Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_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: 3533819
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 18
Found at i:2052705 original size:17 final size:18
Alignment explanation
Indices: 2052672--2052705 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2052662 TCCATTCTAT
*
2052672 CTTATTATTTAATTCCAA
1 CTTATCATTTAATTCCAA
2052690 CTTATCATTT-ATTCCA
1 CTTATCATTTAATTCCA
2052706 GACCTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (18 bp):
CTTATCATTTAATTCCAA
Found at i:2057750 original size:18 final size:18
Alignment explanation
Indices: 2057727--2057762 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2057717 CTTTCTTTCC
* *
2057727 ATTCTATCTTATTATTTA
1 ATTCTAACTTATCATTTA
2057745 ATTCTAACTTATCATTTA
1 ATTCTAACTTATCATTTA
2057763 TTCCAGACCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTCTAACTTATCATTTA
Found at i:2059188 original size:22 final size:23
Alignment explanation
Indices: 2059156--2059206 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
2059146 CTACATTCTG
*
2059156 CAAATATTTACTA-AACTAACACC
1 CAAATATTTAC-ACAAATAACACC
*
2059179 CAAAT-TTTACACAAATAGCACC
1 CAAATATTTACACAAATAACACC
2059201 CAAATA
1 CAAATA
2059207 GATATTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 1 0.04
22 18 0.75
23 5 0.21
ACGTcount: A:0.49, C:0.25, G:0.02, T:0.24
Consensus pattern (23 bp):
CAAATATTTACACAAATAACACC
Found at i:2062807 original size:55 final size:55
Alignment explanation
Indices: 2062704--2062808 Score: 156
Period size: 55 Copynumber: 1.9 Consensus size: 55
2062694 TCAAACAATT
* *
2062704 CATGAAGAAAGGCATCCGATGAATGAAGAAATTTGAAACTGATTGAAGACCAGTC
1 CATGAAGAAAGACATCCGATGAATGAAGAAATTTGAAACTGATCGAAGACCAGTC
* * **
2062759 CATGAAGAAAGACATTCGATGAATGAAGAAGTTTGAAGTTGATCGAAGAC
1 CATGAAGAAAGACATCCGATGAATGAAGAAATTTGAAACTGATCGAAGAC
2062809 TTCTTTCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (55 bp):
CATGAAGAAAGACATCCGATGAATGAAGAAATTTGAAACTGATCGAAGACCAGTC
Found at i:2065147 original size:21 final size:21
Alignment explanation
Indices: 2065123--2065169 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
2065113 AATGGCGGAC
2065123 GCCTTGGCTACTTTGGCAGCA
1 GCCTTGGCTACTTTGGCAGCA
2065144 GCCTTGGCTACTTTGGCAGCA
1 GCCTTGGCTACTTTGGCAGCA
2065165 GCCTT
1 GCCTT
2065170 TAAGATGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.13, C:0.30, G:0.28, T:0.30
Consensus pattern (21 bp):
GCCTTGGCTACTTTGGCAGCA
Found at i:2067889 original size:65 final size:63
Alignment explanation
Indices: 2067820--2068000 Score: 197
Period size: 65 Copynumber: 2.8 Consensus size: 63
2067810 GGAATAAATT
2067820 AAACATCGAATGCATTTCATGCATCGATGCACATACTATGCACCGATGCACTCAGAG-T-TTTAT
1 AAACATCGAATGCATTTCATGCATCGATGCACAT-CTATGCACCGATGCACTCAG-GCTATTT-T
2067883 G
63 G
* * * * * ** *
2067884 AAAACATCGAATGCATTTGATGCATCGATCCACCAGCCATGCATCGATATACTCTGGCTATTTTG
1 -AAACATCGAATGCATTTCATGCATCGATGCA-CATCTATGCACCGATGCACTCAGGCTATTTTG
*
2067949 AAACATCGAATGCATTTCATGCATCAATGCAC-TCTTAGTGCACCGATGCACT
1 AAACATCGAATGCATTTCATGCATCGATGCACATC-TA-TGCACCGATGCACT
2068001 AAGGGTCCAA
Statistics
Matches: 95, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 40 0.42
65 47 0.49
66 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (63 bp):
AAACATCGAATGCATTTCATGCATCGATGCACATCTATGCACCGATGCACTCAGGCTATTTTG
Found at i:2069004 original size:17 final size:17
Alignment explanation
Indices: 2068979--2069014 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2068969 GATTGTGGAG
2068979 TGAAGGAGAGAAAAGAA
1 TGAAGGAGAGAAAAGAA
* *
2068996 TGAATGAGAGAAAATAA
1 TGAAGGAGAGAAAAGAA
2069013 TG
1 TG
2069015 TTCCAGCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.31, T:0.14
Consensus pattern (17 bp):
TGAAGGAGAGAAAAGAA
Found at i:2069958 original size:22 final size:22
Alignment explanation
Indices: 2069933--2069977 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
2069923 CATGAGAAAT
2069933 TATTTTTAAAATATAAAAATGA
1 TATTTTTAAAATATAAAAATGA
2069955 TATTTTTAAAATATAAAAATGA
1 TATTTTTAAAATATAAAAATGA
2069977 T
1 T
2069978 GTCTCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
TATTTTTAAAATATAAAAATGA
Found at i:2075013 original size:3 final size:3
Alignment explanation
Indices: 2075005--2075080 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
2074995 GTTCTAACTA
2075005 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2075053 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2075081 CCATTATAAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2082690 original size:37 final size:37
Alignment explanation
Indices: 2082616--2082718 Score: 111
Period size: 37 Copynumber: 2.8 Consensus size: 37
2082606 TTTTTTCTTG
* * *
2082616 AAACAAAATTGATCTCACTTGAG--ATTGTTTTCGTAA
1 AAACAAATTTCATCTCACTTGAGACAAT-TTTTCGTAA
* ** * *
2082652 AATCAAATTTTGTCTTACTTGAGACAATTTTTCTTAA
1 AAACAAATTTCATCTCACTTGAGACAATTTTTCGTAA
2082689 AAACAAATTTCATCTCACTTGAGACAATTT
1 AAACAAATTTCATCTCACTTGAGACAATTT
2082719 CCCATTTTGA
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
36 18 0.33
37 34 0.63
38 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.39
Consensus pattern (37 bp):
AAACAAATTTCATCTCACTTGAGACAATTTTTCGTAA
Found at i:2082907 original size:37 final size:37
Alignment explanation
Indices: 2082857--2082953 Score: 167
Period size: 37 Copynumber: 2.6 Consensus size: 37
2082847 ATATAAACCA
*
2082857 TTGAGATAGTTTCTCTCGAAACAAAGTTTAGTCTCGC
1 TTGAGATAGTTTCTCTTGAAACAAAGTTTAGTCTCGC
* *
2082894 TTGAGATAGTTTCTCTTGAAACAAAGTTTTGTCTCTC
1 TTGAGATAGTTTCTCTTGAAACAAAGTTTAGTCTCGC
2082931 TTGAGATAGTTTCTCTTGAAACA
1 TTGAGATAGTTTCTCTTGAAACA
2082954 TAAACAATTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (37 bp):
TTGAGATAGTTTCTCTTGAAACAAAGTTTAGTCTCGC
Found at i:2083031 original size:103 final size:104
Alignment explanation
Indices: 2082849--2083056 Score: 294
Period size: 103 Copynumber: 2.0 Consensus size: 104
2082839 CTAGCAAAAT
* * *
2082849 ATAAACCATTGAGATAGTTTCTCTCGAAACAAAGTTTAGTCTCGCTTGAGATAGTTTCTCTTGAA
1 ATAAACAATTGAGATAGTTTCCCTCGAAACAAAGTTTAGTCTCGCTTGAGATAGTTTCTCTCGAA
* * * * *
2082914 ACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAAC
66 ACAAAGTTTCGTCTCGCTTGAAATACTCTCTCTTGAAAC
* *
2082953 ATAAACAATTGAGATTA-TTTCCCTTGAAACAAA-TTTTGTCTCGCTTGAGATAGTTTCTCTCGA
1 ATAAACAATTGAGA-TAGTTTCCCTCGAAACAAAGTTTAGTCTCGCTTGAGATAGTTTCTCTCGA
*
2083016 AATAAAGTTTCGTCTCGCTTGAAATACTCTCTCTTGAAAC
65 AACAAAGTTTCGTCTCGCTTGAAATACTCTCTCTTGAAAC
2083056 A
1 A
2083057 ATTTTTTGTC
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
103 63 0.68
104 27 0.29
105 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (104 bp):
ATAAACAATTGAGATAGTTTCCCTCGAAACAAAGTTTAGTCTCGCTTGAGATAGTTTCTCTCGAA
ACAAAGTTTCGTCTCGCTTGAAATACTCTCTCTTGAAAC
Found at i:2083033 original size:37 final size:37
Alignment explanation
Indices: 2082961--2083093 Score: 135
Period size: 37 Copynumber: 3.6 Consensus size: 37
2082951 ACATAAACAA
* *
2082961 TTGAGATTA-TTTCCCTTGAAACAAA-TTTTGTCTCGC
1 TTGAGA-TAGTTTCTCTTGAAACAAAGTTTCGTCTCGC
* *
2082997 TTGAGATAGTTTCTCTCGAAATAAAGTTTCGTCTCGC
1 TTGAGATAGTTTCTCTTGAAACAAAGTTTCGTCTCGC
* * * ** * *
2083034 TTGAAATACTCTCTCTTGAAACAATTTTTTGTCTCTC
1 TTGAGATAGTTTCTCTTGAAACAAAGTTTCGTCTCGC
*
2083071 TTGAGACAGTTTCTCTTGAAACA
1 TTGAGATAGTTTCTCTTGAAACA
2083094 TAAACAATTG
Statistics
Matches: 78, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
35 2 0.03
36 19 0.24
37 57 0.73
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.41
Consensus pattern (37 bp):
TTGAGATAGTTTCTCTTGAAACAAAGTTTCGTCTCGC
Found at i:2083114 original size:140 final size:140
Alignment explanation
Indices: 2082857--2083441 Score: 909
Period size: 140 Copynumber: 4.2 Consensus size: 140
2082847 ATATAAACCA
* *
2082857 TTGAGATAGTTTCTCTCGAAACAAAGTTTAGTCTCGCTTGAGATAGTTTCTCTTGAAACAAAGTT
1 TTGAGATAGTTTCTCTCGAAACAAAGTTTCGTCTCGCTTGAGACAGTTTCTCTTGAAACAAAGTT
* *
2082922 TTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACAATTGAGATTATTTCCCTTGAAACAAAT
66 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACAATTGAGATTGTTTCCCTTGAAACAAAT
2082987 TTTGTCTCGC
131 TTTGTCTCGC
* * * * * **
2082997 TTGAGATAGTTTCTCTCGAAATAAAGTTTCGTCTCGCTTGAAATACTCTCTCTTGAAACAATTTT
1 TTGAGATAGTTTCTCTCGAAACAAAGTTTCGTCTCGCTTGAGACAGTTTCTCTTGAAACAAAGTT
2083062 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACAATTGAGATTGTTTCCCTTGAAACAAAT
66 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACAATTGAGATTGTTTCCCTTGAAACAAAT
*
2083127 TTTGTCTTGC
131 TTTGTCTCGC
* * *
2083137 TTGAGATAGTTTCTCTCGAAACAAAGTTTCATCTCGGTTGAGACAGTTTCTCTTAAAACAAAGTT
1 TTGAGATAGTTTCTCTCGAAACAAAGTTTCGTCTCGCTTGAGACAGTTTCTCTTGAAACAAAGTT
* * * * *
2083202 TTGTCTCTCTTAAGATAGTTTCTCTTAAAACATAAACAACTGAGATTGTTTCCCTTGAAATAAAT
66 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACAATTGAGATTGTTTCCCTTGAAACAAAT
2083267 TTTGTCTCGC
131 TTTGTCTCGC
* * * * *
2083277 TTTAGACAGTTTCTCTCGAAACAAAGTTTCGTCACGATTGAGACAATTTCTCTTGAAACAAAGTT
1 TTGAGATAGTTTCTCTCGAAACAAAGTTTCGTCTCGCTTGAGACAGTTTCTCTTGAAACAAAGTT
*
2083342 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAATAATTGAGATTGTTTCCCTTGAAACAAAT
66 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACAATTGAGATTGTTTCCCTTGAAACAAAT
**
2083407 TTTGTCTTTC
131 TTTGTCTCGC
*
2083417 TTGAGATAGTTTCTCTTGAAACAAA
1 TTGAGATAGTTTCTCTCGAAACAAA
2083442 TTATCCCTAA
Statistics
Matches: 401, Mismatches: 44, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
140 401 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (140 bp):
TTGAGATAGTTTCTCTCGAAACAAAGTTTCGTCTCGCTTGAGACAGTTTCTCTTGAAACAAAGTT
TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACAATTGAGATTGTTTCCCTTGAAACAAAT
TTTGTCTCGC
Found at i:2083139 original size:103 final size:104
Alignment explanation
Indices: 2082997--2083196 Score: 240
Period size: 103 Copynumber: 1.9 Consensus size: 104
2082987 TTTGTCTCGC
* * * **
2082997 TTGAGATAGTTTCTCTCGAAATAAAGTTTCGTCTCGCTTGAAATACTCTCTCTTGAAACAATTTT
1 TTGAGATAGTTTCCCTCGAAACAAAGTTTCGTCTCGCTTGAAATACTCTCTCTCGAAACAAAGTT
** * *
2083062 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACAA
66 TCATCTCGCTTGAGACAGTTTCTCTTAAAACATAAACAA
* * * * * * *
2083101 TTGAGATTGTTTCCCTTGAAACAAA-TTTTGTCTTGCTTGAGATAGTTTCTCTCGAAACAAAGTT
1 TTGAGATAGTTTCCCTCGAAACAAAGTTTCGTCTCGCTTGAAATACTCTCTCTCGAAACAAAGTT
*
2083165 TCATCTCGGTTGAGACAGTTTCTCTTAAAACA
66 TCATCTCGCTTGAGACAGTTTCTCTTAAAACA
2083197 AAGTTTTGTC
Statistics
Matches: 79, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
103 58 0.73
104 21 0.27
