Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 79 of 89
Found at i:19008759 original size:44 final size:44
Alignment explanation
Indices: 19008708--19008884 Score: 273
Period size: 44 Copynumber: 4.0 Consensus size: 44
19008698 TGCTATCAAA
*
19008708 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAAAAAGGTGCC
* * * *
19008752 CTAAATGAAAATGCATAACGGAGCATTTTTGGCAAAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAAAAAGGTGCC
* * *
19008796 ATAAATGAAAATGCATAACGATTCATTATTGGCAAAAAGGTTCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAAAAAGGTGCC
*
19008840 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAAAAAGGTGCC
19008884 A
1 A
19008885 CTCATGGTAT
Statistics
Matches: 117, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 117 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.24
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAAAAAGGTGCC
Found at i:19017045 original size:3 final size:3
Alignment explanation
Indices: 19017037--19017061 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
19017027 CCCATCACTG
19017037 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
19017062 AACCCAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:19021989 original size:19 final size:20
Alignment explanation
Indices: 19021944--19022010 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 20
19021934 TGAATCATGG
* *
19021944 TAATATTAATTTCGATACAT
1 TAATTTTAATTTTGATACAT
*
19021964 AAATTTTAATTTTGAT-CAT
1 TAATTTTAATTTTGATACAT
** *
19021983 TAATTTTAAAATTGATGC-T
1 TAATTTTAATTTTGATACAT
19022002 TAATTTTAA
1 TAATTTTAA
19022011 CTTGTTATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 26 0.65
20 14 0.35
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (20 bp):
TAATTTTAATTTTGATACAT
Found at i:19023936 original size:13 final size:13
Alignment explanation
Indices: 19023885--19023935 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
19023875 ATCTATGATG
19023885 CACATTTATGACA
1 CACATTTATGACA
*
19023898 CGCATTTATGACA
1 CACATTTATGACA
*
19023911 CACATTTATGACG
1 CACATTTATGACA
*
19023924 CTCATTTATGAC
1 CACATTTATGAC
19023936 GTGCATTGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (13 bp):
CACATTTATGACA
Found at i:19023942 original size:26 final size:26
Alignment explanation
Indices: 19023885--19023935 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
19023875 ATCTATGATG
19023885 CACATTTATGACACGCATTTATGACA
1 CACATTTATGACACGCATTTATGACA
* *
19023911 CACATTTATGACGCTCATTTATGAC
1 CACATTTATGACACGCATTTATGAC
19023936 GTGCATTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (26 bp):
CACATTTATGACACGCATTTATGACA
Found at i:19024075 original size:84 final size:84
Alignment explanation
Indices: 19023947--19024126 Score: 333
Period size: 84 Copynumber: 2.1 Consensus size: 84
19023937 TGCATTGAGC
19023947 GTCATTGAAGCCCCCGTCATAAATGAAGATGACACACATTTGTGTGTCATAAATTTATGACACGC
1 GTCATTGAAG-CCCCGTCATAAATGAAGATGACACACATTTGTGTGTCATAAATTTATGACACGC
* *
19024012 ATGTATGACTTACATTGCTT
65 ATGTATAACTTACATTGCGT
19024032 GTCATTGAAGCCCCGTCATAAATGAAGATGACACACATTTGTGTGTCATAAATTTATGACACGCA
1 GTCATTGAAGCCCCGTCATAAATGAAGATGACACACATTTGTGTGTCATAAATTTATGACACGCA
19024097 TGTATAACTTACATTGCGT
66 TGTATAACTTACATTGCGT
19024116 GTCATTGAAGC
1 GTCATTGAAGC
19024127 ACACAAATTG
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
84 83 0.89
85 10 0.11
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (84 bp):
GTCATTGAAGCCCCGTCATAAATGAAGATGACACACATTTGTGTGTCATAAATTTATGACACGCA
TGTATAACTTACATTGCGT
Found at i:19025633 original size:16 final size:16
Alignment explanation
Indices: 19025612--19025642 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19025602 GGACTGATGC
19025612 AAAGAGAAAAAGGGAA
1 AAAGAGAAAAAGGGAA
*
19025628 AAAGAGAAAGAGGGA
1 AAAGAGAAAAAGGGA
19025643 GGAAGCAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (16 bp):
AAAGAGAAAAAGGGAA
Found at i:19026273 original size:14 final size:14
Alignment explanation
Indices: 19026254--19026330 Score: 59
Period size: 14 Copynumber: 5.4 Consensus size: 14
19026244 AGTTCGGTAA
19026254 TATGTTCATTCATT
1 TATGTTCATTCATT
*
19026268 TATGTTCATTTATT
1 TATGTTCATTCATT
* *
19026282 T-CGTTCATTTATGT
1 TATGTTCATTCAT-T
* *
19026296 T-TGTTTATGTTCGTT
1 TATGTTCA--TTCATT
*
19026311 TATGTGCATTCATT
1 TATGTTCATTCATT
19026325 TATGTT
1 TATGTT
19026331 TAGCCCAATC
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
13 10 0.20
14 30 0.61
15 2 0.04
16 7 0.14
ACGTcount: A:0.17, C:0.10, G:0.13, T:0.60
Consensus pattern (14 bp):
TATGTTCATTCATT
Found at i:19026277 original size:10 final size:10
Alignment explanation
Indices: 19026262--19026320 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
19026252 AATATGTTCA
19026262 TTCATTTATG
1 TTCATTTATG
19026272 TTCATTTATTTCG
1 TTCATTTA--T-G
19026285 TTCATTTATG
1 TTCATTTATG
**
19026295 TTTGTTTATG
1 TTCATTTATG
*
19026305 TTCGTTTATG
1 TTCATTTATG
*
19026315 TGCATT
1 TTCATT
19026321 CATTTATGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
10 30 0.73
11 1 0.02
12 1 0.02
13 9 0.22
ACGTcount: A:0.15, C:0.10, G:0.14, T:0.61
Consensus pattern (10 bp):
TTCATTTATG
Found at i:19026288 original size:23 final size:24
Alignment explanation
Indices: 19026254--19026310 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
19026244 AGTTCGGTAA
*
19026254 TATGTTCATTCATTTATGTTCATT
1 TATGTTCGTTCATTTATGTTCATT
**
19026278 TAT-TTCGTTCATTTATGTTTGTT
1 TATGTTCGTTCATTTATGTTCATT
19026301 TATGTTCGTT
1 TATGTTCGTT
19026311 TATGTGCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.16, C:0.11, G:0.12, T:0.61
Consensus pattern (24 bp):
TATGTTCGTTCATTTATGTTCATT
Found at i:19048807 original size:23 final size:23
Alignment explanation
Indices: 19048772--19048831 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
19048762 ATCAAGTACA
* * *
19048772 ATAACATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCGTAT
19048795 ATAATATAATAGGTAGCGCGTAT
1 ATAATATAATAGGTAGCGCGTAT
*
19048818 ATAATAAAATAGGT
1 ATAATATAATAGGT
19048832 TAATTATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCGTAT
Found at i:19048986 original size:23 final size:23
Alignment explanation
Indices: 19048946--19048989 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
19048936 TATTGGATAG
**
19048946 CGCTTATAAAATGTAATAGGTAA
1 CGCTTATAAAATAAAATAGGTAA
*
19048969 CGCTTATATAATAAAATAGGT
1 CGCTTATAAAATAAAATAGGT
19048990 TAATTACTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (23 bp):
CGCTTATAAAATAAAATAGGTAA
Found at i:19049041 original size:158 final size:158
Alignment explanation
Indices: 19048761--19049124 Score: 577
Period size: 158 Copynumber: 2.3 Consensus size: 158
19048751 CCGGAAATAT
* * *
19048761 TATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAATAGGTAGCGCGTATATAATAAA
1 TATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAACGCGTATATAATAAA
* *
19048826 ATAGGTTAATTATTTAATTTGTTATTACAACATATTAGGTAAATGCCTAAAATGTTACCAAGGAT
66 ATAGGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAAGGAT
*
19048891 AACATAACTAGTTAATTACTGGAAACAC
131 AACATAACTAGTCAATTACTGGAAACAC
* *
19048919 TATCAAGCACAATAACATATT-GGATAGCGCTTATAAAATGTAATAGGTAACGCTTATATAATAA
1 TATCAAGCACAATAACATATTAGG-TAGCGCTTATATAATGTAATAGGTAACGCGTATATAATAA
*
19048983 AATAGGTTAATTACTTAATTTGTTATTACAATATATTAGGTAAACGCCTAAAATGTTACCAAGGA
65 AATAGGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAAGGA
* *
19049048 TAACATAACTGGTCAATTACTGGAAACAT
130 TAACATAACTAGTCAATTACTGGAAACAC
* * * *
19049077 TATCAAGCATAATAACATATTAGGTAGAGCTTATGTAACGTAATAGGT
1 TATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
19049125 TGCGCATTAT
Statistics
Matches: 188, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
157 2 0.01
158 184 0.98
159 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (158 bp):
TATCAAGCACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAACGCGTATATAATAAA
ATAGGTTAATTACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAAGGAT
AACATAACTAGTCAATTACTGGAAACAC
Found at i:19049759 original size:198 final size:197
Alignment explanation
Indices: 19049352--19050115 Score: 951
Period size: 199 Copynumber: 3.8 Consensus size: 197
19049342 CGTAATTTAA
* * * * ** *
19049352 AAAAATATCGATACAAATTTAAAACGTATTAATACATTATGTTGACATATTTTCTAATTAAACCG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATT-AACCG
* *
19049417 GTATATTTCTACCTGTTACATTGTAAATTTACCTTATACATTATGATTATGGGTTTCGATGTTTT
65 GTATATTTCTACCGGTTACATTGTAAATTTACCTTATACATTATAATTATGGGTTTCGATGTTTT
* * * * *
19049482 TGGGATCGATACTTTTAATAAAGGTATCGACACTTTATGCTTGCACCTCGTTTGACATTCATTCT
130 TGGGATCGATACTTTT-ATAAATGTATCAACACTTTATGCGTGCACCTCGTTGGGCATTCATTCT
19049547 GGAC
194 GGAC
* *
19049551 AAAAGTATCGACAC-AATTTAAAAATGTATCGATACATTATGTTGACCTATTCTCTAATTAACCG
1 AAAAGTATCGACACAAATTTAAAAA-GTGTCGATACATTATGTTGACCTATTTTCTAATTAACCG
* * * *
19049615 GTATATTTCTACCAGTTACATTATAAATTAACC-TATTACATTATAATTATCGGTTTCGATGTTT
65 GTATATTTCTACCGGTTACATTGTAAATTTACCTTA-TACATTATAATTATGGGTTTCGATGTTT
* ** * *
19049679 TTTGGATCGATACAAATT-TAAATGTATCTACACTTTATACGTGCACCTCGTTGGGCATTCATTC
129 TTGGGATCGATAC-TTTTATAAATGTATCAACACTTTATGCGTGCACCTCGTTGGGCATTCATTC
19049743 TGGAC
193 TGGAC
* * * * *
19049748 AAAACGTATCGACACAAATTTTAAAAGTGTCGATACATTATGTAGACTTATTTTCTCATAAAACC
1 AAAA-GTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAAT-TAACC
* *
19049813 GGTATATTTGTACCGGTTACATTGTAAATTTACCTTATACATTATAATTATGTGTTTCGATGTTT
64 GGTATATTTCTACCGGTTACATTGTAAATTTACCTTATACATTATAATTATGGGTTTCGATGTTT
* * * * *
19049878 TTGTGATCGATACTTTTAATAAATGTATCAACACTTTATGTGTGCACCTAGTTTTTTGTTG-TTG
129 TTGGGATCGATACTTTT-ATAAATGTATCAACACTTTATGCGTGCACCTCG----TTG-GGCAT-
*
19049942 TACATTCTAGAC
187 T-CATTCTGGAC
* * * * *
19049954 AAAAATATCAACACAAATTTAGAAAGTGTCAATACATTATGTTGATCTATTTTCTAATTAACCGG
1 AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGG
*
19050019 TTTATTTCTACCGGTTACATTGTAAATTTACCTTATACATTATAATTATGGGTTTCGATGTTTTT
66 TATATTTCTACCGGTTACATTGTAAATTTACCTTATACATTATAATTATGGGTTTCGATGTTTTT
*
19050084 GGGATCGATACTTTTAATAAATGTATCGACAC
131 GGGATCGATACTTTT-ATAAATGTATCAACAC
19050116 AAATTTTAAA
Statistics
Matches: 489, Mismatches: 60, Indels: 27
0.85 0.10 0.05
Matches are distributed among these distances:
197 51 0.10
198 122 0.25
199 124 0.25
200 30 0.06
204 102 0.21
205 47 0.10
206 13 0.03
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (197 bp):
AAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAACCGG
TATATTTCTACCGGTTACATTGTAAATTTACCTTATACATTATAATTATGGGTTTCGATGTTTTT
GGGATCGATACTTTTATAAATGTATCAACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGG
AC
Found at i:19050200 original size:149 final size:147
Alignment explanation
Indices: 19049959--19050263 Score: 436
Period size: 149 Copynumber: 2.1 Consensus size: 147
19049949 TAGACAAAAA
* * * ** * * *
19049959 TATCAACACAAATTTAGAAAGTGTCAATACATTATGTTGATCTATTTTCTAATTAACCGGTTTAT
1 TATCGACACAAATTTAGAAAATGTCAATACATTATCTACACCTATTTTCTAATAAACCGGTATAT
*
19050024 TTCTACCGGTTACATTGTAAATTTACCT-TATACATTATAATTATGGGTTTCGATGTTTTTGGGA
66 TTCTACCGGTTACATTGTAAATTTACCTAT-TACATTATAATTATAGGTTTCGATGTTTTTGGGA
*
19050088 TCGATAC-TTTTAATAAATG
130 TCGATACAATTT--TAAATG
* *
19050107 TATCGACACAAATTTTA-AAAATGTCGATACATTATCTACACCTATTTTCTCATAAAACCGGTAT
1 TATCGACACAAA-TTTAGAAAATGTCAATACATTATCTACACCTATTTTCTAAT-AAACCGGTAT
19050171 ATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTTTTGGG
64 ATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTTTTGGG
19050236 ATCGATACAATTTTAAATG
129 ATCGATACAATTTTAAATG
19050255 TATCGACAC
1 TATCGACAC
19050264 TCTATGTGTG
Statistics
Matches: 141, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
148 55 0.39
149 82 0.58
150 4 0.03
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (147 bp):
TATCGACACAAATTTAGAAAATGTCAATACATTATCTACACCTATTTTCTAATAAACCGGTATAT
TTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTTTTGGGAT
CGATACAATTTTAAATG
Found at i:19050446 original size:199 final size:199
Alignment explanation
Indices: 19050106--19050473 Score: 585
Period size: 199 Copynumber: 1.8 Consensus size: 199
19050096 TTTAATAAAT
**
19050106 GTATCGACACAAATTTTAAAAATGTCGATACATTATCTACACCTATTTTCTCATAAAACCGGTAT
1 GTATCGACACAAATTTTAAAAATGTCGATACATTATCTACACCTATTTTCTCATAAAACCAATAT
*
19050171 ATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTTTTGGG
66 ATTTCAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTTTTGGG
*
19050236 ATCGATACAATTTTAAATGTATCGACACTCTATGTGTGCACCTCGTTGGGCATTCATTCTGGACA
131 ATCGATACAATTTTAAATGTATCGACACTCTATGCGTGCACCTCGTTGGGCATTCATTCTGGACA
19050301 AAAA
196 AAAA
* * * * *
19050305 GTATCGATATAAA-TTTAGAAAATGTCGATACATTATGTAGACCTATTTTCTCATAAAACTAATA
1 GTATCGACACAAATTTTA-AAAATGTCGATACATTATCTACACCTATTTTCTCATAAAACCAATA
* * *
19050369 TATTTCAACCGGTTACATTGTAAATTTTCCTATTACATTGTAATTATCGGTTTCGATGTTTTTGG
65 TATTTCAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTTTTGG
* * *
19050434 GATCGATACAATTTTATATGTATCTACACTTTATGCGTGC
130 GATCGATACAATTTTAAATGTATCGACACTCTATGCGTGC
19050474 TCATAGTTTG
Statistics
Matches: 153, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
198 4 0.03
199 149 0.97
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (199 bp):
GTATCGACACAAATTTTAAAAATGTCGATACATTATCTACACCTATTTTCTCATAAAACCAATAT
ATTTCAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTTTTGGG
ATCGATACAATTTTAAATGTATCGACACTCTATGCGTGCACCTCGTTGGGCATTCATTCTGGACA
AAAA
Found at i:19052155 original size:24 final size:24
Alignment explanation
Indices: 19052140--19052191 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
19052130 ATTGATATTG
19052140 AAATTCAAACTCAAATTGAAATAT
1 AAATTCAAACTCAAATTGAAATAT
*
19052164 AAATTCAAACTCCAATT-AAATAT
1 AAATTCAAACTCAAATTGAAATAT
19052187 GAAAT
1 -AAAT
19052192 GAACATGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.29
Consensus pattern (24 bp):
AAATTCAAACTCAAATTGAAATAT
Found at i:19055448 original size:199 final size:199
Alignment explanation
Indices: 19055108--19056288 Score: 1736
Period size: 199 Copynumber: 5.9 Consensus size: 199
19055098 CTTAATTTTA
* *
19055108 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATAAATTATGTAAACCTATTTTCTCATAAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
* *
19055173 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATATTT
66 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTT
* * * * *
19055238 TTGGGATCGATACAATTTTAAATGTATTGACACTTTATGCGTGCAACTCGTTGGGCATTCATTCT
131 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTCT
19055303 GGAC
196 GGAC
* *
19055307 AAAAAGTATCGACACAAATTTAGAAAGTGTTGATACATTATGTAGACCTATTTTCTCATAAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
* * *
19055372 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCAATATTT
66 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTT
* *
19055437 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTTTCATTCATTAT
131 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTCT
19055502 GGAC
196 GGAC
* * * * *
19055506 AAAAAGCATCGACACAAATTTAAAAAGTGTCGATATATTTTGTAGACCTATTATCTCATAAAACT
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
* *
19055571 GGTATATTTATACCGGTTACATTGTAAATTTATCTATTACATTGTAATTATCGGTTTCGATATTT
66 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTT
* * * *
19055636 TTAGGATCGATATAATTTTAAATGTATTGACACTTTATGCGTGCACCTAGTTTTTCATTCATTCT
131 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTCT
19055701 GGAC
196 GGAC
* * **
19055705 AAAAAGTATCGACACAAATTTAAAAAGTGTTGATACATTATGAAGACCTATTTTCTCATAAAATT
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
* * **
19055770 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCGATTTCGATGCTT
66 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTT
* *
19055835 TTAGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATT
131 TTGGGATCGATACAATTT--TAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATT
*
19055899 TTGGAC
194 CTGGAC
* * * *
19055905 AAAAAATATCGACCCAAATTTAAAAAGTGTCGATACATTATATAGACCTATTTTCTCATAAAACT
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
* * * * * *
19055970 GATATATTTATACCAGTTACAATGTAAATTTACATATTACATTATAATTATCGGTTTCTATGTTT
66 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTT
* *
19056035 CTGGGATCGATACAATTTTAAATGTATCGACACTATAT-CTGTGCACCTAGTTTGTCATTCATTC
131 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGC-GTGCACCTAGTTTGTCATTCATTC
*
19056099 TGGAT
195 TGGAC
* * ** * * *
19056104 AAAACGCATCGACACAAATTTAAAAAGTGTTTATATATTATGTAGACCTAGTTTCTCATAAAATC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
* * *
19056169 GGTATATTTATACCGGATACAATGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
66 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTT
* * * *
19056234 TTCGGATCGATACAATTTTAAATGTGTCGACACTTTAAGTGTGCACCTAGTTTGT
131 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGT
19056289 AGTTATTGTA
Statistics
Matches: 891, Mismatches: 86, Indels: 10
0.90 0.09 0.01
Matches are distributed among these distances:
198 4 0.00
199 709 0.80
200 175 0.20
201 3 0.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (199 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATATTT
TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCATTCT
GGAC
Found at i:19056243 original size:598 final size:597
Alignment explanation
Indices: 19055108--19056286 Score: 1801
Period size: 598 Copynumber: 2.0 Consensus size: 597
19055098 CTTAATTTTA
19055108 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATAAATTATGTAAACCTATTTTCTCATAAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATAAATTATGTAAACCTATTTTCTCATAAAACC
* * *
19055173 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATATTT
66 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAGATTTCGATACTT
* * *
19055238 TTGGGATCGATACAATTTTAAATGTATTGACACTTTATGCGTGCAACTCGTTGGGCATTCATTCT
131 TTAGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCAACTAGTTGGGCATTCATTCT
* * * *
19055303 GGACAAAAAGTATCGACACAAATTTAGAAAGTGTTGATACATTATGTAGACCTATTTTCTCATAA
196 GGACAAAAAATATCGACACAAATTTAAAAAGTGTCGATACATTATATAGACCTATTTTCTCATAA
* * * * * *
19055368 AACCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCAAT
261 AACCGATATATTTATACCAGTTACAATGTAAATTTACATATTACATTATAATTATCGGTTTCAAT
* * *
19055433 ATTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTAGTTTTTCATTCA
326 ATTTCTGGGATCGATACAATTTTAAATGTATCGACACTATATGCGTGCACCTAGTTTGTCATTCA
*
19055498 TTATGGACAAAAAGCATCGACACAAATTTAAAAAGTGTCGATATATTTTGTAGACCTATTATCTC
391 TTATGGACAAAAAGCATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTATTATCTC
* * * *
19055563 ATAAAACTGGTATATTTATACCGGTTACATTGTAAATTTATCTATTACATTGTAATTATCGGTTT
456 ATAAAACTGGTATATTTATACCGGATACAATGTAAATTTACCTATTACATTATAATTATCGGTTT
* * *
19055628 CGATATTTTTAGGATCGATATAATTTTAAATGTATTGACACTTTATGCGTGCACCTAGTTTTTCA
521 CGATATTTTTAGGATCGATACAATTTTAAATGTATCGACACTTTAAGCGTGCACCTAGTTTTTCA
19055693 TTCATTCTGGAC
586 TTCATTCTGGAC
* * *
19055705 AAAAAGTATCGACACAAATTTAAAAAGTGTTGATACATTATG-AAGACCTATTTTCTCATAAAAT
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATAAATTATGTAA-ACCTATTTTCTCATAAAAC
* * * *
19055769 TGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCGATTTCGATGCT
65 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAGATTTCGATACT
* * * *
19055834 TTTAGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGTCATTCAT
130 TTTAGGATCGATACAATTT--TAAATGTATCGACACTTTATGCGTGCAACTAGTTGGGCATTCAT
* *
19055898 TTTGGACAAAAAATATCGACCCAAATTTAAAAAGTGTCGATACATTATATAGACCTATTTTCTCA
193 TCTGGACAAAAAATATCGACACAAATTTAAAAAGTGTCGATACATTATATAGACCTATTTTCTCA
*
19055963 TAAAACTGATATATTTATACCAGTTACAATGTAAATTTACATATTACATTATAATTATCGGTTTC
258 TAAAACCGATATATTTATACCAGTTACAATGTAAATTTACATATTACATTATAATTATCGGTTTC
* *
19056028 TATGTTTCTGGGATCGATACAATTTTAAATGTATCGACACTATAT-CTGTGCACCTAGTTTGTCA
323 AATATTTCTGGGATCGATACAATTTTAAATGTATCGACACTATATGC-GTGCACCTAGTTTGTCA
* * * **
19056092 TTCATTCTGGATAAAACGCATCGACACAAATTTAAAAAGTGTTTATATATTATGTAGACCTAGTT
387 TTCATTATGGACAAAAAGCATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTA-TT
19056157 -TCTCATAAAA-TCGGTATATTTATACCGGATACAATGTAAATTTACCTATTACATTATAATTAT
451 ATCTCATAAAACT-GGTATATTTATACCGGATACAATGTAAATTTACCTATTACATTATAATTAT
* * * *
19056220 CGGTTTCGATGTTTTTCGGATCGATACAATTTTAAATGTGTCGACACTTTAAGTGTGCACCTAGT
515 CGGTTTCGATATTTTTAGGATCGATACAATTTTAAATGTATCGACACTTTAAGCGTGCACCTAGT
19056285 TT
580 TT
19056287 GTAGTTATTG
Statistics
Matches: 524, Mismatches: 52, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
596 5 0.01
597 131 0.25
598 386 0.74
599 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (597 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATAAATTATGTAAACCTATTTTCTCATAAAACC
GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATAGATTTCGATACTT
TTAGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCAACTAGTTGGGCATTCATTCT
GGACAAAAAATATCGACACAAATTTAAAAAGTGTCGATACATTATATAGACCTATTTTCTCATAA
AACCGATATATTTATACCAGTTACAATGTAAATTTACATATTACATTATAATTATCGGTTTCAAT
ATTTCTGGGATCGATACAATTTTAAATGTATCGACACTATATGCGTGCACCTAGTTTGTCATTCA
TTATGGACAAAAAGCATCGACACAAATTTAAAAAGTGTCGATATATTATGTAGACCTATTATCTC
ATAAAACTGGTATATTTATACCGGATACAATGTAAATTTACCTATTACATTATAATTATCGGTTT
CGATATTTTTAGGATCGATACAATTTTAAATGTATCGACACTTTAAGCGTGCACCTAGTTTTTCA
TTCATTCTGGAC
Found at i:19059778 original size:157 final size:157
Alignment explanation
Indices: 19059487--19059807 Score: 581
Period size: 157 Copynumber: 2.0 Consensus size: 157
19059477 CTTCCTCCTT
*
19059487 ACTTCCTCCATATTTTGTTCTTCATATTTTTTCAATTCATCGTTTTTTTCCTCTACATAGCTCTT
1 ACTTCCTCCATATTTTGTTCTTCATATTTTTTCAATTCATCGTATTTTTCCTCTACATAGCTCTT
19059552 CATCGCATTTATTTCACCCTTCATTTTCCCCCTTCATCCCACTTTTTATCAACCACCCCCTTCAC
66 CATCGCATTTATTTCACCCTTCATTTTCCCCCTTCATCCCACTTTTTATCAACCACCCCCTTCAC
*
19059617 CCCGTAAGTTCACTCCTCAATTCCATA
131 CCCGTAAGTTCACTCCTCAATTCCACA
* *
19059644 ACTTTCTCCATCTTTTGTTCTTCATATTTTTTCAATTCATCGTATTTTTCCTCTACATAGCTCTT
1 ACTTCCTCCATATTTTGTTCTTCATATTTTTTCAATTCATCGTATTTTTCCTCTACATAGCTCTT
*
19059709 CATCGCATTTATTTCACCCTTTATTTT-CCCCTTCATCCCACTTTTTATCAACCACCCCCTTCAC
66 CATCGCATTTATTTCACCCTTCATTTTCCCCCTTCATCCCACTTTTTATCAACCACCCCCTTCAC
19059773 TCCCGTAAGTTCACTCCTCAATTCCACA
131 -CCCGTAAGTTCACTCCTCAATTCCACA
19059801 ACTTCCT
1 ACTTCCT
19059808 TCACCACTCC
Statistics
Matches: 157, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
156 37 0.24
157 120 0.76
ACGTcount: A:0.19, C:0.34, G:0.04, T:0.43
Consensus pattern (157 bp):
ACTTCCTCCATATTTTGTTCTTCATATTTTTTCAATTCATCGTATTTTTCCTCTACATAGCTCTT
CATCGCATTTATTTCACCCTTCATTTTCCCCCTTCATCCCACTTTTTATCAACCACCCCCTTCAC
CCCGTAAGTTCACTCCTCAATTCCACA
Found at i:19062177 original size:183 final size:182
Alignment explanation
Indices: 19061855--19062183 Score: 414
Period size: 183 Copynumber: 1.8 Consensus size: 182
19061845 TTCAAATGCT
* *
19061855 TCTTTTAAATTCTAAAAGTGTTGATACTTATATTAAAGTATCGACACATTCAACATATCCAGTAT
1 TCTTTTAAATTCTAAAAGTGTTGATACTTATATTAAAGAATCGACACATTCAACATATCCAGTAG
** * * * * * *
19061920 CGATTTACCGGTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGG
66 CGATTTACCGGTTTTGTCATAACAAAACCGAGTTTGTAATATTTTTACCTGTTATACTGTTATAG
*
19061985 ATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGTTTC
131 ATAGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGTTTC
* * * * *
19062037 TCTTTTAAATTCTAAAAGTGTCT-ATCCTTAT-TTCAATGGAATCGATACTTTCAACATAT-TAG
1 TCTTTTAAATTCTAAAAGTGT-TGATACTTATATT-AA-AGAATCGACACATTCAACATATCCA-
* * *
19062099 GTAGCGCTTTACCGGTTTTTTCATAACAAAACCG-GTTTGATAATATTTTTACGTGTTATACTGT
62 GTAGCGATTTACCGGTTTTGTCATAACAAAACCGAGTTTG-TAATATTTTTACCTGTTATACTGT
19062163 TATAGATAGATACATTTTTAT
126 TATAGATAGATACATTTTTAT
19062184 TTGTATCGAT
Statistics
Matches: 123, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
181 2 0.02
182 35 0.28
183 86 0.70
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (182 bp):
TCTTTTAAATTCTAAAAGTGTTGATACTTATATTAAAGAATCGACACATTCAACATATCCAGTAG
CGATTTACCGGTTTTGTCATAACAAAACCGAGTTTGTAATATTTTTACCTGTTATACTGTTATAG
ATAGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGTTTC
Found at i:19063121 original size:36 final size:36
Alignment explanation
Indices: 19063050--19063121 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
19063040 TATACTTTTA
*
19063050 ATTTTGTAAAAAAAATTATATAAATATTATGAATTT
1 ATTTTGTAAAAAAAATTATATAAATATTATCAATTT
* * *
19063086 ATTTTTTAAAGAAAA-TATATAAATATTTTACAATTT
1 ATTTTGTAAAAAAAATTATATAAATATTAT-CAATTT
19063122 GTAATATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 13 0.42
36 18 0.58
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (36 bp):
ATTTTGTAAAAAAAATTATATAAATATTATCAATTT
Found at i:19063303 original size:20 final size:20
Alignment explanation
Indices: 19063267--19063304 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19063257 ATCTTATTCC
**
19063267 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
19063287 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
19063305 GTGAATCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:19065969 original size:96 final size:94
Alignment explanation
Indices: 19065855--19066118 Score: 321
Period size: 105 Copynumber: 2.7 Consensus size: 94
19065845 TCAGTCGTTC
*
19065855 ATTTATCTAATTACAATGTATTTTTATCTATCTTGCAATTTAATCTACTTGAATTAAAAAAAATC
1 ATTTATCTAATTTCAATGTATTTTTATCTATCTTGCAATTTAATCTACTTGAATTAAAAAAAATC
19065920 AGAAAAATTACAAAAAAAAATCAGTATATTT
66 AGAAAAATTAC--AAAAAAATCAGTATATTT
* * * *
19065951 ATTTTTCTAATTTTAATGTGTTTTTATCTATCTTGCAAATTAATCTACTTGAATTTAAAAAAATA
1 ATTTATCTAATTTCAATGTATTTTTATCTATCTTGCAATTTAATCTACTTGAA--T-------TA
* *
19066016 TATAAAAAATCAGAAAAATTACAAAAAAATTAGTATGTTT
57 -A-AAAAAATCAGAAAAATTACAAAAAAATCAGTATATTT
* * *
19066056 ATTTATCTACTTTCAATGTATTTTTATTTATCTTGTAATTTAATCTACTTGAATTAAAAAAAA
1 ATTTATCTAATTTCAATGTATTTTTATCTATCTTGCAATTTAATCTACTTGAATTAAAAAAAA
19066119 CGAAATTATA
Statistics
Matches: 143, Mismatches: 14, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
94 6 0.04
95 1 0.01
96 50 0.35
98 1 0.01
103 1 0.01
105 64 0.45
106 1 0.01
107 19 0.13
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (94 bp):
ATTTATCTAATTTCAATGTATTTTTATCTATCTTGCAATTTAATCTACTTGAATTAAAAAAAATC
AGAAAAATTACAAAAAAATCAGTATATTT
Found at i:19071910 original size:8 final size:8
Alignment explanation
Indices: 19071897--19071937 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
19071887 CTCATTTTCA
19071897 GAGAATTT
1 GAGAATTT
19071905 GAGAATTT
1 GAGAATTT
*
19071913 -AGAGTTT
1 GAGAATTT
*
19071920 GGGAATTT
1 GAGAATTT
19071928 GAGAATTT
1 GAGAATTT
19071936 GA
1 GA
19071938 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:19072248 original size:128 final size:128
Alignment explanation
Indices: 19072014--19072380 Score: 646
Period size: 128 Copynumber: 2.9 Consensus size: 128
19072004 GAGTACTATT
* * *
19072014 CACATAAAGGCGCATTCCCGGGGGCGCGCCTTCAATTATTTCGTCAGAGAATATGTTATCATTGC
1 CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGC
* *
19072079 CCTATTATGTCACTCATGTCCCTCGGGGATACTAGATATATCAGTACCTATTATTTCTC-AGGG
66 CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTA-GG
*
19072142 GACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGC
1 CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGC
**
19072207 CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATT
66 CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTAGG
19072270 CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGC
1 CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGC
19072335 CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
66 CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
19072381 AATAAGGTAA
Statistics
Matches: 229, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
128 228 1.00
129 1 0.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (128 bp):
CACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTATCATTGC
CCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTAGG
Found at i:19072842 original size:33 final size:34
Alignment explanation
Indices: 19072781--19072880 Score: 130
Period size: 34 Copynumber: 3.0 Consensus size: 34
19072771 AAATTTAATG
*
19072781 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
19072815 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* *
19072848 TTATATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
19072881 AACATTTATC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 27 0.49
34 28 0.51
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:19073488 original size:21 final size:21
Alignment explanation
Indices: 19073400--19073493 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
19073390 TATGGTATAA
*
19073400 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
19073421 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
19073442 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
19073463 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
19073484 AACCCTGCGG
1 AACCCTGCGG
19073494 AGATGGCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:19073523 original size:21 final size:21
Alignment explanation
Indices: 19073497--19073544 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
19073487 CCTGCGGAGA
*
19073497 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
19073518 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
19073539 GGGCAT
1 TGGCAT
19073545 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:19075248 original size:18 final size:18
Alignment explanation
Indices: 19075218--19075336 Score: 51
Period size: 18 Copynumber: 7.1 Consensus size: 18
19075208 CAAAAAAAAT
*
19075218 TAATAAT-TCTAAATAAA
1 TAATAATATATAAATAAA
19075235 TAATAATATATAAAT--A
1 TAATAATATATAAATAAA
* *
19075251 TTAT-TTA-AT-AA-AAA
1 TAATAATATATAAATAAA
* *
19075265 -AATAATATTTACATAAA
1 TAATAATATATAAATAAA
*
19075282 T-ATATTAATATAAA-AAA
1 TAATAAT-ATATAAATAAA
* *
19075299 TAATAACTATTTAAAAAAA
1 TAATAA-TATATAAATAAA
* * *
19075318 TACTAACATAAAAATAAA
1 TAATAATATATAAATAAA
19075336 T
1 T
19075337 TTCTTACCAC
Statistics
Matches: 73, Mismatches: 17, Indels: 23
0.65 0.15 0.20
Matches are distributed among these distances:
13 4 0.05
14 5 0.07
15 3 0.04
16 5 0.07
17 18 0.25
18 29 0.40
19 9 0.12
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATAATATATAAATAAA
Found at i:19075297 original size:32 final size:33
Alignment explanation
Indices: 19075227--19075304 Score: 99
Period size: 32 Copynumber: 2.4 Consensus size: 33
19075217 TTAATAATTC
*
19075227 TAAATAAATAATAATATATAAATATTATTTAATA
1 TAAA-AAATAATAATACATAAATATTATTTAATA
*
19075261 -AAAAAATAATATTTACATAAATA-TA-TTAATA
1 TAAAAAATAATA-ATACATAAATATTATTTAATA
19075292 TAAAAAATAATAA
1 TAAAAAATAATAA
19075305 CTATTTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
31 6 0.15
32 21 0.54
33 12 0.31
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (33 bp):
TAAAAAATAATAATACATAAATATTATTTAATA
Found at i:19076730 original size:20 final size:20
Alignment explanation
Indices: 19076705--19076744 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
19076695 GTCAAATTGA
19076705 GTCCTTAAATTATTATAAGT
1 GTCCTTAAATTATTATAAGT
*
19076725 GTCCTTAAATTATTGTAAGT
1 GTCCTTAAATTATTATAAGT
19076745 AACCACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
GTCCTTAAATTATTATAAGT
Found at i:19077272 original size:20 final size:20
Alignment explanation
