
1 CAT-ATAAT
1987897 GTCCATAAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 43 0.91
24 4 0.09
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:1988125 original size:103 final size:102
Alignment explanation
Indices: 1987903--1988222 Score: 577
Period size: 103 Copynumber: 3.1 Consensus size: 102
1987893 TAATGTCCAT
* * *
1987903 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACAG
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACAG
*
1987968 ACTTCACACATGTTCCGAAGAATACATATATGTCCCG
66 ACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1988005 AATGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACTA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCAC-A
1988070 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
65 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1988108 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCA-CA
1988173 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
65 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1988211 AAGGACCACATA
1 AAGGACCACATA
1988223 GACCCTCGAC
Statistics
Matches: 210, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
102 59 0.28
103 150 0.71
104 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (102 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACAG
ACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1990899 original size:65 final size:65
Alignment explanation
Indices: 1990766--1990925 Score: 193
Period size: 65 Copynumber: 2.5 Consensus size: 65
1990756 TGCACTAAGA
* * *
1990766 GTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGTTG
1 GTGCATCGATACATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGTTG
* * * *
1990830 GTGCATCGATACATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATTGATTCATGGTA
1 GTGCATCGATACATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGGT-
1990894 T-
64 TG
*
1990895 GTGCATCGATGA-ATGAAATGCATTCGATGTT
1 GTGCATCGAT-ACATCAAATGCATTCGATGTT
1990926 CAATTTAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 27 0.32
65 52 0.62
66 5 0.06
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (65 bp):
GTGCATCGATACATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGTTG
Found at i:1990964 original size:65 final size:63
Alignment explanation
Indices: 1990766--1990967 Score: 191
Period size: 65 Copynumber: 3.1 Consensus size: 63
1990756 TGCACTAAGA
* * *
1990766 GTGCATCGATGCATCAAGTGCATTCGATGTTTCA-AAATAGC-CAGAGTGCATCGATGCATGGTT
1 GTGCATCGATACATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGTT
1990829 G
63 G
* *
1990830 GTGCATCGATACATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATTGATTCATGGTAT
1 GTGCATCGATACATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGT-T
1990895 -
63 G
* **
1990895 GTGCATCGATGA-ATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGA
1 GTGCATCGAT-ACATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGG-
1990957 TTG
61 TTG
1990960 GTGCATCG
1 GTGCATCG
1990968 GTGCATCACT
Statistics
Matches: 117, Mismatches: 10, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
62 3 0.03
63 3 0.03
64 47 0.40
65 57 0.49
66 6 0.05
67 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (63 bp):
GTGCATCGATACATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTTG
Found at i:1993583 original size:23 final size:22
Alignment explanation
Indices: 1993547--1993626 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
1993537 GCATGACCCT
1993547 GTGCATCAGA-GCACATTCAAGG
1 GTGCATC-GATGCACATTCAAGG
* * *
1993569 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
* *
1993591 GTGTATCGATGCACATTTAAGG
1 GTGCATCGATGCACATTCAAGG
*
1993613 ATGCATCGATGCAC
1 GTGCATCGATGCAC
1993627 TGTTAGGTGT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
21 14 0.31
22 17 0.38
23 14 0.31
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:1993603 original size:21 final size:20
Alignment explanation
Indices: 1993574--1993645 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
1993564 CAAGGCGTGC
* *
1993574 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACCTTTA-GGTGT
* *
1993595 ATCGATGCACATTTAAGGATGC
1 ATCGATGCACCTTT-AGG-TGT
1993617 ATCGATGCA-CTGTTAGGTGT
1 ATCGATGCACCT-TTAGGTGT
1993637 ATCGATGCA
1 ATCGATGCA
1993646 TGAAGCACAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
20 11 0.26
21 17 0.40
22 14 0.33
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (20 bp):
ATCGATGCACCTTTAGGTGT
Found at i:1993642 original size:20 final size:21
Alignment explanation
Indices: 1993590--1993645 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
1993580 GCACCTTCAT
1993590 GGTGTATCGATGCACATTTAA
1 GGTGTATCGATGCACATTTAA
*
1993611 GGATGCATCGATGCAC-TGTT-A
1 GG-TGTATCGATGCACAT-TTAA
1993632 GGTGTATCGATGCA
1 GGTGTATCGATGCA
1993646 TGAAGCACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 11 0.35
21 6 0.19
22 14 0.45
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (21 bp):
GGTGTATCGATGCACATTTAA
Found at i:1997504 original size:22 final size:21
Alignment explanation
Indices: 1997462--1997501 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1997452 GAGTTTATTT
*
1997462 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1997483 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1997502 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1999478 original size:18 final size:17
Alignment explanation
Indices: 1999424--1999472 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1999414 TTGGACCCTT
* *
1999424 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
1999442 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
1999460 AGTGCATTCGATG
1 AGTGCA-TCGATG
1999473 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:2006028 original size:45 final size:45
Alignment explanation
Indices: 2005964--2006054 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
2005954 GACATATGCC
*
2005964 CACTAAAGTACTCAGATATTGTACCTTAGAAGCAGATGCTAGAAT
1 CACTAAAGTACTCAGATATTGTACCTTAGAAACAGATGCTAGAAT
2006009 CACTAAAGTACTCAGATATTGTACCTTAGAAACAGATGCTAGAAT
1 CACTAAAGTACTCAGATATTGTACCTTAGAAACAGATGCTAGAAT
2006054 C
1 C
2006055 CTGATGATGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (45 bp):
CACTAAAGTACTCAGATATTGTACCTTAGAAACAGATGCTAGAAT
Found at i:2006685 original size:36 final size:36
Alignment explanation
Indices: 2006638--2006970 Score: 463
Period size: 36 Copynumber: 9.2 Consensus size: 36
2006628 AAATGAACAC
**
2006638 TTGAATCGGAAGTGTAAATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAT
*
2006674 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAT
* *
2006710 TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCAAC
1 TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAT
* *
2006746 TTGAATCGGAAGTGCCGATGCTTCCTTCTGTTCGAT
1 TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAT
* *
2006782 TTGAATCGGAAGTGTCGATGCTTCCCTCCGTTCGAC
1 TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAT
*
2006818 TTGAATCGGAAGTGTC-AGTGCTTCCTTTCGTTC-ACT
1 TTGAATCGGAAGTGTCGA-TGCTTCCTTCCGTTCGA-T
* * **
2006854 TTAAATCGGAAGTGCCGATGCTTCCTTCCGTTTTAT
1 TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAT
* *
2006890 TTGAATCAGAAGTGCCGATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAT
* * *
2006926 TTGAATCAGAAGTGTCGATGCTTCCCTCCGTTCGAC
1 TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAT
2006962 TTGAATCGG
1 TTGAATCGG
2006971 TGAATGAACA
Statistics
Matches: 264, Mismatches: 29, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
35 2 0.01
36 260 0.98
37 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.35
Consensus pattern (36 bp):
TTGAATCGGAAGTGTCGATGCTTCCTTCCGTTCGAT