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (104 bp):
TTGAGATAGTTTCCCTCGAAACAAAGTTTCGTCTCGCTTGAAATACTCTCTCTCGAAACAAAGTT
TCATCTCGCTTGAGACAGTTTCTCTTAAAACATAAACAA
Found at i:2083185 original size:37 final size:37
Alignment explanation
Indices: 2083109--2083233 Score: 126
Period size: 37 Copynumber: 3.4 Consensus size: 37
2083099 AATTGAGATT
* * * *
2083109 GTTTCCCTTGAAACAAA-TTTTGTCTTGCTTGAGATA
1 GTTTCTCTTGAAACAAAGTTTCGTCTCGCTTGAGACA
* * *
2083145 GTTTCTCTCGAAACAAAGTTTCATCTCGGTTGAGACA
1 GTTTCTCTTGAAACAAAGTTTCGTCTCGCTTGAGACA
* * * * *
2083182 GTTTCTCTTAAAACAAAGTTTTGTCTCTCTTAAGATA
1 GTTTCTCTTGAAACAAAGTTTCGTCTCGCTTGAGACA
*
2083219 GTTTCTCTTAAAACA
1 GTTTCTCTTGAAACA
2083234 TAAACAACTG
Statistics
Matches: 73, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
36 15 0.21
37 58 0.79
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.39
Consensus pattern (37 bp):
GTTTCTCTTGAAACAAAGTTTCGTCTCGCTTGAGACA
Found at i:2083321 original size:37 final size:37
Alignment explanation
Indices: 2083249--2083373 Score: 135
Period size: 37 Copynumber: 3.4 Consensus size: 37
2083239 AACTGAGATT
* * * * * *
2083249 GTTTCCCTTGAAATAAA-TTTTGTCTCGCTTTAGACA
1 GTTTCTCTTGAAACAAAGTTTCGTCACGATTGAGACA
*
2083285 GTTTCTCTCGAAACAAAGTTTCGTCACGATTGAGACA
1 GTTTCTCTTGAAACAAAGTTTCGTCACGATTGAGACA
* * * **
2083322 ATTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAAGTTTCGTCACGATTGAGACA
2083359 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
2083374 TAAATAATTG
Statistics
Matches: 74, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
36 14 0.19
37 60 0.81
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (37 bp):
GTTTCTCTTGAAACAAAGTTTCGTCACGATTGAGACA
Found at i:2083917 original size:3 final size:3
Alignment explanation
Indices: 2083909--2083933 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2083899 GTTCTAATTA
2083909 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
2083934 ACATTATAAT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2086123 original size:64 final size:64
Alignment explanation
Indices: 2086070--2086233 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
2086060 CGGTGCACCA
*
2086070 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * ** *
2086134 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCACCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * *
2086199 AGAATGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTT
2086234 CAATTAATTC
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
64 32 0.38
65 53 0.62
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:2086258 original size:65 final size:62
Alignment explanation
Indices: 2086074--2086280 Score: 195
Period size: 65 Copynumber: 3.2 Consensus size: 62
2086064 GCACCAAGTG
* *
2086074 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGC-CTGAGTGCATCGATGCATGGCTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAT-TCACT-AGTGCATCGATGCATGG--AG
2086138 -
62 A
* * *
2086138 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCACCGATGCATGGAGA
1 TGCATCGATGCATGAAATGCATTCGATG-TTTG-AAA-ATTCACTAGTGCATCGATGCATGGAG-
2086202 A
62 A
* * * * *
2086203 TGCATCGGTGCATGGAATGCATTCGATGTTTCAATTAATTCACTAATGCATCGATGCATGGTTGA
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATTCACTAGTGCATCGATGCATGG-AGA
*
2086268 TGCATCGGTGCAT
1 TGCATCGATGCAT
2086281 CACCTCAAAT
Statistics
Matches: 120, Mismatches: 13, Indels: 19
0.79 0.09 0.12
Matches are distributed among these distances:
63 3 0.03
64 35 0.29
65 75 0.62
66 5 0.04
67 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (62 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATTCACTAGTGCATCGATGCATGGAGA
Found at i:2086473 original size:20 final size:21
Alignment explanation
Indices: 2086450--2086489 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2086440 GAATCGAATA
2086450 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
2086470 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
2086490 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:2094467 original size:64 final size:64
Alignment explanation
Indices: 2094414--2094577 Score: 229
Period size: 65 Copynumber: 2.5 Consensus size: 64
2094404 CGGTGCACCA
*
2094414 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * **
2094478 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * *
2094543 AGAATGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTT
2094578 CAATTAATTC
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
64 32 0.37
65 54 0.63
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:2094566 original size:17 final size:19
Alignment explanation
Indices: 2094528--2094574 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
2094518 ATATTCAGAG
2094528 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
2094547 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATGGAGAA
2094564 TGCATTCGATG
1 TGCA-TCGATG
2094575 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:2094597 original size:65 final size:62
Alignment explanation
Indices: 2094418--2094624 Score: 204
Period size: 65 Copynumber: 3.2 Consensus size: 62
2094408 GCACCAAGTG
* *
2094418 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGC-CTGAGTGCATCGATGCATGGCTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAT-TCACT-AGTGCATCGATGCATGG--AG
2094482 -
62 A
* *
2094482 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGAGA
1 TGCATCGATGCATGAAATGCATTCGATG-TTTG-AAA-ATTCACTAGTGCATCGATGCATGGAG-
2094546 A
62 A
* * * * *
2094547 TGCATCGGTGCATGGAATGCATTCGATGTTTCAATTAATTCACTAATGCATCGATGCATGGTTGA
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATTCACTAGTGCATCGATGCATGG-AGA
*
2094612 TGCATCGGTGCAT
1 TGCATCGATGCAT
2094625 CACCTCAAAT
Statistics
Matches: 122, Mismatches: 11, Indels: 19
0.80 0.07 0.12
Matches are distributed among these distances:
63 3 0.02
64 35 0.29
65 77 0.63
66 5 0.04
67 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (62 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATTCACTAGTGCATCGATGCATGGAGA
Found at i:2096109 original size:18 final size:17
Alignment explanation
Indices: 2096055--2096103 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
2096045 TTGGACCCTT
* *
2096055 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
2096073 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
2096091 AGTGCATTCGATG
1 AGTGCA-TCGATG
2096104 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:2096223 original size:65 final size:65
Alignment explanation
Indices: 2096074--2096234 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 65
2096064 GTGCACTAAG
* * *
2096074 AGTGCATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCT
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAATGCATCGATGCATGGCT
* * * * *
2096138 GGTGCATCGATGCATCAAATGCATTCGATGTTTTTATAAA-ATCCTCAATGCATCGGTGCATGG-
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAATGCATCGATGCATGGC
2096201 T
65 T
*
2096202 AAGTGCATCGATGCATGAAATGCATTCGATGTT
1 -AGTGCATCGATGCATCAAATGCATTCGATGTT
2096235 CAATTTAATT
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 29 0.35
65 52 0.62
66 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (65 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAATGCATCGATGCATGGCT
Found at i:2104801 original size:18 final size:17
Alignment explanation
Indices: 2104747--2104795 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
2104737 TTGGACCCTT
* *
2104747 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
2104765 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
2104783 AGTGCATTCGATG
1 AGTGCA-TCGATG
2104796 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:2116727 original size:21 final size:21
Alignment explanation
Indices: 2116701--2116763 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
2116691 TTAAACTTAA
2116701 TAGTAATGATTTCAAAGATAT
1 TAGTAATGATTTCAAAGATAT
** *
2116722 TAGT-A--A---CAAACTTAA
1 TAGTAATGATTTCAAAGATAT
2116737 TAGTAATGATTTCAAAGATAT
1 TAGTAATGATTTCAAAGATAT
2116758 TAGTAA
1 TAGTAA
2116764 CCTAAAATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
15 10 0.33
16 1 0.03
18 2 0.07
20 1 0.03
21 16 0.53
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TAGTAATGATTTCAAAGATAT
Found at i:2116733 original size:36 final size:36
Alignment explanation
Indices: 2116693--2116764 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
2116683 ATACAAACTT
2116693 AAACTTAATAGTAATGATTTCAAAGATATTAGTAAC
1 AAACTTAATAGTAATGATTTCAAAGATATTAGTAAC
2116729 AAACTTAATAGTAATGATTTCAAAGATATTAGTAAC
1 AAACTTAATAGTAATGATTTCAAAGATATTAGTAAC
2116765 CTAAAATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.33
Consensus pattern (36 bp):
AAACTTAATAGTAATGATTTCAAAGATATTAGTAAC
Found at i:2120612 original size:10 final size:10
Alignment explanation
Indices: 2120572--2120605 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2120562 AAAAACAAAA
*
2120572 TTTCCGGTTT
1 TTTCCGATTT
2120582 TTTCCGATTT
1 TTTCCGATTT
*
2120592 TTTTCGATTT
1 TTTCCGATTT
2120602 TTTC
1 TTTC
2120606 TGGTTTTCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.06, C:0.18, G:0.12, T:0.65
Consensus pattern (10 bp):
TTTCCGATTT
Found at i:2121426 original size:27 final size:27
Alignment explanation
Indices: 2121370--2121432 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
2121360 TTTCTAGTCT
**
2121370 AGTCGAATTTATCAAATTAAAATTTTA
1 AGTCGAATTTATCAAATTAAAATTCGA
*
2121397 AGTCGAATTTATGAAATTAAAATTCGA
1 AGTCGAATTTATCAAATTAAAATTCGA
*
2121424 AGTCAAATT
1 AGTCGAATT
2121433 CGAGTTGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (27 bp):
AGTCGAATTTATCAAATTAAAATTCGA
Found at i:2122935 original size:19 final size:19
Alignment explanation
Indices: 2122911--2122947 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2122901 ATGACCAATA
*
2122911 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
2122930 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
2122948 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:2123111 original size:19 final size:19
Alignment explanation
Indices: 2123087--2123123 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2123077 TGCGATACTG
*
2123087 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
*
2123106 GAGATCGTATTGCGATTT
1 GAGATCGCATTGCGATTT
2123124 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:2123546 original size:20 final size:20
Alignment explanation
Indices: 2123502--2123557 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2123492 GATAGGCAAA
* **