Indices: 19077247--19077296 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
19077237 AAACAGTACT
19077247 ATCGCAACGCGAATAGGAAA
1 ATCGCAACGCGAATAGGAAA
*
19077267 ATCGCAACGCGAATAGTAAA
1 ATCGCAACGCGAATAGGAAA
*
19077287 ATCACAACGC
1 ATCGCAACGC
19077297 TAATTACTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.44, C:0.24, G:0.20, T:0.12
Consensus pattern (20 bp):
ATCGCAACGCGAATAGGAAA
Found at i:19077302 original size:77 final size:77
Alignment explanation
Indices: 19077207--19077353 Score: 258
Period size: 77 Copynumber: 1.9 Consensus size: 77
19077197 CACAGATTCC
* * *
19077207 AAAATCGCAACGCAAATTACTGATATAGGTAAACAGTACTATCGCAACGCGAATAGGAAAATCGC
1 AAAATCACAACGCAAATTACTGATATAAGTAAACAGTACCATCGCAACGCGAATAGGAAAATCGC
19077272 AACGCGAATAGT
66 AACGCGAATAGT
*
19077284 AAAATCACAACGCTAATTACTGATATAAGTAAACAGTACCATCGCAACGCGAATAGGAAAATCGC
1 AAAATCACAACGCAAATTACTGATATAAGTAAACAGTACCATCGCAACGCGAATAGGAAAATCGC
19077349 AACGC
66 AACGC
19077354 AAATTACCGA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 66 1.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (77 bp):
AAAATCACAACGCAAATTACTGATATAAGTAAACAGTACCATCGCAACGCGAATAGGAAAATCGC
AACGCGAATAGT
Found at i:19077663 original size:57 final size:57
Alignment explanation
Indices: 19077545--19077669 Score: 171
Period size: 57 Copynumber: 2.2 Consensus size: 57
19077535 TGAAAATAAT
** **
19077545 GTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAATTCGT
1 GTTGCGATTTTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAATTCAC
* * *
19077602 GTTGCGATTTTACTGTTTACCTATATCGGTAATTAGCGTTGTG-ATTTTACTATTCAC
1 GTTGCGATTTTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGA-AATTCAC
19077659 GTTGCGATTTT
1 GTTGCGATTTT
19077670 CCTATTTGCG
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
56 5 0.08
57 55 0.92
ACGTcount: A:0.22, C:0.14, G:0.21, T:0.43
Consensus pattern (57 bp):
GTTGCGATTTTACTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAATTCAC
Found at i:19077667 original size:20 final size:20
Alignment explanation
Indices: 19077638--19077686 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
19077628 CGGTAATTAG
*
19077638 CGTTGTGATTTTACTATTCA
1 CGTTGCGATTTTACTATTCA
* **
19077658 CGTTGCGATTTTCCTATTTG
1 CGTTGCGATTTTACTATTCA
19077678 CGTTGCGAT
1 CGTTGCGAT
19077687 AGTACTGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.14, C:0.18, G:0.20, T:0.47
Consensus pattern (20 bp):
CGTTGCGATTTTACTATTCA
Found at i:19077708 original size:77 final size:77
Alignment explanation
Indices: 19077602--19077746 Score: 220
Period size: 77 Copynumber: 1.9 Consensus size: 77
19077592 TGAAATTCGT
** * *
19077602 GTTGCGATTTTACTGTTTACCTATATCGGTAATTAGCGTTGTGATTTTAC-TATTCACGTTGCGA
1 GTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGATTTT-CTTATTCACGTTACGA
19077666 TTTTCCTATTTGC
65 TTTTCCTATTTGC
* *
19077679 GTTGCGATAGTACTGTTTACCTATGTCGGTAATTAGCGTTGCGATTTTCTTATTCGCGTTACGAT
1 GTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGATTTTCTTATTCACGTTACGAT
19077744 TTT
66 TTT
19077747 GGAACATGTG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
76 1 0.02
77 60 0.98
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.46
Consensus pattern (77 bp):
GTTGCGATAGTACTGTTTACCTATATCGGTAATTAGCGTTGCGATTTTCTTATTCACGTTACGAT
TTTCCTATTTGC
Found at i:19078098 original size:77 final size:77
Alignment explanation
Indices: 19077960--19078220 Score: 321
Period size: 77 Copynumber: 3.4 Consensus size: 77
19077950 TATAAAAATC
* * * *
19077960 GCGTTGCGAATTTGAAAATCGCATTGAGATAGTACTGTTTATATTGCAATAGTACTT-TTTACCT
1 GCGTTGCGAATTTGAAAATCGCATTGCGATAGTACAGTTTACATTGCGATAGTA-TTGTTTACCT
*
19078024 ATATCGATAATTA
65 ATATCGGTAATTA
* *
19078037 GCGTTGCGAATTTGAAAATCGCATTGCGATAGTACGGTTTACATTGCGATTGTATTGTTTACCTA
1 GCGTTGCGAATTTGAAAATCGCATTGCGATAGTACAGTTTACATTGCGATAGTATTGTTTACCTA
19078102 TATCGGTAATTA
66 TATCGGTAATTA
* * * * ** * *
19078114 TCGTTTCGAATTTGAAAATCGCTTTGCGA-ATTTGA-AAATCACATTGCGATAGTACTGTTTACC
1 GCGTTGCGAATTTGAAAATCGCATTGCGATA-GT-ACAGTTTACATTGCGATAGTATTGTTTACC
19078177 TATATCGGTAATTA
64 TATATCGGTAATTA
* *
19078191 GAGTTGCGAATTTGAAAATCGCTTTGCGAT
1 GCGTTGCGAATTTGAAAATCGCATTGCGAT
19078221 TTCCGAAACT
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
76 3 0.02
77 157 0.98
78 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (77 bp):
GCGTTGCGAATTTGAAAATCGCATTGCGATAGTACAGTTTACATTGCGATAGTATTGTTTACCTA
TATCGGTAATTA
Found at i:19078160 original size:20 final size:20
Alignment explanation
Indices: 19078120--19078162 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
19078110 ATTATCGTTT
* *
19078120 CGAATTTGAAAATCGCTTTG
1 CGAATTTGAAAATCACATTG
19078140 CGAATTTGAAAATCACATTG
1 CGAATTTGAAAATCACATTG
19078160 CGA
1 CGA
19078163 TAGTACTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (20 bp):
CGAATTTGAAAATCACATTG
Found at i:19078378 original size:57 final size:57
Alignment explanation
Indices: 19078310--19078423 Score: 183
Period size: 57 Copynumber: 2.0 Consensus size: 57
19078300 ATTCGCAACA
* * *
19078310 CGATTTTCAAATTCGCAACGATAATTACCGATATAGGTAAACAGTGCTATCTCAATG
1 CGATTTTCAAATTCGCAACGATAATTACCGATATAGGTAAACAATACTATCGCAATG
* *
19078367 CGATTTTCAAATTCGCAATGCTAATTACCGATATAGGTAAACAATACTATCGCAATG
1 CGATTTTCAAATTCGCAACGATAATTACCGATATAGGTAAACAATACTATCGCAATG
19078424 TAAACAGTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (57 bp):
CGATTTTCAAATTCGCAACGATAATTACCGATATAGGTAAACAATACTATCGCAATG
Found at i:19078428 original size:20 final size:20
Alignment explanation
Indices: 19078403--19078444 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
19078393 ACCGATATAG
*
19078403 GTAAACAATACTATCGCAAT
1 GTAAACAATACTATCACAAT
*
19078423 GTAAACAGTACTATCACAAT
1 GTAAACAATACTATCACAAT
19078443 GT
1 GT
19078445 GATTTTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (20 bp):
GTAAACAATACTATCACAAT
Found at i:19078437 original size:77 final size:77
Alignment explanation
Indices: 19078346--19078597 Score: 389
Period size: 77 Copynumber: 3.3 Consensus size: 77
19078336 ACCGATATAG
* *
19078346 GTAAACAGTGCTATCTCAATGCGATTTTCAAATTCGCAATGCTAATTACCGATATAGGTAAACAA
1 GTAAACAGTACTATCTCAATGCGATTTTCAAATTCGCAATGCTAATTACCGATATAGGTAAACAG
19078411 TACTATCGCAAT
66 TACTATCGCAAT
* *
19078423 GTAAACAGTACTATCACAATGTGATTTTCAAATTCGCAATGCTAATTACCGATATAGGTAAACAG
1 GTAAACAGTACTATCTCAATGCGATTTTCAAATTCGCAATGCTAATTACCGATATAGGTAAACAG
*
19078488 TACTATCGAAAT
66 TACTATCGCAAT
* * *
19078500 GTAAACAGTACTAT-TGCAATGCGATTTTCAAATTTGCAATGCTAATTACTGATATAAGTAAACA
1 GTAAACAGTACTATCT-CAATGCGATTTTCAAATTCGCAATGCTAATTACCGATATAGGTAAACA
*
19078564 GTATTATCGCAAT
65 GTACTATCGCAAT
* *
19078577 GTAAACAATACTATCGCAATG
1 GTAAACAGTACTATCTCAATG
19078598 TAAACAGTAC
Statistics
Matches: 159, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 159 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (77 bp):
GTAAACAGTACTATCTCAATGCGATTTTCAAATTCGCAATGCTAATTACCGATATAGGTAAACAG
TACTATCGCAAT
Found at i:19078582 original size:20 final size:20
Alignment explanation
Indices: 19078557--19078620 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
19078547 ACTGATATAA
*
19078557 GTAAACAGTATTATCGCAAT
1 GTAAACAGTACTATCGCAAT
*
19078577 GTAAACAATACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
19078597 GTAAACAGTACTATCGCAAT
1 GTAAACAGTACTATCGCAAT
19078617 GTAA
1 GTAA
19078621 TTTTCAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (20 bp):
GTAAACAGTACTATCGCAAT
Found at i:19079936 original size:14 final size:15
Alignment explanation
Indices: 19079912--19079941 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
19079902 ATACTTATGC
19079912 ATACATTATAAGTAT
1 ATACATTATAAGTAT
19079927 ATAC-TTATAAGTAT
1 ATACATTATAAGTAT
19079941 A
1 A
19079942 CATTATACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (15 bp):
ATACATTATAAGTAT
Found at i:19079954 original size:25 final size:24
Alignment explanation
Indices: 19079900--19079954 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
19079890 ACAATGTACA
*
19079900 TTATACTTATGCATACATTATAAG
1 TTATACTTATGCATACATTATAAC
*
19079924 TATATACTTATAAGTATACATTAT-AC
1 T-TATACTTAT--GCATACATTATAAC
19079950 TTATA
1 TTATA
19079955 ATGTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 13 0.50
26 2 0.08
27 10 0.38
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (24 bp):
TTATACTTATGCATACATTATAAC
Found at i:19079967 original size:19 final size:18
Alignment explanation
Indices: 19079924--19079967 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
19079914 ACATTATAAG
19079924 TATATACTTATAAGTATA
1 TATATACTTATAAGTATA
*
19079942 CATTATACTTATAATGTATA
1 TA-TATACTTATAA-GTATA
19079962 TATATA
1 TATATA
19079968 ATATGTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 15 0.68
20 6 0.27
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (18 bp):
TATATACTTATAAGTATA
Found at i:19080125 original size:14 final size:14
Alignment explanation
Indices: 19080104--19080140 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
19080094 ATAATATACA
19080104 TATATATATGTGTG
1 TATATATATGTGTG
* *
19080118 TGTATATAAGTGTG
1 TATATATATGTGTG
19080132 TATATATAT
1 TATATATAT
19080141 AATATAAAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (14 bp):
TATATATATGTGTG
Found at i:19080153 original size:16 final size:16
Alignment explanation
Indices: 19080134--19080195 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 16
19080124 TAAGTGTGTA
19080134 TATATATAATATAAAG
1 TATATATAATATAAAG
19080150 TATATA-AACTATAAAG
1 TATATATAA-TATAAAG
*
19080166 TATAGGTATAA-ATATA-
1 TATA--TATAATATAAAG
19080182 TATATATATATATA
1 TATATATA-ATATA
19080196 TGATGAATGT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
14 4 0.10
15 3 0.08
16 24 0.62
17 4 0.10
18 2 0.05
19 2 0.05
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATAATATAAAG
Found at i:19080209 original size:20 final size:19
Alignment explanation
Indices: 19080186--19080240 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
19080176 AATATATATA
*
19080186 TATATATATATGATGAATG
1 TATATATATATAATGAATG
*
19080205 T-TATAATAATATAATGCATG
1 TATAT-AT-ATATAATGAATG
19080225 TATATATATTATAATG
1 TATATATA-TATAATG
19080241 TACGTTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
18 3 0.10
19 4 0.13
20 20 0.67
21 3 0.10
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.44
Consensus pattern (19 bp):
TATATATATATAATGAATG
Found at i:19080284 original size:16 final size:15
