Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000186.1 Hibiscus syriacus cultivar Beakdansim tig00000329_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: 3152351
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 6 of 17
Found at i:1072711 original size:247 final size:243
Alignment explanation
Indices: 1072136--1072649 Score: 642
Period size: 247 Copynumber: 2.1 Consensus size: 243
1072126 CATGATATCA
* ** ** * * * *
1072136 TTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATGGGATATC
1 TTCGTCGTGAAGTTGAAACCGTGGAT-GACATTTCGTCATGAAGTTGAACCTTGAATTGAATACC
* * *
1072201 CTTCGTCATGAAGTTGAAATCCAATCCGAAGATGAATGTTACTGGTGGGCACGATACCCTTCATC
65 CTTCGTCGTGAAGTTGAAATCCAATCCAAAGATGAATGTTACTGGTGAGCACGATACCCTTCATC
* ** * *
1072266 GTGAATTTGAAACCGTGGATGGCCCATTTTTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGT
130 GTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTAAGCCTTGAATTGGATATCCTTCAT
*
1072331 CGTGAAGTTGAAATCCAATCTAAAGATGATTGTTGTTGATGAGCAAGATTCCC
195 CGTGAAGTTGAAATCCAA-CT--AGA-GATTGTTGCTGATGAGCAAGATTCCC
* * * * * *
1072384 TTCGTCGTGAAGTTTAAACCGTGGATGACCTTTCGTTATGAAGTTGAGCCTTGAATTGAATATCA
1 TTCGTCGTGAAGTTGAAACCGTGGATGACATTTCGTCATGAAGTTGAACCTTGAATTGAATACCC
* ** * *
1072449 TTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGTTGGTGAGCACGATTCCCTTCATTG
66 TTCGTCGTGAAGTTGAAATCCAATCCAAAGATGAATGTTACTGGTGAGCACGATACCCTTCATCG
*
1072514 TGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTAAGCCTTGAATTGGATATCCTTTATC
131 TGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTAAGCCTTGAATTGGATATCCTTCATC
*
1072579 GTGAAGTTGAAATCCAA-T-GA-A-TGTTGCTGGTGAGCACA-ATTCCC
196 GTGAAGTTGAAATCCAACTAGAGATTGTTGCTGATGAGCA-AGATTCCC
**
1072623 TTCGTCGTGAAGTTGAAATTGTGGATG
1 TTCGTCGTGAAGTTGAAACCGTGGATG
1072650 TGGGTACAAT
Statistics
Matches: 239, Mismatches: 26, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
239 43 0.18
240 2 0.01
242 2 0.01
245 1 0.00
247 166 0.69
248 25 0.10
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (243 bp):
TTCGTCGTGAAGTTGAAACCGTGGATGACATTTCGTCATGAAGTTGAACCTTGAATTGAATACCC
TTCGTCGTGAAGTTGAAATCCAATCCAAAGATGAATGTTACTGGTGAGCACGATACCCTTCATCG
TGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTAAGCCTTGAATTGGATATCCTTCATC
GTGAAGTTGAAATCCAACTAGAGATTGTTGCTGATGAGCAAGATTCCC
Found at i:1072926 original size:43 final size:43
Alignment explanation
Indices: 1072863--1072985 Score: 185
Period size: 43 Copynumber: 2.9 Consensus size: 43
1072853 TTTGAATAGC
1072863 ACGATATCCTCCATCGTGGAGTTGAAATCGTGGATGTGTGGGC-
1 ACGATATCCTCCATCGTGGAGTTGAAATCGTGGATGTGT-GGCT
* ** * *
1072906 ATGATATCCTCTGTCGTGGAGTTGATATCGTGGATTTGTGGCT
1 ACGATATCCTCCATCGTGGAGTTGAAATCGTGGATGTGTGGCT
1072949 ACGATATCCTCCATCGTGGAGTTGAAATCGTGGATGT
1 ACGATATCCTCCATCGTGGAGTTGAAATCGTGGATGT
1072986 CCCCTTCTTC
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 3 0.04
43 66 0.96
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (43 bp):
ACGATATCCTCCATCGTGGAGTTGAAATCGTGGATGTGTGGCT
Found at i:1074307 original size:95 final size:95
Alignment explanation
Indices: 1074139--1074339 Score: 303
Period size: 95 Copynumber: 2.1 Consensus size: 95
1074129 AGGGAACTTA
* * ** *
1074139 ATATTATAATCACCCTTATCAGGCTAGCTGAATATTATCCATAAAGTTAGGGCGTTTAACTAATT
1 ATATTATAATCACACTTATCAGGATAGCTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATT
1074204 ACTCTAGAGGGACAACTCAAGCTTTATTGT
66 ACTCTAGAGGGACAACTCAAGCTTTATTGT
* * *
1074234 ATATTATAATCACATTTATCAGGATAGCTGAATCTTATCTATAAAGCCAGGGCGTTTAACCAATT
1 ATATTATAATCACACTTATCAGGATAGCTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATT
* *
1074299 GCTTTAGAGGGACAACTCAAGCTTTATTGT
66 ACTCTAGAGGGACAACTCAAGCTTTATTGT
1074329 ATATATATAAT
1 ATAT-TATAAT
1074340 ATTATAATAT
Statistics
Matches: 95, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 89 0.94
96 6 0.06
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (95 bp):
ATATTATAATCACACTTATCAGGATAGCTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATT
ACTCTAGAGGGACAACTCAAGCTTTATTGT
Found at i:1076685 original size:3 final size:3
Alignment explanation
Indices: 1076677--1076718 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
1076667 GAGACTATCA
1076677 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1076719 AAAATAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1077864 original size:2 final size:2
Alignment explanation
Indices: 1077857--1077892 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1077847 ACACATTAAG
1077857 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1077893 GAAAAATTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1079864 original size:22 final size:22
Alignment explanation
Indices: 1079818--1079865 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
1079808 GCATACATGC
*
1079818 ATTTGCATTTTATTTGTGTTAT
1 ATTTGCATTTTATTTGTATTAT
1079840 ATTTGCATTGTTATATT-TATT-T
1 ATTTGCATT-TTAT-TTGTATTAT
1079862 ATTT
1 ATTT
1079866 AGGATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 14 0.61
23 7 0.30
24 2 0.09
ACGTcount: A:0.21, C:0.04, G:0.10, T:0.65
Consensus pattern (22 bp):
ATTTGCATTTTATTTGTATTAT
Found at i:1088069 original size:137 final size:137
Alignment explanation
Indices: 1087821--1088273 Score: 696
Period size: 137 Copynumber: 3.3 Consensus size: 137
1087811 TATTTTAGGA
*
1087821 AACATCATCCTTAGATAACCAGACGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
1 AACATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
* *
1087886 AAGATGGCCAGACGTCCTCATCACGAATGAACAATATCATCCACCGATCAGAACTCCTCATCACG
66 AAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACG
1087951 AAGAAGC
131 AAGAAGC
* * *
1087958 ATCATCATCCTTAGATAACCAGATGTCCTCATCACGAATGAACCGTGTTATCTTAAATATCTTTA
1 AACATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
* * * * *
1088023 AAGATAGCCAGATGTGCTCATCATGAAGGAACAATGTCATCCACCGATCAG-ACTCCTCATCACC
66 AAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACG
1088087 AAGAAGC
131 AAGAAGC
* *
1088094 AGCATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACCATGTTATCTCAAATATCTTTA
1 AACATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
* * *
1088159 AAGATGGCCAGACGTCCTTATCACAAAGGAACAATGTCATTCATCC-ATCAGAACTCCTCATCAC
66 AAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCA-CCGATCAGAACTCCTCATCAC
*
1088223 GAAGGAGC
130 GAAGAAGC
* *
1088231 AACATCATCCTTAGATAACTAGACT-TCCTCATCACAAAGGAAC
1 AACATCATCCTTAGATAACCAGA-TGTCCTCATCACGAAGGAAC
1088274 AATGTCATTC
Statistics
Matches: 286, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
136 121 0.42
137 164 0.57
138 1 0.00
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (137 bp):
AACATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACCGTGTTATCTCAAATATCTTTA
AAGATGGCCAGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACG
AAGAAGC
Found at i:1088262 original size:43 final size:43
Alignment explanation
Indices: 1088213--1088354 Score: 166
Period size: 43 Copynumber: 3.4 Consensus size: 43
1088203 CCATCAGAAC
*
1088213 TCCTCATCACGAAGGAGCAACATCATCCTTAGATAACTAGACT
1 TCCTCATCACAAAGGAGCAACATCATCCTTAGATAACTAGACT
* ** * * **
1088256 TCCTCATCACAAAGGAACAATGTCATTCATCCAT--C-AGAAC-
1 TCCTCATCACAAAGGAGCAACATCATCCTTAGATAACTAG-ACT
*
1088296 TCCTCATCACGAAGGAGCAACATCATCCTTAGATAACTAGACT
1 TCCTCATCACAAAGGAGCAACATCATCCTTAGATAACTAGACT
1088339 TCCTCATCACAAAGGA
1 TCCTCATCACAAAGGA
1088355 ACCATGTTAT
Statistics
Matches: 77, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
40 28 0.36
41 3 0.04
42 3 0.04
43 43 0.56
ACGTcount: A:0.36, C:0.29, G:0.13, T:0.23
Consensus pattern (43 bp):
TCCTCATCACAAAGGAGCAACATCATCCTTAGATAACTAGACT
Found at i:1088311 original size:40 final size:40
Alignment explanation
Indices: 1088173--1088311 Score: 145
Period size: 40 Copynumber: 3.4 Consensus size: 40
1088163 TGGCCAGACG
*
1088173 TCCTTATCACAAAGGAACAATGTCATTCATCCATCAGAAC
1 TCCTCATCACAAAGGAACAATGTCATTCATCCATCAGAAC
* * ** * * **
1088213 TCCTCATCACGAAGGAGCAACATCATCCTTAGATAACTAG-AC
1 TCCTCATCACAAAGGAACAATGTCATTCATCCAT--C-AGAAC
1088255 TTCCTCATCACAAAGGAACAATGTCATTCATCCATCAGAAC
1 -TCCTCATCACAAAGGAACAATGTCATTCATCCATCAGAAC
*
1088296 TCCTCATCACGAAGGA
1 TCCTCATCACAAAGGA
1088312 GCAACATCAT
Statistics
Matches: 76, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
40 42 0.55
41 3 0.04
42 3 0.04
43 28 0.37
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.23
Consensus pattern (40 bp):
TCCTCATCACAAAGGAACAATGTCATTCATCCATCAGAAC
Found at i:1088317 original size:83 final size:83
Alignment explanation
Indices: 1088168--1088361 Score: 361
Period size: 83 Copynumber: 2.3 Consensus size: 83
1088158 AAAGATGGCC
* *
1088168 AGACGTCCTTATCACAAAGGAACAATGTCATTCATCCATCAGAACTCCTCATCACGAAGGAGCAA
1 AGACTTCCTCATCACAAAGGAACAATGTCATTCATCCATCAGAACTCCTCATCACGAAGGAGCAA
1088233 CATCATCCTTAGATAACT
66 CATCATCCTTAGATAACT
1088251 AGACTTCCTCATCACAAAGGAACAATGTCATTCATCCATCAGAACTCCTCATCACGAAGGAGCAA
1 AGACTTCCTCATCACAAAGGAACAATGTCATTCATCCATCAGAACTCCTCATCACGAAGGAGCAA
1088316 CATCATCCTTAGATAACT
66 CATCATCCTTAGATAACT
*
1088334 AGACTTCCTCATCACAAAGGAACCATGT
1 AGACTTCCTCATCACAAAGGAACAATGT
1088362 TATCTTAAAT
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 108 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (83 bp):
AGACTTCCTCATCACAAAGGAACAATGTCATTCATCCATCAGAACTCCTCATCACGAAGGAGCAA
CATCATCCTTAGATAACT
Found at i:1088345 original size:220 final size:219
Alignment explanation
Indices: 1088024--1088492 Score: 676
Period size: 220 Copynumber: 2.1 Consensus size: 219
1088014 ATATCTTTAA
* * *
1088024 AGATAGCCAGATGTGCTCATCATGAAGGAACAATGTCATCCACCGATCAGACTCCTCATCACCAA
1 AGATAACCAGATGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGACTCCTCATCACCAA
* *
1088089 GAAGCAGCATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAACCATGTTATCTCAAATAT
66 GAAGCAACATCATCCTTAGATAACCAGATGTCCTCATCACAAAGGAACCATGTTATCTCAAATAT
* *
1088154 CTTTAAAGATGGCCAGACGTCCTTATCACAAAGGAACAATGTCATTCATCC-ATCAGAACTCCTC
131 CTTTAAAGATGGCCAGACGTCCTCATCACAAAGGAACAATGTCATCCA-CCGATCAGAACTCCTC
*
1088218 ATCACGAAGGAGCAACATCATCCTT
195 ATCACGAAGAAGCAACATCATCCTT
* * *
1088243 AGATAACTAGACT-TCCTCATCACAAAGGAACAATGTCATTCATCC-ATCAGAACTCCTCATCAC
1 AGATAACCAGA-TGTCCTCATCACGAAGGAACAATGTCATCCA-CCGATCAG-ACTCCTCATCAC
* * * *
1088306 GAAGGAGCAACATCATCCTTAGATAACTAGACT-TCCTCATCACAAAGGAACCATGTTATCTTAA
63 CAAGAAGCAACATCATCCTTAGATAACCAGA-TGTCCTCATCACAAAGGAACCATGTTATCTCAA
* ** *
1088370 ATATCTTTAAAGATGGTCAGACGTCCTCATCATGAAGGAACATTGTCATCCACCGATCAGAACTC
127 ATATCTTTAAAGATGGCCAGACGTCCTCATCACAAAGGAACAATGTCATCCACCGATCAGAACTC
*
1088435 CTCATCACGAAGAAGCAGCATCATCCTT
192 CTCATCACGAAGAAGCAACATCATCCTT
*
1088463 AGATAACCAGATGTCATCATCACGAAGGAA
1 AGATAACCAGATGTCCTCATCACGAAGGAA
1088493 TTGTGTTATC
Statistics
Matches: 221, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
219 42 0.19
220 178 0.81
221 1 0.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (219 bp):
AGATAACCAGATGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGACTCCTCATCACCAA
GAAGCAACATCATCCTTAGATAACCAGATGTCCTCATCACAAAGGAACCATGTTATCTCAAATAT
CTTTAAAGATGGCCAGACGTCCTCATCACAAAGGAACAATGTCATCCACCGATCAGAACTCCTCA
TCACGAAGAAGCAACATCATCCTT
Found at i:1088502 original size:137 final size:136
Alignment explanation
Indices: 1088251--1088697 Score: 603
Period size: 137 Copynumber: 3.3 Consensus size: 136
1088241 TTAGATAACT
* * *
1088251 AGACTTCCTCATCACAAAGGAACAATGTCATTCATCC-ATCAGAACTCCTCATCACGAAGGAGCA
1 AGACGTCCTCATCACGAAGGAACAATGTCATCCA-CCGATCAGAACTCCTCATCACGAAGGAGCA
* * * * * *
1088315 ACATCATCCTTAGATAACTAGACT-TCCTCATCACAAAGGAACCATGTTATCTTAAATATCTTTA
65 GCATCATCCTTAGATAACCAGA-TGTCCTCATCACGAAGGAATCGTGTTATCTCAAATATCTTTA
1088379 AAGATGGTC
129 AAGATGG-C
* * *
1088388 AGACGTCCTCATCATGAAGGAACATTGTCATCCACCGATCAGAACTCCTCATCACGAAGAAGCAG
1 AGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAAGGAGCAG
* *
1088453 CATCATCCTTAGATAACCAGATGTCATCATCACGAAGGAATTGTGTTATCTCAAATATCTTTAAA
66 CATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAATCGTGTTATCTCAAATATCTTTAAA
1088518 GATGGC
131 GATGGC
* * * * * *
1088524 TAGACGTCCTCATCATGAAGTAACAATGTCATCCACTGACCAGAACTCCTCATCACGTAGGAGCC