Found at i:2011150 original size:18 final size:19
Alignment explanation
Indices: 2011127--2011163 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
2011117 TGGAATAATT
2011127 AATTAATAT-AAT-TTTAAA
1 AATTAA-ATGAATATTTAAA
2011145 AATTAAATGAATATTTAAA
1 AATTAAATGAATATTTAAA
2011164 TATTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 2 0.12
18 9 0.53
19 6 0.35
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
AATTAAATGAATATTTAAA
Found at i:2011239 original size:17 final size:18
Alignment explanation
Indices: 2011206--2011243 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
2011196 GAACGATTTA
2011206 ATACAAATTTATAAAATT
1 ATACAAATTTATAAAATT
*
2011224 ATACAAA-TTATTAAATT
1 ATACAAATTTATAAAATT
2011241 ATA
1 ATA
2011244 ATTCAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
ATACAAATTTATAAAATT
Found at i:2012100 original size:11 final size:11
Alignment explanation
Indices: 2012084--2012119 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
2012074 ATGAAAGGCA
2012084 GATTAATATAC
1 GATTAATATAC
*
2012095 GATTAATATAT
1 GATTAATATAC
2012106 GATTAATATAC
1 GATTAATATAC
2012117 GAT
1 GAT
2012120 GTTATCGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (11 bp):
GATTAATATAC
Found at i:2012524 original size:113 final size:112
Alignment explanation
Indices: 2012261--2012720 Score: 769
Period size: 112 Copynumber: 4.1 Consensus size: 112
2012251 TCGGTTTGTA
* *
2012261 TCGATATTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGA-AAAACCGGT
1 TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGATAAAACCGGT
2012325 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
66 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
* * *
2012372 TCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAAAATGATAAAACCGCT
1 TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGATAAAACCGGT
*
2012437 CTATAAATGACAAAACAGGTAAAGCGCTGCCGGATATATTGAAAAGTG
66 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTG-AAAGTG
*
2012485 TCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGATAAAACCGGT
1 TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGATAAAACCGGT
*
2012550 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTC
66 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
*
2012597 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGATAAAACCGGT
1 TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGATAAAACCGGT
* * * * *
2012662 CTATAAATGACAAAATAAGTAAAGCGCTATCGGATATGTTGATAGTG
66 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
*
2012709 CCGATACTTTAT
1 TCGATACTTTAT
2012721 TGTAAGTATC
Statistics
Matches: 326, Mismatches: 21, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
111 51 0.16
112 168 0.52
113 107 0.33
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (112 bp):
TCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGATAAAACCGGT
CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTG
Found at i:2012658 original size:225 final size:223
Alignment explanation
Indices: 2012261--2012720 Score: 803
Period size: 225 Copynumber: 2.1 Consensus size: 223
2012251 TCGGTTTGTA
*
2012261 TCGATATTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGAAAAACCGGTC
1 TCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGAAAAACCGGTC
*
2012326 TATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAATG
66 TATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTCTCGATACTTTATAAAAATG
* *
2012391 TATCGATCCATAATAATATAACAGGTAAAAAAATGATAAAACCGCTCTATAAATGACAAAACAGG
131 TATCGATCCATAACAATATAACAGGTAAAAAAATGATAAAACCGCTCTATAAATGACAAAACAAG
*
2012456 TAAAGCGCTGCCGGATATATTGAAAAGTG
196 TAAAGCGCTACCGGATATATTG-AAAGTG
2012485 TCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGATAAAACCGGT
1 TCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGA-AAAACCGGT
2012550 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTCTCGATACTTTATAAAAAT
65 CTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTCTCGATACTTTATAAAAAT
* *
2012615 GTATCGATCCATAACAATATAACAGGTAAAAAAATGATAAAACCGGTCTATAAATGACAAAATAA
130 GTATCGATCCATAACAATATAACAGGTAAAAAAATGATAAAACCGCTCTATAAATGACAAAACAA
* * *
2012680 GTAAAGCGCTATCGGATATGTTGATAGTG
195 GTAAAGCGCTACCGGATATATTGAAAGTG
*
2012709 CCGATACTTTAT
1 TCGATACTTTAT
2012721 TGTAAGTATC
Statistics
Matches: 224, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
224 70 0.31
225 154 0.69
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (223 bp):
TCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGAAAAACCGGTC
TATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTCTCGATACTTTATAAAAATG
TATCGATCCATAACAATATAACAGGTAAAAAAATGATAAAACCGCTCTATAAATGACAAAACAAG
TAAAGCGCTACCGGATATATTGAAAGTG
Found at i:2012917 original size:182 final size:182
Alignment explanation
Indices: 2012597--2013046 Score: 711
Period size: 182 Copynumber: 2.5 Consensus size: 182
2012587 ATTGAAAGTC
* * *
2012597 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGATAAAACCGGT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATAAAATCGGT
** ** * * * *
2012662 CTATAAATGACAAAATAAGTAAAGCGCTATCGGATATGTTGATAGTGCCGATACTTTATTGTAAG
66 CTCGAAATGACAAAATCGGTAAAGAGCTACCGGATATGTTGAAAGTGCCGATACTTTATTATAAG
* *
2012727 TATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAATG
131 TATCGACACCTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAAAATG
2012779 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATAAAATCGGT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATAAAATCGGT
*
2012844 CTCGAAATGACAAAATCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAG
66 CTCGAAATGACAAAATCGGTAAAGAGCTACCGGATATGTTGAAAGTGCCGATACTTTATTATAAG
* * *
2012909 TGTCGACACCTTTGGAATTTAAAAGAAAAGAAGTTATAGTGCTAATAAAGTG
131 TATCGACACCTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAAAATG
* *
2012961 TCAATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAATCGGT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATAAAATCGGT
* *
2013026 CTCGAAATGATAAAACCGGTA
66 CTCGAAATGACAAAATCGGTA
2013047 GTAAAAAAGT
Statistics
Matches: 247, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
182 247 1.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (182 bp):
TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGATAAAATCGGT
CTCGAAATGACAAAATCGGTAAAGAGCTACCGGATATGTTGAAAGTGCCGATACTTTATTATAAG
TATCGACACCTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAAAATG
Found at i:2013503 original size:23 final size:23
Alignment explanation
Indices: 2013477--2013524 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
2013467 AAATATGTCA
*
2013477 ATATAAGCGCTACCTATTATATT
1 ATATAAGCGCTACCTAATATATT
2013500 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATATATT
2013523 AT
1 AT
2013525 TGTACTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATATATT
Found at i:2014955 original size:60 final size:60
Alignment explanation
Indices: 2014844--2014956 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
2014834 TATAAGATAC
* *
2014844 TGCTTTGACTGAGTCCCTGACTATTAAAAATTACAAAATGATTCATCGACTATAGGGAGT
1 TGCTTTGACTGAGTCCCTGACTATTAAAAATTACAAAATGAGTCAACGACTATAGGGAGT
* * *
2014904 TGCTTTG-TTGAGTCTCTCGACTATTAAAAGTTACAAAATG-GTCAACTGACTAT
1 TGCTTTGACTGAGTCCCT-GACTATTAAAAATTACAAAATGAGTCAAC-GACTAT
2014957 TAATTATGCA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 12 0.26
60 34 0.74
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (60 bp):
TGCTTTGACTGAGTCCCTGACTATTAAAAATTACAAAATGAGTCAACGACTATAGGGAGT
Found at i:2016564 original size:21 final size:21
Alignment explanation
Indices: 2016534--2016586 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
2016524 CATTCAAAGG
*
2016534 GTATCAATACCTGGGAGGGTA
1 GTATCGATACCTGGGAGGGTA