Alignment explanation
Indices: 19080263--19080295 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
19080253 ATGCATACAT
19080263 TATAAGTATATACTTA
1 TATAAGTATATA-TTA
19080279 TATAAGTATATATTA
1 TATAAGTATATATTA
19080294 TA
1 TA
19080296 AATATAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (15 bp):
TATAAGTATATATTA
Found at i:19080319 original size:18 final size:17
Alignment explanation
Indices: 19080268--19080319 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
19080258 TACATTATAA
*
19080268 GTATATACTTATATAAGT
1 GTATATA-TAATATAAGT
*
19080286 ATATATTATAAATATAATGT
1 GTATA-TAT-AATATAA-GT
19080306 GTATATATAATATA
1 GTATATATAATATA
19080320 TATGATGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 11 0.39
19 11 0.39
20 6 0.21
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (17 bp):
GTATATATAATATAAGT
Found at i:19080404 original size:129 final size:125
Alignment explanation
Indices: 19080172--19080450 Score: 375
Period size: 126 Copynumber: 2.2 Consensus size: 125
19080162 AAAGTATAGG
*
19080172 TATAA-ATATATATATATATATATATGATGAATGTTATAATAATATAATGCATGTATATATATTA
1 TATAATATATATATATATATATATATGATGAATGTCATAATAATATAATGCATGTATATATATTA
* *
19080236 TAATGTACGTTATATTTATGCATACATTATAAGTATATACTTATATAAGTATATAT-TATAAA
66 TAATATACGTTATATTCATGCATACATTATAAGTATATACTTATATAAGTATA-ATGTAT--A
* * * * *
19080298 TATAATGTGTATATATA-ATATATATGATGAATGTCATGATAATATATTTCATGTATATATAATG
1 TATAATATATATATATATATATATATGATGAATGTCATAATAATATAATGCATGTATATAT-AT-
* * * *
19080362 TATATTATACATTTATATTCATGCATTCATTATATGTATATACTTATATAAGTATAATGTATA
64 TATAATATAC-GTTATATTCATGCATACATTATAAGTATATACTTATATAAGTATAATGTATA
19080425 TATAATATATATATATATATATATAT
1 TATAATATATATATATATATATATAT
19080451 ATATATATAT
Statistics
Matches: 133, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
126 44 0.33
127 27 0.20
128 18 0.14
129 44 0.33
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (125 bp):
TATAATATATATATATATATATATATGATGAATGTCATAATAATATAATGCATGTATATATATTA
TAATATACGTTATATTCATGCATACATTATAAGTATATACTTATATAAGTATAATGTATA
Found at i:19080411 original size:2 final size:2
Alignment explanation
Indices: 19080392--19080472 Score: 98
Period size: 2 Copynumber: 41.5 Consensus size: 2
19080382 ATGCATTCAT
* *
19080392 TA TA TG TA TA TA CT- TA TA TA -A GTA TA -A TG TA TA TA TA -A TA
1 TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
19080432 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19080473 TGTCGAAACG
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
1 4 0.06
2 63 0.91
3 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:19082479 original size:2 final size:2
Alignment explanation
Indices: 19082401--19082464 Score: 87
Period size: 2 Copynumber: 32.5 Consensus size: 2
19082391 AACTGTCTAC
* *
19082401 AT AT AT AT AT AT AT AC AT -T AT AT TT AT A- AGT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
19082442 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
19082465 CACACACATA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
1 2 0.04
2 52 0.95
3 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19082932 original size:23 final size:23
Alignment explanation
Indices: 19082884--19082932 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
19082874 AAATATTTTA
*
19082884 AAATTTTAAGTTAACTTATATTT
1 AAATTTTAAGTTAACTTATATAT
19082907 AAATTATTAA-TTAA-TTATTATAT
1 AAATT-TTAAGTTAACTTA-TATAT
19082930 AAA
1 AAA
19082933 AATAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.13
23 16 0.70
24 4 0.17
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
AAATTTTAAGTTAACTTATATAT
Found at i:19082954 original size:25 final size:23
Alignment explanation
Indices: 19082932--19082981 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
19082922 TATTATATAA
19082932 AAATAAATTAAATTTATAAATAT
1 AAATAAATTAAATTTATAAATAT
* *
19082955 --TTAAATTAATTTTATAAATAT
1 AAATAAATTAAATTTATAAATAT
19082976 -AATAAA
1 AAATAAA
19082982 ATCATTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATAAATTAAATTTATAAATAT
Found at i:19082959 original size:21 final size:21
Alignment explanation
Indices: 19082935--19082975 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
19082925 TATATAAAAA
19082935 TAAATTAAATTTATAAATATT
1 TAAATTAAATTTATAAATATT
*
19082956 TAAATTAATTTTATAAATAT
1 TAAATTAAATTTATAAATAT
19082976 AATAAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAATTAAATTTATAAATATT
Found at i:19083968 original size:15 final size:17
Alignment explanation
Indices: 19083945--19084010 Score: 118
Period size: 17 Copynumber: 4.0 Consensus size: 17
19083935 AACTCCTAAA
19083945 TTATATATACTTGTATC
1 TTATATATACTTGTATC
19083962 -T-TATATACTTGTATC
1 TTATATATACTTGTATC
19083977 TTATATATACTTGTATC
1 TTATATATACTTGTATC
19083994 TTATATATACTTGTATC
1 TTATATATACTTGTATC
19084011 GTATGATGTG
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
15 14 0.30
16 2 0.04
17 31 0.66
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (17 bp):
TTATATATACTTGTATC
Found at i:19083986 original size:32 final size:34
Alignment explanation
Indices: 19083945--19084010 Score: 118
Period size: 32 Copynumber: 2.0 Consensus size: 34
19083935 AACTCCTAAA
19083945 TTATATATACTTGTATC-T-TATATACTTGTATC
1 TTATATATACTTGTATCTTATATATACTTGTATC
19083977 TTATATATACTTGTATCTTATATATACTTGTATC
1 TTATATATACTTGTATCTTATATATACTTGTATC
19084011 GTATGATGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.53
33 1 0.03
34 14 0.44
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (34 bp):
TTATATATACTTGTATCTTATATATACTTGTATC
Found at i:19086268 original size:2 final size:2
Alignment explanation
Indices: 19086261--19086288 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19086251 ACATGTATGT
19086261 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
19086289 TCAGGGTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:19090330 original size:13 final size:13
Alignment explanation
Indices: 19090310--19090341 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
19090300 AATAGAGAAG
19090310 AGAAAAAAGGAAA
1 AGAAAAAAGGAAA
*
19090323 ATAAAAAAGGAAA
1 AGAAAAAAGGAAA
19090336 AGAAAA
1 AGAAAA
19090342 GGTGATGAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (13 bp):
AGAAAAAAGGAAA
Found at i:19096492 original size:16 final size:16
Alignment explanation
Indices: 19096471--19096503 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19096461 TTCCCCTTCC
19096471 ATATCAACACATACAT
1 ATATCAACACATACAT
*
19096487 ATATCAACATATACAT
1 ATATCAACACATACAT
19096503 A
1 A
19096504 CATGTTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (16 bp):
ATATCAACACATACAT
Found at i:19096967 original size:37 final size:35
Alignment explanation
Indices: 19096924--19097019 Score: 111
Period size: 36 Copynumber: 2.7 Consensus size: 35
19096914 AAACAATGTG
* * *
19096924 TCGTCTCGCTAGAGGCAGTTTTTCTTAAAAATAAATT
1 TCGTCTCGCTTGAGACA-TTTTTC-TAAAAACAAATT
* *
19096961 TTGTCTCGCTTGAGACAATTTCTCTAAAAACAAATT
1 TCGTCTCGCTTGAGAC-ATTTTTCTAAAAACAAATT
*
19096997 TCATCTCGCTTGAGACATTTTTC
1 TCGTCTCGCTTGAGACATTTTTC
19097020 CTTTGAGATG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
35 6 0.12
36 25 0.50
37 18 0.36
38 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.39
Consensus pattern (35 bp):
TCGTCTCGCTTGAGACATTTTTCTAAAAACAAATT
Found at i:19097276 original size:68 final size:68
Alignment explanation
Indices: 19097203--19097388 Score: 215
Period size: 67 Copynumber: 2.8 Consensus size: 68
19097193 ATTTTTTTTT
*
19097203 CTTGAGACAATTTTTCTTGAAACATAAAAACTTTGAGATTGTTTTCCTTGAAACAAAATTTAGTC
1 CTTGAGACAATTTTTCTTGAAACATAAAATCTTTGAGATTGTTTTCCTTGAAACAAAATTTAGTC
19097268 TCC
66 TCC
* *
19097271 CTTGAGAC-ATTTTCTCTTG-AA-ATAAAGATCTTTGAG-TATGTTTTTCTTGAAACAAAATTTG
1 CTTGAGACAATTTT-TCTTGAAACATAAA-ATCTTTGAGAT-TGTTTTCCTTGAAACAAAATTTA
*
19097332 GTCTCT
63 GTCTCC
* * * *
19097338 CTTGAGACAATTTCTT-TTCAAACAT--CATCTTTGAGATCGTTTCCCTTGAAA
1 CTTGAGACAATTT-TTCTTGAAACATAAAATCTTTGAGATTGTTTTCCTTGAAA
19097389 TTTTTTTTGT
Statistics
Matches: 101, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
66 26 0.26
67 52 0.51
68 20 0.20
69 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (68 bp):
CTTGAGACAATTTTTCTTGAAACATAAAATCTTTGAGATTGTTTTCCTTGAAACAAAATTTAGTC
TCC
Found at i:19097677 original size:137 final size:137
Alignment explanation
Indices: 19097431--19097971 Score: 626
Period size: 137 Copynumber: 3.9 Consensus size: 137
19097421 GAAACAAATA
* * * * *
19097431 ATCCCTAAAGATGACCAACAATCCTCATCAAGTACGAACCGTGTCATCCACTGACCAGATCTCCT
1 ATCCCTAAAGATGGCCATCCATCCTCATCACGTAGGAACCGTGTCATCCACTGACCAGATCTCCT
* * * * * *
19097496 CATCACGTAGGAGCCGTGTCAACATTAGATAA-AAAACCGTCCTCATCATGTAGGAATCGTGTTA
66 CATCACGTAGGAGCAGCGTCAACCTTAGATAACCAAA-TGTCCTCATCACGTAGGAATCGTGTTA
19097560 TTTACATT
130 TTTACATT
* *
19097568 ATCCCTGAAGATGGCCATCCATCCTCATCACGTAGGAATCGTGTCATCCACTGACCAGATCTCCT
1 ATCCCTAAAGATGGCCATCCATCCTCATCACGTAGGAACCGTGTCATCCACTGACCAGATCTCCT
* * * *
19097633 CATCACGTAGGAGCCGCGCCAACCTTAGATAACCAGATGTCCTCA-CTACGTAGGAATCATGTTA
66 CATCACGTAGGAGCAGCGTCAACCTTAGATAACCAAATGTCCTCATC-ACGTAGGAATCGTGTTA
*
19097697 TCTACATT
130 TTTACATT
** * * * * * * *
19097705 ATCCCTAAAGATGGTTAGCCATCCTGATCATGTAGGAACCATGTCATCTACCGACCAGATCTTCT
1 ATCCCTAAAGATGGCCATCCATCCTCATCACGTAGGAACCGTGTCATCCACTGACCAGATCTCCT
* * * *
19097770 CATCAAGTAGGAGCATCGTCACCCTTAGATAACC-AATCGTCCTCATCACGTA-GAAACTGTGTT
66 CATCACGTAGGAGCAGCGTCAACCTTAGATAACCAAAT-GTCCTCATCACGTAGGAATC-GTGTT
** *
19097833 ATATGCCTTT
129 AT-TTACATT
*
19097843 ATCCCTAAAGATGGCCATCCATCCTCATCACGTAGAAACCGTGTCATCCA-TCGACCAGATCTCC
1 ATCCCTAAAGATGGCCATCCATCCTCATCACGTAGGAACCGTGTCATCCACT-GACCAGATCTCC
* * * * *
19097907 TCATCACATA-GAGCAGTGTCACCCTTAGATAACCAAATTTCCTCATCACGTAGGAACCGTGTTA
65 TCATCACGTAGGAGCAGCGTCAACCTTAGATAACCAAATGTCCTCATCACGTAGGAATCGTGTTA
19097971 T
130 T
19097972 CTCCAAATTT
Statistics
Matches: 340, Mismatches: 55, Indels: 18
0.82 0.13 0.04
Matches are distributed among these distances:
136 7 0.02
137 259 0.76
138 74 0.22
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (137 bp):
ATCCCTAAAGATGGCCATCCATCCTCATCACGTAGGAACCGTGTCATCCACTGACCAGATCTCCT
CATCACGTAGGAGCAGCGTCAACCTTAGATAACCAAATGTCCTCATCACGTAGGAATCGTGTTAT
TTACATT
Found at i:19100277 original size:21 final size:21
Alignment explanation
Indices: 19100244--19100296 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
19100234 ATTTTGACTA
19100244 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * * *
19100265 TCGCGTTGTGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
* *
19100286 TCACAATGCGA
1 TCGCATTGCGA
19100297 ATACGTAAAT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:19100321 original size:20 final size:20
Alignment explanation
Indices: 19100289--19100396 Score: 162
Period size: 20 Copynumber: 5.4 Consensus size: 20
19100279 TCCTAATTCA
*
19100289 CAATGCGAATACGTAAATCG
1 CAATGCGATTACGTAAATCG
* *
19100309 CAATACGATTACGTATATCG
1 CAATGCGATTACGTAAATCG
19100329 CAATGCGATTACGTAAATCG
1 CAATGCGATTACGTAAATCG
* * *
19100349 CAATGTGAATACGTAAATCA
1 CAATGCGATTACGTAAATCG
19100369 CAATGCGATTACGTAAATCG
1 CAATGCGATTACGTAAATCG
19100389 CAATGCGA
1 CAATGCGA
19100397 ATCTGACTAT
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 77 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (20 bp):
CAATGCGATTACGTAAATCG
Found at i:19100413 original size:40 final size:40
Alignment explanation
Indices: 19100289--19100418 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
19100279 TCCTAATTCA
* * *
19100289 CAATGCGAATACGTAAATCGCAATACGATTACGTATATCG
1 CAATGCGATTACGTAAATCGCAATGCGAATACGTATATCG
* * *
19100329 CAATGCGATTACGTAAATCGCAATGTGAATACGTAAATCA
1 CAATGCGATTACGTAAATCGCAATGCGAATACGTATATCG
19100369 CAATGCGATTACGTAAATCGCAATGCGAAT-C-TGACTATCG
1 CAATGCGATTACGTAAATCGCAATGCGAATACGT-A-TATCG
19100409 CAATGCGATT
1 CAATGCGATT
19100419 TACATAGCGC
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 2 0.03
40 76 0.96
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (40 bp):
CAATGCGATTACGTAAATCGCAATGCGAATACGTATATCG
Found at i:19101012 original size:20 final size:20
Alignment explanation
Indices: 19100987--19101033 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
19100977 CAACGAGTGA
19100987 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* **
19101007 ATCGCAATGTGAATTTGACT
1 ATCGCAATGCGAAAATGACT
19101027 ATCGCAA
1 ATCGCAA
19101034 CGAGAGAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:19101103 original size:20 final size:20
Alignment explanation
Indices: 19101059--19101123 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
19101049 GTGATTTTCA
* *
19101059 TTTCGCATTGTGATAGTCAA
1 TTTCGCATTGCGATAGTCAT
*
19101079 ATTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCAT
** **
19101099 TTTCGTGTTGCGATTTTCAT
1 TTTCGCATTGCGATAGTCAT
19101119 TTTCG
1 TTTCG
19101124 TGTTACGATT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (20 bp):
TTTCGCATTGCGATAGTCAT
Found at i:19101124 original size:20 final size:20
Alignment explanation
Indices: 19101095--19101134 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
19101085 ATTGCGATAG
*
19101095 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTACGATTT
19101115 TCATTTTCGTGTTACGATTT
1 TCATTTTCGTGTTACGATTT
19101135 AAAGTTTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.15, G:0.17, T:0.55
Consensus pattern (20 bp):
TCATTTTCGTGTTACGATTT
Found at i:19101142 original size:20 final size:20
Alignment explanation
Indices: 19101099--19101142 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
19101089 CGATAGTCAT
* ** *
19101099 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTACGATTTAAAG
19101119 TTTCGTGTTACGATTTAAAG
1 TTTCGTGTTACGATTTAAAG
19101139 TTTC
1 TTTC
19101143 AGAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.14, G:0.18, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTACGATTTAAAG
Found at i:19102890 original size:22 final size:21
Alignment explanation
Indices: 19102860--19102900 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19102850 AAATTTACTC
*
19102860 GTAATTTCACTTAGATTGCTTA
1 GTAAATTCA-TTAGATTGCTTA
*
19102882 GTAAATTCATTCGATTGCT
1 GTAAATTCATTAGATTGCT
19102901 GCCAATACTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (21 bp):
GTAAATTCATTAGATTGCTTA
Found at i:19103045 original size:20 final size:20
Alignment explanation
Indices: 19103020--19103163 Score: 174
Period size: 20 Copynumber: 7.5 Consensus size: 20
19103010 AGAATAGTTT
19103020 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
19103040 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* * *
19103060 AATATCGTAA--C-AAGA-G
1 ACTATCGCAATGCGAAAATG
19103076 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
19103094 ACTCTCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
19103114 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* **
19103134 ACTATCGTAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
19103154 ACTATCGCAA
1 ACTATCGCAA
19103164 CGAAAGAATC
Statistics
Matches: 106, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
14 6 0.06
16 3 0.03
17 6 0.06
18 3 0.03
20 88 0.83
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:19103229 original size:34 final size:38
Alignment explanation
Indices: 19103191--19103316 Score: 143
Period size: 40 Copynumber: 3.3 Consensus size: 38
19103181 GAAATGAAAA
19103191 TCGCATTGCGAT-TC-TCTT-G-TTGCGATAGTCATTT
1 TCGCATTGCGATATCATCTTCGCTTGCGATAGTCATTT
*
19103225 TCGCATTGCGATAGTCATTTTCGCTTTGCGATAGTCATTT
1 TCGCATTGCGATA-TCATCTTCGC-TTGCGATAGTCATTT
* * *
19103265 TCGCATTGCGATAGTCATTTTCACATTACGATAGTCATTT
1 TCGCATTGCGATA-TCATCTTCGC-TTGCGATAGTCATTT
*
19103305 TCGCGTTGCGAT
1 TCGCATTGCGAT
19103317 TTTAAGTTTC
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
34 12 0.15
36 2 0.02
37 3 0.04
38 1 0.01
40 63 0.78
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (38 bp):
TCGCATTGCGATATCATCTTCGCTTGCGATAGTCATTT
Found at i:19103235 original size:20 final size:20
Alignment explanation
Indices: 19103210--19103316 Score: 178
Period size: 20 Copynumber: 5.3 Consensus size: 20
19103200 GATTCTCTTG
19103210 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
19103230 TTGCGATAGTCATTTTCGCT
1 TTGCGATAGTCATTTTCGCA
19103250 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
19103270 TTGCGATAGTCATTTTCACA
1 TTGCGATAGTCATTTTCGCA
* *
19103290 TTACGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
19103310 TTGCGAT
1 TTGCGAT
19103317 TTTAAGTTTC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 80 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:19103891 original size:21 final size:21
Alignment explanation
Indices: 19103800--19103898 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
19103790 GACTCATCTG
*
19103800 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
* *
19103822 T-ATCATTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
19103842 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
19103863 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
*
19103884 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
19103899 TCCTCCCAAC
Statistics
Matches: 59, Mismatches: 17, Indels: 3
0.75 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 55 0.93
22 1 0.02
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:19105279 original size:14 final size:14
Alignment explanation
Indices: 19105260--19105295 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
19105250 ATTGTTTAAT
19105260 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
19105274 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
19105288 TGATTTGT
1 TGATTTGT
19105296 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:19105447 original size:33 final size:33
Alignment explanation
Indices: 19105397--19105475 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
19105387 AAAACAGACT
* **
19105397 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
19105431 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
19105464 ATCGCATTGCGA
1 ATCGCAATGCGA
19105476 TTTTCATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 31 0.77
34 9 0.22
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:19105489 original size:19 final size:19
Alignment explanation
Indices: 19105465--19105553 Score: 160
Period size: 19 Copynumber: 4.7 Consensus size: 19
19105455 AACGAGTGAA
19105465 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
19105484 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
19105503 TCGCATTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
19105522 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
19105541 TTGCATTGCGATT
1 TCGCATTGCGATT
19105554 CTCTCGTTGC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.17, C:0.20, G:0.16, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:19105584 original size:20 final size:20
Alignment explanation
Indices: 19105559--19105646 Score: 124
Period size: 20 Copynumber: 4.4 Consensus size: 20
19105549 CGATTCTCTC
*
19105559 GTTGCGATAGTCATTTCCGG
1 GTTGCGATAGTCATTTCCGT
*
19105579 GTTGCGATAGTCAATTCCGT
1 GTTGCGATAGTCATTTCCGT
*
19105599 ATTGCGATAGTCATTTCCGT
1 GTTGCGATAGTCATTTCCGT
*
19105619 GTTGCGATAGTCATATT-CGC
1 GTTGCGATAGTCAT-TTCCGT
19105639 GTTGCGAT
1 GTTGCGAT
19105647 TTCCGCGTTG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCGT
Found at i:19105615 original size:40 final size:41
Alignment explanation
Indices: 19105560--19105636 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 41
19105550 GATTCTCTCG
19105560 TTGCGATAGTCATTTCCGGGTTGCGATAGTCA-ATTCCGTA
1 TTGCGATAGTCATTTCCGGGTTGCGATAGTCATATTCCGTA
*
19105600 TTGCGATAGTCATTTCCGTGTTGCGATAGTCATATTC
1 TTGCGATAGTCATTTCCGGGTTGCGATAGTCATATTC
19105637 GCGTTGCGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
40 31 0.89
41 4 0.11
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (41 bp):
TTGCGATAGTCATTTCCGGGTTGCGATAGTCATATTCCGTA
Found at i:19108115 original size:24 final size:24
Alignment explanation
Indices: 19108081--19108134 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
19108071 CTGAAAAATC
19108081 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
19108105 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
19108129 ATCAAA
1 ATCAAA
19108135 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:19108148 original size:24 final size:24
Alignment explanation
Indices: 19108081--19108148 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
19108071 CTGAAAAATC
* * *
19108081 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
19108105 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
19108129 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
19108149 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:19109018 original size:20 final size:20
Alignment explanation
Indices: 19108995--19109080 Score: 138