2123502 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
2123522 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
*
2123542 TTCGTATTGCGATTTT
1 TTCGTGTTGCGATTTT
2123558 AAGTTTCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:2123564 original size:20 final size:20
Alignment explanation
Indices: 2123521--2123564 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2123511 CGATAGTCAT
* * *
2123521 TTTCGTGTTGCGATTTTCAT
1 TTTCGTATTGCGATTTTAAG
2123541 TTTCGTATTGCGATTTTAAG
1 TTTCGTATTGCGATTTTAAG
2123561 TTTC
1 TTTC
2123565 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.55
Consensus pattern (20 bp):
TTTCGTATTGCGATTTTAAG
Found at i:2125472 original size:22 final size:20
Alignment explanation
Indices: 2125437--2125482 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
2125427 AATAATTTCT
*
2125437 GAAACTTAAAATCGTAACAC
1 GAAACTTAAAATCGCAACAC
*
2125457 GAAACTTAAAAAATCGCAACGC
1 GAAACTT--AAAATCGCAACAC
2125479 GAAA
1 GAAA
2125483 ATGACTATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
22 15 0.68
ACGTcount: A:0.52, C:0.20, G:0.13, T:0.15
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:2125494 original size:20 final size:20
Alignment explanation
Indices: 2125469--2125517 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
2125459 AACTTAAAAA
2125469 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
2125489 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
2125509 ATCGCAACG
1 ATCGCAACG
2125518 GGATAATCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.27, G:0.22, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:2125562 original size:20 final size:20
Alignment explanation
Indices: 2125522--2125574 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
2125512 GCAACGGGAT
2125522 AATCGCAATGCG-AAATAAA
1 AATCGCAATGCGAAAATAAA
*
2125541 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCGAAAATAAA
*
2125561 AATCGCAACGCGAA
1 AATCGCAATGCGAA
2125575 TTTAGTTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.13
Consensus pattern (20 bp):
AATCGCAATGCGAAAATAAA
Found at i:2125621 original size:19 final size:19
Alignment explanation
Indices: 2125575--2125632 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
2125565 GCAACGCGAA
*
2125575 TTTAGTTTCGCGTTGAGATT
1 TTTA-TTTCGCGTTGCGATT
** *
2125595 TTGGTTTCTCGTTGCGATT
1 TTTATTTCGCGTTGCGATT
*
2125614 TTTATTTCGCATTGCGATT
1 TTTATTTCGCGTTGCGATT
2125633 ATCCCATTGC
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
19 28 0.93
20 2 0.07
ACGTcount: A:0.12, C:0.14, G:0.22, T:0.52
Consensus pattern (19 bp):
TTTATTTCGCGTTGCGATT
Found at i:2125664 original size:20 final size:20
Alignment explanation
Indices: 2125639--2125685 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
2125629 GATTATCCCA
2125639 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
*
2125659 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTCCGCG
2125679 TTGCGAT
1 TTGCGAT
2125686 TTTTAAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCG
Found at i:2125711 original size:20 final size:21
Alignment explanation
Indices: 2125672--2125716 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
2125662 CGATAGTCAT
*
2125672 TTTCGCGTTGCGATTTTTAAG
1 TTTCGCGTTACGATTTTTAAG
*
2125693 TTTCGTGTTACGA-TTTTAAG
1 TTTCGCGTTACGATTTTTAAG
2125713 TTTC
1 TTTC
2125717 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.16, C:0.13, G:0.20, T:0.51
Consensus pattern (21 bp):
TTTCGCGTTACGATTTTTAAG
Found at i:2126251 original size:42 final size:42
Alignment explanation
Indices: 2126186--2126277 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
2126176 GCCTGACTCA
** * *
2126186 CCTATCATCGTTCAAGAGGCCTCTCCTA-TCATTCAAGAGGCC
1 CCTATCATCCCTCAAAAGGCCTCTCCCACT-ATTCAAGAGGCC
* *
2126228 CCTATCATCCCTCAAAAGTCCTCTCCCACTGTTCAAGAGGCC
1 CCTATCATCCCTCAAAAGGCCTCTCCCACTATTCAAGAGGCC
*
2126270 CCTGTCAT
1 CCTATCAT
2126278 GGTTGAAGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 41 0.98
43 1 0.02
ACGTcount: A:0.23, C:0.37, G:0.14, T:0.26
Consensus pattern (42 bp):
CCTATCATCCCTCAAAAGGCCTCTCCCACTATTCAAGAGGCC
Found at i:2127861 original size:20 final size:20
Alignment explanation
Indices: 2127836--2127899 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
2127826 AGGTACACTT
*
2127836 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAACTCAAAA
* *
2127856 TCGCAATGCGAAAGTCAAAA
1 TCGCAACGCGAAACTCAAAA
* **
2127876 TCACAATACGAAAGC-CAAAA
1 TCGCAACGCGAAA-CTCAAAA
2127896 TCGC
1 TCGC
2127900 GTGAAAGTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.45, C:0.27, G:0.14, T:0.14
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:2127973 original size:54 final size:55
Alignment explanation
Indices: 2127905--2128032 Score: 170
Period size: 54 Copynumber: 2.4 Consensus size: 55
2127895 ATCGCGTGAA
* * *
2127905 AGTC-AATTCACGTTGTGATAGTCTAATACGCTTTGCGATTTTCT-CGTTGCGAT
1 AGTCAAATTCACGTTGCGATAGTCAAATACGCGTTGCGATTTTCTGCGTTGCGAT
* * *
2127958 AGTCAAATTCCCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTTGCGTTGCGAT
1 AGTCAAATTCACGTTGCGATAGTCAAATACGCGTTGCGATTTTCTGCGTTGCGAT
* *
2128013 AGTCATATTCGCGTTGCGAT
1 AGTCAAATTCACGTTGCGAT
2128033 TTTTGCGTTG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
53 4 0.06
54 34 0.52
55 27 0.42
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (55 bp):
AGTCAAATTCACGTTGCGATAGTCAAATACGCGTTGCGATTTTCTGCGTTGCGAT
Found at i:2127974 original size:20 final size:20
Alignment explanation
Indices: 2127949--2127997 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
2127939 GCGATTTTCT
2127949 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCC
*
2127969 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCC
2127989 CGTTGCGAT
1 CGTTGCGAT
2127998 TTTTTGCGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCC
Found at i:2128010 original size:35 final size:35
Alignment explanation
Indices: 2127969--2128066 Score: 171
Period size: 34 Copynumber: 2.8 Consensus size: 35
2127959 GTCAAATTCC
2127969 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTTTG
*
2128004 CGTTGCGATAGTCATATTCGCGTTGCGA-TTTTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATTTTTTG
*
2128038 CGTTGCGATAGTCAAATTCACGTTGCGAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT
2128067 ATTCAAATGA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
34 32 0.54
35 27 0.46
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.38
Consensus pattern (35 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATTTTTTG
Found at i:2128028 original size:20 final size:20
Alignment explanation
Indices: 2128003--2128074 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 20
2127993 GCGATTTTTT
*
2128003 GCGTTGCGATAGTCATATTC
1 GCGTTGCGATAGTCAAATTC
*
2128023 GCGTTGCGAT--T----TTT
1 GCGTTGCGATAGTCAAATTC
2128037 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
* *
2128057 ACGTTGCGATATTCAAAT
1 GCGTTGCGATAGTCAAAT
2128075 GAATGTGTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
14 12 0.29
16 1 0.02
18 1 0.02
20 28 0.67
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:2128301 original size:140 final size:140
Alignment explanation
Indices: 2128045--2128327 Score: 503
Period size: 140 Copynumber: 2.0 Consensus size: 140
2128035 TTGCGTTGCG
*
2128045 ATAGTCAAATTCACGTTGCGATATTCAAATGAATGTGTAATAGGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCACGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
2128110 TAACAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAATTTACACATAA
66 TAACAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATATTAAAAATTTACACATAA
2128175 AATACACATA
131 AATACACATA
** *
2128185 ATAGTCAAATTCGTGTTGCGATATTCAAATGAATGTGTAATAATTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCACGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
* *
2128250 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATATTAAAAGTTTACACATAA
66 TAACAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATATTAAAAATTTACACATAA
2128315 AATACACATA
131 AATACACATA
2128325 ATA
1 ATA
2128328 CAACGTTTGC
Statistics
Matches: 136, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 136 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCACGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAACAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATATTAAAAATTTACACATAA
AATACACATA
Found at i:2128409 original size:18 final size:18
Alignment explanation
Indices: 2128386--2128420 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2128376 AGCCGGGTTG
*
2128386 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
2128404 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
2128421 GCCTTTTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:2130710 original size:24 final size:24
Alignment explanation
Indices: 2130683--2130736 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
2130673 CTGAAACATC
*
2130683 ATCAAAATCTGAGTATTGAACAAG
1 ATCAAAATCCGAGTATTGAACAAG
* * *
2130707 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGAACAAG
2130731 ATCAAA
1 ATCAAA
2130737 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGAACAAG
Found at i:2131580 original size:20 final size:20
Alignment explanation
Indices: 2131555--2131643 Score: 106
Period size: 20 Copynumber: 4.5 Consensus size: 20
2131545 TTGAAATTCA
*
2131555 GCGTTGCGACAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
*
2131575 GCGTTGCGATAGTCTGAATC
1 GCGTTGCGATAGTCAGAATC
** *
2131595 GCAATGCGATAGTCTGAATC
1 GCGTTGCGATAGTCAGAATC
** *
2131615 GCAATGCGATAGTCAAAATC
1 GCGTTGCGATAGTCAGAATC
2131635 GCGTTGCGA
1 GCGTTGCGA
2131644 ATCTGGAAAC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (20 bp):
GCGTTGCGATAGTCAGAATC
Found at i:2131916 original size:22 final size:22
Alignment explanation
Indices: 2131890--2131966 Score: 109
Period size: 22 Copynumber: 3.5 Consensus size: 22
2131880 GGAGATAGAT
* * *
2131890 GGATTTCGCCAGAGATGAGGAC
1 GGATTTCGTCGGAGATGGGGAC
*
2131912 GGATTTCGTCGGAGATGGGGAT
1 GGATTTCGTCGGAGATGGGGAC
2131934 GGATTTCGTCGGAGATGGGGAC
1 GGATTTCGTCGGAGATGGGGAC
*
2131956 GGATGTCGTCG
1 GGATTTCGTCG
2131967 TAGAGAGTGA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.19, C:0.14, G:0.43, T:0.23
Consensus pattern (22 bp):
GGATTTCGTCGGAGATGGGGAC
Found at i:2132169 original size:21 final size:21
Alignment explanation
Indices: 2132143--2132198 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
2132133 GATAGTCAGA
*
2132143 ATCGCGTTGTGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
2132164 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