1 -AGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAAGGAGCA
* * *
1088589 G-AGTCATCCTCAGATAACCAGACGTCCTCATCACGAAGGAATCGTGTTATCTCAAATATCTTCA
65 GCA-TCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAATCGTGTTATCTCAAATATCTTTA
1088653 AAGATGGCC
129 AAGATGG-C
*
1088662 AGACGTCCTCATCACGAAGGAACAATGTCATACACC
1 AGACGTCCTCATCACGAAGGAACAATGTCATCCACC
1088698 AGTTGGATCT
Statistics
Matches: 275, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
136 5 0.02
137 269 0.98
138 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (136 bp):
AGACGTCCTCATCACGAAGGAACAATGTCATCCACCGATCAGAACTCCTCATCACGAAGGAGCAG
CATCATCCTTAGATAACCAGATGTCCTCATCACGAAGGAATCGTGTTATCTCAAATATCTTTAAA
GATGGC
Found at i:1089862 original size:17 final size:17
Alignment explanation
Indices: 1089814--1089865 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
1089804 ATTAGGGCTA
*
1089814 TTAATTTA-TATATTTT
1 TTAATTTATTTTATTTT
* *
1089830 TGTAAATTAATCTTATTTT
1 T-T-AATTTATTTTATTTT
1089849 TTAATTTATTTTATTTT
1 TTAATTTATTTTATTTT
1089866 GGTCATTGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
16 1 0.04
17 14 0.50
18 6 0.21
19 7 0.25
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TTAATTTATTTTATTTT
Found at i:1089993 original size:2 final size:2
Alignment explanation
Indices: 1089986--1090015 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1089976 ACACATTAAG
1089986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1090016 GAAAAATTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1091094 original size:15 final size:15
Alignment explanation
Indices: 1091049--1091098 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
1091039 TGAAAAAACG
*
1091049 AAATAAA-AACAATT
1 AAATAAATAAAAATT
1091063 AAATATATATAAAAATT
1 AAATA-A-ATAAAAATT
*
1091080 AAATAAATAAGAATT
1 AAATAAATAAAAATT
1091095 AAAT
1 AAAT
1091099 TTTGAAAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 5 0.16
15 13 0.42
16 2 0.06
17 11 0.35
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (15 bp):
AAATAAATAAAAATT
Found at i:1092520 original size:3 final size:3
Alignment explanation
Indices: 1092512--1092571 Score: 86
Period size: 3 Copynumber: 20.0 Consensus size: 3
1092502 TATATTAATT
* *
1092512 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TATA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
1092558 TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA
1092572 CATTTGATGT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 47 0.92
4 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1093151 original size:62 final size:62
Alignment explanation
Indices: 1093066--1093189 Score: 155
Period size: 62 Copynumber: 2.0 Consensus size: 62
1093056 GAATGACCTC
* * *
1093066 TCTAAGGGAAGTGATCGATCCCTTCAAGT-CAAAGGATAAATTCC-TCTCCTAAAGGATCGATCT
1 TCTAAAGGAAGTGATCGATCCCTTCAA-TCCAAAGGATAAA-CCCTTC-CCTAAAGGATCAATCT
* *
1093129 TCTAAAGGAA-TGATCTATCCCTTCAATCCAAAGGATCAACCCTTCCCTAAAGGATCAATCT
1 TCTAAAGGAAGTGATCGATCCCTTCAATCCAAAGGATAAACCCTTCCCTAAAGGATCAATCT
1093190 CTAGGTGATT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
61 18 0.33
62 27 0.50
63 9 0.17
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (62 bp):
TCTAAAGGAAGTGATCGATCCCTTCAATCCAAAGGATAAACCCTTCCCTAAAGGATCAATCT
Found at i:1099771 original size:38 final size:38
Alignment explanation
Indices: 1099729--1099801 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
1099719 ATCATTTAAT
* *
1099729 ATAACTACAAGTCTATAACATTTTACCCATAAAATTCA
1 ATAACTACAAGTCCACAACATTTTACCCATAAAATTCA
* * *
1099767 ATAACTGCAAGTCCGCAACATTTTACCTATAAAAT
1 ATAACTACAAGTCCACAACATTTTACCCATAAAAT
1099802 CCAAACAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.30
Consensus pattern (38 bp):
ATAACTACAAGTCCACAACATTTTACCCATAAAATTCA
Found at i:1102555 original size:21 final size:22
Alignment explanation
Indices: 1102507--1102555 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
1102497 TACTTAGGGT
*
1102507 AGTATCGATACCCTTACATAGA
1 AGTATCGATACCCTTAAATAGA
*
1102529 AGTATCGATACTC-TAAATA-A
1 AGTATCGATACCCTTAAATAGA
1102549 GAGTATC
1 -AGTATC
1102556 AATATTTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 11 0.46
22 12 0.50
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (22 bp):
AGTATCGATACCCTTAAATAGA
Found at i:1107723 original size:6 final size:6
Alignment explanation
Indices: 1107712--1107744 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
1107702 TATTTTAAAT
1107712 GGGGAC GGGGAC GGGGAC GGGGAC GGGGAC GGG
1 GGGGAC GGGGAC GGGGAC GGGGAC GGGGAC GGG
1107745 TTTGGTAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.70, T:0.00
Consensus pattern (6 bp):
GGGGAC
Found at i:1107820 original size:2 final size:2
Alignment explanation
Indices: 1107813--1107873 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
1107803 ATTAAAAATA
1107813 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1107855 AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT
1107874 TAATAAATTT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1107877 original size:6 final size:7
Alignment explanation
Indices: 1107810--1107878 Score: 74
Period size: 8 Copynumber: 9.9 Consensus size: 7
1107800 AATATTAAAA
1107810 ATAATAT
1 ATAATAT
1107817 AT-ATAT
1 ATAATAT
1107823 AT-ATAT
1 ATAATAT
1107829 AT-ATAT
1 ATAATAT
1107835 ATATATAT
1 ATA-ATAT
1107843 ATATATAT
1 ATA-ATAT
1107851 ATATATAT
1 ATA-ATAT
1107859 ATATATAT
1 ATA-ATAT
1107867 ATAATAT
1 ATAATAT
1107874 -TAATA
1 ATAATA
1107879 AATTTAATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
6 23 0.38
7 6 0.10
8 31 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
ATAATAT
Found at i:1107910 original size:23 final size:23
Alignment explanation
Indices: 1107880--1107926 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
1107870 ATATTAATAA
1107880 ATTTAATTTAAATAAAAATATAT
1 ATTTAATTTAAATAAAAATATAT
* *
1107903 ATTTAATTTAAATATATATATAT
1 ATTTAATTTAAATAAAAATATAT
1107926 A
1 A
1107927 CCCGGCCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTAATTTAAATAAAAATATAT
Found at i:1108334 original size:21 final size:20
Alignment explanation
Indices: 1108248--1108405 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
1108238 AAATGACCAA
**
1108248 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1108267 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1108287 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1108307 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1108328 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1108349 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1108369 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
1108390 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1108406 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 42 0.40
21 46 0.44
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1108434 original size:20 final size:20
Alignment explanation
Indices: 1108373--1108601 Score: 230
Period size: 20 Copynumber: 11.4 Consensus size: 20
1108363 GATTTTCAAG
* ** *
1108373 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
1108393 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
1108413 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
1108433 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1108453 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1108473 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1108493 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1108513 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1108533 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1108553 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1108573 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1108593 AATCACAAC
1 AATCGCAAC
1108602 ACTGAAATTT
Statistics
Matches: 175, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 171 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:1109333 original size:24 final size:24
Alignment explanation
Indices: 1109294--1109340 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1109284 AAATTTGGTC
1109294 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1109318 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1109341 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:1109532 original size:12 final size:12
Alignment explanation
Indices: 1109515--1109539 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1109505 ATATAATCCT
1109515 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1109527 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1109539 G
1 G
1109540 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1111825 original size:72 final size:71
Alignment explanation
Indices: 1111734--1111967 Score: 286
Period size: 72 Copynumber: 3.3 Consensus size: 71
1111724 GCAACGAGAG
1111734 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCAGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGC-GAAATGAAAATCGCAATGCG
1111799 AAATGAA
65 AAATGAA
* *
1111806 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGC-GAAATGAAAATCGCAATGC
1111870 GAAATGAA
64 GAAATGAA
* * * * *
1111878 AATCGCAACGAGAGAATCG-CAATGCGAA-ATGAAAATCGCAATGCGAAATGAAAATCGCAA--C
1 AATCGCAATGCGA-AAT-GAAAATCCCAACATGAAAATCGCAATGCGAAATGAAAATCGCAATGC
*
1111939 G--A-GAG
64 GAAATGAA
1111944 AATCGCAATGCGGAAATGAAAATC
1 AATCGCAATGC-GAAATGAAAATC
1111968 GCAATGCGAA
Statistics
Matches: 141, Mismatches: 15, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
65 1 0.01
66 17 0.12
67 3 0.02
69 2 0.01
71 17 0.12
72 91 0.65
73 9 0.06
74 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGA
AATGAA
Found at i:1111855 original size:53 final size:52
Alignment explanation
Indices: 1111720--1111986 Score: 409
Period size: 53 Copynumber: 5.1 Consensus size: 52
1111710 CGGAAATTAC
*
1111720 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
1111767 AATCGCAATGCAGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1111825 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
1111878 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1111930 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
1111983 AATC
1 AATC
1111987 ACATTGCGAT
Statistics
Matches: 204, Mismatches: 3, Indels: 20
0.90 0.01 0.09
Matches are distributed among these distances:
47 8 0.04
49 1 0.00
50 1 0.00
52 66 0.32
53 112 0.55
55 2 0.01
56 1 0.00
58 13 0.06
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:1111995 original size:19 final size:19
Alignment explanation
Indices: 1111734--1111986 Score: 303
Period size: 19 Copynumber: 14.2 Consensus size: 19
1111724 GCAACGAGAG
1111734 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1111753 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1111767 AATCGCAATGCAGAAATGAA
1 AATCGCAATGC-GAAATGAA
1111787 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1111806 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1111825 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1111839 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
1111859 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1111878 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1111892 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1111911 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1111930 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1111944 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
1111964 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1111983 AATC
1 AATC
1111987 ACATTGCGAT
Statistics
Matches: 203, Mismatches: 8, Indels: 46
0.79 0.03 0.18
Matches are distributed among these distances:
14 42 0.21
15 3 0.01
16 5 0.02
17 9 0.04
18 1 0.00
19 101 0.50
20 42 0.21
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1112009 original size:105 final size:105
Alignment explanation
Indices: 1111720--1111989 Score: 408
Period size: 105 Copynumber: 2.6 Consensus size: 105
1111710 CGGAAATTAC
* *
1111720 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCA
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCACAA--C-
*
1111779 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