Period size: 20 Copynumber: 4.3 Consensus size: 20
19108985 CAGAATCTCG
19108995 TTGCGATTTACAG-ATTCGCA
1 TTGCGATTTAC-GTATTCGCA
19109015 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
19109035 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
*
19109055 TTGCGATTTACGTATTCACA
1 TTGCGATTTACGTATTCGCA
19109075 TTGCGA
1 TTGCGA
19109081 ATTAGGAAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
19 1 0.02
20 61 0.98
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:19109103 original size:21 final size:21
Alignment explanation
Indices: 19109077--19109122 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
19109067 TATTCACATT
19109077 GCGAATTAGGA-AAATCGCAAC
1 GCGAATT-GGAGAAATCGCAAC
* *
19109098 GCGAATTTGAGAAATCGCAAT
1 GCGAATTGGAGAAATCGCAAC
19109119 GCGA
1 GCGA
19109123 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTGGAGAAATCGCAAC
Found at i:19110030 original size:13 final size:13
Alignment explanation
Indices: 19110012--19110036 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19110002 AAAAATTTAT
19110012 TAATATATTGTAA
1 TAATATATTGTAA
19110025 TAATATATTGTA
1 TAATATATTGTA
19110037 TTATAATCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATATATTGTAA
Found at i:19110623 original size:4 final size:4
Alignment explanation
Indices: 19110614--19110668 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
19110604 CTATCTCCCC
19110614 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
19110662 AATA AAT
1 AATA AAT
19110669 CCCAAAGGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:19111662 original size:73 final size:71
Alignment explanation
Indices: 19111561--19111727 Score: 201
Period size: 73 Copynumber: 2.3 Consensus size: 71
19111551 ATGACTATGC
* * *
19111561 AAAATCAAAATAAATCAAAACTTAAAGTTTAAAGGGG-CAAAATATAATTAACAATAAAGAATAA
1 AAAATAAAAATAAACCAAAACTTAAAG-TTAAAGGGGACAAAATATAATTAACAATAAAAAATAA
19111625 GAGGAAAA
65 GAGG-AAA
* * * *
19111633 AAAATAAAAAATAAACCAAAACTTGAAGTTCAAGGGGACAAAGTATAATTAATAATAAAAAATAA
1 AAAAT-AAAAATAAACCAAAACTTAAAGTTAAAGGGGACAAAATATAATTAACAATAAAAAATAA
***
19111698 GAGGGGC
65 GAGGAAA
*
19111705 AAAATTAAAATAAACCAAAACTT
1 AAAATAAAAATAAACCAAAACTT
19111728 CAAGGACCAA
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
71 17 0.21
72 18 0.22
73 47 0.57
ACGTcount: A:0.60, C:0.08, G:0.13, T:0.19
Consensus pattern (71 bp):
AAAATAAAAATAAACCAAAACTTAAAGTTAAAGGGGACAAAATATAATTAACAATAAAAAATAAG
AGGAAA
Found at i:19112555 original size:20 final size:20
Alignment explanation
Indices: 19112530--19112574 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
19112520 ACAGACTTTG
19112530 TAACTAAACATTAACAACCT
1 TAACTAAACATTAACAACCT
* *
19112550 TAACTAATCATTGACAACCT
1 TAACTAAACATTAACAACCT
19112570 TAACT
1 TAACT
19112575 GTTGCTAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.29
Consensus pattern (20 bp):
TAACTAAACATTAACAACCT
Found at i:19117231 original size:20 final size:20
Alignment explanation
Indices: 19117187--19117231 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
19117177 ACAGACTTTG
*
19117187 TAACTAAACATTAACAGCCT
1 TAACTAAACATTAACAACCT
* *
19117207 CAACTAATCATTAACAACCT
1 TAACTAAACATTAACAACCT
19117227 TAACT
1 TAACT
19117232 GCTGCTAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.27
Consensus pattern (20 bp):
TAACTAAACATTAACAACCT
Found at i:19118317 original size:12 final size:12
Alignment explanation
Indices: 19118300--19118327 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19118290 AAAAATAAAA
19118300 AATTTTATTATC
1 AATTTTATTATC
19118312 AATTTTATTATC
1 AATTTTATTATC
19118324 AATT
1 AATT
19118328 AAAATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (12 bp):
AATTTTATTATC
Found at i:19120778 original size:20 final size:20
Alignment explanation
Indices: 19120753--19120825 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
19120743 TTAGATTGAA
*
19120753 AGTATCAATACTGTTATTAG
1 AGTATCGATACTGTTATTAG
* *
19120773 AGTATCGATACTCGTTCTTCG
1 AGTATCGATACT-GTTATTAG
* **
19120794 GGTATCGATACTGTTGGTAG
1 AGTATCGATACTGTTATTAG
19120814 AGTATCGATACT
1 AGTATCGATACT
19120826 CAAGGGTGGA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 27 0.61
21 17 0.39
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (20 bp):
AGTATCGATACTGTTATTAG
Found at i:19121836 original size:20 final size:20
Alignment explanation
Indices: 19121811--19121895 Score: 118
Period size: 20 Copynumber: 4.2 Consensus size: 20
19121801 TTCTCTTTGG
19121811 TATCGATAATGCAAGAACAA
1 TATCGATAATGCAAGAACAA
*
19121831 TATCGATAATGCAAGAATAA
1 TATCGATAATGCAAGAACAA
* *
19121851 TATCGATATTGTAAGAACAA
1 TATCGATAATGCAAGAACAA
*
19121871 TATCGAT-ATCGTAAGAACAA
1 TATCGATAAT-GCAAGAACAA
19121891 TATCG
1 TATCG
19121896 TACTACTTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
19 1 0.02
20 58 0.98
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (20 bp):
TATCGATAATGCAAGAACAA
Found at i:19123131 original size:20 final size:20
Alignment explanation
Indices: 19123094--19123142 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
19123084 TCAAAATCAT
***
19123094 TTTTTCAAAATTTCATTTTG
1 TTTTTCAAAATGAAATTTTG
19123114 TTTTTCAAAATGAAATTTTG
1 TTTTTCAAAATGAAATTTTG
*
19123134 -CTTTCAAAA
1 TTTTTCAAAA
19123143 CCAAATTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (20 bp):
TTTTTCAAAATGAAATTTTG
Found at i:19123527 original size:9 final size:9
Alignment explanation
Indices: 19123513--19123543 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19123503 TTTGATGTCA
19123513 TGAATCATT
1 TGAATCATT
19123522 TGAATCATT
1 TGAATCATT
*
19123531 TGAATCATG
1 TGAATCATT
19123540 TGAA
1 TGAA
19123544 AAGTTGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (9 bp):
TGAATCATT
Found at i:19125849 original size:38 final size:39
Alignment explanation
Indices: 19125774--19125890 Score: 92
Period size: 38 Copynumber: 3.0 Consensus size: 39
19125764 ACCACATCAG
* * *
19125774 TGCAAAGGATTGGTGCATCCTTATACGTAAGCGCTTCGA
1 TGCAAAGGATTGGAGCAGCCTTATACGTAAGCACTTCGA
* * * *
19125813 TGCAAAGGA-TGGAGTAGCCTTATGCGTAAGTACTTCGG
1 TGCAAAGGATTGGAGCAGCCTTATACGTAAGCACTTCGA
* ** * * *
19125851 TACAAAGAGGGTCGATGCAACCTTATGCGTAAGCACTTCG
1 TGCAAAG-GATTGGA-GCAGCCTTATACGTAAGCACTTCG
19125891 GTACGACCCG
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
38 28 0.45
39 10 0.16
40 3 0.05
41 21 0.34
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (39 bp):
TGCAAAGGATTGGAGCAGCCTTATACGTAAGCACTTCGA
Found at i:19130875 original size:59 final size:59
Alignment explanation
Indices: 19130787--19130902 Score: 196
Period size: 59 Copynumber: 2.0 Consensus size: 59
19130777 ATAGTGCTAA
*
19130787 CCTGAGTATGCCACATAAGGTCATCCCCACCATATGCACTAGTTATACTTTAGTGCATT
1 CCTGAGTATGACACATAAGGTCATCCCCACCATATGCACTAGTTATACTTTAGTGCATT
* * *
19130846 CCTGAGTATGACACATAAGTTCGTGCCCACCATATGCACTAGTTATACTTTAGTGCA
1 CCTGAGTATGACACATAAGGTCATCCCCACCATATGCACTAGTTATACTTTAGTGCA
19130903 ATCCCGGATA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (59 bp):
CCTGAGTATGACACATAAGGTCATCCCCACCATATGCACTAGTTATACTTTAGTGCATT
Found at i:19141453 original size:12 final size:11
Alignment explanation
Indices: 19141407--19141447 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
19141397 TTATTGTTCA
19141407 TGCTACAATAC
1 TGCTACAATAC
*
19141418 TGCTACAATAT
1 TGCTACAATAC
19141429 TGCTACAATAAC
1 TGCTACAAT-AC
19141441 TGCTACA
1 TGCTACA
19141448 GTAACTTCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 19 0.70
12 8 0.30
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (11 bp):
TGCTACAATAC
Found at i:19141923 original size:47 final size:45
Alignment explanation
Indices: 19141830--19141939 Score: 123
Period size: 47 Copynumber: 2.4 Consensus size: 45
19141820 TATAAAATCC
*
19141830 CTTACCATTTATCCCATAAGCTCGTAAGCTTACTTTACCAAAATA
1 CTTACCATTTATCCCATAAGCTCATAAGCTTACTTTACCAAAATA
* * * * *
19141875 CTTACCATTTAAATTCCATAAGCTCATAATCTTATTTTATCAATATA
1 CTTACCATTT--ATCCCATAAGCTCATAAGCTTACTTTACCAAAATA
* *
19141922 CTTCCCA-TTATTCCATAA
1 CTTACCATTTATCCCATAA
19141940 CCATATACCA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
44 9 0.16
45 10 0.18
46 2 0.04
47 35 0.62
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.38
Consensus pattern (45 bp):
CTTACCATTTATCCCATAAGCTCATAAGCTTACTTTACCAAAATA
Found at i:19141961 original size:20 final size:20
Alignment explanation
Indices: 19141936--19141978 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
19141926 CCATTATTCC
* *
19141936 ATAACCATATACCATAGAAA
1 ATAACCATAAACAATAGAAA
*
19141956 ATAACCATAAACAATAGACA
1 ATAACCATAAACAATAGAAA
19141976 ATA
1 ATA
19141979 GCCCAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.58, C:0.19, G:0.05, T:0.19
Consensus pattern (20 bp):
ATAACCATAAACAATAGAAA
Found at i:19147101 original size:26 final size:26
Alignment explanation
Indices: 19147053--19147102 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
19147043 AAGTACATAT
*
19147053 GTGGGCACGACCTTATATGTATTATG
1 GTGGGCACGACCTTATATATATTATG
*
19147079 GTGGGCACGACCTTATGTATATTA
1 GTGGGCACGACCTTATATATATTA
19147103 GCACTTCAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (26 bp):
GTGGGCACGACCTTATATATATTATG
Found at i:19157176 original size:59 final size:59
Alignment explanation
Indices: 19157094--19157206 Score: 181
Period size: 59 Copynumber: 1.9 Consensus size: 59
19157084 TTAACCCGAG
* * *
19157094 TATGACACATAAGGTTGTTCCCACCATCTGCACTAGTTATACTTTAGTGCAATCTCGAA
1 TATGACACATAAGGTCGTACCCACCATATGCACTAGTTATACTTTAGTGCAATCTCGAA
* *
19157153 TATGACACATAAGGTCGTACCCACCATATGTAGTAGTTATACTTTAGTGCAATC
1 TATGACACATAAGGTCGTACCCACCATATGCACTAGTTATACTTTAGTGCAATC
19157207 CAAAAAATGA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (59 bp):
TATGACACATAAGGTCGTACCCACCATATGCACTAGTTATACTTTAGTGCAATCTCGAA
Found at i:19162872 original size:44 final size:44
Alignment explanation
Indices: 19162817--19162945 Score: 195
Period size: 44 Copynumber: 2.9 Consensus size: 44
19162807 TGTTACTGAA
* *
19162817 ATAAATAAAAATGCATAATGGTGCATTATTGGTAGAAAGGTTCC
1 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTTCC
* * *
19162861 ATAAATGAAAATGCATAACGGTGCATTATTGACATAAAGGTTCC
1 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTTCC
* *
19162905 TTAAATGAAAAAGCATAATGGTGCATTATTGGCAGAAAGGT
1 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGT
19162946 GTCACTTATG
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 75 1.00