2016555 GTATCGATACCTGGGAGGGTA
1 GTATCGATACCTGGGAGGGTA
2016576 GTATCGATACC
1 GTATCGATACC
2016587 AGGAAATATC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (21 bp):
GTATCGATACCTGGGAGGGTA
Found at i:2016646 original size:19 final size:18
Alignment explanation
Indices: 2016608--2016646 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2016598 AATGCAATTC
**
2016608 GGTATCGATACCCAGGTA
1 GGTATCGATACCCAACTA
2016626 GGTATCGATACCCCAACTA
1 GGTATCGATA-CCCAACTA
2016645 GG
1 GG
2016647 GGTAGTATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.21
Consensus pattern (18 bp):
GGTATCGATACCCAACTA
Found at i:2017275 original size:18 final size:18
Alignment explanation
Indices: 2017251--2017306 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
2017241 GAGGGATTAT
2017251 AAGTGGTCCTTCGGGACA
1 AAGTGGTCCTTCGGGACA
* * * *
2017269 TAGTGGTCATTCGAGATA
1 AAGTGGTCCTTCGGGACA
2017287 AAGTGGTCCTTCGGGACA
1 AAGTGGTCCTTCGGGACA
2017305 AA
1 AA
2017307 TTTTCAGTGC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (18 bp):
AAGTGGTCCTTCGGGACA
Found at i:2019048 original size:28 final size:30
Alignment explanation
Indices: 2019016--2019082 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 30
2019006 TTTGTAATAT
*
2019016 TTATTTAGAATATAAT-ATTACT-TTTAAA
1 TTATTTAGAATATAATCATTAATATTTAAA
*
2019044 TTATTT-GAAAATAATCATTAATATTTAAA
1 TTATTTAGAATATAATCATTAATATTTAAA
2019073 TT-TTTA-AATA
1 TTATTTAGAATA
2019083 AAATTTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 8 0.24
28 17 0.52
29 8 0.24
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (30 bp):
TTATTTAGAATATAATCATTAATATTTAAA
Found at i:2029366 original size:21 final size:21
Alignment explanation
Indices: 2029342--2029451 Score: 73
Period size: 21 Copynumber: 5.2 Consensus size: 21
2029332 ATGCATCACC
*
2029342 TAAACTGCAAATCACAACACT
1 TAAACTCCAAATCACAACACT
* * *
2029363 TAAAC-CTCAAATTACAACCCC
1 TAAACTC-CAAATCACAACACT
* * *
2029384 TAAACTCCATATCGCTACA-T
1 TAAACTCCAAATCACAACACT
2029404 CTAAA-TCCCAAATCACAACACT
1 -TAAACT-CCAAATCACAACACT
* * *
2029426 CAAACCCCAAAATCATAACACT
1 TAAACTCC-AAATCACAACACT
2029448 TAAA
1 TAAA
2029452 TGAAAAGCCA
Statistics
Matches: 65, Mismatches: 17, Indels: 13
0.68 0.18 0.14
Matches are distributed among these distances:
20 1 0.02
21 47 0.72
22 17 0.26
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (21 bp):
TAAACTCCAAATCACAACACT
Found at i:2033334 original size:15 final size:16
Alignment explanation
Indices: 2033305--2033359 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 16
2033295 CAATTGTCGG
2033305 TATTTTTT-AT-T-TT
1 TATTTTTTAATATATT
2033318 TATTTTTTAATA-ATT
1 TATTTTTTAATATATT
*
2033333 TATTTTTATGATATATT
1 TATTTTT-TAATATATT
2033350 T-TTTTTTAAT
1 TATTTTTTAAT
2033360 TTTATGACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 8 0.23
14 2 0.06
15 12 0.34
16 9 0.26
17 4 0.11
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (16 bp):
TATTTTTTAATATATT
Found at i:2039639 original size:108 final size:108
Alignment explanation
Indices: 2039522--2039720 Score: 245
Period size: 108 Copynumber: 1.8 Consensus size: 108
2039512 CACAATCTGG
* * * *
2039522 ACATCAGTAGTCCTCGACATATAAACCATATTGAAGAAGCACAAAAACCTCAAGAGATAAACTGG
1 ACATCAGTAGTCCTCAAAATATAAACCATAATGAAGAAGCACAAAAACCTCAACAGATAAACTGG
* **
2039587 AATGAAGATGCACAAAGTCCTCAAAAGAAAAGCTGTGATGCAA
66 AATGAAAATAAACAAAGTCCTCAAAAGAAAAGCTGTGATGCAA
* ** * * * ** **
2039630 ACATGAGTAGTTTTCAAAATATAAATCATAATGAAGATGCACAAAAAGCTCAACCTATAAGGTGG
1 ACATCAGTAGTCCTCAAAATATAAACCATAATGAAGAAGCACAAAAACCTCAACAGATAAACTGG
2039695 AATGAAAATAAACAAAGTCCTCAAAA
66 AATGAAAATAAACAAAGTCCTCAAAA
2039721 CCAGAACAAC
Statistics
Matches: 74, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
108 74 1.00
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.20
Consensus pattern (108 bp):
ACATCAGTAGTCCTCAAAATATAAACCATAATGAAGAAGCACAAAAACCTCAACAGATAAACTGG
AATGAAAATAAACAAAGTCCTCAAAAGAAAAGCTGTGATGCAA
Found at i:2042228 original size:3 final size:3
Alignment explanation
Indices: 2042213--2042251 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
2042203 TCCGTTCTCG
* *
2042213 TTA TTA ATA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2042252 AATAATAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2048367 original size:2 final size:2
Alignment explanation
Indices: 2048355--2048390 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
2048345 TCTAAACAAC
*
2048355 AT AT TT 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
2048391 CCCTATTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:2049480 original size:20 final size:20
Alignment explanation
Indices: 2049452--2049509 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
2049442 TTCCCCTTGA
2049452 AGTGCATCGATACATTCTAC
1 AGTGCATCGATACATTCTAC
* *
2049472 AGTGTATCGATGCATTCTTTAAC
1 AGTGCATCGATACATTC--T-AC
2049495 ATGTGCATCGATACA
1 A-GTGCATCGATACA
2049510 CTACCCATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 15 0.50
22 1 0.03
23 3 0.10
24 11 0.37
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:2049586 original size:64 final size:62
Alignment explanation
Indices: 2049497--2049658 Score: 164
Period size: 64 Copynumber: 2.5 Consensus size: 62
2049487 TCTTTAACAT
* * * *
2049497 GTGCATCGATACACTACCCATGCATCGATACACAGATCACCTTCGATGTTT-TAATTTTAAGGGG
1 GTGCATCGATGCACT-CCTATGCATCGATACACA-ATCACATTCGATGTTTCCAATTTTAA-GGG
* ** * *
2049561 GTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCATTTTTAATGG
1 GTGCATCGATGCACTCC-TATGCATCGATACAC-AATCACATTCGATGTTTCCAATTTTAAGGG
* *
2049625 GTACATCGATGCACGTCCTGTGCATCGATACACA
1 GTGCATCGATGCAC-TCCTATGCATCGATACACA
2049659 CTAAACAATT
Statistics
Matches: 82, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
63 3 0.04
64 68 0.83
65 11 0.13
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.31
Consensus pattern (62 bp):
GTGCATCGATGCACTCCTATGCATCGATACACAATCACATTCGATGTTTCCAATTTTAAGGG
Found at i:2051159 original size:23 final size:23
Alignment explanation
Indices: 2051127--2051178 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
2051117 GATAACCCAA
*
2051127 TTTACTTATACATAAATTAATTC
1 TTTACCTATACATAAATTAATTC
*
2051150 TTTACCTATACATAACTTAATTC
1 TTTACCTATACATAAATTAATTC
2051173 TTTACC
1 TTTACC
2051179 ATCTCTCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTACCTATACATAAATTAATTC
Found at i:2059408 original size:2 final size:2
Alignment explanation
Indices: 2059401--2059440 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2059391 AAATTAAGTA
2059401 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
2059441 GTTTATAAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2060238 original size:23 final size:23
Alignment explanation
Indices: 2060212--2060256 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2060202 TACGATGTAT
*
2060212 TTCTACGCGGCACTTCGGTGCAA
1 TTCTACGCGGCACTCCGGTGCAA
*
2060235 TTCTACGTGGCACTCCGGTGCA
1 TTCTACGCGGCACTCCGGTGCA
2060257 TTTATACAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.31, G:0.27, T:0.27
Consensus pattern (23 bp):
TTCTACGCGGCACTCCGGTGCAA
Found at i:2061373 original size:20 final size:20
Alignment explanation
Indices: 2061345--2061402 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
2061335 TTCCCCTTGA
2061345 AGTGCATCGATACATTCTAC
1 AGTGCATCGATACATTCTAC
* *
2061365 AGTGTATCGATGCATTCTTTAAC
1 AGTGCATCGATACATTC--T-AC
2061388 ATGTGCATCGATACA
1 A-GTGCATCGATACA
2061403 CTACCCATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 15 0.50
22 1 0.03
23 3 0.10
24 11 0.37
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATACATTCTAC
Found at i:2061460 original size:45 final size:45
Alignment explanation