63 G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
1111825 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCACAACGAG
1111890 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
66 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1111930 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCACA
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCACA
1111990 TTGCGATTCT
Statistics
Matches: 156, Mismatches: 3, Indels: 12
0.91 0.02 0.07
Matches are distributed among these distances:
105 124 0.79
106 16 0.10
108 2 0.01
109 1 0.01
111 13 0.08
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (105 bp):
AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCACAACGAG
AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:1112053 original size:54 final size:52
Alignment explanation
Indices: 1111988--1112102 Score: 212
Period size: 54 Copynumber: 2.2 Consensus size: 52
1111978 ATGAAAATCA
1111988 CATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCCG
1 CATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT-CG
1112042 CATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 CATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1112094 CATTGCGAT
1 CATTGCGAT
1112103 AGTCATTTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 11 0.18
53 19 0.31
54 31 0.51
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.44
Consensus pattern (52 bp):
CATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
Found at i:1112110 original size:19 final size:19
Alignment explanation
Indices: 1112004--1112102 Score: 136
Period size: 19 Copynumber: 5.4 Consensus size: 19
1111994 GATTCTCTCG
1112004 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1112024 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
1112044 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1112058 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1112077 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1112096 TTGCGAT
1 TTGCGAT
1112103 AGTCATTTTT
Statistics
Matches: 72, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 5 0.07
17 6 0.08
18 3 0.04
19 26 0.36
20 26 0.36
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1112228 original size:14 final size:14
Alignment explanation
Indices: 1112209--1112245 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1112199 CATCAATTAC
1112209 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1112223 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1112237 ACAAATCAA
1 ACAAATCAA
1112246 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1114210 original size:19 final size:19
Alignment explanation
Indices: 1114168--1114321 Score: 139
Period size: 19 Copynumber: 8.6 Consensus size: 19
1114158 TAGTTTACTT
* *
1114168 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
1114188 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
1114207 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
1114226 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1114245 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
1114259 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1114278 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
1114292 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1114311 TCGCAATGCGA
1 TCGCAACGCGA
1114322 TTTTGGTTTC
Statistics
Matches: 109, Mismatches: 15, Indels: 21
0.75 0.10 0.14
Matches are distributed among these distances:
14 18 0.17
15 1 0.01
16 7 0.06
17 7 0.06
18 1 0.01
19 63 0.58
20 12 0.11
ACGTcount: A:0.45, C:0.23, G:0.21, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1114262 original size:14 final size:14
Alignment explanation
Indices: 1114243--1114299 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1114233 GCGAAATGAA
*
1114243 AATCGCAACGACAG
1 AATCGCAACGAAAG
1114257 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
1114274 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
1114290 AATCGCAACG
1 AATCGCAACG
1114300 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:1114270 original size:33 final size:33
Alignment explanation
Indices: 1114186--1114316 Score: 181
Period size: 33 Copynumber: 3.8 Consensus size: 33
1114176 CGAAACTTAA
* *
1114186 AATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAA
1 AATCGCAACGCGAAATGAAAATCGCAAC--G--A-CAG
1114224 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
1114257 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1114290 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1114317 TGCGATTTTG
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
33 59 0.67
34 1 0.01
36 1 0.01
38 27 0.31
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:1114313 original size:52 final size:51
Alignment explanation
Indices: 1114185--1114321 Score: 141
Period size: 52 Copynumber: 2.6 Consensus size: 51
1114175 ACGAAACTTA
* * * *
1114185 AAATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAAAATCGCAACGCG
1 AAATCGCAACGCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
* ** * * **
1114236 AAAT-GAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGAG
1 AAATCGCAACGCGAAATGA-A-AATCGCAATGCGAAACCAAAATCGCAACGAG
1114288 AGAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 A-AATCGCAACGCGAAATGAAAATCGCAATGCGA
1114322 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
50 9 0.14
51 4 0.06
52 40 0.61
53 4 0.06
54 9 0.14
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (51 bp):
AAATCGCAACGCGAAATGAAAATCGCAATGCGAAACCAAAATCGCAACGAG
Found at i:1114339 original size:19 final size:18
Alignment explanation
Indices: 1114317--1114375 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
1114307 AAAATCGCAA
1114317 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
1114336 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
1114350 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
1114369 TGCGATT
1 TGCGATT
1114376 CTCTCGTTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 11 0.34
16 1 0.03
17 1 0.03
18 1 0.03
19 18 0.56
ACGTcount: A:0.08, C:0.19, G:0.27, T:0.46
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:1114365 original size:33 final size:33
Alignment explanation
Indices: 1114317--1114391 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
1114307 AAAATCGCAA
** *
1114317 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1114350 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
1114383 TGCAATTTT
1 TGCGATTTT
1114392 AAGTTTTGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.09, C:0.20, G:0.24, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1114664 original size:93 final size:93
Alignment explanation
Indices: 1114505--1114820 Score: 614
Period size: 93 Copynumber: 3.4 Consensus size: 93
1114495 TCAGGGTATT
1114505 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1114570 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
1114598 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
1114663 TACTATTTCACAGAGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
1114691 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1114756 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
1114784 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
1114821 AAGCAATCTA
Statistics
Matches: 220, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 220 1.00
ACGTcount: A:0.46, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:1116531 original size:21 final size:21
Alignment explanation
Indices: 1116505--1116568 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
1116495 TCTTTTGGTT
1116505 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
*
1116526 GAAATGAAAATCGCAAC--GC
1 GAAATGAAAATCGCAACGAGA
1116545 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
1116566 GAA
1 GAA
1116569 TCGCAACGCG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.46
21 21 0.54
ACGTcount: A:0.52, C:0.16, G:0.23, T:0.09
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:1116550 original size:19 final size:19
Alignment explanation
Indices: 1116505--1116598 Score: 108
Period size: 19 Copynumber: 5.1 Consensus size: 19
1116495 TCTTTTGGTT
*
1116505 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAAC--GC
1116526 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1116545 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
1116562 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1116578 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1116597 GA
1 GA
1116599 TTTTGGTTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
14 10 0.16
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 31 0.48
21 17 0.27
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1116642 original size:33 final size:33
Alignment explanation
Indices: 1116594--1116673 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
1116584 AAAATCGCAA
**
1116594 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCAT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCAT
*
1116627 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCAT
1116660 TGCGATTTTCATTT
1 TGCGATTTTCATTT
1116674 TTCTCGTTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCAT
Found at i:1116662 original size:14 final size:14
Alignment explanation
Indices: 1116610--1116666 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1116600 TTTGGTTTCG
1116610 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
1116624 CATTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1116643 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1116657 CGTTGCGATT
1 CGTTGCGATT
1116667 TTCATTTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1116679 original size:21 final size:21
Alignment explanation
Indices: 1116654--1116727 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
1116644 GTTGCGATTC
1116654 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
1116675 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
1116696 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
1116717 TCTCGTTGCGA
1 TCTCGTTGCGA
1116728 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:1116849 original size:33 final size:33
Alignment explanation
Indices: 1116807--1116877 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1116797 AATACTAACT
1116807 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
1116840 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1116873 TGAAA
1 TGAAA
1116878 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:1117282 original size:20 final size:20
Alignment explanation
Indices: 1117257--1117449 Score: 228
Period size: 20 Copynumber: 9.6 Consensus size: 20
1117247 CTTTAAAAAT
1117257 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1117277 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
1117297 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* *
1117318 CGTGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
**
1117338 CGTATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
1117358 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1117378 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1117398 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1117418 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1117438 CGCGTTGCGATT
1 CGCGTTGCGATT
1117450 CTGGAAAATC
Statistics
Matches: 150, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
20 132 0.88
21 18 0.12
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1119733 original size:12 final size:12
Alignment explanation
Indices: 1119716--1119742 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1119706 ACCACTTACA
1119716 AAGGAAAGAAAG
1 AAGGAAAGAAAG
1119728 AAGGAAAGAAAG
1 AAGGAAAGAAAG
1119740 AAG
1 AAG
1119743 ACATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
AAGGAAAGAAAG
Found at i:1123609 original size:73 final size:74
Alignment explanation
Indices: 1123490--1123633 Score: 263
Period size: 73 Copynumber: 1.9 Consensus size: 74
1123480 AGTTCCGTCT
*
1123490 GCCGATTTCTAGCTTAAGTGATCTTGTTCTTGAAATTAGGTTTTCTGCGCA-TGTTTGGTAGCTA