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (44 bp):
ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTTCC
Found at i:19168751 original size:29 final size:29
Alignment explanation
Indices: 19168667--19168751 Score: 70
Period size: 29 Copynumber: 2.9 Consensus size: 29
19168657 ATCTAAAATT
*
19168667 AAAATATTAAAA-ATAAAGGATTAAATTA
1 AAAATATTAAAATATAAAGGATTAAATGA
* *
19168695 AAAAGTAATAAAACT-T-ATGG-TTAAAAATGA
1 AAAA-TATTAAAA-TATAAAGGATT--AAATGA
*
19168725 AAAATATTAAAATATAAGGGATTAAAT
1 AAAATATTAAAATATAAAGGATTAAAT
19168752 ATGATATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
28 7 0.16
29 22 0.50
30 13 0.30
31 2 0.05
ACGTcount: A:0.60, C:0.01, G:0.11, T:0.28
Consensus pattern (29 bp):
AAAATATTAAAATATAAAGGATTAAATGA
Found at i:19169873 original size:3 final size:3
Alignment explanation
Indices: 19169865--19169912 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
19169855 CCGAGCTTTG
*
19169865 TAA TAA TAA TAA TAA TAA TATA TAA TAA TTA T-A TAA T-A TAAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA
19169910 TAA
1 TAA
19169913 AAATGACACT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
2 4 0.10
3 31 0.77
4 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:19169905 original size:13 final size:14
Alignment explanation
Indices: 19169865--19169911 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
19169855 CCGAGCTTTG
19169865 TAATAATAATAATAA
1 TAAT-ATAATAATAA
19169880 TAATAT-ATAATAA
1 TAATATAATAATAA
*
19169893 TTATATAAT-ATAAA
1 TAATATAATAAT-AA
19169907 TAATA
1 TAATA
19169912 AAAATGACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 14 0.50
14 10 0.36
15 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATATAATAATAA
Found at i:19170208 original size:36 final size:36
Alignment explanation
Indices: 19170168--19170257 Score: 144
Period size: 36 Copynumber: 2.5 Consensus size: 36
19170158 TGAATTTTCA
19170168 TTACTTCACTACTCTTCCATGAAGGCTGGGAATGAT
1 TTACTTCACTACTCTTCCATGAAGGCTGGGAATGAT
** *
19170204 TTACTTCACTACTCTTCTGTGAAGGTTGGGAATGAT
1 TTACTTCACTACTCTTCCATGAAGGCTGGGAATGAT
*
19170240 TGACTTCACTACTCTTCC
1 TTACTTCACTACTCTTCC
19170258 GTAGAAATCT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (36 bp):
TTACTTCACTACTCTTCCATGAAGGCTGGGAATGAT
Found at i:19170352 original size:20 final size:20
Alignment explanation
Indices: 19170327--19170376 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
19170317 CCCCGAAGGA
19170327 TTTACAAATTACCTC-GAGGT
1 TTTACAAATTACC-CGGAGGT
*
19170347 TTTACAAATGACCCGGAGGT
1 TTTACAAATTACCCGGAGGT
19170367 TTTACAAATT
1 TTTACAAATT
19170377 GTGGGAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (20 bp):
TTTACAAATTACCCGGAGGT
Found at i:19171175 original size:31 final size:31
Alignment explanation
Indices: 19171140--19171202 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
19171130 ATCATGTCAG
19171140 AATATTTAACAACAACCTATCGTTCAATCTT
1 AATATTTAACAACAACCTATCGTTCAATCTT
19171171 AATATTTAACAACAACCTATCGTTCAATCTT
1 AATATTTAACAACAACCTATCGTTCAATCTT
19171202 A
1 A
19171203 GTTGGCTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.35
Consensus pattern (31 bp):
AATATTTAACAACAACCTATCGTTCAATCTT
Found at i:19173025 original size:13 final size:13
Alignment explanation
Indices: 19173007--19173047 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
19172997 TGATATCAGC
19173007 AATGGTTGCAATT
1 AATGGTTGCAATT
* *
19173020 AATGGTTACTATT
1 AATGGTTGCAATT
*
19173033 AATGGTTGCGATT
1 AATGGTTGCAATT
19173046 AA
1 AA
19173048 GATGATGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.39
Consensus pattern (13 bp):
AATGGTTGCAATT
Found at i:19175112 original size:13 final size:13
Alignment explanation
Indices: 19175079--19175119 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
19175069 TGATATCAGC
*
19175079 AATGGTTACGATT
1 AATGGTTGCGATT
*
19175092 AATGGTTGCTATT
1 AATGGTTGCGATT
*
19175105 AATGGTTGTGATT
1 AATGGTTGCGATT
19175118 AA
1 AA
19175120 GATGATGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.41
Consensus pattern (13 bp):
AATGGTTGCGATT
Found at i:19181341 original size:13 final size:13
Alignment explanation
Indices: 19181323--19181363 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
19181313 TGATATCAGC
19181323 AATGGTTGTGATT
1 AATGGTTGTGATT
19181336 AATGGTTGCT-ATT
1 AATGGTTG-TGATT
*
19181349 AATGGTTGCGATT
1 AATGGTTGTGATT
19181362 AA
1 AA
19181364 GATGATGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 24 0.96
14 1 0.04
ACGTcount: A:0.27, C:0.05, G:0.27, T:0.41
Consensus pattern (13 bp):
AATGGTTGTGATT
Found at i:19187663 original size:13 final size:13
Alignment explanation
Indices: 19187645--19187685 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
19187635 TGATATCAGC
19187645 AATGGTTACGATT
1 AATGGTTACGATT
*
19187658 AATGGTTACTATT
1 AATGGTTACGATT
*
19187671 AATGGTTGCGATT
1 AATGGTTACGATT
19187684 AA
1 AA
19187686 GATGATGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.39
Consensus pattern (13 bp):
AATGGTTACGATT
Found at i:19192438 original size:19 final size:19
Alignment explanation
Indices: 19192414--19192475 Score: 124
Period size: 19 Copynumber: 3.3 Consensus size: 19
19192404 AACTGATGAG
19192414 AGGCTATTTGAAGATTTAA
1 AGGCTATTTGAAGATTTAA
19192433 AGGCTATTTGAAGATTTAA
1 AGGCTATTTGAAGATTTAA
19192452 AGGCTATTTGAAGATTTAA
1 AGGCTATTTGAAGATTTAA
19192471 AGGCT
1 AGGCT
19192476 GAAGAGCCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.35
Consensus pattern (19 bp):
AGGCTATTTGAAGATTTAA
Found at i:19200018 original size:2 final size:2
Alignment explanation
Indices: 19200011--19200049 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
19200001 AATTTTTAAT
19200011 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19200050 GGTGATCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19207960 original size:38 final size:37
Alignment explanation
Indices: 19207918--19208034 Score: 105
Period size: 38 Copynumber: 3.1 Consensus size: 37
19207908 TCGTCCAATC
*
19207918 ATACTCATGTAACGATTTTCATCTATTCATGTAATTAT
1 ATACTCATGTAACGAATTTCATCTATTC-TGTAATTAT
* *
19207956 ATACTCATATGACGACATTT-ATCTATTC-GTACGATTAT
1 ATACTCATGTAACGA-ATTTCATCTATTCTGTA--ATTAT
* * *
19207994 ATACTCATGCAACGACA-TCCATCTATTCGTGTACTTAT
1 ATACTCATGTAACGA-ATTTCATCTATTC-TGTAATTAT
19208032 ATA
1 ATA
19208035 ACGAAATTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
36 3 0.05
37 1 0.02
38 55 0.85
39 3 0.05
40 3 0.05
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (37 bp):
ATACTCATGTAACGAATTTCATCTATTCTGTAATTAT
Found at i:19215485 original size:87 final size:84
Alignment explanation
Indices: 19215346--19215613 Score: 299
Period size: 87 Copynumber: 3.1 Consensus size: 84
19215336 TAGAGGCCCT
* * * * * *
19215346 AATTATAAAGGTAGAAATTGATATTGAAAAAAA--TAGGGGCCTCAATTATAAAGGTATAATTGA
1 AATTATAAA-GTAGAAAGTGAGATT-AAAAAAACTTAAGGGCCTCAATTATAAAGTTAAAAGTGA
* *
19215409 GATCACAAATTCTTAGGGGCTTC
64 GAT-ACAAA-TATTAGGGGCCTC
* *
19215432 AATTAGAAAGTTAGAAAGTGAGATTAAAAAAACTTAAGGGCTTCAATTATAAAGTTAAGAAAGTG
1 AATTATAAAG-TAGAAAGTGAGATTAAAAAAACTTAAGGGCCTCAATTATAAAGTT-A-AAAGTG
* *
19215497 AGATTCAAATATTAGAGGCCTC
63 AGATACAAATATTAGGGGCCTC
* **
19215519 AATTATAAACGTAGAAAGTGAGATTGAAAAAACTTAAAAGCCTCAATTATAAAGTTAAAAGTGAG
1 AATTATAAA-GTAGAAAGTGAGATTAAAAAAACTTAAGGGCCTCAATTATAAAGTTAAAAGTGAG
19215584 ATTACAAA-ATTAGGGGCCTC
65 A-TACAAATATTAGGGGCCTC
19215604 AATTATAAAG
1 AATTATAAAG
19215614 GTAAAAAAGG
Statistics
Matches: 156, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
84 1 0.01
85 37 0.24
86 26 0.17
87 78 0.50
88 6 0.04
89 8 0.05
ACGTcount: A:0.46, C:0.09, G:0.19, T:0.27
Consensus pattern (84 bp):
AATTATAAAGTAGAAAGTGAGATTAAAAAAACTTAAGGGCCTCAATTATAAAGTTAAAAGTGAGA
TACAAATATTAGGGGCCTC
Found at i:19215622 original size:43 final size:43
Alignment explanation
Indices: 19215329--19215616 Score: 255
Period size: 43 Copynumber: 6.7 Consensus size: 43
19215319 TGAAATTATA
* * *
19215329 AAAAAATTAGAGGCC-CTAATTATAAAGGTAGAAATTGATATTG
1 AAAAAATTAGGGGCCTC-AATTATAAAGGTAGAAAGTGAGATTG
* * * *
19215372 AAAAAAATAGGGGCCTCAATTATAAAGGTA-TAATTGAGA-TC
1 AAAAAATTAGGGGCCTCAATTATAAAGGTAGAAAGTGAGATTG
** * * * *
19215413 ACAAATTCTTAGGGGCTTCAATTAGAAAGTTAGAAAGTGAGATTA
1 A-AAA-AATTAGGGGCCTCAATTATAAAGGTAGAAAGTGAGATTG
* * *
19215458 AAAAAACTTAAGGGCTTCAATTATAAAGTTAAGAAAGTGAGATT-
1 AAAAAA-TTAGGGGCCTCAATTATAAAGGT-AGAAAGTGAGATTG
* * * *
19215502 CAAATATTAGAGGCCTCAATTATAAACGTAGAAAGTGAGATTG
1 AAAAAATTAGGGGCCTCAATTATAAAGGTAGAAAGTGAGATTG
*** *
19215545 AAAAAACTTAAAAGCCTCAATTATAAAGTTA-AAAGTGAGATT-
1 AAAAAA-TTAGGGGCCTCAATTATAAAGGTAGAAAGTGAGATTG
*
19215587 ACAAAATTAGGGGCCTCAATTATAAAGGTA
1 AAAAAATTAGGGGCCTCAATTATAAAGGTA
19215617 AAAAAGGGAC
Statistics
Matches: 200, Mismatches: 36, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
41 22 0.11
42 28 0.14
43 79 0.40
44 56 0.28
45 15 0.08
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.26
Consensus pattern (43 bp):
AAAAAATTAGGGGCCTCAATTATAAAGGTAGAAAGTGAGATTG
Found at i:19215664 original size:85 final size:87
Alignment explanation
Indices: 19215384--19215707 Score: 238
Period size: 87 Copynumber: 3.7 Consensus size: 87
19215374 AAAAATAGGG
* * * * * * * * *
19215384 GCCTCAATTATAAAGGT-ATAATTGAGATCACAAATTCTTAGGGGCTTCAATTAGAAA-GTTAGA
1 GCCTCAATCATAAA-GTAAAAAGTGAGATTACAAA-TATTAGGGGCCTCAATTATAAAGGTAAAA
* * **
19215447 AAGTGAGATTAAAAAAACTTAAGG
64 AAGTGAGACTGAAAAAACTTAAAA
* * * * *
19215471 GCTTCAATTATAAAGTTAAGAAAGTGAGATT-CAAATATTAGAGGCCTCAATTATAAACGT-AGA
1 GCCTCAATCATAAAG-TAA-AAAGTGAGATTACAAATATTAGGGGCCTCAATTATAAAGGTAAAA
*
19215534 AAGTGAGATTGAAAAAACTTAAAA
64 AAGTGAGACTGAAAAAACTTAAAA
* *
19215558 GCCTCAATTATAAAGTTAAAAGTGAGATTACAAA-ATTAGGGGCCTCAATTATAAAGGTAAAAAA
1 GCCTCAATCATAAAGTAAAAAGTGAGATTACAAATATTAGGGGCCTCAATTATAAAGGTAAAAAA
*
19215622 G-G-GACTGAAACAAA-TT-ATA
66 GTGAGACTGAAA-AAACTTAAAA
** * * * *
19215641 GATTTTAATCATAAAGATAAAAAGTTAGATTGA-ATAATATTA-GGACCTCAATTATAAAGATAA
1 G-CCTCAATCATAAAG-TAAAAAGTGAGATT-ACA-AATATTAGGGGCCTCAATTATAAAGGTAA
19215704 AAAA
62 AAAA
19215708 ATATTTAAAA
Statistics
Matches: 199, Mismatches: 26, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
83 3 0.02
84 19 0.10
85 50 0.25
86 38 0.19
87 74 0.37
88 7 0.04
89 8 0.04
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.27
Consensus pattern (87 bp):
GCCTCAATCATAAAGTAAAAAGTGAGATTACAAATATTAGGGGCCTCAATTATAAAGGTAAAAAA
GTGAGACTGAAAAAACTTAAAA
Done.