2132185 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
2132199 TACATATTCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.18, C:0.14, G:0.25, T:0.43
Consensus pattern (21 bp):
ATCGCGTTGCGATTATGTATT
Found at i:2132237 original size:21 final size:21
Alignment explanation
Indices: 2132213--2132259 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2132203 TATTCGCATT
2132213 GCGATTTTCAAAAATCGCAAC
1 GCGATTTTCAAAAATCGCAAC
* ** *
2132234 GCGAATTTGGAAAATCGCAAT
1 GCGATTTTCAAAAATCGCAAC
2132255 GCGAT
1 GCGAT
2132260 AGTCAAAATC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (21 bp):
GCGATTTTCAAAAATCGCAAC
Found at i:2135023 original size:36 final size:36
Alignment explanation
Indices: 2134950--2135025 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
2134940 AAACCCGAAT
* **
2134950 CCGACCCAACCCGAACACAACCTTAAAAAAATTGAC
1 CCGACCCAACCCGAACACAAACTTAAAAAAACAGAC
* *
2134986 CCGACCCGACCCGAACCCAAAC-TAAAAAAACCAGAC
1 CCGACCCAACCCGAACACAAACTTAAAAAAA-CAGAC
2135022 CCGA
1 CCGA
2135026 TGGGGTCGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 8 0.24
36 26 0.76
ACGTcount: A:0.43, C:0.39, G:0.11, T:0.07
Consensus pattern (36 bp):
CCGACCCAACCCGAACACAAACTTAAAAAAACAGAC
Found at i:2138125 original size:21 final size:23
Alignment explanation
Indices: 2138092--2138142 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
2138082 AAAAAAAGGA
2138092 AAATAAGATTAAAAATAATA-AAT
1 AAATAA-ATTAAAAATAATATAAT
*
2138115 AAATAAA-TAAATATAATATAAT
1 AAATAAATTAAAAATAATATAAT
2138137 -AATAAA
1 AAATAAA
2138143 AACTATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 16 0.62
22 4 0.15
23 6 0.23
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AAATAAATTAAAAATAATATAAT
Found at i:2138245 original size:23 final size:26
Alignment explanation
Indices: 2138190--2138245 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
2138180 AAAAAAATCA
2138190 TTTTTTTAGAAAACAATATATACTAT
1 TTTTTTTAGAAAACAATATATACTAT
* * *
2138216 ATGTTTTA-AAAACTATAT-TA-TAT
1 TTTTTTTAGAAAACAATATATACTAT
2138239 TTTTTTT
1 TTTTTTT
2138246 TTCAAAAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 8 0.32
24 2 0.08
25 9 0.36
26 6 0.24
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.54
Consensus pattern (26 bp):
TTTTTTTAGAAAACAATATATACTAT
Found at i:2138433 original size:76 final size:75
Alignment explanation
Indices: 2138338--2138561 Score: 301
Period size: 77 Copynumber: 2.9 Consensus size: 75
2138328 ATGTTTTTAA
* *
2138338 AAAACAATGTTTT-CAAAACTATATATTGTATATATTTTCAAAAATGTTTCCAAAACTATATATT
1 AAAA-AAT-TTTTCCAAAACTATATATTATATATATTTTAAAAAATGTTTCCAAAACTATATATT
2138402 ATATATATTTT-
64 ATATATATTTTC
* *
2138413 AAAGAAATATTTTCCAAAACTATATATTATATATGTTTTTGAAAAATGTTTTCCAAAACTATATA
1 AAA-AAAT-TTTTCCAAAACTATATATTATATAT-ATTTTAAAAAATG-TTTCCAAAACTATATA
2138478 TTATATATATTTTC
62 TTATATATATTTTC
* *
2138492 AAAAAATGTTTCAAAAACTATATATTATATATATTTTTGAAAAAATGTTT-CAAAACTATATATT
1 AAAAAATTTTTCCAAAACTATATATTATATATA-TTTT-AAAAAATGTTTCCAAAACTATATATT
2138556 ATATAT
64 ATATAT
2138562 GTTATATATA
Statistics
Matches: 134, Mismatches: 8, Indels: 13
0.86 0.05 0.08
Matches are distributed among these distances:
75 10 0.07
76 40 0.30
77 41 0.31
78 40 0.30
79 3 0.02
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.43
Consensus pattern (75 bp):
AAAAAATTTTTCCAAAACTATATATTATATATATTTTAAAAAATGTTTCCAAAACTATATATTAT
ATATATTTTC
Found at i:2138509 original size:38 final size:38
Alignment explanation
Indices: 2138338--2138561 Score: 310
Period size: 39 Copynumber: 5.8 Consensus size: 38
2138328 ATGTTTTTAA
* *
2138338 AAAACAATGTTTTCAAAACTATATATTGTATATATTTTC
1 AAAA-AATGTTTCCAAAACTATATATTATATATATTTTC
2138377 -AAAAATGTTTCCAAAACTATATATTATATATATTTT-
1 AAAAAATGTTTCCAAAACTATATATTATATATATTTTC
* * *
2138413 AAAGAAATATTTTCCAAAACTATATATTATATATGTTTTT
1 AAA-AAAT-GTTTCCAAAACTATATATTATATATATTTTC
*
2138453 GAAAAATGTTTTCCAAAACTATATATTATATATATTTTC
1 AAAAAATG-TTTCCAAAACTATATATTATATATATTTTC
* *
2138492 AAAAAATGTTTCAAAAACTATATATTATATATATTTTTG
1 AAAAAATGTTTCCAAAACTATATATTATATATA-TTTTC
2138531 AAAAAATGTTT-CAAAACTATATATTATATAT
1 AAAAAATGTTTCCAAAACTATATATTATATAT
2138562 GTTATATATA
Statistics
Matches: 167, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
37 33 0.20
38 50 0.30
39 82 0.49
40 2 0.01
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.43
Consensus pattern (38 bp):
AAAAAATGTTTCCAAAACTATATATTATATATATTTTC
Found at i:2139262 original size:201 final size:201
Alignment explanation
Indices: 2138932--2139654 Score: 867
Period size: 201 Copynumber: 3.6 Consensus size: 201
2138922 AAATCATAGT
* * * * * * * *
2138932 CAACCTTGGTCTTCTTCTCGACTTAAAGACCTTGGTGTAAAAATTCTACCGAAAAGTAGTTCTTT
1 CAACCTAGGTCTTCTTCTTGACTTAAAGACCTCGGT-TTAAACTTCAACCGAAAAGTAGTTCCTC
* * * * * * *
2138997 GTTGCTACTATGTGGTTGATATGCCTTCGAACTGAACGTAATCGAACTCCAAAGTTTACGTTGAC
65 GTTGCTACTATGTGGCTGATATGCCATCGAGCTGAATGAAATCGAACTCGAAAGTTTTCGTTGAC
* * *
2139062 AGATAGCCCTTCTCGCCTTAAGTTATATAGTAAATTTGGCTGGGAGATAGTTCCTTGTTGCTAAA
130 AGATAGCCCTTCTCGCCTTGAGCTATATAGTAAATTCGGCTGGGAGATAGTTCCTTGTTGCTAAA
2139127 TCGCAAC
195 TCGCAAC
* * *
2139134 CAACCTAGGTCTTCTTCTTGCCTTAAAGACCTCAGTTTAAACTTCAAGCGAAAAGTAGTTCCTCG
1 CAACCTAGGTCTTCTTCTTGACTTAAAGACCTCGGTTTAAACTTCAACCGAAAAGTAGTTCCTCG
* * * *
2139199 CTGCTACTATGTGGCTGATATGCCACCGAGCTGAATGGAATCGAACTTGAAAGTTTTCGTTGACA
66 TTGCTACTATGTGGCTGATATGCCATCGAGCTGAATGAAATCGAACTCGAAAGTTTTCGTTGACA
* * * * *
2139264 GATAGTCCTTCTCGCCTTGAGCTATATTGTAAATACGACTGGGAGATAGTTCTTTGTTGCTAAAT
131 GATAGCCCTTCTCGCCTTGAGCTATATAGTAAATTCGGCTGGGAGATAGTTCCTTGTTGCTAAAT
*
2139329 CGCAGC
196 CGCAAC
* * * * * *
2139335 CAACCTTGGTCTTCTTCTTAACTTAAAGACCTCTGTTTAAGCTTCAACCAAAAAGTAATTCCTCG
1 CAACCTAGGTCTTCTTCTTGACTTAAAGACCTCGGTTTAAACTTCAACCGAAAAGTAGTTCCTCG
* ** *
2139400 TTGCTACCATACGGCTGATATGCCATCGAGCTGAATGAAATCAAACTCGAAAGTTTTCGTTGACA
66 TTGCTACTATGTGGCTGATATGCCATCGAGCTGAATGAAATCGAACTCGAAAGTTTTCGTTGACA
* * ** * * *
2139465 GATATCCCTTCTTGCCTTGAGCTATGCAGTAAATTCAGCTGGGAGATAGTTCCTTATTACTAAAT
131 GATAGCCCTTCTCGCCTTGAGCTATATAGTAAATTCGGCTGGGAGATAGTTCCTTGTTGCTAAAT
*
2139530 CACAAC
196 CGCAAC
* * * *
2139536 CAACCTAGGTATTCTTTTTGAGTTAAAGACCTCGGTTTAAACTTCAATCGAAAAGTAGTTCCTCG
1 CAACCTAGGTCTTCTTCTTGACTTAAAGACCTCGGTTTAAACTTCAACCGAAAAGTAGTTCCTCG
* * * ** * * *
2139601 TTGCTACCATGCGGTTGATACACCCTCGA---GAATGGAATCGAACTCGATAGTTTT
66 TTGCTACTATGTGGCTGATATGCCATCGAGCTGAATGAAATCGAACTCGAAAGTTTT
2139655 TATTGCAGAT
Statistics
Matches: 443, Mismatches: 78, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
198 22 0.05
201 390 0.88
202 31 0.07
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (201 bp):
CAACCTAGGTCTTCTTCTTGACTTAAAGACCTCGGTTTAAACTTCAACCGAAAAGTAGTTCCTCG
TTGCTACTATGTGGCTGATATGCCATCGAGCTGAATGAAATCGAACTCGAAAGTTTTCGTTGACA
GATAGCCCTTCTCGCCTTGAGCTATATAGTAAATTCGGCTGGGAGATAGTTCCTTGTTGCTAAAT
CGCAAC
Found at i:2148212 original size:4 final size:4
Alignment explanation
Indices: 2148203--2148232 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
2148193 TTAAAAATAA
2148203 AAAT AAAT AAAT AAAT AAAT ATAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT A-AAT AAAT A
2148233 TAATGTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:2148230 original size:17 final size:18
Alignment explanation
Indices: 2148184--2148232 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
2148174 AAAAAGAAAG
*
2148184 AAAATAAGATTAA-AAATA
1 AAAATAA-ATAAATAAATA
2148202 AAAATAAATAAATAAATA
1 AAAATAAATAAATAAATA
*
2148220 AATAT-AATAAATA
1 AAAATAAATAAATA
2148233 TAATGTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAATAAATAAATAAATA
Found at i:2148241 original size:14 final size:13
Alignment explanation
Indices: 2148194--2148243 Score: 59
Period size: 12 Copynumber: 3.9 Consensus size: 13
2148184 AAAATAAGAT
*
2148194 TAAAAATAA-AAA
1 TAAATATAATAAA
2148206 TAAATA-AATAAA
1 TAAATATAATAAA
2148218 TAAATATAATAAA
1 TAAATATAATAAA
*
2148231 TATAATGTAATAA
1 TA-AATATAATAA
2148244 TAATAAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 2 0.06
12 14 0.42
13 8 0.24
14 9 0.27
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (13 bp):
TAAATATAATAAA
Found at i:2148334 original size:23 final size:24
Alignment explanation
Indices: 2148307--2148359 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
2148297 TTTTTTTAGA
*
2148307 AAAAATTATA-TATTATATGTTTT-
1 AAAAACTATATTA-TATATGTTTTC
*
2148330 AAAAACTATATTATATTTGTTTTC
1 AAAAACTATATTATATATGTTTTC
2148354 AAAAAC
1 AAAAAC
2148360 GTTTTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (24 bp):
AAAAACTATATTATATATGTTTTC
Found at i:2148341 original size:21 final size:23
Alignment explanation
Indices: 2148315--2148359 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
2148305 GAAAAAATTA
2148315 TATATTATA-TGTTTT-AAAAAC
1 TATATTATATTGTTTTCAAAAAC
2148336 TATATTATATTTGTTTTCAAAAAC
1 TATATTATA-TTGTTTTCAAAAAC
2148360 GTTTTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.43
23 6 0.29
24 6 0.29
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (23 bp):
TATATTATATTGTTTTCAAAAAC
Found at i:2148382 original size:37 final size:37
Alignment explanation
Indices: 2148336--2148406 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
2148326 TTTTAAAAAC
* * *
2148336 TATATTATATTTGTTTTCAAAAACGTTTTCAAAATTA
1 TATATTATATATGCTTTCAAAAACGTTTTAAAAATTA
*
2148373 TATATTATATATGCTTTCAAAAATGTTTTAAAAA
1 TATATTATATATGCTTTCAAAAACGTTTTAAAAA
2148407 ATAATGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (37 bp):
TATATTATATATGCTTTCAAAAACGTTTTAAAAATTA
Found at i:2148509 original size:37 final size:36
Alignment explanation
Indices: 2148430--2148589 Score: 191
Period size: 37 Copynumber: 4.3 Consensus size: 36
2148420 AACTATATAT
*
2148430 TATATTATATATATTTTCAAAAAAAATGTTTTTAAAAC--
1 TATATTATATATATTTTC---AAAAATG-TTTCAAAACTA
*
2148468 TATATTGTATATATTTTCAAAAATGTTTCCAAAACTA
1 TATATTATATATATTTTCAAAAATGTTT-CAAAACTA
2148505 TATATTATATATATTTTCAAAAATGTTTC-AAACTA
1 TATATTATATATATTTTCAAAAATGTTTCAAAACTA
* *
2148540 TATATTATATATATATTTTTAAAAATATTTCAAAACTA
1 TATA-T-TATATATATTTTCAAAAATGTTTCAAAACTA
*
2148578 TATACTATATAT
1 TATATTATATAT
2148590 GTTATATATA
Statistics
Matches: 110, Mismatches: 6, Indels: 14
0.85 0.05 0.11
Matches are distributed among these distances:
34 3 0.03
35 22 0.20
36 9 0.08
37 49 0.45
38 27 0.25
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (36 bp):
TATATTATATATATTTTCAAAAATGTTTCAAAACTA
Found at i:2150047 original size:60 final size:59
Alignment explanation
Indices: 2149910--2150060 Score: 209