1 GCCGATTTCTAGCTTAAGTGATCTTGTTCTTGAAATTAGGTTTTCTGCGCACTATTTGGTAGCTA
1123554 ATTGACAGA
66 ATTGACAGA
1123563 GCCGATTTCTAGCTTAAGTGATCTTGTTCTTGAAATTAGGTTTTCTGCGCATCTATTTGGTAGCT
1 GCCGATTTCTAGCTTAAGTGATCTTGTTCTTGAAATTAGGTTTTCTGCGCA-CTATTTGGTAGCT
1123628 AATTGA
65 AATTGA
1123634 GTGTTTGTTT
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
73 51 0.75
75 17 0.25
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (74 bp):
GCCGATTTCTAGCTTAAGTGATCTTGTTCTTGAAATTAGGTTTTCTGCGCACTATTTGGTAGCTA
ATTGACAGA
Found at i:1128348 original size:20 final size:21
Alignment explanation
Indices: 1128298--1128349 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
1128288 CTTCCTACTT
1128298 CATCTCCATCTATATCATCAC
1 CATCTCCATCTATATCATCAC
*
1128319 CATCACCATC-ATATCA-CTAC
1 CATCTCCATCTATATCATC-AC
*
1128339 CATCTTCATCT
1 CATCTCCATCT
1128350 TCATTATCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 16 0.62
21 9 0.35
ACGTcount: A:0.29, C:0.38, G:0.00, T:0.33
Consensus pattern (21 bp):
CATCTCCATCTATATCATCAC
Found at i:1128524 original size:21 final size:21
Alignment explanation
Indices: 1128483--1128634 Score: 108
Period size: 21 Copynumber: 7.2 Consensus size: 21
1128473 CTGTCACCAA
* * *
1128483 CTATTCCACCATCTTCTTCAT
1 CTATTCCACCACCATCATCAT
*
1128504 CTGTTCCACCACCATCATCAT
1 CTATTCCACCACCATCATCAT
* * *
1128525 TTATTTCACCATCA-CTATCAT
1 CTATTCCACCACCATC-ATCAT
* * * *
1128546 CTACTCCATCATCATCATCCT
1 CTATTCCACCACCATCATCAT
* * *
1128567 CTATTCCACCTCCATCTTCGT
1 CTATTCCACCACCATCATCAT
**
1128588 CTATTCCACCACCATCATTTT
1 CTATTCCACCACCATCATCAT
* * *
1128609 ATATTCCACCTCCATCTTCAT
1 CTATTCCACCACCATCATCAT
*
1128630 TTATT
1 CTATT
1128635 TCATCTTTCT
Statistics
Matches: 100, Mismatches: 29, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
20 1 0.01
21 98 0.98
22 1 0.01
ACGTcount: A:0.22, C:0.38, G:0.01, T:0.39
Consensus pattern (21 bp):
CTATTCCACCACCATCATCAT
Found at i:1128536 original size:42 final size:41
Alignment explanation
Indices: 1128483--1128605 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 41
1128473 CTGTCACCAA
*
1128483 CTATTCCACCATCTTCTTCATCTGTTCCACCACCATCATCAT
1 CTATTCCACCATC-TCTTCATCTATTCCACCACCATCATCAT
* * * * * * *
1128525 TTATTTCACCATCACTATCATCTACTCCATCATCATCATCCT
1 CTATTCCACCATCTCT-TCATCTATTCCACCACCATCATCAT
*
1128567 CTATTCCACC-TCCATCTTCGTCTATTCCACCACCATCAT
1 CTATTCCACCAT-C-TCTTCATCTATTCCACCACCATCAT
1128606 TTTATATTCC
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
41 3 0.05
42 58 0.92
43 2 0.03
ACGTcount: A:0.23, C:0.40, G:0.02, T:0.36
Consensus pattern (41 bp):
CTATTCCACCATCTCTTCATCTATTCCACCACCATCATCAT
Found at i:1130780 original size:5 final size:5
Alignment explanation
Indices: 1130767--1130799 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
1130757 AAGGCCTGCG
*
1130767 TTTGT TTTGC TTTGC TTTGC TTTGC TTTGC TTT
1 TTTGC TTTGC TTTGC TTTGC TTTGC TTTGC TTT
1130800 CAGTTCAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.18, T:0.67
Consensus pattern (5 bp):
TTTGC
Found at i:1138341 original size:12 final size:13
Alignment explanation
Indices: 1138316--1138359 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
1138306 TAATTTTGAG
1138316 AATATTATTTAAA
1 AATATTATTTAAA
*
1138329 AATATTATTAAAA
1 AATATTATTTAAA
1138342 AATAAATATATTTAAA
1 AAT--AT-TATTTAAA
1138358 AA
1 AA
1138360 ATCTTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 15 0.58
15 2 0.08
16 9 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATTATTTAAA
Found at i:1138353 original size:16 final size:18
Alignment explanation
Indices: 1138328--1138361 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1138318 TATTATTTAA
1138328 AAATATTA-TTAAAAAAT
1 AAATATTATTTAAAAAAT
1138345 AAATA-TATTTAAAAAAT
1 AAATATTATTTAAAAAAT
1138362 CTTTGTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATATTATTTAAAAAAT
Found at i:1140133 original size:3 final size:3
Alignment explanation
Indices: 1140125--1140194 Score: 126
Period size: 3 Copynumber: 24.0 Consensus size: 3
1140115 CTAAAAATAG
1140125 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA AC- ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1140172 ACA ACA ACA ACA AC- ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA
1140195 TAATAATAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.06
3 61 0.94
ACGTcount: A:0.66, C:0.34, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:1140505 original size:3 final size:3
Alignment explanation
Indices: 1140497--1140572 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
1140487 CTAAAAATAG
1140497 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1140545 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1140573 TAATAATAAT
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:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:1140577 original size:3 final size:3
Alignment explanation
Indices: 1140571--1140596 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1140561 CAACAACAAC
1140571 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1140597 ATTATTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1140887 original size:4 final size:4
Alignment explanation
Indices: 1140880--1145504 Score: 7694
Period size: 4 Copynumber: 1183.8 Consensus size: 4
1140870 CCCATGCATG
* * * ** * ** *
1140880 CATA CATA CATA TATA TATA CATA CATA CATG CACG CATG CACC CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
1140928 TATG CATA CATA CATA TATA TATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
** * **
1140976 CACG CATG CACC CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1141024 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1141072 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1141120 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1141168 CATG CA-A AATA CATA CATA CATA CATA CATA CATG CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1141215 CATA CATA CATG CATA CATG CATA CATA CATA CATG CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1141263 CATA CATA CATG CATA CATG CATA CATA CATA CATA TATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1141311 CATA CATG CATA CATG CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1141359 CATA CATA CATG CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1141407 C-TA CATA CATA CATA CACA TCATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA -CATA CATA CATA CATA CATA CATA CATA
1141455 CATA CATA CATA C--A CATA CATA CATA CATA CATA C-TA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1141500 CATA CATA CATA CATA CATA CATA CATA CATA CA-A CATA CATA C-TA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1141546 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAGA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1141594 CATA CATA CATA CATA CATA CATA C--A CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1141640 CATA CATA CATA CATA CATA CATA CATA CATA C-TA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1141687 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C-TA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1141734 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1141782 CATA CATA CATA CATA CCTA CATA C--A CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1141828 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT- CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * *
1141875 CATA CATG CA-C CATA CCCATA CATA CATA CAT- -ATA TATA CATA CATA
1 CATA CATA CATA CATA --CATA CATA CATA CATA CATA CATA CATA CATA
* **
1141922 CAT- CATA C--A CATA CA-C CATA CACC CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1141966 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1142014 CATA CATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1142061 CATA CA-A CATA CAT- CATA CATA CATA CATA CATA CATA CATA CTACA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C-ATA
1142108 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT- CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1142155 CATA CATA CATA CATA CATA CATA CATA CATAA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CAT-A CATA CATA CATA CATA
1142204 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1142252 CATA CATA CATA CATA CATA CATA CATA CATA C-TA CAT- -ATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1142297 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT- -ATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1142343 CATA CATA CCTA C--A CATA CATA CATA CATA CATA CATA CATA CA-A
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1142388 CATA CATA CATA CATA CATA CATA CATA CATA CAT- CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1142435 CATA CATA CATA CATA CATA CATA C-TA CATA CATA C--A CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1142480 C-TA CA-A CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1142526 CATA CATA CATA CATA CATA CATA CATA CAT- -ATA CAAA AATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
1142572 CATA CATA CATA CACA CATA CATA CATA CATA CATA CAATA CATG CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA C-ATA CATA CATA
* *
1142621 CATA CATA CATG CATA CATA CATA CATA CATA CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1142669 CATA C-TA CATA CATA CATA CATA CATA CATA CATG CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1142716 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1142764 CATA CATA CATA CATA CATA CATA CATA CA-A CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1142811 CATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1142858 CCATA C--A CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 -CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1142905 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT- CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
**
1142952 CATA CATA CATA C--A CATA CATA CATA CATA CATA CATA CATA CAGG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1142998 CATA CATA CATA CATA C-TA CATG C-TA CAT- CATA CAT- CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1143042 CATA CATA CATA CATA CATA CATA CATG CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1143090 CATA CATA CATA CAT- CATA C-TG CATA CAT- CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1143135 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CCTA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1143183 CATA CATA CATA CATA CATA CATA CA-A CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1143230 CATA CA-A CATA CATA CATA CATA CATA CA-A CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1143276 CATA CATA CCTA CATA CATA CATA CATA CATA CATA CATA C-TA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1143323 CATTA CATA CATA CATA CATA C--A CATA CATA CATA CATA CATC CATA
1 CA-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1143370 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1143418 CATA CATA CATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1143465 CATA CATA CATA C-TA CATA CATA CATA CATA CCTA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1143512 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1143560 CATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1143607 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C-TA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1143654 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1143702 CATA CATA CATAA CATA CATA C-TA CATA CATA CATA CATA C-TA CATA
1 CATA CATA CAT-A CATA CATA CATA CATA CATA CATA CATA CATA CATA
1143749 CATA CATA CATA CATA C--A CATA CATA CA-A CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1143794 CATA CATA CATA CATA CATA CATA CATA CATA CATA C-TA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1143841 CATA CAT- -ATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1143887 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1143935 CAT- CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1143982 CATA CATA CATA CATA CATA CATA C-TA C-TA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1144028 CATA CACA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1144076 CAT- -ATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1144122 CATA C-TA CATA TAATA CATA CATA CATA CATA CATA CATA CATA C-TA