Indices: 2061410--2061513 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 45
2061400 ACACTACCCA
*
2061410 TGCATCGATACAC-AGATCACCTTCGATGTTTT-AATTTTAAGGGGG
1 TGCATCGATACACTA-ATCACATTCGATGTTTTCAATTTTAA-GGGG
* ** * *
2061455 TGCATCGATGCACTAATTGCATTCGATGTTTTCATTTTTAATGGG
1 TGCATCGATACACTAATCACATTCGATGTTTTCAATTTTAAGGGG
*
2061500 TGCATCGATGCACT
1 TGCATCGATACACT
2061514 TCCTGTGCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
45 43 0.84
46 8 0.16
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (45 bp):
TGCATCGATACACTAATCACATTCGATGTTTTCAATTTTAAGGGG
Found at i:2064848 original size:38 final size:38
Alignment explanation
Indices: 2064790--2064902 Score: 111
Period size: 38 Copynumber: 2.9 Consensus size: 38
2064780 CTTAAAACTT
* * *
2064790 AGAATGTT-GGGACATCTTGAAGGCTCACATCAGTATGA
1 AGAATGTTAGGG-CATTTTGAAGGCTCACATCAGCAAGA
*
2064828 AGAATGTTAGGGCATTTTGAAGGCTCATATCAGCAAGA
1 AGAATGTTAGGGCATTTTGAAGGCTCACATCAGCAAGA
* ** * * *
2064866 AGTAATGTGAACGCATTTTGAACGTTCATATCAGCAA
1 AG-AATGTTAGGGCATTTTGAAGGCTCACATCAGCAA
2064903 ATGTTGGGGC
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
38 32 0.50
39 32 0.50
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (38 bp):
AGAATGTTAGGGCATTTTGAAGGCTCACATCAGCAAGA
Found at i:2064884 original size:39 final size:38
Alignment explanation
Indices: 2064806--2064902 Score: 113
Period size: 39 Copynumber: 2.5 Consensus size: 38
2064796 TTGGGACATC
* * * * **
2064806 TTGAAGGCTCACATCAGTATGAAGAATGTTAGGGCATT
1 TTGAAGGCTCATATCAGCAAGAAGAATGTGAACGCATT
2064844 TTGAAGGCTCATATCAGCAAGAAGTAATGTGAACGCATT
1 TTGAAGGCTCATATCAGCAAGAAG-AATGTGAACGCATT
* *
2064883 TTGAACGTTCATATCAGCAA
1 TTGAAGGCTCATATCAGCAA
2064903 ATGTTGGGGC
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
38 21 0.42
39 29 0.58
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (38 bp):
TTGAAGGCTCATATCAGCAAGAAGAATGTGAACGCATT
Found at i:2066610 original size:202 final size:202
Alignment explanation
Indices: 2066264--2066675 Score: 666
Period size: 202 Copynumber: 2.0 Consensus size: 202
2066254 GAAAAGTAAG
* * *
2066264 AAGTTTCATACCCAATAAATTATTTCTCACAAATTTGTAAATCCTTAGGGTTATCTGTCATTCTT
1 AAGTTTCTTACCCAATAAATTATTTCTCACAAATTTGTAAATCCTTAGGGTCATCTGTCAGTCTT
* * * *
2066329 TTAAGCATGATGCTTAAATTCTTAGGGTCATCTGTCAGTCTTTTGAGCTAGAAGATAAGTCCTTA
66 TCAAGCATGATGCTTAAATCCTTAGGGCCATCTGTCAGTCTTTTAAGCTAGAAGATAAGTCCTTA
2066394 AGGCCATCCGTCAGACCTTTGGGTAGGATGTTTACATATGATTTTCACATGAAAATGAGAAAATG
131 AGGCCATCCGTCAGACCTTTGGGTAGGATGTTTACATATGATTTTCACATGAAAATGAGAAAATG
2066459 ATTTTCA
196 ATTTTCA
* *
2066466 AAGTTTCTTACCCATTAAATTATTTAC-CGCAAATTTGTAAATCCTTAGGGTCATCTGTCAGTCT
1 AAGTTTCTTACCCAATAAATTATTT-CTCACAAATTTGTAAATCCTTAGGGTCATCTGTCAGTCT
*
2066530 TTCAAGCATGATGCTTAAATCCTTAGGGCCATCT-TCCAGTGTTTTAAGCTAGAAGATAAGTCCT
65 TTCAAGCATGATGCTTAAATCCTTAGGGCCATCTGT-CAGTCTTTTAAGCTAGAAGATAAGTCCT
* ** *
2066594 TAGGGCCATCCGTCAGACCTTTGGGTAGGATGTTTACATATGATTTTCGTATGAAAATGAGAAAG
129 TAAGGCCATCCGTCAGACCTTTGGGTAGGATGTTTACATATGATTTTCACATGAAAATGAGAAAA
2066659 TGATTTTCA
194 TGATTTTCA
2066668 AAGTTTCT
1 AAGTTTCT
2066676 CATTTAATGT
Statistics
Matches: 194, Mismatches: 14, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
201 1 0.01
202 192 0.99
203 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (202 bp):
AAGTTTCTTACCCAATAAATTATTTCTCACAAATTTGTAAATCCTTAGGGTCATCTGTCAGTCTT
TCAAGCATGATGCTTAAATCCTTAGGGCCATCTGTCAGTCTTTTAAGCTAGAAGATAAGTCCTTA
AGGCCATCCGTCAGACCTTTGGGTAGGATGTTTACATATGATTTTCACATGAAAATGAGAAAATG
ATTTTCA
Found at i:2066904 original size:35 final size:35
Alignment explanation
Indices: 2066863--2066938 Score: 143
Period size: 35 Copynumber: 2.2 Consensus size: 35
2066853 TATTTTGTAA
2066863 TTGGTTGGTTTAGTAGGAATGTAAGATTACCGTGT
1 TTGGTTGGTTTAGTAGGAATGTAAGATTACCGTGT
*
2066898 TTGGTTGGTTTAGTAGGAATGTAAGATTATCGTGT
1 TTGGTTGGTTTAGTAGGAATGTAAGATTACCGTGT
2066933 TTGGTT
1 TTGGTT
2066939 AAAGGAATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.21, C:0.04, G:0.32, T:0.43
Consensus pattern (35 bp):
TTGGTTGGTTTAGTAGGAATGTAAGATTACCGTGT
Found at i:2067898 original size:219 final size:219
Alignment explanation
Indices: 2067507--2068000 Score: 785
Period size: 219 Copynumber: 2.3 Consensus size: 219
2067497 GCATGATGCT
* *
2067507 TAAATCCTTAGGGTCAACTGTCAGTCTTTTGAGCTAGATGATAAGTCCTTAGGGTCATCCATCAG
1 TAAATCCTTAGGGTCATCTGTCAGTCTTTTGAGCCAGATGATAAGTCCTTAGGGTCATCCATCAG
*
2067572 ACCTTTGGGTAGGATGTTTACATATGATTTTCACATGAAAATGAGAAAGCGATTTTCAAAGTTTC
66 ACCTTTGGGTAGGATGTTTACATATGATTTTCACATGAAAATGAGAAAACGATTTTCAAAGTTTC
* * * *
2067637 TCATTTAATGTTCTAGAAAATGAAATTCTTGAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACCC
131 TCATTTAATGTTCAAAAAAATGAAATTCTTGAAAGCAAGAAAGTGATCTCCAAAGTTTCTTACCC
*
2067702 AGTAAATTATTTCCCACAAATATG
196 AGTAAATTATTTCCCACAAACATG
*
2067726 TAAATCCTTAGGGTCATCTGTCAGTCTTTTGAGCCAGATGATAAGTCCTTAGGGTCATCCGTCAG
1 TAAATCCTTAGGGTCATCTGTCAGTCTTTTGAGCCAGATGATAAGTCCTTAGGGTCATCCATCAG
* * *
2067791 ACCTTTGGGTAGGAT-TTTACATATGATTTTCGCATGAAAATGAGAAAATGATTTTCAAATTTTC
66 ACCTTTGGGTAGGATGTTTACATATGATTTTCACATGAAAATGAGAAAACGATTTTCAAAGTTTC
*
2067855 TCATTTAATGTTCAAAAAAATGAAATTCTTGAAAAGCAAGAAAGTGATCTCCAAATTTTCTTACC
131 TCATTTAATGTTCAAAAAAATGAAATTCTTG-AAAGCAAGAAAGTGATCTCCAAAGTTTCTTACC
*
2067920 CAGTAAATTATTTCCTACAAACATG
195 CAGTAAATTATTTCCCACAAACATG
* * * *
2067945 TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAG-CATGATGCTTAAATCCTTAGGGT
1 TAAATCCTTAGGGTCATCTGTCAGTCTTTTGAGCCA-GATG-ATAAGTCCTTAGGGT
2068001 TATCTGACAG
Statistics
Matches: 254, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
218 76 0.30
219 165 0.65
220 13 0.05
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (219 bp):
TAAATCCTTAGGGTCATCTGTCAGTCTTTTGAGCCAGATGATAAGTCCTTAGGGTCATCCATCAG
ACCTTTGGGTAGGATGTTTACATATGATTTTCACATGAAAATGAGAAAACGATTTTCAAAGTTTC
TCATTTAATGTTCAAAAAAATGAAATTCTTGAAAGCAAGAAAGTGATCTCCAAAGTTTCTTACCC
AGTAAATTATTTCCCACAAACATG
Found at i:2068006 original size:42 final size:41
Alignment explanation
Indices: 2067945--2068045 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 41
2067935 TACAAACATG
* * * *
2067945 TAAATCCTTCGGGTCATCTGTCAGTCTTTCGAGCATGATGCT
1 TAAATCCTTAGGGTCATCTGACAGTCTTTCGAGCAAGATG-A
* *
2067987 TAAATCCTTAGGGTTATCTGACAGTCTTTTGAGCAAGATGA
1 TAAATCCTTAGGGTCATCTGACAGTCTTTCGAGCAAGATGA
*
2068028 TAAATCCTTAGGGCCATC
1 TAAATCCTTAGGGTCATC
2068046 CGTCAGACCT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 16 0.31
42 35 0.69
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (41 bp):
TAAATCCTTAGGGTCATCTGACAGTCTTTCGAGCAAGATGA
Found at i:2068251 original size:3 final size:3
Alignment explanation
Indices: 2068236--2068265 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
2068226 GTCGTTCTCG
*
2068236 TTA TTA ATA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2068266 AATAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:2071808 original size:16 final size:18
Alignment explanation
Indices: 2071787--2071833 Score: 71
Period size: 16 Copynumber: 2.7 Consensus size: 18
2071777 GTTTCAGATT
2071787 CAGATTCCAATTCC-T-A
1 CAGATTCCAATTCCTTCA
*
2071803 CAGATTTCAATTCCTTCA
1 CAGATTCCAATTCCTTCA
2071821 CAGATTCCAATTC
1 CAGATTCCAATTC
2071834 TCTCAGAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 13 0.48
17 1 0.04
18 13 0.48
ACGTcount: A:0.30, C:0.30, G:0.06, T:0.34
Consensus pattern (18 bp):
CAGATTCCAATTCCTTCA
Found at i:2082945 original size:31 final size:31
Alignment explanation
Indices: 2082886--2082943 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
2082876 ACAATTAATG
* *
2082886 TAACATAATTAAAGTTTAATAACATTTTAGA
1 TAACAAAATTAAAGTTTAAGAACATTTTAGA
*
2082917 TAACAAAATTAAAGTTT-AGAAGATTTT