Period size: 60 Copynumber: 2.6 Consensus size: 59
2149900 TTTAATATTG
* **
2149910 ACTATTAAAAGTTATAAAATGGT-CTTTGACTATAGGGAGTTGTTTGTTGAGTCCGTCA
1 ACTATTAAAAGTTACAAAATGGTCCCCTGACTATAGGGAGTTGTTTGTTGAGTCCGTCA
*
2149968 AC-ATTAAAAGTTACAAAATGGTCCCCTGACTATATGGAGTTGTTTTGTTGAGTCTC-TCA
1 ACTATTAAAAGTTACAAAATGGTCCCCTGACTATAGGGAGTTG-TTTGTTGAGTC-CGTCA
* *
2150027 ACTATTAAAAGTTACAAAATGATCACCTGACTAT
1 ACTATTAAAAGTTACAAAATGGTCCCCTGACTAT
2150061 TTATTATATC
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
57 19 0.23
58 18 0.22
59 16 0.19
60 30 0.36
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (59 bp):
ACTATTAAAAGTTACAAAATGGTCCCCTGACTATAGGGAGTTGTTTGTTGAGTCCGTCA
Found at i:2150354 original size:28 final size:29
Alignment explanation
Indices: 2150300--2150355 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
2150290 CGAATGATGC
*
2150300 AACAAAATAACTTCTTATAAGTGAAGATTT
1 AACAAAATAAC-TATTATAAGTGAAGATTT
2150330 AACAAAATAA-TATTATATAGT-AAGAT
1 AACAAAATAACTATTATA-AGTGAAGAT
2150356 ATTATTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 11 0.46
29 3 0.12
30 10 0.42
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (29 bp):
AACAAAATAACTATTATAAGTGAAGATTT
Found at i:2151144 original size:23 final size:23
Alignment explanation
Indices: 2151118--2151165 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
2151108 ATAAAGTACA
*
2151118 ATAACATACTAGGTAGCGCATAT
1 ATAACATAATAGGTAGCGCATAT
** *
2151141 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCATAT
2151164 AT
1 AT
2151166 TGACCTATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCATAT
Found at i:2151671 original size:23 final size:23
Alignment explanation
Indices: 2151641--2151690 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
2151631 ATACTTTACA
*
2151641 ATATAAGCACTACCTATTACATT
1 ATATAAGCACTACCTATTACATC
*
2151664 ATATAAGCGCTACCTATTACATC
1 ATATAAGCACTACCTATTACATC
2151687 ATAT
1 ATAT
2151691 TTTTACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (23 bp):
ATATAAGCACTACCTATTACATC
Found at i:2152127 original size:465 final size:469
Alignment explanation
Indices: 2151239--2152413 Score: 2018
Period size: 466 Copynumber: 2.5 Consensus size: 469
2151229 TTATAATACG
* * *
2151239 TTGAAAGTGTCTATACTTTTTTATAAAAAAGATCAATACTTTTTTTAAAGTTATGTAATTTATAT
1 TTGAAAGTGTCTATAC-TTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGT
2151304 TTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
2151368 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
2151433 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
2151498 ATCGTAACGTAAAAAATTAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
2151563 CAAAAGATAACCTTAAATTAATATTTTCCGCAGTGAAAAAAGTATGGACACTTTTATAAAAAAGA
325 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGA
*
2151628 TAGATACTTTACAATATAAG-C-AC-TACCTATTACATTATATAAGCGCTACCTATTACATCATA
390 TAAATACTTTACAATATAAGTCTACATACCTATTACATTATATAAGCGCTACCTATTACATCATA
2151690 TTTTTACATATTATA
455 TTTTTACATATTATA
2151705 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
2151770 TCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
2151835 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
2151900 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
*
2151965 TCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTT
261 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
* *
2152029 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGAT
2152094 AAATACTTTACAATATAAGCATTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AAATACTTTACAATATAAG---T--C---TAC---------A---TACCTATTACATTATATAAG
*
2152159 CGCTACCTATTACATCATATTTTTACCTATTATA
436 CGCTACCTATTACATCATATTTTTACATATTATA
2152193 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
2152258 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
2152323 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
2152388 TAACCAAAGATAATAATAAATATGTA
195 TAACCAAAGATAATAATAAATATGTA
2152414 GTTATTGTAC
Statistics
Matches: 672, Mismatches: 12, Indels: 27
0.95 0.02 0.04
Matches are distributed among these distances:
465 183 0.27
466 214 0.32
471 1 0.00
475 2 0.00
488 122 0.18
489 150 0.22
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (469 bp):
TTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGAT
AAATACTTTACAATATAAGTCTACATACCTATTACATTATATAAGCGCTACCTATTACATCATAT
TTTTACATATTATA
Found at i:2152142 original size:23 final size:23
Alignment explanation
Indices: 2152116--2152178 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
2152106 ATATAAGCAT
2152116 TACCTATTACATTATATAAACGC
1 TACCTATTACATTATATAAACGC
*
2152139 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGC
*
2152162 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2152179 TTTTACCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGC
Found at i:2152211 original size:466 final size:469
Alignment explanation
Indices: 2151242--2152413 Score: 1853
Period size: 465 Copynumber: 2.5 Consensus size: 469
2151232 TAATACGTTG
* * *
2151242 AAAGTGTCTATACTTTTTTATAAAAAAGAT-CA--ATACTTTTTTTAAAGTTATGTAATTTATAT
1 AAAGTGTCTATAC-TTTATATAAAAAGGATACAGCATACTTTTTTTAAAGTTATGTAATTTATGT
2151304 TTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
65 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
2151368 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
2151433 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
195 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
2151498 ATCGTAACGTAAAAAATTAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
260 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
2151563 CAAAAGATAACCTTAAATTAATATTTTCCGCAGTGAAAAAAGTATGGACACTTTTATAAAAAAGA
325 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGA
* * **
2151628 TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTT
390 TAAATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATCATATCG
* * *
2151693 TTACATATTATATTG
455 CTACATATTACATTC
*
2151708 AAAGTGTCTATACTTTTTATAAAAAGGAT-C-G-ATACTTTTTTTAAAGTTATGTAATTTATGTT
1 AAAGTGTCTATACTTTATATAAAAAGGATACAGCATACTTTTTTTAAAGTTATGTAATTTATGTT
*
2151770 TCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
66 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
2151835 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
131 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
2151900 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
196 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
*
2151965 TCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTT
261 TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
* *
2152029 AAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
326 AAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGAT
* *
2152094 AAATACTTTACAATATAAGCATTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
391 AAATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATCATAT---
*
2152159 CGCTACCTATTACATCATATTTTTACCTATTATATTG
453 CG----C---T--A-CATA---TTA-C------ATTC
*
2152196 AAAGTGTCTATACTTTTTATAAAAAGGAT-C-G-ATACTTTTTTTAAAGTTATGTAATTTATGTT
1 AAAGTGTCTATACTTTATATAAAAAGGATACAGCATACTTTTTTTAAAGTTATGTAATTTATGTT
2152258 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
2152323 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
130 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
2152388 TAACCAAAGATAATAATAAATATGTA
195 TAACCAAAGATAATAATAAATATGTA
2152414 GTTATTGTAC
Statistics
Matches: 663, Mismatches: 17, Indels: 29
0.94 0.02 0.04
Matches are distributed among these distances:
465 223 0.34
466 211 0.32
475 1 0.00
477 1 0.00
478 4 0.01
481 3 0.00
488 70 0.11
489 150 0.23
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (469 bp):
AAAGTGTCTATACTTTATATAAAAAGGATACAGCATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
TCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
AAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGAT
AAATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATCATATCGC
TACATATTACATTC
Found at i:2155209 original size:183 final size:183
Alignment explanation
Indices: 2154901--2155836 Score: 1601
Period size: 183 Copynumber: 5.1 Consensus size: 183
2154891 TTAAAACTAT
2154901 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
2154966 ATACCCGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
2155031 CACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
131 CACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
2155084 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* * *
2155149 ATACCGGTTATATTATAAAATTATCTATTACATTATAATTTTGGGTTCTGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
*
2155214 CAC-TTTTGATAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
131 CACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
*
2155266 CGACACAATATTAAAAAGTTTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* * *
2155331 ACACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTACGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
* *
2155396 CACTTTTTTACAATGTATCAACACATTTTTCTTCCAATCTGGACATAAAGTAC
131 CACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
*
2155449 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
2155514 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
* * * **
2155579 TACTTTTTGACAATGTATCGACACATTTTTCTTTCAATTTGGACATAAAGTTT
131 CACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
2155632 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* *
2155697 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTTTTTTCAA--T
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATG---TGTAAATGT
* *
2155760 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
128 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
**
2155816 ATACACAATATTAAAAAGTGT
1 CGACACAATATTAAAAAGTGT
2155837 GAAAACTTTG
Statistics
Matches: 709, Mismatches: 39, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
182 174 0.25
183 466 0.66
184 65 0.09
186 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
Found at i:2155386 original size:365 final size:366
Alignment explanation
Indices: 2154901--2155836 Score: 1610
Period size: 365 Copynumber: 2.6 Consensus size: 366
2154891 TTAAAACTAT
2154901 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
2154966 ATACCCGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
*
2155031 CACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTTACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATT
2155096 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATA
196 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATA
* * * *
2155161 TTATAAAATTATCTATTACATTATAATTTTGGGTTCTGATGTGTAAATGTCGACAC-TTTTGATA
261 TTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACA
2155225 ATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
326 ATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
*
2155266 CGACACAATATTAAAAAGTTTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* *
2155331 ACACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTACGATGTGTAAATGTCGA
66 ATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
*
2155396 CACTTTTTTACAATGTATCAACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTTACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATT
*
2155461 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATATTTATACCGGTTATA
196 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATA
*
2155526 TTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGATACTTTTTGACA
261 TTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACA
* * **
2155591 ATGTATCGACACATTTTTCTTTCAATTTGGACATAAAGTTT
326 ATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
2155632 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* * *
2155697 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTTTTTTCAA--T
66 ATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATG---TGTAAATGT
* **
2155760 CGACACTTTTTTA-AATGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACATACACAA
128 CGACACTTTTTTACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
2155824 TATTAAAAAGTGT
192 TATTAAAAAGTGT
2155837 GAAAACTTTG
Statistics
Matches: 540, Mismatches: 26, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
365 305 0.56
366 161 0.30
367 70 0.13
369 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (366 bp):
CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCAGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
CACTTTTTTACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATATT
AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATA
TTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACACTTTTTGACA
ATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
Found at i:2157057 original size:6 final size:6
Alignment explanation
Indices: 2157046--2157137 Score: 78
Period size: 6 Copynumber: 15.3 Consensus size: 6
2157036 ACTTGTTTGG
* * * * *
2157046 ATCATC ATCATC ATCATC GTCATC ATCTTC ATCGTC A-GATTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCA-TC ATCATC
* * * * *
2157094 ATCATC ATCGTC ATCATC ATCGTC ATCTTC ATCGTC ATCTTC AT
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC AT
2157138 TGTCAGCTTC
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.24, C:0.32, G:0.08, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:2157063 original size:12 final size:12
Alignment explanation
Indices: 2157046--2157142 Score: 106
Period size: 12 Copynumber: 8.1 Consensus size: 12
2157036 ACTTGTTTGG
*
2157046 ATCATCATCATC
1 ATCATCATCGTC
* *
2157058 ATCATCGTCATC
1 ATCATCATCGTC
*
2157070 ATCTTCATCGTC
1 ATCATCATCGTC
*
2157082 A-GATTCATCGTC
1 ATCA-TCATCGTC
2157094 ATCATCATCGTC
1 ATCATCATCGTC
2157106 ATCATCATCGTC
1 ATCATCATCGTC
*
2157118 ATCTTCATCGTC
1 ATCATCATCGTC
* *
2157130 ATCTTCATTGTC
1 ATCATCATCGTC
2157142 A
1 A
2157143 GCTTCATCTT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
12 73 0.99
13 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.08, T:0.37
Consensus pattern (12 bp):
ATCATCATCGTC
Found at i:2157147 original size:12 final size:12
Alignment explanation
Indices: 2157068--2157155 Score: 113
Period size: 12 Copynumber: 7.3 Consensus size: 12
2157058 ATCATCGTCA
2157068 TCATCTTCATCG
1 TCATCTTCATCG
**
2157080 TCAGATTCATCG
1 TCATCTTCATCG
*
2157092 TCATCATCATCG
1 TCATCTTCATCG
*
2157104 TCATCATCATCG
1 TCATCTTCATCG
2157116 TCATCTTCATCG
1 TCATCTTCATCG
*
2157128 TCATCTTCATTG
1 TCATCTTCATCG
* *
2157140 TCAGCTTCATCT
1 TCATCTTCATCG
2157152 TCAT
1 TCAT
2157156 TGACCGCTTG
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.20, C:0.31, G:0.09, T:0.40
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:2157153 original size:6 final size:6
Alignment explanation
Indices: 2157068--2157155 Score: 70
Period size: 6 Copynumber: 14.7 Consensus size: 6
2157058 ATCATCGTCA
* ** * * * * *
2157068 TCATCT TCATCG TCAGAT TCATCG TCATCA TCATCG TCATCA TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* *
2157116 TCATCT TCATCG TCATCT TCAT-T GTCAGCT TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT -TCATCT TCATCT TCAT
2157156 TGACCGCTTG
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
5 1 0.02
6 62 0.97
7 1 0.02
ACGTcount: A:0.20, C:0.31, G:0.09, T:0.40
Consensus pattern (6 bp):
TCATCT
Found at i:2157164 original size:18 final size:18
Alignment explanation
Indices: 2157128--2157164 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2157118 ATCTTCATCG
*
2157128 TCATCTTCATTGTCAGCT
1 TCATCTTCATTGACAGCT
*
2157146 TCATCTTCATTGACCGCT
1 TCATCTTCATTGACAGCT
2157164 T
1 T
2157165 GGTTGTCCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.30, G:0.11, T:0.43
Consensus pattern (18 bp):
TCATCTTCATTGACAGCT
Found at i:2159107 original size:200 final size:200
Alignment explanation
Indices: 2158755--2159590 Score: 1366
Period size: 200 Copynumber: 4.2 Consensus size: 200
2158745 GATGTTTATG
*
2158755 GGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTATGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
* * * * * *
2158820 TAAAAAAAATGTCGACACATTATATAGACCTATTCTCTCATAAAACCGATATATTTGTATCGGTT
66 T-AAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATT
* *
2158885 AGATTGAAAAATTACATATTACATTGTACTTTTGGTTTTCGATGTTTATGGGATCGACACTTTTT
130 AGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTT
2158950 ATATAT
195 ATATAT
* *
2158956 GGATCGACACTTTATGGTTGCAGCCTATTTTCCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
*
2159021 TAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTA
66 TAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTA
* *
2159086 GATTGAAAAATTACATATTACATTGTACTTTTGGTTTTCGATGTTTATGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTA
2159151 TATAT
196 TATAT
*
2159156 GGATCGACACTTTATGGTTGCAGCCTGTTTGTCATTCATTCTGGACCAAAAATATCGACACAAAC
1 GGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
* * * *
2159221 TACAAAAGTGTCGACACATTATTTAGAACTATTCTCTCATAAAACCGGTATAGTTGAACCGATTA
66 TAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTA
* * *
2159286 GATTGAAAAATTACCTATTACATTACACTTTTGGGTTTCGATGTTTTTGGGATCGACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTA
2159351 TATAT
196 TATAT
* *
2159356 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAATC
1 GGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
* * *
2159421 TACAAAAGTGTCGACACATTATTTAGACCTATTCTATCATAAAACCGGTATACTTGCACCGATTA
66 TAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTA
* * * *
2159486 GATTGAAAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTTTAGGATCAACACTTTTTA
131 GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTA
2159551 TATAT
196 TATAT
* *
2159556 GGATCAACACTTTATGGTTGCACCCTGTTTGCCAT
1 GGATCGACACTTTATGGTTGCAGCCTGTTTGCCAT
2159591 ATTGTAAATT
Statistics
Matches: 603, Mismatches: 32, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
200 540 0.90
201 63 0.10
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
GGATCGACACTTTATGGTTGCAGCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
TAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTA
GATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTA
TATAT
Found at i:2159714 original size:18 final size:18
Alignment explanation
Indices: 2159691--2159751 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
2159681 TCTCATTCAT
*
2159691 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
2159709 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
2159728 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
2159747 AATTA
1 AATTA
2159752 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:2159727 original size:19 final size:19
Alignment explanation
Indices: 2159703--2159751 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
2159693 TTATATTCAC
2159703 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
2159722 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2159741 ATACAAAATTA
1 ATACAAAATTA
2159752 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2161572 original size:33 final size:33
Alignment explanation
Indices: 2161535--2161600 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2161525 CATCTTAATA
*
2161535 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
2161568 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
2161601 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:2161659 original size:21 final size:21
Alignment explanation
Indices: 2161634--2161698 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
2161624 CCCCTTATGC
* *
2161634 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
2161655 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
2161676 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
2161697 CT
1 CT
2161699 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:2163929 original size:17 final size:18
Alignment explanation
Indices: 2163907--2163949 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
2163897 ATATATCCGG
2163907 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
2163924 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
2163944 TATCAT
1 TATCAT
2163950 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:2163967 original size:20 final size:19
Alignment explanation
Indices: 2163912--2163958 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
2163902 TCCGGTATCA
2163912 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
2163931 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
2163952 TTTTACC
1 TTTTACC
2163959 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:2164200 original size:161 final size:162
Alignment explanation
Indices: 2163935--2164272 Score: 518
Period size: 161 Copynumber: 2.1 Consensus size: 162
2163925 ATCATTTTGA
* * *
2163935 TACCGGTTTTATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCG
1 TACCGGTTTTATCATATTTTTACCTGGTATATCGTTGTGGATCGATACATTTTTTTAAAGTATCA
*
2164000 ACACATTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-TAAAG
66 ACACATTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAG
* *
2164064 TA-TCAACACTTTCAATATATCCGGTAACGTTT
131 TACT-AACACTTTAAATATATCCGGTAACGCTT