1 CATA CATA CATA -CATA CATA CATA CATA CATA CATA CATA CATA CATA
1144169 CATA CATA CATA CATA CATA CATA CATA C--A CATA CATA CATA CA-A
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1144214 CATA CATA CATA CATA CATA CATA C--A CATA CATA CATA CAT- C-TA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1144258 CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1144305 CATA CATA C--A CATA CATA C-TA CATA CATA CATA C--A CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1144348 C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CA-A
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1144394 CATA CATA CATA CATA CATA C--A CATA CATA CATA CATA CATA C-TA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1144439 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA C-TA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1144486 CATA CATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA CAT-
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1144532 CATA CATA CATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1144579 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1144627 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1144675 CATA CATA CATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1144722 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1144770 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1144818 CATA CATA CATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1144865 C-TA CATA CATC CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1144912 CATA CATA CATA CATA CATA CATA CATA CATA C--A CATA CAGA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1144958 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATC CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1145006 C--A CATA CATA CATA CATA CATA -ATA CAT- CATA CATA CATA CAT-
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1145049 CATA CATA CATA CATA CATA CCTA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1145097 CACA CATA CATA CATA CCAT- CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA -CATA CATA CATA CATA CATA CATA CATA CATA
1145145 CATA C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1145192 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT- CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1145239 CATA CATA CATA CATA CATA C--A CATA CATA CCTA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1145285 CA-A CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1145332 CCTA CATA CATA CAATA CATA CATA CATA CATA CATA C-TA CATA CA-A
1 CATA CATA CATA C-ATA CATA CATA CATA CATA CATA CATA CATA CATA
1145379 CATA CATA CATA CATA CATA CATA CATA CATA CAT- CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1145426 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1145474 CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CAT
1145505 TATGAATTCA
Statistics
Matches: 4374, Mismatches: 114, Indels: 266
0.92 0.02 0.06
Matches are distributed among these distances:
2 49 0.01
3 212 0.05
4 4073 0.93
5 36 0.01
6 4 0.00
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:1148656 original size:2 final size:2
Alignment explanation
Indices: 1148649--1148690 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1148639 AATTATTTTC
1148649 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1148691 TAATGATTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1149091 original size:54 final size:54
Alignment explanation
Indices: 1148976--1149726 Score: 1031
Period size: 54 Copynumber: 14.0 Consensus size: 54
1148966 ATCTTCTTAA
* * * * *
1148976 AACGGGTTCGCTCCCTCTTGCTTCAGGGAGTA-TAACTCGAACAATATTCTACC
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
*
1149029 TACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
* *
1149083 AATGGGTTCGCTCCCACTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
* * *
1149137 AACGGGTTCGCTCCCT-TTTCTTTATGGAGTAGGAACTCGAACAATATTCTCCC
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
* *
1149190 AACGGGTTCGCTCCCTCTTTCTTTACGGAGTAGGAACTCGAACAATCTTCTGCT
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
* * *
1149244 AACAGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTACT
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
* * * *
1149298 AACGGGTTCGCTCTCTTTTTCTTTAGGGAGTAGAAACTCGAACTATCTTCTGCC
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
* * ** * * * *
1149352 TACGGATTAACTCCATTTTTCTGTAGGGAGTAGGAACTCGAACAATCTTCTACC
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
* * * * * **
1149406 AACAGATTCGCTCCTTTTTTCTTTAGGGAGTAGGAACTCAAACAATAATCTGCC
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
** * *
1149460 AACATGTTCGCTCCCTCTTTCTGTAGGGAGTAGGAACTTGAACAATCTTCTGCC
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
* * *
1149514 AAC-GGTTCACTCCCTCTTTCTTTAGGGAGTAGGAACTTGAACAATCTTTTGCC
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
* *
1149567 AACGGGTTCGCTCCATATTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
* * *
1149621 AACGGTTTCACTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTACC
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
* * *
1149675 AACGGGTTTGCTCCCTCTTTCTTTAGGGAGTAGGAACTTGAATAATCTTCTG
1 AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTG
1149727 TTGTGATTAT
Statistics
Matches: 618, Mismatches: 77, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
53 128 0.21
54 490 0.79
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (54 bp):
AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCC
Found at i:1150123 original size:37 final size:37
Alignment explanation
Indices: 1150082--1150291 Score: 134
Period size: 37 Copynumber: 5.7 Consensus size: 37
1150072 TTGCTCCAAC
* *
1150082 ACTCTTCCGAAAAGGCTTACAATAGG-TTTGTTTCACT
1 ACTCTTCCGAAAAGGCTTAAAAT-GGATTTGCTTCACT
** **
1150119 ACTCTTTGGTGAAGGCTTAAAATGGATTTGCTTCACT
1 ACTCTTCCGAAAAGGCTTAAAATGGATTTGCTTCACT
* * ** * *
1150156 ACTCATCGGTGAAGGCTTAAGATGGATTTGCTTTACT
1 ACTCTTCCGAAAAGGCTTAAAATGGATTTGCTTCACT
* ** * * * *
1150193 ACTCTTCGGTGAATGCTTAAGATGAATTTTCTTCACT
1 ACTCTTCCGAAAAGGCTTAAAATGGATTTGCTTCACT
** ** * * *
1150230 ACTCTTTGGTGAAGGCTCAAGAGGGATTTGCTTCACT
1 ACTCTTCCGAAAAGGCTTAAAATGGATTTGCTTCACT
* ** *
1150267 ACTCTTCGGTGAAGGCTTAAGATGG
1 ACTCTTCCGAAAAGGCTTAAAATGG
1150292 CTCGAAAGAC
Statistics
Matches: 148, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
36 2 0.01
37 146 0.99
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (37 bp):
ACTCTTCCGAAAAGGCTTAAAATGGATTTGCTTCACT
Found at i:1150204 original size:74 final size:74
Alignment explanation
Indices: 1150108--1150447 Score: 349
Period size: 74 Copynumber: 4.5 Consensus size: 74
1150098 TTACAATAGG
* * *
1150108 TTTGTTTCACTACTCTTTGGTGAAGGCTTAAAATGGATTTGCTTCACTACTCATCGGTGAAGGCT
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTGCTTCACTACTCATCGGTGAAGGCT
1150173 TAAGATGGA
66 TAAGATGGA
* * * * * *
1150182 TTTGCTTTACTACTCTTCGGTGAATGCTTAAGATGAATTTTCTTCACTACTCTTTGGTGAAGGCT
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTGCTTCACTACTCATCGGTGAAGGCT
* *
1150247 CAAGAGGGA
66 TAAGATGGA
* * **** * *
1150256 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGG-CTCGAAAGACTTAATCATCATGCTCGGA
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTGCTTCAC-TACTCATC--GGT--GA
*
1150320 AGGCTTACTGATGGA
61 AGGCTTA-AGATGGA
** * * ** ** * *
1150335 TTTAATTCACTACTCTTCCGTGAAGGCTCAAGATGGATTTTTTTCACCGCTCTTCGGTGAAGACT
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTGCTTCACTACTCATCGGTGAAGGCT
1150400 TAAGATGGA
66 TAAGATGGA
1150409 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATT
1 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATT
1150448 CACTTCTTCA
Statistics
Matches: 209, Mismatches: 50, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
73 3 0.01
74 142 0.68
75 8 0.04
76 2 0.01
77 2 0.01
78 8 0.04
79 41 0.20
80 3 0.01
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (74 bp):
TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTGCTTCACTACTCATCGGTGAAGGCT
TAAGATGGA
Found at i:1150372 original size:37 final size:37
Alignment explanation
Indices: 1150113--1150447 Score: 294
Period size: 37 Copynumber: 8.9 Consensus size: 37
1150103 ATAGGTTTGT
* * **
1150113 TTCACTACTCTTTGGTGAAGGCTTAAAATGGATTTGC
1 TTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTAA
* **
1150150 TTCACTACTCATCGGTGAAGGCTTAAGATGGATTTGC
1 TTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTAA
* * * **
1150187 TTTACTACTCTTCGGTGAATGCTTAAGATGAATTTTC
1 TTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTAA
* * * **
1150224 TTCACTACTCTTTGGTGAAGGCTCAAGAGGGATTTGC
1 TTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTAA
* **
1150261 TTCACTACTCTTCGGTGAAGGCTTAAGATGGCTCGAA
1 TTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTAA
** * * * *
1150298 -AGACTTAATCATCATGCTCGGAAGGCTTACTGATGGATTTAA
1 TTCAC-TACTCTTC--GGT--GAAGGCTTA-AGATGGATTTAA
* * **
1150340 TTCACTACTCTTCCGTGAAGGCTCAAGATGGATTTTT
1 TTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTAA
** * **
1150377 TTCACCGCTCTTCGGTGAAGACTTAAGATGGATTTGC
1 TTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTAA
1150414 TTCACTACTCTTCGGTGAAGGCTTAAGATGGATT
1 TTCACTACTCTTCGGTGAAGGCTTAAGATGGATT
1150448 CACTTCTTCA
Statistics
Matches: 239, Mismatches: 52, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
36 2 0.01
37 201 0.84
38 8 0.03
39 2 0.01
40 1 0.00
41 9 0.04
42 14 0.06
43 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (37 bp):
TTCACTACTCTTCGGTGAAGGCTTAAGATGGATTTAA
Found at i:1150388 original size:153 final size:152
Alignment explanation
Indices: 1150166--1150444 Score: 414
Period size: 153 Copynumber: 1.8 Consensus size: 152
1150156 ACTCATCGGT
** * * * * *
1150166 GAAGGCTTAAGATGGATTTGCTTTACTACTCTTCGGTGAATGCTTAAGATGAATTTTCTTCACTA
1 GAAGGCTTAAGATGGATTTAATTCACTACTCTTCCGTGAAGGCTCAAGATGAATTTTCTTCACCA
* *
1150231 CTCTTTGGTGAAGGCTCAAGAGGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCTCG
66 CTCTTCGGTGAAGACTCAAGAGGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCTCG
1150296 AAAGACTTAATCATCATGCTCG
131 AAAGACTTAATCATCATGCTCG
* * *
1150318 GAAGGCTTACTGATGGATTTAATTCACTACTCTTCCGTGAAGGCTCAAGATGGATTTTTTTCACC
1 GAAGGCTTA-AGATGGATTTAATTCACTACTCTTCCGTGAAGGCTCAAGATGAATTTTCTTCACC
* * *
1150383 GCTCTTCGGTGAAGACTTAAGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGG
65 ACTCTTCGGTGAAGACTCAAGAGGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGG
1150445 ATTCACTTCT
Statistics
Matches: 111, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
152 9 0.08
153 102 0.92
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (152 bp):
GAAGGCTTAAGATGGATTTAATTCACTACTCTTCCGTGAAGGCTCAAGATGAATTTTCTTCACCA
CTCTTCGGTGAAGACTCAAGAGGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCTCG
AAAGACTTAATCATCATGCTCG
Found at i:1151759 original size:7 final size:7
Alignment explanation
Indices: 1151713--1151750 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
1151703 ATTTTTTTTA
*
1151713 TTTTCAT
1 TTTTCCT
1151720 TTTTCCT
1 TTTTCCT
1151727 TTTTCCT
1 TTTTCCT
1151734 TTTTCC-
1 TTTTCCT
1151740 TTTTCCT
1 TTTTCCT
1151747 TTTT
1 TTTT
1151751 TTCCTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTCCT
Found at i:1151767 original size:15 final size:14
Alignment explanation
Indices: 1151695--1151768 Score: 62
Period size: 15 Copynumber: 5.0 Consensus size: 14
1151685 CTTGAGACCT
1151695 CTTTTTTCATTTTT-
1 CTTTTTTC-TTTTTC
*
1151709 TTTATTTTCATTTTTC
1 CTT-TTTTC-TTTTTC
*
1151725 CTTTTTCCTTTTTC
1 CTTTTTTCTTTTTC
1151739 CTTTTCCTT-TTTTTC
1 CTTTT--TTCTTTTTC
1151754 CTTTTTTCTCTTTTC
1 CTTTTTTCT-TTTTC
1151769 TTCTTCAAGC
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
13 2 0.04
14 14 0.28
15 31 0.62
16 3 0.06
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (14 bp):
CTTTTTTCTTTTTC
Found at i:1161157 original size:2 final size:2