1 TAACAAAATTAAAGTTTAAGAACATTTT
2082944 TAAAATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (31 bp):
TAACAAAATTAAAGTTTAAGAACATTTTAGA
Found at i:2089697 original size:12 final size:12
Alignment explanation
Indices: 2089680--2089704 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2089670 ATGTTACAAT
2089680 AATAATAATAAA
1 AATAATAATAAA
2089692 AATAATAATAAA
1 AATAATAATAAA
2089704 A
1 A
2089705 GGGGTGAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:2090036 original size:37 final size:37
Alignment explanation
Indices: 2089991--2090065 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 37
2089981 GTTAAAAAAT
*
2089991 ATTTATAT-ATTTTTATTAAAAAATTGAAATTCATAAA
1 ATTTATATAATTTTTATTAAAAAATTGAAAAT-ATAAA
* *
2090028 ATTTATATAATTTTTTTTACAAAATTGAAAATATAAA
1 ATTTATATAATTTTTATTAAAAAATTGAAAATATAAA
2090065 A
1 A
2090066 AGGTCGAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 14 0.41
38 20 0.59
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (37 bp):
ATTTATATAATTTTTATTAAAAAATTGAAAATATAAA
Found at i:2091689 original size:31 final size:32
Alignment explanation
Indices: 2091637--2091700 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
2091627 TTATTCCTAT
* *
2091637 AATTAATTATTGTTATTGTAAAATAATAAACA
1 AATTAATTATTATTATCGTAAAATAATAAACA
*
2091669 AATT-ATTATTATTATCGTAAAGTAATAAACA
1 AATTAATTATTATTATCGTAAAATAATAAACA
2091700 A
1 A
2091701 TATAACTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (32 bp):
AATTAATTATTATTATCGTAAAATAATAAACA
Found at i:2092034 original size:21 final size:21
Alignment explanation
Indices: 2091919--2092034 Score: 60
Period size: 21 Copynumber: 5.6 Consensus size: 21
2091909 GCGAAATAAA
**
2091919 AATCGCAACGCGA-TCCCCAG
1 AATCGCAACGCGATTTTCCAG
** * *
2091939 AATCGCAAATC-AGTTTCCAA
1 AATCGCAACGCGATTTTCCAG
* *
2091959 AATCGCAACGCGATTCTT-GAC
1 AATCGCAACGCGATT-TTCCAG
* ** *
2091980 AATCGCAATGCGATAGTACA-
1 AATCGCAACGCGATTTTCCAG
**
2092000 AATTCGCATTGCGATTTTCCAG
1 AA-TCGCAACGCGATTTTCCAG
2092022 AATCGCAACGCGA
1 AATCGCAACGCGA
2092035 ATATGAAAAT
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
19 1 0.01
20 25 0.36
21 40 0.57
22 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATTTTCCAG
Found at i:2092064 original size:20 final size:20
Alignment explanation
Indices: 2092022--2092214 Score: 237
Period size: 20 Copynumber: 9.6 Consensus size: 20
2092012 GATTTTCCAG
* ** *
2092022 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2092042 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
*
2092062 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2092082 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2092102 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2092122 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2092142 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2092162 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
2092183 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2092203 AATCGCAACGCG
1 AATCGCAACGCG
2092215 ATTTTTAAAG
Statistics
Matches: 149, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
19 1 0.01
20 129 0.87
21 19 0.13
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2092634 original size:33 final size:33
Alignment explanation
Indices: 2092595--2092665 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2092585 TTCACTTAGA
2092595 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
2092628 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
2092661 TTTCA
1 TTTCA
2092666 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:2092777 original size:21 final size:20
Alignment explanation
Indices: 2092751--2092857 Score: 84
Period size: 21 Copynumber: 5.5 Consensus size: 20
2092741 TGCAGAAGAG
*
2092751 TCGCAACAAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
2092772 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
2092792 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
*
2092814 TCGTAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
2092828 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
2092847 TCGCAACGAGA
1 TCGCAACGAGA
2092858 GAATCGTAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 17
0.71 0.12 0.18
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
17 2 0.03
19 11 0.16
20 9 0.13
21 23 0.34
22 10 0.15
ACGTcount: A:0.48, C:0.18, G:0.21, T:0.14
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:2092843 original size:33 final size:33
Alignment explanation
Indices: 2092805--2092884 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
2092795 GCAACGAGAA
*
2092805 AAATGAAAATCGTAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
*
2092838 AAATGAAAATCGCAACGAGAGAATCGTAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
2092871 AAACCAAAATCGCA
1 AAATGAAAATCGCA
2092885 TTGCGATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.11
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:2092902 original size:19 final size:19
Alignment explanation
Indices: 2092880--2093007 Score: 87
Period size: 19 Copynumber: 7.1 Consensus size: 19
2092870 GAAACCAAAA
*
2092880 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2092899 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2092913 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2092932 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2092946 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
2092966 CTCTCGTTGCGACAGTCATT
1 -TCGCGTTGCGATTTTCATT
*
2092986 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
2093006 TC
1 TC
2093008 AACCAAAAGA
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
14 20 0.23
16 6 0.07
17 6 0.07
19 22 0.25
20 19 0.22
21 14 0.16
ACGTcount: A:0.11, C:0.25, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2092921 original size:14 final size:14
Alignment explanation
Indices: 2092902--2092958 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2092892 TTTCATTTCG
2092902 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2092916 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2092935 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2092949 CGTTGCGATT
1 CGTTGCGATT
2092959 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2092927 original size:33 final size:33
Alignment explanation
Indices: 2092885--2093007 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
2092875 CAAAATCGCA
2092885 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2092918 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
2092951 TTGCGATTTTCATTTCTCTCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTT--G-C-G--ATTCTCTCG
2092992 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
2093008 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 45 0.56
34 2 0.02
35 6 0.07
37 1 0.01
38 1 0.01
39 3 0.04
40 2 0.02
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:2092969 original size:21 final size:21
Alignment explanation
Indices: 2092943--2093007 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
2092933 CGCGTTGCGA
2092943 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
2092964 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
2092984 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
2093005 TTC
1 TTC
2093008 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.11, C:0.26, G:0.15, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:2094936 original size:92 final size:93
Alignment explanation
Indices: 2094682--2094995 Score: 596
Period size: 93 Copynumber: 3.4 Consensus size: 93
2094672 TAGATTGCTT
*
2094682 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2094747 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