*
2164096 TACCGGTTTTATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTTAAAGTATCA
1 TACCGGTTTTATCATATTTTTACCTGGTATATCGTTGTGGATCGATACATTTTTTTAAAGTATCA
* ** *
2164161 ACACTTTATAGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATTAAAG
66 ACACATTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAG
* * *
2164226 TACTGACACTTTAAATGTATCCGGTAGCGCTT
131 TACTAACACTTTAAATATATCCGGTAACGCTT
*
2164258 TACCGTTTTTATCAT
1 TACCGGTTTTATCAT
2164273 TTCAATACTG
Statistics
Matches: 160, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
161 115 0.72
162 44 0.28
163 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (162 bp):
TACCGGTTTTATCATATTTTTACCTGGTATATCGTTGTGGATCGATACATTTTTTTAAAGTATCA
ACACATTATAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAG
TACTAACACTTTAAATATATCCGGTAACGCTT
Found at i:2165101 original size:20 final size:21
Alignment explanation
Indices: 2165076--2165115 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
2165066 TTCAACAATT
2165076 CTCTTCATCAAA-GGTCTTAA
1 CTCTTCATCAAATGGTCTTAA
2165096 CTCTTCATCAAATGGTCTTA
1 CTCTTCATCAAATGGTCTTA
2165116 GCCATTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.38
Consensus pattern (21 bp):
CTCTTCATCAAATGGTCTTAA
Found at i:2166069 original size:15 final size:15
Alignment explanation
Indices: 2166051--2166082 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2166041 GAAATATATC
2166051 AACTTAAACTATAAT
1 AACTTAAACTATAAT
2166066 AACTTAAACTATAAT
1 AACTTAAACTATAAT
2166081 AA
1 AA
2166083 AAATATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (15 bp):
AACTTAAACTATAAT
Found at i:2168736 original size:19 final size:17
Alignment explanation
Indices: 2168695--2168747 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
2168685 AAAAACATTA
2168695 TAAATATATTTATAATTT
1 TAAATA-ATTTATAATTT
*
2168713 TAAATAATTTCTAATTTAT
1 TAAATAATTTATAA-TT-T
2168732 TAAATAACTTTATAAT
1 TAAATAA-TTTATAAT
2168748 CTAAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 7 0.23
18 8 0.27
19 9 0.30
20 6 0.20
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (17 bp):
TAAATAATTTATAATTT
Found at i:2170554 original size:15 final size:17
Alignment explanation
Indices: 2170523--2170554 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
2170513 ATATATTTTT
2170523 ATCTATCTTGCAATTTA
1 ATCTATCTTGCAATTTA
2170540 ATCTA-CTTG-AATTTA
1 ATCTATCTTGCAATTTA
2170555 TTATATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (17 bp):
ATCTATCTTGCAATTTA
Found at i:2170680 original size:12 final size:12
Alignment explanation
Indices: 2170639--2170680 Score: 68
Period size: 12 Copynumber: 3.5 Consensus size: 12
2170629 TAATGTAACA
2170639 AAAAAAGGAAAAT
1 AAAAAA-GAAAAT
2170652 -AAAAAGAAAAT
1 AAAAAAGAAAAT
2170663 AAAAAAGAAAAT
1 AAAAAAGAAAAT
2170675 AAAAAA
1 AAAAAA
2170681 TCATAAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 6 0.21
12 22 0.79
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (12 bp):
AAAAAAGAAAAT
Found at i:2171465 original size:22 final size:23
Alignment explanation
Indices: 2171432--2171488 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
2171422 TTAATTTATA
2171432 AAACGTTAAATTATAAAGTA-TT
1 AAACGTTAAATTATAAAGTAGTT
*
2171454 AAACG-TATAATTATAAATTAGTT
1 AAACGTTA-AATTATAAAGTAGTT
*
2171477 AAAAGTCTAAAT
1 AAACGT-TAAAT
2171489 GTAATTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 2 0.07
22 16 0.55
23 6 0.21
24 3 0.10
25 2 0.07
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (23 bp):
AAACGTTAAATTATAAAGTAGTT
Found at i:2172838 original size:24 final size:24
Alignment explanation
Indices: 2172811--2172864 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2172801 CTCCATGTGC
* *
2172811 GGTGGCAGAGCACTACCAACGATT
1 GGTGGCAGAGCACTACCAACAAGT
*
2172835 GGTGTCAGAGCACTACCAACAAGT
1 GGTGGCAGAGCACTACCAACAAGT
2172859 GGTGGC
1 GGTGGC
2172865 TGGAGGTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.24, G:0.31, T:0.17
Consensus pattern (24 bp):
GGTGGCAGAGCACTACCAACAAGT
Found at i:2181923 original size:23 final size:23
Alignment explanation
Indices: 2181888--2181946 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
2181878 CACTTGGTAT
2181888 CGATACC-CTCTTCAACCAGTAC
1 CGATACCACTCTTCAACCAGTAC
*
2181910 CGATACTACTCTTCAACCAGTAC
1 CGATACCACTCTTCAACCAGTAC
2181933 CGATACCACTCTTC
1 CGATACCACTCTTC
2181947 TATGATATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
22 6 0.18
23 28 0.82
ACGTcount: A:0.27, C:0.39, G:0.08, T:0.25
Consensus pattern (23 bp):
CGATACCACTCTTCAACCAGTAC
Found at i:2187542 original size:16 final size:16
Alignment explanation
Indices: 2187500--2187567 Score: 72
Period size: 16 Copynumber: 4.4 Consensus size: 16
2187490 TGTATATGTT
2187500 TATGTGTTACATGCA-C
1 TATGTGTTACATG-ATC
*
2187516 TAT-T-CTACATGATC
1 TATGTGTTACATGATC
2187530 TATGTGTTACATGATC
1 TATGTGTTACATGATC
*
2187546 TATGTGATTATATG-TC
1 TATGTG-TTACATGATC
2187562 TATGTG
1 TATGTG
2187568 ATAAGCTATG
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
13 1 0.02
14 10 0.22
15 2 0.04
16 26 0.58
17 6 0.13
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (16 bp):
TATGTGTTACATGATC
Found at i:2187568 original size:16 final size:17
Alignment explanation
Indices: 2187521--2187569 Score: 75
Period size: 16 Copynumber: 3.0 Consensus size: 17
2187511 TGCACTATTC
2187521 TACATGATCTATGTG-T
1 TACATGATCTATGTGAT
2187537 TACATGATCTATGTGAT
1 TACATGATCTATGTGAT
*
2187554 TATATG-TCTATGTGAT
1 TACATGATCTATGTGAT
2187570 AAGCTATGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 25 0.81
17 6 0.19
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (17 bp):
TACATGATCTATGTGAT
Found at i:2188601 original size:21 final size:22
Alignment explanation
Indices: 2188577--2188617 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2188567 AGAGCAGAGC
*
2188577 AAACAACTAGAAGA-GAAATGG
1 AAACAACTAAAAGAGGAAATGG
2188598 AAACAACTAAAAGAGGAAAT
1 AAACAACTAAAAGAGGAAAT
2188618 TAGGGCTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.61, C:0.10, G:0.20, T:0.10
Consensus pattern (22 bp):
AAACAACTAAAAGAGGAAATGG
Found at i:2195086 original size:22 final size:22
Alignment explanation
Indices: 2195026--2195080 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
2195016 TGACGCTATC
*
2195026 AAGAAAGAAGAAAAAAATGAAAA
1 AAGAGAGAA-AAAAAAATGAAAA
* *
2195049 AAGGGGGAAAAAAAAATGAAAA
1 AAGAGAGAAAAAAAAATGAAAA
2195071 AA-AGAGAAAA
1 AAGAGAGAAAA
2195081 TGAAAAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 6 0.22
22 15 0.56
23 6 0.22
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.04
Consensus pattern (22 bp):
AAGAGAGAAAAAAAAATGAAAA
Found at i:2197158 original size:14 final size:15
Alignment explanation
Indices: 2197126--2197158 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2197116 TATATGATTG
2197126 TTTT-TATTTTACTT
1 TTTTATATTTTACTT
2197140 TTTTATATTTTA-TT
1 TTTTATATTTTACTT
2197154 TTTTA
1 TTTTA
2197159 ATTAAATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTATATTTTACTT
Found at i:2200694 original size:36 final size:35
Alignment explanation
Indices: 2200654--2200773 Score: 114
Period size: 36 Copynumber: 3.3 Consensus size: 35
2200644 AAGAAGATAT
2200654 TTCATTGCACTACAGATTGTTTTTCTTAAAACAAGA
1 TTCATT-CACTACAGATTGTTTTTCTTAAAACAAGA
* ** * ** * *
2200690 TTCATCTCGCTTGAGATAGTTTTTACTCGAAAGAACA
1 TTCAT-TCACTACAGATTGTTTTT-CTTAAAACAAGA
*
2200727 TTTCATTCACTACAAATTGTTTTTCTTAAAACAAGA
1 -TTCATTCACTACAGATTGTTTTTCTTAAAACAAGA
2200763 TTCATCTCACT
1 TTCAT-TCACT
2200774 TGAGATAGTT
Statistics
Matches: 63, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
35 5 0.08
36 31 0.49
37 22 0.35
38 5 0.08
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (35 bp):
TTCATTCACTACAGATTGTTTTTCTTAAAACAAGA
Found at i:2200755 original size:73 final size:74
Alignment explanation
Indices: 2200594--2200857 Score: 290
Period size: 73 Copynumber: 3.6 Consensus size: 74
2200584 CTCACTTGAG
* * * * * * * *
2200594 ATTGTTTTTCTTTAAAACCATATT-GTCTCGCTTCA-ACAATTTTTACTAGAAAGAAGATATTTC
1 ATTGTTTTTC-TTAAAACAAGATTCATCTCGCTTGAGATAGTTTTTACTCGAAAG-AGACATTTC
*
2200657 ATTGCACTACAG
64 ATT-CACTACAA
2200669 ATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTTTACTCGAAAGA-ACATTTCAT
1 ATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTTTACTCGAAAGAGACATTTCAT
2200733 TCACTACAA
66 TCACTACAA
* *
2200742 ATTGTTTTTCTTAAAACAAGATTCATCTCACTTGAGATAGTTTTTACTCGAAAAAAGACATTTCA
1 ATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTTTACTCG-AAAGAGACATTTCA
2200807 TTTCACT-CAA
65 -TTCACTACAA
* * * *
2200817 GATTG--TTT-TTAAAACAAGATTTATCTTGCTGGAGATTGTTT
1 -ATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTT
2200858 CACTTCAAAC
Statistics
Matches: 167, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
73 84 0.50
74 27 0.16
75 31 0.19
76 25 0.15
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (74 bp):
ATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTTTACTCGAAAGAGACATTTCAT
TCACTACAA
Found at i:2200785 original size:36 final size:36
Alignment explanation
Indices: 2200667--2200786 Score: 125
Period size: 36 Copynumber: 3.3 Consensus size: 36
2200657 ATTGCACTAC
* *
2200667 AGATTGTTTTTCTTAAAACAAGATTCATCTCGCTTG
1 AGATAGTTTTTCTTAAAACAAGATTCATCTCACTTG
** * * **
2200703 AGATAGTTTTTACTCGAAAGAACATTTCAT-TCACTAC
1 AGATAGTTTTT-CTTAAAACAAGA-TTCATCTCACTTG
* *
2200740 AAATTGTTTTTCTTAAAACAAGATTCATCTCACTTG
1 AGATAGTTTTTCTTAAAACAAGATTCATCTCACTTG
2200776 AGATAGTTTTT
1 AGATAGTTTTT
2200787 ACTCGAAAAA
Statistics
Matches: 63, Mismatches: 18, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
35 5 0.08
36 32 0.51
37 21 0.33
38 5 0.08
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.41
Consensus pattern (36 bp):
AGATAGTTTTTCTTAAAACAAGATTCATCTCACTTG
Found at i:2200813 original size:40 final size:40
Alignment explanation
Indices: 2200690--2200827 Score: 112
Period size: 40 Copynumber: 3.6 Consensus size: 40
2200680 TAAAACAAGA
* *
2200690 TTCATCTCGCTTGAGATAGTTTTTACTCG-AAAGA-ACAT
1 TTCATCTCACTTGAGATAGTTTTTACTCGAAAAAAGACAT
** * * *
2200728 TTCAT-TCACTACAAATTGTTTTT-CT-TAAAACAAG--A-
1 TTCATCTCACTTGAGATAGTTTTTACTCGAAAA-AAGACAT
2200763 TTCATCTCACTTGAGATAGTTTTTACTCGAAAAAAGACAT
1 TTCATCTCACTTGAGATAGTTTTTACTCGAAAAAAGACAT
* ** *
2200803 TTCATTTCACTCAAGATTGTTTTTA
1 TTCATCTCACTTGAGATAGTTTTTA
2200828 AAACAAGATT
Statistics
Matches: 75, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
35 5 0.07
36 20 0.27
37 19 0.25
38 9 0.12
39 1 0.01
40 21 0.28
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (40 bp):