Alignment explanation
Indices: 1161150--1161179 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1161140 ATTATTTTTC
1161150 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1161180 TAATGATTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1167544 original size:27 final size:27
Alignment explanation
Indices: 1167506--1167569 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
1167496 GTTGTTGAAA
*
1167506 GATAACGTGCATGGTGTGTGTGCCAAG
1 GATAACGTGCATGGTGTGTGCGCCAAG
*
1167533 GATAACGTGCATGGTGTGTGCGCTAAG
1 GATAACGTGCATGGTGTGTGCGCCAAG
1167560 GATAACGTGC
1 GATAACGTGC
1167570 GTAGGGTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.23, C:0.16, G:0.36, T:0.25
Consensus pattern (27 bp):
GATAACGTGCATGGTGTGTGCGCCAAG
Found at i:1170031 original size:20 final size:20
Alignment explanation
Indices: 1170002--1170051 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
1169992 CGATTTAAAC
* *
1170002 TATAATTAAAATATAAAAGA
1 TATAAATAAAAAATAAAAGA
*
1170022 TATAAATAAAAAATAAAA-T
1 TATAAATAAAAAATAAAAGA
1170041 TAT-AATAAAAA
1 TATAAATAAAAA
1170052 CATTTTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 8 0.30
19 3 0.11
20 16 0.59
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
TATAAATAAAAAATAAAAGA
Found at i:1174264 original size:26 final size:28
Alignment explanation
Indices: 1174205--1174266 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
1174195 TAAGTAATAA
*
1174205 AAATAATAATAATGAAATAATAATTAAAGC
1 AAATAATAATAATAAAATAATAATT--AGC
1174235 -AATAATAATAATAAAATAAT-ATT-GC
1 AAATAATAATAATAAAATAATAATTAGC
1174260 AAATAAT
1 AAATAAT
1174267 GATTAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 2 0.07
26 6 0.20
28 3 0.10
29 19 0.63
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (28 bp):
AAATAATAATAATAAAATAATAATTAGC
Found at i:1175678 original size:3 final size:3
Alignment explanation
Indices: 1175663--1175720 Score: 56
Period size: 3 Copynumber: 21.3 Consensus size: 3
1175653 ATTTGGGCCT
* *
1175663 ATA ATA A-A A-A ATA ATA AT- ATT ATA AT- ATA ATA ATA ATA TTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1175706 ATA A-A ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
1175721 ATAAAAAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
2 12 0.26
3 35 0.74
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1175696 original size:19 final size:19
Alignment explanation
Indices: 1175670--1175719 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1175660 CCTATAATAA
*
1175670 AAAATAATAATATTATAAT
1 AAAATAATAATATTAAAAT
*
1175689 ATAATAATAATATTAAAAT
1 AAAATAATAATATTAAAAT
1175708 AAAATAATAATA
1 AAAATAATAATA
1175720 AATAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATAATAATATTAAAAT
Found at i:1175727 original size:16 final size:16
Alignment explanation
Indices: 1175663--1175727 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
1175653 ATTTGGGCCT
* *
1175663 ATAATAAAAAATAATA
1 ATAATAATAAATAAAA
* *
1175679 AT-ATTATAATATAATA
1 ATAATAATAA-ATAAAA
*
1175695 ATAATATTAAA-ATAAA
1 ATAATAATAAATA-AAA
1175711 ATAATAATAAATAAAA
1 ATAATAATAAATAAAA
1175727 A
1 A
1175728 AATGAAATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
15 6 0.15
16 27 0.69
17 6 0.15
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAATAATAAATAAAA
Found at i:1175728 original size:22 final size:23
Alignment explanation
Indices: 1175684--1175737 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
1175674 TAATAATATT
* *
1175684 ATAATATAATAATAAT-ATTAAA
1 ATAAAATAATAATAATAATAAAA
1175706 ATAAAATAATAATAAATAA-AAAA
1 ATAAAATAATAAT-AATAATAAAA
*
1175729 ATGAAATAA
1 ATAAAATAA
1175738 AAACTAGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.44
23 14 0.52
24 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
ATAAAATAATAATAATAATAAAA
Found at i:1176153 original size:113 final size:113
Alignment explanation
Indices: 1175970--1176492 Score: 766
Period size: 113 Copynumber: 4.6 Consensus size: 113
1175960 AGAATCATGC
*
1175970 AAAAGATTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
1176035 TATGAACTCTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCA
65 TATGAACTCTCTCTGGAAAAGCTGATCCATCGAATGATGAATTCAAGCA
* *
1176084 AAAAGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * * *
1176149 ATGAACTCGCCCTGGCAATGCTGATCCATCGAATGATAAATTCAAACG
66 ATGAACTCTCTCTGGAAAAGCTGATCCATCGAATGATGAATTCAAGCA
*
1176197 AAAAGTTGAACAAGTTCTTCTCATTAGGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
1176262 ATGAACTCTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCA
66 ATGAACTCTCTCTGGAAAAGCTGATCCATCGAATGATGAATTCAAGCA
**
1176310 AAAAGTTGAACAAGTTCTTCTCATTATGAA---CTTCTTCCTTCTTCAGATGAGTTCTTCTTGTT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
1176372 ATGAACTCGAC-CTGGTAATGCTGATCCATCAAATGATGAATTCAAGCA
66 ATGAACTC-TCTCTGGAAAAGCTGATCCATCGAATGATGAATTCAAGCA
* * *
1176420 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTAAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1176485 ATGAACTC
66 ATGAACTC
1176493 GCCCAGAGAT
Statistics
Matches: 364, Mismatches: 41, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
110 98 0.27
111 1 0.00
113 260 0.71
114 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCTCTCTGGAAAAGCTGATCCATCGAATGATGAATTCAAGCA
Found at i:1176416 original size:223 final size:224
Alignment explanation
Indices: 1175970--1176492 Score: 895
Period size: 223 Copynumber: 2.3 Consensus size: 224
1175960 AGAATCATGC
*
1175970 AAAAGATTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1176035 TATGAACTCTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCAAAAAGTTGAACAAGTT
65 TATGAACTCTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCAAAAAGTTGAACAAGTT
*
1176100 CTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGCCCTGGC
130 CTTCTCATTATAAA--TCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGACCTGGC
* *
1176165 AATGCTGATCCATCGAATGATAAATTCAAACG
193 AATGCTGATCCATCAAATGATAAATTCAAACA
*
1176197 AAAAGTTGAACAAGTTCTTCTCATTAGGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1176262 ATGAACTCTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCAAAAAGTTGAACAAGTTC
66 ATGAACTCTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCAAAAAGTTGAACAAGTTC
* * *
1176327 TTCTCATTATGAA-CTTCTTCCTTCTTCAGATGAGTTCTTCTTGTTATGAACTCGACCTGGTAAT
131 TTCTCATTATAAATCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGACCTGGCAAT
* *
1176391 GCTGATCCATCAAATGATGAATTCAAGCA
196 GCTGATCCATCAAATGATAAATTCAAACA
* * *
1176420 AAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCTTTCTTAAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1176485 ATGAACTC
66 ATGAACTC
1176493 GCCCAGAGAT
Statistics
Matches: 282, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
223 142 0.50
226 135 0.48
227 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (224 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCAAAAAGTTGAACAAGTTC
TTCTCATTATAAATCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGACCTGGCAAT
GCTGATCCATCAAATGATAAATTCAAACA
Found at i:1176953 original size:22 final size:22
Alignment explanation
Indices: 1176928--1176982 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
1176918 GATAAAGATT
*
1176928 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
1176950 TCATCTTTTAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1176972 TCATCTTTGAA
1 TCATCTTTGAA
1176983 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1177432 original size:54 final size:54
Alignment explanation
Indices: 1177350--1177505 Score: 204
Period size: 54 Copynumber: 2.9 Consensus size: 54
1177340 AGAATAGGAG
* * * * *
1177350 GTTCGTAAAACATTTGACAGCGCATTCATCATTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAAAC
* * * **
1177404 GTTCGTAAAACATTTGAAAACACATTCATCCTTTCCTGTAGTTTCTATTCAAAC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAAAC
* *
1177458 GTTCGTAAAGCATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGC
1177506 CAAGATTTCT
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 85 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAAAC
Found at i:1179847 original size:114 final size:114
Alignment explanation
Indices: 1179640--1179861 Score: 354
Period size: 114 Copynumber: 1.9 Consensus size: 114
1179630 ATGCAGTTCG
* * * * * *
1179640 TCTTTCAATTCCAATGATTGGTTTTGGGGTTCCTACCGAACCAGATTAGATAACTCAAAGAATAC
1 TCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACAC
* * *
1179705 TTCCAGAAGATTCTATTGGGTCTTCTTATTTCTACTATGAGCAAATTCA
66 TTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAGCAAATTCA
*
1179754 TCTTTCAAATCCAATGATTGGTTTTAGGGTTTATACCAAACCAGATCAGATAACTCAAAGAACAC
1 TCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACAC
1179819 TTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAGCA
66 TTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAGCA
1179862 CATGGCACTT
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 98 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (114 bp):
TCTTTCAAATCCAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACAC
TTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAGCAAATTCA
Found at i:1182061 original size:7 final size:7
Alignment explanation
Indices: 1182049--1182138 Score: 60
Period size: 7 Copynumber: 12.3 Consensus size: 7
1182039 ATTTCTCCCC
1182049 TTTTTCT
1 TTTTTCT
1182056 TTTTTC-
1 TTTTTCT
*
1182062 CTTTT-T
1 TTTTTCT
1182068 TTTTTCT
1 TTTTTCT
1182075 TTTTTCT
1 TTTTTCT
1182082 CATTTTTCCT
1 --TTTTT-CT
1182092 TTTTCATCT
1 TTTT--TCT
1182101 TTTTT-T
1 TTTTTCT
1182107 TTCTTTCT
1 TT-TTTCT
***
1182115 TTGTTGGA
1 TT-TTTCT
1182123 TTTTTCT
1 TTTTTCT
1182130 TTTTTCT
1 TTTTTCT
1182137 TT
1 TT
1182139 CTTTACTGGA
Statistics
Matches: 65, Mismatches: 9, Indels: 18
0.71 0.10 0.20
Matches are distributed among these distances:
6 11 0.17
7 29 0.45
8 11 0.17
9 11 0.17
10 3 0.05
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (7 bp):
TTTTTCT
Found at i:1182087 original size:16 final size:15
Alignment explanation
Indices: 1182049--1182114 Score: 50
Period size: 16 Copynumber: 4.5 Consensus size: 15
1182039 ATTTCTCCCC
1182049 TTTTTCT-TTTTTC-
1 TTTTTCTCTTTTTCT
*
1182062 CTTTT-T-TTTTTCT
1 TTTTTCTCTTTTTCT
*
1182075 TTTTTCTCATTTTTCC
1 TTTTTCTC-TTTTTCT
*
1182091 TTTTTCATCTTTTTTT
1 TTTTTC-TCTTTTTCT
1182107 TTCTTTCT
1 TT-TTTCT
1182115 TTGTTGGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
12 7 0.17
13 8 0.19
14 1 0.02
16 20 0.48
17 6 0.14
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTCTCTTTTTCT
Found at i:1182104 original size:17 final size:16
Alignment explanation
Indices: 1182049--1182105 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
1182039 ATTTCTCCCC
1182049 TTTT-TCTTTTTTCC-
1 TTTTCTCTTTTTTCCT
*
1182063 -TTT-T-TTTTTTCTT
1 TTTTCTCTTTTTTCCT
*
1182076 TTTTCTCATTTTTCCT
1 TTTTCTCTTTTTTCCT
1182092 TTTTCATCTTTTTT
1 TTTTC-TCTTTTTT
1182106 TTTCTTTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
12 7 0.21
13 4 0.12
14 3 0.09
15 1 0.03
16 12 0.35
17 7 0.21
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTCTCTTTTTTCCT
Found at i:1182106 original size:19 final size:18
Alignment explanation
Indices: 1182049--1182112 Score: 51
Period size: 17 Copynumber: 3.6 Consensus size: 18
1182039 ATTTCTCCCC
*
1182049 TTTTTCTTTTTTC-CTTTT
1 TTTTTCCTTTTTCTC-TTT
* **
1182067 TTTTTTCTTTTT-TCTCA
1 TTTTTCCTTTTTCTCTTT
1182084 TTTTTCCTTTTTCATCTTT
1 TTTTTCCTTTTTC-TCTTT
*
1182103 TTTTTTCTTT
1 TTTTTCCTTT
1182113 CTTTGTTGGA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
17 12 0.34
18 11 0.31
19 12 0.34
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTCCTTTTTCTCTTT
Found at i:1184956 original size:12 final size:12
Alignment explanation
Indices: 1184914--1184959 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
1184904 GGAAATATGA
1184914 AAATGTAAATAC
1 AAATGTAAATAC
*
1184926 AAACGTAAAATTAC
1 AAATGT-AAA-TAC
*
1184940 AAATGTAAATGC
1 AAATGTAAATAC
1184952 AAATGTAA
1 AAATGTAA
1184960 CAATAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 15 0.52
13 6 0.21
14 8 0.28
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.24