2094775 AGTAAATTTGTTCGGTTGCTACCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2094840 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2094867 AGTAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2094931 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
2094959 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
2094996 AATACCCTGA
Statistics
Matches: 216, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
91 57 0.26
92 66 0.31
93 93 0.43
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:2095129 original size:14 final size:14
Alignment explanation
Indices: 2095110--2095166 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
2095100 CGAAACTTAA
2095110 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2095124 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
2095143 AATCGCAACGACAG
1 AATCGCAACGAGAG
2095157 AATCGCAACG
1 AATCGCAACG
2095167 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2095148 original size:19 final size:18
Alignment explanation
Indices: 2095124--2095215 Score: 65
Period size: 19 Copynumber: 5.4 Consensus size: 18
2095114 GCAACGAGAG
2095124 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
*
2095143 AATCGCAA--CGACAG--
1 AATCGCAACGCGAAAGAA
*
2095157 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
*
2095176 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAAGAA
*
2095190 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
2095209 AATCGCA
1 AATCGCA
2095216 TTGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 19 0.32
15 1 0.02
16 7 0.12
17 6 0.10
18 1 0.02
19 26 0.43
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:2095150 original size:33 final size:33
Alignment explanation
Indices: 2095092--2095215 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
2095082 ATAGTTTACT
* * *
2095092 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
2095126 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
*
2095159 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
2095192 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
2095216 TTGCGATTTT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:2095192 original size:14 final size:14
Alignment explanation
Indices: 2095141--2095199 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
2095131 ACGCGAAATG
2095141 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2095155 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
2095174 AAAATCGCAACGAC
1 AAAATCGCAACGAC
2095188 AAAATCGCAACG
1 AAAATCGCAACG
2095200 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2095233 original size:19 final size:19
Alignment explanation
Indices: 2095211--2095366 Score: 148
Period size: 19 Copynumber: 8.6 Consensus size: 19
2095201 GAAACCAAAA
*
2095211 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2095230 TCGCGTTGCGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
* *
2095248 TCGCATTGCGA--TT--TG
1 TCGCGTTGCGATTTTCATT
2095263 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
2095280 TCGCGTTGCGA-TTTGGTT
1 TCGCGTTGCGATTTTCATT
**
2095298 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
2095317 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
2095336 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
2095356 TCGTGTTGCGA
1 TCGCGTTGCGA
2095367 AAGTAAACTA
Statistics
Matches: 114, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
13 7 0.06
15 4 0.04
17 4 0.04
18 33 0.29
19 54 0.47
20 12 0.11
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2095261 original size:37 final size:37
Alignment explanation
Indices: 2095211--2095350 Score: 148
Period size: 37 Copynumber: 3.9 Consensus size: 37
2095201 GAAACCAAAA
2095211 TCGCATTGCGATTTTCATTTCGCGTTGCGA-TTTCATT
1 TCGCATTGCGA-TTTCATTTCGCGTTGCGATTTTCATT
*
2095248 TCGCATTGCGA-TT--TGT--CGTTGCGATTTTCATT
1 TCGCATTGCGATTTCATTTCGCGTTGCGATTTTCATT
* ** **
2095280 TCGCGTTGCGATTTGGTTTCGCGTTGCGATTTTGGTT
1 TCGCATTGCGATTTCATTTCGCGTTGCGATTTTCATT
* *
2095317 TCTCGTTGCGATTCTCATTTCGCGTTGCGATTTT
1 TCGCATTGCGATT-TCATTTCGCGTTGCGATTTT
2095351 AAGTTTCGTG
Statistics
Matches: 88, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
31 8 0.09
32 17 0.19
33 4 0.05
35 4 0.05
37 37 0.42
38 18 0.20
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.46
Consensus pattern (37 bp):
TCGCATTGCGATTTCATTTCGCGTTGCGATTTTCATT
Found at i:2095282 original size:32 final size:31
Alignment explanation
Indices: 2095233--2095294 Score: 106
Period size: 32 Copynumber: 2.0 Consensus size: 31
2095223 TTTCATTTCG
2095233 CGTTGCGATTTCATTTCGCATTGCGATTTGT
1 CGTTGCGATTTCATTTCGCATTGCGATTTGT
*
2095264 CGTTGCGATTTTCATTTCGCGTTGCGATTTG
1 CGTTGCGA-TTTCATTTCGCATTGCGATTTG
2095295 GTTTCGCGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 8 0.28
32 21 0.72
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.45
Consensus pattern (31 bp):
CGTTGCGATTTCATTTCGCATTGCGATTTGT
Found at i:2095291 original size:50 final size:53
Alignment explanation
Indices: 2095216--2095349 Score: 184
Period size: 50 Copynumber: 2.5 Consensus size: 53
2095206 CAAAATCGCA
2095216 TTGCGATTTTCATTTCGCGTTGCGATTTCATTTCGCATTGCGA-TTT-G-TCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTCATTTCGCATTGCGATTTTGGTTCG
** *
2095266 TTGCGATTTTCATTTCGCGTTGCGATTTGGTTTCGCGTTGCGATTTTGGTTTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTCATTTCGCATTGCGATTTTGG--T-TCG
*
2095322 TTGCGATTCTCATTTCGCGTTGCGATTT
1 TTGCGATTTTCATTTCGCGTTGCGATTT
2095350 TAAGTTTCGT
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
50 40 0.54
51 3 0.04
52 1 0.01
56 30 0.41
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (53 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTCATTTCGCATTGCGATTTTGGTTCG
Found at i:2097281 original size:14 final size:14
Alignment explanation
Indices: 2097262--2097298 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2097252 TGATTGTTTA
2097262 ATGATTTGTAAAAG
1 ATGATTTGTAAAAG
2097276 ATGATTTGTAAAAG
1 ATGATTTGTAAAAG
*
2097290 TTGATTTGT
1 ATGATTTGT
2097299 GTAATTGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (14 bp):
ATGATTTGTAAAAG
Found at i:2097465 original size:20 final size:19
Alignment explanation
Indices: 2097388--2097477 Score: 127
Period size: 19 Copynumber: 4.9 Consensus size: 19
2097378 GCATTATGTT
2097388 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
2097407 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAATGC
*
2097424 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
2097440 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
2097459 TGAAATGAAAATCGCAATG
1 -GAAATGAAAATCGCAATG
2097478 AGAGAATCGC
Statistics
Matches: 63, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
14 10 0.16
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 29 0.46
20 18 0.29
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:2097507 original size:53 final size:52
Alignment explanation
Indices: 2097388--2097494 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 52
2097378 GCATTATGTT
2097388 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC
*
2097440 GAAATGAAAATCGCAATGCTGAAATGAAAATCGCAATGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGC
2097493 GA
1 GA
2097495 TTTTCATTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 19 0.36
53 34 0.64
ACGTcount: A:0.46, C:0.16, G:0.23, T:0.15
Consensus pattern (52 bp):
GAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:2097512 original size:19 final size:19
Alignment explanation
Indices: 2097484--2097724 Score: 240
Period size: 19 Copynumber: 13.7 Consensus size: 19
2097474 AATGAGAGAA
*