TTCATCTCACTTGAGATAGTTTTTACTCGAAAAAAGACAT
Found at i:2200881 original size:39 final size:39
Alignment explanation
Indices: 2200832--2201082 Score: 319
Period size: 39 Copynumber: 6.5 Consensus size: 39
2200822 TTTTTAAAAC
* * *
2200832 AAGA-TTTATCTTGCTGGAGATTGTTTCACTTC-AAACAT
1 AAGATTTTATCTCGCTTGAGATAGTTTCAC-TCGAAACAT
*
2200870 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAT
* * * *
2200909 AAGATTTTATCTCGCTTGAGATGGTTTCACTCAAAATAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAT
2200948 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAT
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAT
* *
2200987 AAGATTTTATCTGGCTTGAGATAGTTTCACTCGAAACAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAT
* * * * * *
2201026 AAGAATTTATCTGGCTTGAGATAATTTTACTCGAAATAG
1 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAT
*
2201065 AAGA-TTTATCTCACTTGA
1 AAGATTTTATCTCGCTTGA
2201083 TATTGTTTTT
Statistics
Matches: 192, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
38 18 0.09
39 174 0.91
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (39 bp):
AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACAT
Found at i:2200976 original size:117 final size:116
Alignment explanation
Indices: 2200832--2201082 Score: 378
Period size: 117 Copynumber: 2.2 Consensus size: 116
2200822 TTTTTAAAAC
* * *
2200832 AAGATTTATCTTGCTGGAGATTGTTTCACTTC-AAACATAAGATTTTATCTCGCTTGAGATAGTT
1 AAGATTTATCTCGCTTGAGATAGTTTCAC-TCGAAACATAAGATTTTATCTCGCTTGAGATAGTT
* **
2200896 TCACTCGAAACAGAAGATTTTATCTCGCTTGAGATGGTTTCACTCAAAATAG
65 TCACTCGAAACAGAAGAATTTATCTCGCTTGAGATAATTTCACTCAAAATAG
*
2200948 AAGATTTTATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATCTGGCTTGAGATAGTT
1 AAGA-TTTATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATCTCGCTTGAGATAGTT
* * *
2201013 TCACTCGAAACAGAAGAATTTATCTGGCTTGAGATAATTTTACTCGAAATAG
65 TCACTCGAAACAGAAGAATTTATCTCGCTTGAGATAATTTCACTCAAAATAG
*
2201065 AAGATTTATCTCACTTGA
1 AAGATTTATCTCGCTTGA
2201083 TATTGTTTTT
Statistics
Matches: 122, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
116 19 0.16
117 103 0.84
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (116 bp):
AAGATTTATCTCGCTTGAGATAGTTTCACTCGAAACATAAGATTTTATCTCGCTTGAGATAGTTT
CACTCGAAACAGAAGAATTTATCTCGCTTGAGATAATTTCACTCAAAATAG
Found at i:2201357 original size:137 final size:138
Alignment explanation
Indices: 2201104--2201362 Score: 403
Period size: 137 Copynumber: 1.9 Consensus size: 138
2201094 TTAAAACCAA
* * *
2201104 CTACGCCTCATTTGAGGGATTAACATTTTTCAAATGGAGAGTTCATAATGAGAAAAACTCATCCA
1 CTACGCCTCACTTGAGGGATCAACAATTTTCAAATGGAGAGTTCATAATGAGAAAAACTCATCCA
* *
2201169 AGAGAGGGAGAAGAAGTTCATAATGAGAAGAGTTTGTTCGACCTATAGCTCGATTCACGGTATTT
66 ACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATAGCTCGATTCACGGTATTT
2201234 TGAATCAG
131 TGAATCAG
* * * *
2201242 CTACGCCTCGCTTGAGGGATCAA-AATTTTCAAATGGAGAGTTTATAATGGGAAGAACTCATCCA
1 CTACGCCTCACTTGAGGGATCAACAATTTTCAAATGGAGAGTTCATAATGAGAAAAACTCATCCA
* * *
2201306 ACATAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACTTATCGCTCGATTCA
66 ACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATAGCTCGATTCA
2201363 TGGCTGTAAC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
137 89 0.82
138 20 0.18
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (138 bp):
CTACGCCTCACTTGAGGGATCAACAATTTTCAAATGGAGAGTTCATAATGAGAAAAACTCATCCA
ACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTATAGCTCGATTCACGGTATTT
TGAATCAG
Found at i:2204420 original size:14 final size:15
Alignment explanation
Indices: 2204401--2204433 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
2204391 ATCCATAGGA
2204401 AAGAAACATA-TTTT
1 AAGAAACATATTTTT
2204415 AAGAAACATATTTTT
1 AAGAAACATATTTTT
2204430 AAGA
1 AAGA
2204434 GCAATATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (15 bp):
AAGAAACATATTTTT
Found at i:2205125 original size:8 final size:9
Alignment explanation
Indices: 2205093--2205128 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
2205083 AATTTTTGAA
2205093 ATATAT-AT
1 ATATATAAT
2205101 ATATAT-AT
1 ATATATAAT
2205109 ATATATAAT
1 ATATATAAT
2205118 ATAT-TAAT
1 ATATATAAT
2205126 ATA
1 ATA
2205129 ATTAGTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 21 0.78
9 6 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATATATAAT
Found at i:2205139 original size:2 final size:2
Alignment explanation
Indices: 2205093--2205121 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2205083 AATTTTTGAA
2205093 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2205122 TAATATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2219069 original size:15 final size:15
Alignment explanation
Indices: 2219043--2219086 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
2219033 TGCTTGAAAA
2219043 AAAAAGAAAGAAAAGG
1 AAAAA-AAAGAAAAGG
* *
2219059 AAAAAATAGAAAATG
1 AAAAAAAAGAAAAGG
2219074 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
2219087 AAAAAGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.05
Consensus pattern (15 bp):
AAAAAAAAGAAAAGG
Found at i:2219081 original size:25 final size:25
Alignment explanation
Indices: 2219039--2219095 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
2219029 ATTATGCTTG
* *
2219039 AAAA-AAAAAGAAAGAAAAGGAAAA
1 AAAAGAAAAAGAAAAAAAAGAAAAA
* *
2219063 AATAGAAAATGAAAAAAAAGAAAAA
1 AAAAGAAAAAGAAAAAAAAGAAAAA
2219088 AAAAGAAA
1 AAAAGAAA
2219096 GGGGGTCAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 3 0.11
25 24 0.89
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (25 bp):
AAAAGAAAAAGAAAAAAAAGAAAAA
Found at i:2219476 original size:19 final size:18
Alignment explanation
Indices: 2219415--2219476 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 18
2219405 TTATATCTAT
2219415 TTCAATTTCAATTTATTTGAGA
1 TTCAATTT--ATTT-TTTGA-A
*
2219437 TTCAATTTATTTTTGGAAA
1 TTCAATTTATTTTTTG-AA
2219456 TTCAATTTATTCTTTTGAA
1 TTCAATTTATT-TTTTGAA
2219475 TT
1 TT
2219477 AACATAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
19 19 0.53
20 9 0.25
22 8 0.22
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (18 bp):
TTCAATTTATTTTTTGAA
Found at i:2220319 original size:83 final size:83
Alignment explanation
Indices: 2220217--2220622 Score: 663
Period size: 83 Copynumber: 4.9 Consensus size: 83
2220207 TATATTAGTC
* *
2220217 CAATCATTGAATTTGGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CAATCATTGAATTAGGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
2220282 GATCTGGTTGGACAGAAT
66 GATCTGGTTGGACAGAAT
*
2220300 CAATCATTGAATTAGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CAATCATTGAATTAGGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
2220365 GATCTGGTTGGACAGAAT
66 GATCTGGTTGGACAGAAT
* *
2220383 CAATCATTGAATTAGGGAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CAATCATTGAATTAGGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
2220448 GATCTGGTTGGACAGAAT
66 GATCTGGTTGGACAGAAT
* * * * *
2220466 CAATCATTGAATTTGGAAGAAGAATGTGTTAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 CAATCATTGAATTAGGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
*
2220531 GATCTGATTGGACAGAA-
66 GATCTGGTTGGACAGAAT
* *
2220548 CAAGCATTGAATTTA-GAAGATGAATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 CAATCATTGAA-TTAGGAAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
2220612 CTGATCTGGTT
64 CTGATCTGGTT
2220623 TGGTAAGAAC
Statistics
Matches: 303, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
82 22 0.07
83 281 0.93
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (83 bp):
CAATCATTGAATTAGGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
GATCTGGTTGGACAGAAT
Found at i:2221594 original size:113 final size:113
Alignment explanation
Indices: 2221268--2221707 Score: 724
Period size: 113 Copynumber: 3.9 Consensus size: 113
2221258 GATTCAAATC
* *
2221268 CATCACTTGATGGATCAACATTGCCAGA-TAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCAATTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
***
2221332 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACATGAATT
2221380 CATC-ATTGGATGGATCAACATTGCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCAATT-GATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
2221443 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACATGAATT
65 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACATGAATT
* * *
2221492 CATCAATTGATGGATCATCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCAATTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
2221557 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACATGAATT
* * *
2221605 CATCAATTGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCAATTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
**
2221670 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTT
2221708 GTTTGATACT
Statistics
Matches: 313, Mismatches: 11, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
111 2 0.01
112 126 0.40
113 185 0.59
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (113 bp):
CATCAATTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACATGAATT
Found at i:2222038 original size:3 final size:3
Alignment explanation
Indices: 2222027--2222113 Score: 117
Period size: 3 Copynumber: 29.7 Consensus size: 3
2222017 TTTTTATCCA
* *
2222027 TAT TA- TAT TAT TAT TAT TAT TAT TAC TAT TAC TAT TAT TAT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
*
2222075 TAT TA- TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT CAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2222114 AATATATAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
2 6 0.08
3 65 0.88
4 3 0.04
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:2222654 original size:19 final size:18
Alignment explanation
Indices: 2222617--2222651 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2222607 ACAGAACCGG
2222617 AGAGAAAGAAAAAAAAAC
1 AGAGAAAGAAAAAAAAAC
2222635 AGAGAAAGAAAAAAAAA
1 AGAGAAAGAAAAAAAAA
2222652 ACAACAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (18 bp):
AGAGAAAGAAAAAAAAAC
Found at i:2224686 original size:31 final size:31
Alignment explanation
Indices: 2224651--2224724 Score: 148
Period size: 31 Copynumber: 2.4 Consensus size: 31
2224641 ATTTAACGCG
2224651 TTAGTACCTAAATTATCAGTTTTGGTTTATT
1 TTAGTACCTAAATTATCAGTTTTGGTTTATT
2224682 TTAGTACCTAAATTATCAGTTTTGGTTTATT
1 TTAGTACCTAAATTATCAGTTTTGGTTTATT
2224713 TTAGTACCTAAA
1 TTAGTACCTAAA
2224725 CTTTCAACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (31 bp):
TTAGTACCTAAATTATCAGTTTTGGTTTATT
Done.