Consensus pattern (12 bp):
AAATGTAAATAC
Found at i:1184969 original size:26 final size:26
Alignment explanation
Indices: 1184913--1184975 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
1184903 TGGAAATATG
1184913 AAAATGTAAATACAAACGTAAAATTA
1 AAAATGTAAATACAAACGTAAAATTA
* * *
1184939 CAAATGTAAATGCAAATGTAACAA-TA
1 AAAATGTAAATACAAACGTAA-AATTA
*
1184965 AAAATGCAAAT
1 AAAATGTAAAT
1184976 TGTATAGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 29 0.94
27 2 0.06
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (26 bp):
AAAATGTAAATACAAACGTAAAATTA
Found at i:1187363 original size:16 final size:17
Alignment explanation
Indices: 1187342--1187373 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1187332 ATAGGATTTT
1187342 AATAAA-AAACAAATAG
1 AATAAATAAACAAATAG
1187358 AATAAATAAACAAATA
1 AATAAATAAACAAATA
1187374 TTATTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.16
Consensus pattern (17 bp):
AATAAATAAACAAATAG
Found at i:1187467 original size:26 final size:28
Alignment explanation
Indices: 1187408--1187469 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
1187398 TAAGTAATAA
*
1187408 AAATAATAATAATGAAATAATAATTAAAGC
1 AAATAATAATAATAAAATAATAATT--AGC
1187438 -AATAATAATAATAAAATAAT-ATT-GC
1 AAATAATAATAATAAAATAATAATTAGC
1187463 AAATAAT
1 AAATAAT
1187470 GATTAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 2 0.07
26 6 0.20
28 3 0.10
29 19 0.63
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (28 bp):
AAATAATAATAATAAAATAATAATTAGC
Found at i:1187535 original size:29 final size:29
Alignment explanation
Indices: 1187486--1187547 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
1187476 AATAAAAGGA
* *
1187486 ATTAAAAATATAGTAT-TAAAATGTAAAAT
1 ATTAAAAATATAATATCAAAAATG-AAAAT
1187515 ATTAAAAATA-AATAGTCAAAAATGAAAAT
1 ATTAAAAATATAATA-TCAAAAATGAAAAT
1187544 -TTAA
1 ATTAA
1187548 TGATTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
28 7 0.24
29 16 0.55
30 6 0.21
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (29 bp):
ATTAAAAATATAATATCAAAAATGAAAAT
Found at i:1188878 original size:3 final size:3
Alignment explanation
Indices: 1188862--1188918 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
1188852 TTTGGGCTTG
* *
1188862 TAA TAA -AA -AA TAA TAA T-A TTA TAA T-A TAA TAA TAA TAT TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1188905 TAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA
1188919 ATAAAACAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
2 12 0.26
3 34 0.74
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1188894 original size:19 final size:19
Alignment explanation
Indices: 1188868--1188917 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1188858 CTTGTAATAA
*
1188868 AAAATAATAATATTATAAT
1 AAAATAATAATATTAAAAT
*
1188887 ATAATAATAATATTAAAAT
1 AAAATAATAATATTAAAAT
1188906 AAAATAATAATA
1 AAAATAATAATA
1188918 AATAAAACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATAATAATATTAAAAT
Found at i:1188929 original size:19 final size:22
Alignment explanation
Indices: 1188863--1188918 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
1188853 TTGGGCTTGT
1188863 AATAAAA-AATAATAATATT--
1 AATAAAATAATAATAATATTAA
*
1188882 -ATAATATAATAATAATATTAA
1 AATAAAATAATAATAATATTAA
1188903 AATAAAATAATAATAA
1 AATAAAATAATAATAA
1188919 ATAAAACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 5 0.16
19 12 0.39
22 14 0.45
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAAAATAATAATAATATTAA
Found at i:1197287 original size:18 final size:18
Alignment explanation
Indices: 1197260--1197296 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1197250 CTTTATATTA
1197260 TTTTTTTATACTAA-TTT
1 TTTTTTTATACTAACTTT
1197277 TTTTATTTATACTAACTTT
1 TTTT-TTTATACTAACTTT
1197296 T
1 T
1197297 ATAATTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 10 0.56
19 4 0.22
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTTATACTAACTTT
Found at i:1200996 original size:17 final size:17
Alignment explanation
Indices: 1200974--1201029 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
1200964 GTTTTAATAG
1200974 TTTAATAATATTATTAT
1 TTTAATAATATTATTAT
*
1200991 TTTAATAAGTAATTAATAT
1 TTTAATAA-T-ATTATTAT
* *
1201010 ACTTAACAATA-TATTAT
1 -TTTAATAATATTATTAT
1201027 TTT
1 TTT
1201030 TATTTTAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
16 2 0.06
17 13 0.42
18 2 0.06
19 8 0.26
20 6 0.19
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTAATAATATTATTAT
Found at i:1201052 original size:30 final size:29
Alignment explanation
Indices: 1201017--1201116 Score: 78
Period size: 30 Copynumber: 3.2 Consensus size: 29
1201007 TATACTTAAC
*
1201017 AATATATTATTTTTATTTTAATAAAAATTT
1 AATATATTATTTTTATTTTAAT-AAAATAT
1201047 AATATAATTTTAATATTTTTATTTTAATAAAATAT
1 AATAT-A---T--TATTTTTATTTTAATAAAATAT
*
1201082 AATA-A-TATTTTTATTTAAAATTATAAATAT
1 AATATATTATTTTTATTT-TAA-TA-AAATAT
1201112 AATAT
1 AATAT
1201117 TTTAATAATA
Statistics
Matches: 58, Mismatches: 2, Indels: 19
0.73 0.03 0.24
Matches are distributed among these distances:
27 11 0.19
28 2 0.03
29 2 0.03
30 15 0.26
31 1 0.02
33 1 0.02
34 1 0.02
35 10 0.17
36 15 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
AATATATTATTTTTATTTTAATAAAATAT
Found at i:1201092 original size:21 final size:23
Alignment explanation
Indices: 1201066--1201130 Score: 62
Period size: 26 Copynumber: 2.7 Consensus size: 23
1201056 TTAATATTTT
1201066 TATTTTAATAAAATAT-A-ATAA
1 TATTTTAATAAAATATAATATAA
*
1201087 TATTTTTATTTAAAATTATAAATATAA
1 TA-TTTTA-ATAAAA-TAT-AATATAA
1201114 TATTTTAATAATAATAT
1 TATTTTAATAA-AATAT
1201131 TGTCATAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
21 2 0.06
22 5 0.14
23 5 0.14
24 3 0.09
25 6 0.17
26 8 0.23
27 6 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TATTTTAATAAAATATAATATAA
Found at i:1201094 original size:36 final size:36
Alignment explanation
Indices: 1201024--1201094 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
1201014 AACAATATAT
*
1201024 TATTTTTATTTTAATAAAAATTTAATATAATTTTAA
1 TATTTTTATTTTAATAAAAATATAATATAATTTTAA
*
1201060 TATTTTTATTTTAAT-AAAATATAATAATATTTTTA
1 TATTTTTATTTTAATAAAAATATAAT-ATAATTTTA
1201095 TTTAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 9 0.28
36 23 0.72
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (36 bp):
TATTTTTATTTTAATAAAAATATAATATAATTTTAA
Found at i:1201095 original size:27 final size:30
Alignment explanation
Indices: 1201057--1201115 Score: 88
Period size: 27 Copynumber: 2.1 Consensus size: 30
1201047 AATATAATTT
*
1201057 TAATATTTTTATTT-TAA-TA-AAATATAA
1 TAATATTTTTATTTAAAATTATAAATATAA
1201084 TAATATTTTTATTTAAAATTATAAATATAA
1 TAATATTTTTATTTAAAATTATAAATATAA
1201114 TA
1 TA
1201116 TTTTAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 14 0.50
28 2 0.07
29 2 0.07
30 10 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TAATATTTTTATTTAAAATTATAAATATAA
Found at i:1201129 original size:14 final size:14
Alignment explanation
Indices: 1201080--1201147 Score: 50
Period size: 14 Copynumber: 4.9 Consensus size: 14
1201070 TTAATAAAAT
*
1201080 ATAATAATATTTTT
1 ATAATAATATTTTA
* * *
1201094 AT-TTAAAATTATA
1 ATAATAATATTTTA
1201107 A-ATATAATATTTTA
1 ATA-ATAATATTTTA
* *
1201121 ATAATAATATTGTC
1 ATAATAATATTTTA
1201135 ATAAATAATATTT
1 AT-AATAATATTT
1201148 ATATAAATTA
Statistics
Matches: 40, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
13 8 0.20
14 22 0.55
15 10 0.25
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (14 bp):
ATAATAATATTTTA
Found at i:1201153 original size:15 final size:14
Alignment explanation
Indices: 1201110--1201166 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
1201100 AATTATAAAT
1201110 ATAATATTTTA-ATA
1 ATAATATTTTATA-A
*
1201124 ATAATATTGTCATAA
1 ATAATATT-TTATAA
1201139 ATAATATTTATATAA
1 ATAATATTT-TATAA
1201154 AT--TATTTTA-AA
1 ATAATATTTTATAA
1201165 AT
1 AT
1201167 TTAAAAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 4 0.11
12 2 0.05
13 5 0.13
14 9 0.24
15 17 0.45
16 1 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (14 bp):
ATAATATTTTATAA
Found at i:1204452 original size:41 final size:41
Alignment explanation
Indices: 1204398--1204500 Score: 106
Period size: 41 Copynumber: 2.5 Consensus size: 41
1204388 GACAAACGCC
* *
1204398 AAACCTAGTACTTTTGTGGCGTTTTCCAA-CAAA-CGCCGCTA
1 AAACATAGTACTTTTGTGGCGTTTT--AATAAAATCGCCGCTA
* *
1204439 AAACATAGTACTTTAGTGGTGTTTTAATAAAATCGCCGCTA
1 AAACATAGTACTTTTGTGGCGTTTTAATAAAATCGCCGCTA
1204480 AAA-ATTCA-TACTTTTGTGGCG
1 AAACA-T-AGTACTTTTGTGGCG
1204501 ACAAATGCCA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
39 2 0.04
40 4 0.08
41 45 0.87
42 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (41 bp):
AAACATAGTACTTTTGTGGCGTTTTAATAAAATCGCCGCTA
Found at i:1207660 original size:21 final size:21
Alignment explanation
Indices: 1207635--1207686 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
1207625 CCGAAGAAAG
*
1207635 AGAGAAGCAGAGAGAGCAGCA
1 AGAGAAGCAGAGAGAGCAACA
*
1207656 AGAGAAGCAGAGAGAGCAACG
1 AGAGAAGCAGAGAGAGCAACA
1207677 AGAGAAGCAG
1 AGAGAAGCAG
1207687 CATTTCAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.48, C:0.13, G:0.38, T:0.00
Consensus pattern (21 bp):
AGAGAAGCAGAGAGAGCAACA
Found at i:1207685 original size:12 final size:11
Alignment explanation
Indices: 1207627--1207685 Score: 54
Period size: 12 Copynumber: 5.5 Consensus size: 11
1207617 AATGAAAGCC
*
1207627 GAAGAAAGAGA
1 GAAGCAAGAGA
1207638 GAAGCAGAGAGA
1 GAAGCA-AGAGA
*
1207650 GCAGC-A-AGA
1 GAAGCAAGAGA
1207659 GAAGC-AGAGA
1 GAAGCAAGAGA
1207669 G-AGCAACGAGA
1 GAAGCAA-GAGA
1207680 GAAGCA
1 GAAGCA
1207686 GCATTTCAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
9 11 0.28
10 6 0.15
11 10 0.25
12 13 0.32
ACGTcount: A:0.51, C:0.12, G:0.37, T:0.00
Consensus pattern (11 bp):
GAAGCAAGAGA
Found at i:1214471 original size:53 final size:53
Alignment explanation
Indices: 1214390--1214561 Score: 283
Period size: 53 Copynumber: 3.2 Consensus size: 53
1214380 CCCCTTCTTT
* *
1214390 GAACAATC-TCTGACTAGTGGGTTCGCTCCCTCTTGCTTTAGGGAGTAGAACTC
1 GAACAATCTTCTGCCTA-CGGGTTCGCTCCCTCTTGCTTTAGGGAGTAGAACTC
*
1214443 GAACAGTCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTTAGGGAGTAGAACTC
1 GAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTTAGGGAGTAGAACTC
* *
1214496 GAATAATCTTCTGCCTACGGGTTCGTTCCCTCTTGCTTTAGGGAGTAGAACTC
1 GAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTTAGGGAGTAGAACTC
1214549 GAACAATCTTCTG
1 GAACAATCTTCTG
1214562 GTGTGATTCT
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
53 104 0.94
54 7 0.06
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (53 bp):
GAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTGCTTTAGGGAGTAGAACTC
Found at i:1214654 original size:42 final size:41
Alignment explanation
Indices: 1214590--1214689 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 41
1214580 ACTCTTATGT
* *
1214590 GAAGGCTTAAGATGGCCTGAAGGACTTAATCACCATGCTCG
1 GAAGGCTTATGATGGCCCGAAGGACTTAATCACCATGCTCG
* *
1214631 GAAGGCTTATTGATGGCCCGAAGGACTTCATCATCATGCTCG
1 GAAGGCTTA-TGATGGCCCGAAGGACTTAATCACCATGCTCG
* *
1214673 AAAGACTTACTGATGGC
1 GAAGGCTTA-TGATGGC
1214690 ACTTACTAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 9 0.18
42 42 0.82
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (41 bp):
GAAGGCTTATGATGGCCCGAAGGACTTAATCACCATGCTCG
Found at i:1214812 original size:135 final size:134
Alignment explanation
Indices: 1214571--1214822 Score: 335
Period size: 135 Copynumber: 1.9 Consensus size: 134
1214561 GGTGTGATTC
* * * * * *
1214571 TGCTTCACTACTCTTATGTGAAGGCTTAAGATGGCCTGAAGGACTTAATCACCATGCTCGGAAGG
1 TGCTTCACTACTCTTACGTGAAGGCTTAAAATGACCCGAAGGACTTAATCACCATGCTCGAAAGA
* * * *
1214636 CTTATTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTAATG
66 CTTACTGATGGCCCAAAGGACTTAATCATCATGCTCAAAAGACTTACTGATGGCACTTACTAATG
1214701 GGAT
131 GGAT
* * * *
1214705 TGCTTCACTACTCTTCCGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAG
1 TGCTTCACTACTCTTACGTGAAGGCTTA-AAATGACCCGAAGGACTTAATCACCATGCTCGAAAG
* *
1214770 ACTTACTGATGGCCCAAAGGATTTAAGT-ATCATGCTCAAAAGACTTATTGATG