2097484 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2097503 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2097522 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
2097539 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2097556 TCGTATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2097575 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
2097591 TCG--TTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
2097607 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
2097626 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
2097643 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2097660 TCGCATTGCGATTTTCA-T
1 TCGCATTGCGATTTTCATT
2097678 TCAGCATTGCGATTTTC--T
1 TC-GCATTGCGATTTTCATT
2097696 T-G--TTG-GAATTTTCATT
1 TCGCATTGCG-ATTTTCATT
2097712 TCGCATTGCGATT
1 TCGCATTGCGATT
2097725 CTCTCGTTGC
Statistics
Matches: 189, Mismatches: 8, Indels: 50
0.77 0.03 0.20
Matches are distributed among these distances:
13 1 0.01
14 27 0.14
15 3 0.02
16 21 0.11
17 16 0.08
18 17 0.09
19 83 0.44
20 21 0.11
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2097598 original size:33 final size:33
Alignment explanation
Indices: 2097561--2097737 Score: 141
Period size: 33 Copynumber: 5.2 Consensus size: 33
2097551 TCATTTCGTA
2097561 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
2097594 TTGCGA-TTTCATTTCGCATTGCGATTTTCATTTCCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCT-CG
* * * * *
2097630 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
* *
2097665 TTGCGATTTTCA-TTCAGCATTGCGATTTTCTTG
1 TTGCGATTTTCATTTC-GCATTGCGATTCTCTCG
2097698 TTG-GAATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCG-ATTTTCATTTCGCATTGCGATTCTCTCG
2097731 TTGCGAT
1 TTGCGAT
2097738 GTAATTTCCG
Statistics
Matches: 112, Mismatches: 15, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
30 2 0.02
31 6 0.05
32 24 0.21
33 46 0.41
34 7 0.06
35 3 0.03
36 3 0.03
38 8 0.07
39 1 0.01
40 3 0.03
41 9 0.08
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:2097602 original size:52 final size:53
Alignment explanation
Indices: 2097490--2097724 Score: 397
Period size: 52 Copynumber: 4.5 Consensus size: 53
2097480 AGAATCGCAA
2097490 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
*
2097543 TGCGATTTTCATTTCGTATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
2097595 TGCGA-TTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
* * *
2097647 TGCGATTTTCATTTCGCATTGCGATTTTCA-TTCAGCATTGCGATTTTCTTGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
2097699 TG-GAATTTTCATTTCGCATTGCGATT
1 TGCG-ATTTTCATTTCGCATTGCGATT
2097725 CTCTCGTTGC
Statistics
Matches: 174, Mismatches: 5, Indels: 7
0.94 0.03 0.04
Matches are distributed among these distances:
51 27 0.16
52 91 0.52
53 56 0.32
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (53 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
Found at i:2097650 original size:85 final size:83
Alignment explanation
Indices: 2097561--2097737 Score: 229
Period size: 85 Copynumber: 2.1 Consensus size: 83
2097551 TCATTTCGTA
2097561 TTGCGATTTTCATTTCGCATTGCGATTCTC-TC-G-TTGCGA-TTTCATTTCGCATTGCG-ATTT
1 TTGCGATTTTCATTTCGCATTGCGATTCTCATCAGATTGCGATTTTC--TT-G--TTG-GAATTT
2097621 TCATTTCCGCATTGCGATTCTCTCG
60 TCATTT-CGCATTGCGATTCTCTCG
*
2097646 TTGCGATTTTCATTTCGCATTGCGATTTTCATTCAGCATTGCGATTTTCTTGTTGGAATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTCTCA-TCAG-ATTGCGATTTTCTTGTTGGAATTTTCAT
2097711 TTCGCATTGCGATTCTCTCG
64 TTCGCATTGCGATTCTCTCG
2097731 TTGCGAT
1 TTGCGAT
2097738 GTAATTTCCG
Statistics
Matches: 84, Mismatches: 1, Indels: 14
0.85 0.01 0.14
Matches are distributed among these distances:
85 55 0.65
86 13 0.15
87 2 0.02
88 2 0.02
89 2 0.02
90 6 0.07
91 4 0.05
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (83 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCATCAGATTGCGATTTTCTTGTTGGAATTTTCATTT
CGCATTGCGATTCTCTCG
Found at i:2100026 original size:12 final size:12
Alignment explanation
Indices: 2100009--2100033 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2099999 TCTTCGGGGA
2100009 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2100021 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2100033 C
1 C
2100034 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2100242 original size:24 final size:24
Alignment explanation
Indices: 2100208--2100254 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2100198 CTGAAACATC
2100208 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
2100232 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
2100255 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:2100971 original size:20 final size:20
Alignment explanation
Indices: 2100943--2101131 Score: 202
Period size: 20 Copynumber: 9.4 Consensus size: 20
2100933 AAATTTCAGT
* * * *
2100943 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2100963 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2100983 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2101003 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2101023 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
2101043 GTTGCTATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
2101063 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
2101083 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
2101103 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
2101123 GTTGCGATT
1 GTTGCGATT
2101132 CTGAAAATCG
Statistics
Matches: 145, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
19 2 0.01
20 141 0.97
21 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:2101142 original size:20 final size:20
Alignment explanation
Indices: 2101099--2101255 Score: 84
Period size: 20 Copynumber: 7.8 Consensus size: 20
2101089 ATTTATGTGT
* * *
2101099 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTGAAAA
*
2101119 TCGCGTTGCGATTCTGAAAA
1 TCGCGTTGCGATTTTGAAAA
** * **
2101139 TCGCAATGCGAATTTGTACTA
1 TCGCGTTGCGATTTTG-AAAA
* *
2101160 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTGAA-AA
*
2101181 TCGCGTTGCGATTTTGGAAA
1 TCGCGTTGCGATTTTGAAAA
** * ***
2101201 -CTGATTTGCGATTCTGGGGA
1 TC-GCGTTGCGATTTTGAAAA
* **
2101221 TCGCGTTGCGATTTT-TATT
1 TCGCGTTGCGATTTTGAAAA
2101240 TCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTG
2101256 TTGGTCATTT
Statistics
Matches: 102, Mismatches: 30, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
19 16 0.16
20 54 0.53
21 32 0.31
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTGAAAA
Found at i:2101763 original size:8 final size:8
Alignment explanation
Indices: 2101750--2101789 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
2101740 ATAGAGTTAT
2101750 TTTTATAA
1 TTTTATAA
2101758 TTTTATAA
1 TTTTATAA
2101766 TTTTTTATAA
1 --TTTTATAA
2101776 TTTTATAA
1 TTTTATAA
*
2101784 ATTTAT
1 TTTTAT
2101790 CCCATAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 21 0.72
10 8 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTTATAA
Found at i:2101772 original size:18 final size:18
Alignment explanation
Indices: 2101749--2101783 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2101739 TATAGAGTTA
2101749 TTTTTATAATTTTATAAT
1 TTTTTATAATTTTATAAT
2101767 TTTTTATAATTTTATAA
1 TTTTTATAATTTTATAA
2101784 ATTTATCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTATAATTTTATAAT
Found at i:2108600 original size:49 final size:50
Alignment explanation
Indices: 2108546--2108649 Score: 140
Period size: 50 Copynumber: 2.1 Consensus size: 50
2108536 GTAGCAGTAA
* *
2108546 AGCGCG-CCCCTGAATCGC-ATTATACGCTGATTTGACACCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGA-TATACGCTGATCTGACACCACGTGGGTAT
* * *
2108595 AGCGCGCCCCCTGACCCGCGATATACGGTGATCTGACGCCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGATATACGCTGATCTGACACCACGTGGGTAT
2108645 AGCGC
1 AGCGC
2108650 ATCTCCTGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
49 6 0.12
50 41 0.85
51 1 0.02
ACGTcount: A:0.20, C:0.32, G:0.28, T:0.20
Consensus pattern (50 bp):
AGCGCGCCCCCTGAACCGCGATATACGCTGATCTGACACCACGTGGGTAT
Found at i:2108658 original size:50 final size:49
Alignment explanation
Indices: 2108566--2108698 Score: 137
Period size: 50 Copynumber: 2.7 Consensus size: 49
2108556 TGAATCGCAT
* * *
2108566 TATACGCTGATTTGACACCACGTGGGTATAGCGCGCCCCCTGACCCGCGA
1 TATACGGTGATCTGAC-CCACGTGGGTATAGCGCACCCCCTGACCCGCGA
* * * *
2108616 TATACGGTGATCTGACGCCACGTGGGTATAGCGCATCTCCTGATCCGCGC
1 TATACGGTGATCTGAC-CCACGTGGGTATAGCGCACCCCCTGACCCGCGA
2108666 TATACCAGG-GTATCTGA--CACGTGGGTATAGCGC
1 TATA-C-GGTG-ATCTGACCCACGTGGGTATAGCGC
2108699 GGTGCAGGGG
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
49 16 0.22
50 46 0.64
51 2 0.03
52 8 0.11
ACGTcount: A:0.20, C:0.29, G:0.28, T:0.23
Consensus pattern (49 bp):
TATACGGTGATCTGACCCACGTGGGTATAGCGCACCCCCTGACCCGCGA
Found at i:2108807 original size:10 final size:10
Alignment explanation
Indices: 2108792--2108831 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
2108782 ATTATCACAC
2108792 CAAATTCTCT
1 CAAATTCTCT
2108802 CAAATTCTCT
1 CAAATTCTCT
2108812 -AAATTTCTCT
1 CAAA-TTCTCT
*
2108822 CAAATACTCT
1 CAAATTCTCT
2108832 ATCTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 21 0.78
11 3 0.11
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:2109151 original size:111 final size:111
Alignment explanation
Indices: 2108957--2109178 Score: 417
Period size: 111 Copynumber: 2.0 Consensus size: 111
2108947 TGGAAATCAT
* *
2108957 ATATCTCTATACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
2109022 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
2109068 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
2109133 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
2109179 TTTTTGTAAT
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 108 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:2114645 original size:24 final size:24
Alignment explanation
Indices: 2114618--2114668 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
2114608 TATTTTTGCT
2114618 TTTATAAAA-TTAAAAACAAATAAA
1 TTTA-AAAACTTAAAAACAAATAAA
* *
2114642 TTTAAAAACTTTAATACAAATAAA
1 TTTAAAAACTTAAAAACAAATAAA
2114666 TTT
1 TTT
2114669 TCACCCACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (24 bp):
TTTAAAAACTTAAAAACAAATAAA
Found at i:2115099 original size:26 final size:26
Alignment explanation
Indices: 2115049--2115099 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
2115039 ATGTTAGAGG
* *
2115049 GACAAATTTATAAAATTTTAAGGGGA
1 GACAAACTTATAAAATTTCAAGGGGA
*
2115075 GACAAACTTATAAAATTTCAGGGGG
1 GACAAACTTATAAAATTTCAAGGGG
2115100 TGAAAATTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (26 bp):
GACAAACTTATAAAATTTCAAGGGGA
Found at i:2116529 original size:2 final size:2
Alignment explanation
Indices: 2116517--2116554 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
2116507 TTTAGGTTCA
*
2116517 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2116555 AAATAGAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:2117459 original size:24 final size:24
Alignment explanation
Indices: 2117412--2117461 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
2117402 TTTAGTTAGG
* * **
2117412 ACTCTTAGATCAACTAGATCTCTA
1 ACTCATAGATCAACAAGAAATCTA
2117436 ACTCATAGATCAACAAGAAATCTA
1 ACTCATAGATCAACAAGAAATCTA
2117460 AC
1 AC
2117462 ACCTTTTGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (24 bp):
ACTCATAGATCAACAAGAAATCTA
Found at i:2117924 original size:24 final size:24
Alignment explanation
Indices: 2117872--2117927 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
2117862 TAGAAGTTCG
*
2117872 ATTGAAGCCTAAAATTTGAGGTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
*
2117896 ATTGAAGCCTAAAATTTGAGCTTA
1 ATTGAAGCCTAAAATTTGAGCTCA
*
2117920 TTTGAAGC
1 ATTGAAGC
2117928 GAAAGAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (24 bp):
ATTGAAGCCTAAAATTTGAGCTCA
Found at i:2118653 original size:26 final size:26
Alignment explanation
Indices: 2118621--2118673 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
2118611 TGTGTTTGTT
2118621 TTTTATTTAATAGTTTGAAATAAAAA
1 TTTTATTTAATAGTTTGAAATAAAAA
2118647 TTTTATTTAATAGTTTGAAATAAAAA
1 TTTTATTTAATAGTTTGAAATAAAAA
2118673 T
1 T
2118674 CCGGGTACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (26 bp):
TTTTATTTAATAGTTTGAAATAAAAA
Found at i:2118710 original size:17 final size:15
Alignment explanation
Indices: 2118672--2118711 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
2118662 TGAAATAAAA
2118672 ATCCGGGTACCCGAC
1 ATCCGGGTACCCGAC
*
2118687 ATACGGGTACCCGTAAC
1 ATCCGGGTACCCG--AC
2118704 ATCCGGGT
1 ATCCGGGT
2118712 CAGGACACGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 12 0.57
17 9 0.43
ACGTcount: A:0.23, C:0.33, G:0.28, T:0.17
Consensus pattern (15 bp):
ATCCGGGTACCCGAC
Found at i:2119261 original size:22 final size:22
Alignment explanation
Indices: 2119236--2119310 Score: 123
Period size: 22 Copynumber: 3.4 Consensus size: 22
2119226 GAGTACCATA
*
2119236 AATGTTAAAGGTATGAGCGTTT
1 AATGTCAAAGGTATGAGCGTTT
*
2119258 AATGTCAAAGGTATGAGCTTTT
1 AATGTCAAAGGTATGAGCGTTT
*
2119280 AATGTCAAAAGTATGAGCGTTT
1 AATGTCAAAGGTATGAGCGTTT
2119302 AATGTCAAA
1 AATGTCAAA
2119311 TGATTAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (22 bp):
AATGTCAAAGGTATGAGCGTTT
Found at i:2119874 original size:82 final size:81
Alignment explanation
Indices: 2119608--2119877 Score: 244
Period size: 82 Copynumber: 3.3 Consensus size: 81
2119598 ATTTAGTGAT
* * * * * *
2119608 GTTTTTATACAAACACCGCAATAGGATTAATCTATAGTGCG-TTTTTTCAATAAACGCCGCAACA
1 GTTTTTAAACAAACGCCGCAATAGGGTTAATCTATAGTG-GTTTTTTTCAACAAATGCCGCAATA
*
2119672 AAGTAGTAC-TTAGCGGC
65 GAGTAGTACTTTAGC-GC
* * * * * * *
2119689 GTTGTTATACAAACGACGTAATAGGGTTAATATATAGTGGCCTTTTTTTTCAACAAATACCACAA
1 GTTTTTAAACAAACGCCGCAATAGGGTTAATCTATAGTGG---TTTTTTTCAACAAATGCCGCAA
*
2119754 TAGAGTAGTACTTTTGCGAC
63 TAGAGTAGTACTTTAGCG-C
* * *
2119774 -TTTTGTATAA-AAATGCCGCAATAGGGTT-ATCTATAGTGGTATTTTTTCAACAAATGTCGTAA
1 GTTTT-TA-AACAAACGCCGCAATAGGGTTAATCTATAGTGGT-TTTTTTCAACAAATGCCGCAA
*
2119836 TAGAGTAGTACTTTAACAGC
63 TAGAGTAGTACTTTAGC-GC
2119856 GTTTTTAAACAAACGCCGCAAT
1 GTTTTTAAACAAACGCCGCAAT
2119878 GAGTAAAATG
Statistics
Matches: 151, Mismatches: 26, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
80 1 0.01
81 36 0.24
82 46 0.30
83 5 0.03
84 40 0.26
85 22 0.15
86 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (81 bp):
GTTTTTAAACAAACGCCGCAATAGGGTTAATCTATAGTGGTTTTTTTCAACAAATGCCGCAATAG
AGTAGTACTTTAGCGC
Found at i:2124097 original size:21 final size:21
Alignment explanation
Indices: 2124048--2124101 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
2124038 ATTATGAAAT
** *
2124048 TCAAGTTGGTTGTTATGGATT
1 TCAAGTTTATTGTTATGGATG
2124069 TCAAGTTTATTGTTATGGATG
1 TCAAGTTTATTGTTATGGATG
*
2124090 TCATGTTTATTG
1 TCAAGTTTATTG
2124102 GATAATGCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.06, G:0.24, T:0.50
Consensus pattern (21 bp):
TCAAGTTTATTGTTATGGATG
Found at i:2129165 original size:12 final size:12
Alignment explanation
Indices: 2129148--2129172 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2129138 AATACACAGT
2129148 AACAACAACAAA
1 AACAACAACAAA
2129160 AACAACAACAAA
1 AACAACAACAAA
2129172 A
1 A
2129173 CCCTGATTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (12 bp):
AACAACAACAAA
Done.