65 ACTTACTGATGGCCCAAAGGACTTAA-TCATCATGCTCAAAAGACTTACTGATG
1214823 ACTCGAAGGA
Statistics
Matches: 100, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
134 26 0.26
135 73 0.73
136 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (134 bp):
TGCTTCACTACTCTTACGTGAAGGCTTAAAATGACCCGAAGGACTTAATCACCATGCTCGAAAGA
CTTACTGATGGCCCAAAGGACTTAATCATCATGCTCAAAAGACTTACTGATGGCACTTACTAATG
GGAT
Found at i:1214832 original size:42 final size:42
Alignment explanation
Indices: 1214739--1214832 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
1214729 CTTACAAATT
*
1214739 ACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
1 ACCCGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATG
* * *
1214781 GCCCAAAGGATTTAAGT-ATCATGCTCAAAAGACTTATTGATG
1 ACCCGAAGGATTTAA-TCATCATGCTCAAAAGACTTACTGATG
*
1214823 ACTCGAAGGA
1 ACCCGAAGGA
1214833 CTTACTAAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (42 bp):
ACCCGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATG
Found at i:1221087 original size:6 final size:6
Alignment explanation
Indices: 1221076--1221105 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1221066 AGCTAATAAG
*
1221076 AATGCA AATGCA AATGCA AATGTA AATGCA
1 AATGCA AATGCA AATGCA AATGCA AATGCA
1221106 CAAGGTGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (6 bp):
AATGCA
Found at i:1224976 original size:20 final size:21
Alignment explanation
Indices: 1224951--1224999 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
1224941 TTCATCAAGC
* *
1224951 ATCGATACT-GTCGGATGGGT
1 ATCGATACTCGTAGGAGGGGT
1224971 ATCGATACTCGTAGGAGGGGT
1 ATCGATACTCGTAGGAGGGGT
*
1224992 ATCAATAC
1 ATCGATAC
1225000 CGAGTTAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (21 bp):
ATCGATACTCGTAGGAGGGGT
Found at i:1226231 original size:18 final size:18
Alignment explanation
Indices: 1226208--1226273 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
1226198 GAATTTTCAA
1226208 ATATTTTTTAAGAATAGT
1 ATATTTTTTAAGAATAGT
** *
1226226 ATA-TTTTTAAGGGTTGT
1 ATATTTTTTAAGAATAGT
*
1226243 CAAATATTTTTTAAAAATAGT
1 ---ATATTTTTTAAGAATAGT
1226264 ATATTTTTTA
1 ATATTTTTTA
1226274 TTTTTCATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
17 11 0.30
18 13 0.35
20 3 0.08
21 10 0.27
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.52
Consensus pattern (18 bp):
ATATTTTTTAAGAATAGT
Found at i:1226776 original size:23 final size:23
Alignment explanation
Indices: 1226750--1226797 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1226740 ATAAAGTACA
*
1226750 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
1226773 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1226796 AT
1 AT
1226798 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1227310 original size:23 final size:23
Alignment explanation
Indices: 1227274--1227346 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1227264 ATACTTTACA
* *
1227274 ATATAAGCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
1227297 ATATAAACGTTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
1227320 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
1227343 ATAT
1 ATAT
1227347 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:1227751 original size:23 final size:23
Alignment explanation
Indices: 1227725--1227787 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1227715 ATATAACCAC
1227725 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1227748 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1227771 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1227788 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1227919 original size:441 final size:430
Alignment explanation
Indices: 1227108--1227977 Score: 1569
Period size: 441 Copynumber: 2.0 Consensus size: 430
1227098 ATGTTTATTG
*
1227108 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTATT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATCATT
*
1227173 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* *
1227238 TATGGACACTTTTATAAAAAGGATAAATACTTTACAATATAAGCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAAATACTTTACAATATAACCACTACCTATTACATTATATAA
*
1227303 ACGTTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
1227368 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
1227433 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCCTTTGCACAAAAAAT
326 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
1227498 TATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAA
391 TATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAA
1227538 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATCATT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATCATT
1227603 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
*
1227668 TATAGACACTTTTATAAAAATTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATT
131 TATAGACAC-----------TTTTATAAAAAGGATAAATACTTTACAATATAACCACTACCTATT
1227733 ACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTAT
185 ACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTAT
*
1227798 TATATTGAAAGTGTTCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTA
250 TATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTA
1227863 TGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTT
315 TGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTT
1227928 GCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGA
380 GCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGA
1227978 GCTTTGAGAA
Statistics
Matches: 421, Mismatches: 8, Indels: 11
0.96 0.02 0.03
Matches are distributed among these distances:
430 136 0.32
441 285 0.68
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (430 bp):
TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATCATT
AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
TATAGACACTTTTATAAAAAGGATAAATACTTTACAATATAACCACTACCTATTACATTATATAA
ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
TATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAA
Found at i:1228600 original size:199 final size:199
Alignment explanation
Indices: 1228261--1229434 Score: 2143
Period size: 199 Copynumber: 5.9 Consensus size: 199
1228251 TTTAAATTAG
1228261 TATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1228325 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTGATGTTTTTGGGAT
*
1228390 CGACACTTTTTATATATTGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
1228455 AAAA
196 AAAA
*
1228459 TATCGACACAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1228524 CTTGTACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTTGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTGATGTTTTTGGGAT
*
1228589 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
1228654 AAAA
196 AAAA
* *
1228658 TATCGACACAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1228723 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTGATGTTTTTGGGAT
*
1228788 GGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
1228853 AAAA
196 AAAA
1228857 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1228922 CTTGTACCGGTTAGATTGAAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGG
66 CTTGTACCGGTTAGATTG-AAAAATTACATATTACATTATACTTTTGGGTTT-GATGTTTTTGGG
* *
1228987 ATCGACACTTTTTATATATAGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAC
129 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAA
1229052 CAAAAA
194 CAAAAA
*
1229058 TATCGACATAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1229123 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTT-GATGTTTTTGGGA
* * *
1229188 TCGACATTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTTCATTCATTCTGGACC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
1229253 AAAAA
195 AAAAA
1229258 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1229323 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTTGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TTTGATGTTTTTGGGA
*
1229388 TCGACACTTTTTATATATGGTTCGACACTTTATGGTTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
1229435 GGCCATATTG
Statistics
Matches: 947, Mismatches: 25, Indels: 6
0.97 0.03 0.01
Matches are distributed among these distances:
198 14 0.01
199 454 0.48
200 314 0.33
201 165 0.17
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAA
Found at i:1229347 original size:400 final size:398
Alignment explanation
Indices: 1228261--1229434 Score: 2161
Period size: 400 Copynumber: 2.9 Consensus size: 398
1228251 TTTAAATTAG
1228261 TATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1228325 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
1228390 CGACACTTTTTATATATTGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
*
1228455 AAAATATCGACACAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
* *
1228520 TATACTTGTACCGGTTATATTGAAAAATTACATATTACATTATACTTTTGGGTTTGATGTTTTTG
261 TATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTGATGTTTTTG
1228585 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
*
1228650 AATAAAAA
391 AACAAAAA
* *
1228658 TATCGACACAAACTAAAAAAGTGTCGACATATTATTTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1228723 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
1228788 GGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
1228853 AAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
1228918 TATACTTGTACCGGTTAGATTGAAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
261 TATACTTGTACCGGTTAGATTG-AAAAATTACATATTACATTATACTTTTGGTTTT-GATGTTTT
*
1228983 TGGGATCGACACTTTTTATATATAGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
324 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
*
1229048 GGACCAAAAA
389 GGAACAAAAA
*
1229058 TATCGACATAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1229123 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGA
* * *
1229188 TCGACATTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTTCATTCATTCTGGACC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
1229253 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
195 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
1229318 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTTGATGTTTT
260 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTT-GGTTTTGATGTTTT
*
1229383 TGGGATCGACACTTTTTATATATGGTTCGACACTTTATGGTTGCACCCTGTT
324 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
1229435 GGCCATATTG
Statistics
Matches: 752, Mismatches: 20, Indels: 7
0.97 0.03 0.01
Matches are distributed among these distances:
397 14 0.02
398 261 0.35
399 32 0.04
400 274 0.36
401 171 0.23
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (398 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
AAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
TATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTGATGTTTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
AACAAAAA
Found at i:1229599 original size:19 final size:19
Alignment explanation
Indices: 1229553--1229601 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1229543 TTATATTCAC
*
1229553 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
1229572 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1229591 ATACAAAATTA
1 ATACAAAATTA
1229602 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1231430 original size:33 final size:33
Alignment explanation
Indices: 1231393--1231458 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1231383 CATCTTAATA
* *
1231393 TCACCCCTTAACACCCCAACTTCTTTCATCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
1231426 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
1231459 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:1231517 original size:21 final size:21
Alignment explanation
Indices: 1231492--1231535 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1231482 CCCCTTATGC
*
1231492 CTCTCAAGTGTATCTTTGACT
1 CTCTCAAGTGTATCTTCGACT
* *
1231513 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
1231534 CT
1 CT
1231536 TGATTGTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.30, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Done.