Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 121 of 143
Found at i:36121939 original size:118 final size:117
Alignment explanation
Indices: 36121788--36122248 Score: 588
Period size: 118 Copynumber: 3.9 Consensus size: 117
36121778 CGAAACTTCT
* *
36121788 GAAAATTACCGTTTTATCCCCAAACTTTCCAAAATTCCATTTTTAACTCC-GATTTTACCAAAAA
1 GAAAATTACCGTTTTATCCCTAAACTTTCCAAAATTCCATTTTTAAC-CCTGATTTCACCAAAAA
*
36121852 TTACCATTTTACCCCCGAACTTTCCAAAATCTCATTTTTAACCTCGATTTCACC
65 TTACCATTTTACCCCCGAACTTTCCAAAATCTCATTTTTAACC-CGATTTAACC
* * * *
36121906 GAAAATTATCGTTTTATCCCTGAACTTTCCAAAATCCCATTTTTAACCCTGATTTCATCAAAAAT
1 GAAAATTACCGTTTTATCCCTAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAAAAAT
* * * *
36121971 TACCATTTTATCCCCGAACTTTCCAAAATCCCATTTTTAACCCCAGTTTAATC
66 TACCATTTTACCCCCGAACTTTCCAAAATCTCATTTTTAACCCGA-TTTAACC
* * *
36122024 GAAAATTACCGTTTTA-CCCTTAAACTTTCTAAAATTCCATTTTTAACCCTAATTTCACCGAAAA
1 GAAAATTACCGTTTTATCCC-TAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAAAAA
* * * *
36122088 TTACCGTTTTATCCTCGAACTTTCCAAAAT-TCCA-TTTTAACCCCGATTTTACC
65 TTACCATTTTACCCCCGAACTTTCCAAAATCT-CATTTTTAA-CCCGATTTAACC
* ** * * * *
36122141 AAAAATTACTATTTTACCCCTAAACTTTCCAAAATTCTATTTTTAACCCCGATTTTACCAAAAAT
1 GAAAATTACCGTTTTATCCCTAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAAAAAT
** *
36122206 TACCATTTTACCCTTGAACCTTCCAAAATCTCATTTTTAACCC
66 TACCATTTTACCCCCGAACTTTCCAAAATCTCATTTTTAACCC
36122249 TAAATTTTCC
Statistics
Matches: 298, Mismatches: 37, Indels: 17
0.85 0.11 0.05
Matches are distributed among these distances:
117 100 0.34
118 198 0.66
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (117 bp):
GAAAATTACCGTTTTATCCCTAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAAAAAT
TACCATTTTACCCCCGAACTTTCCAAAATCTCATTTTTAACCCGATTTAACC
Found at i:36122085 original size:177 final size:176
Alignment explanation
Indices: 36121789--36122267 Score: 648
Period size: 177 Copynumber: 2.7 Consensus size: 176
36121779 GAAACTTCTG
* *
36121789 AAAATTACCGTTTTATCCCCAAACTTTCCAAAATTCCATTTTTAACTCCGATTTTACCAAAAATT
1 AAAATTACCATTTTATCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATT
** * *
36121854 ACCATTTTACCCCCGAACTTTCCAAAATCTCATTTTTAA-CCTCGATTTCACCGAAAATTATCGT
66 ACCATTTTACCCTTGAACTTTCCAAAATCTCATTTTTAACCCT-AATTTCACCGAAAATTACCGT
* *
36121918 TTTATCC-CTGAACTTTCCAAAATCCCATTTTTAACCCTGATTTCATCA
130 TTTATCCTC-GAACTTTCCAAAATCCCA-TTTTAACCCCGATTTCACCA
* * * * *
36121966 AAAATTACCATTTTATCCCCGAACTTTCCAAAATCCCATTTTTAACCCC-AGTTTAATCGAAAAT
1 AAAATTACCATTTTATCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTTACCAAAAAT
* * *
36122030 TACCGTTTTACCCTTAAACTTTCTAAAAT-TCCATTTTTAACCCTAATTTCACCGAAAATTACCG
65 TACCATTTTACCCTTGAACTTTCCAAAATCT-CATTTTTAACCCTAATTTCACCGAAAATTACCG
* *
36122094 TTTTATCCTCGAACTTTCCAAAATTCCATTTTAACCCCGATTTTACCA
129 TTTTATCCTCGAACTTTCCAAAATCCCATTTTAACCCCGATTTCACCA
* *
36122142 AAAATTACTATTTTA-CCCCTAAACTTTCCAAAATTCTATTTTTAACCCCGATTTTACCAAAAAT
1 AAAATTACCATTTTATCCCC-AAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAAT
*
36122206 TACCATTTTACCCTTGAACCTTCCAAAATCTCATTTTTAACCCTAAATTTTC-CC-AAAATTAC
65 TACCATTTTACCCTTGAACTTTCCAAAATCTCATTTTTAACCCT-AA-TTTCACCGAAAATTAC
36122268 ATTTTTGCCC
Statistics
Matches: 264, Mismatches: 29, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
175 4 0.02
176 115 0.44
177 137 0.52
178 8 0.03
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (176 bp):
AAAATTACCATTTTATCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAATT
ACCATTTTACCCTTGAACTTTCCAAAATCTCATTTTTAACCCTAATTTCACCGAAAATTACCGTT
TTATCCTCGAACTTTCCAAAATCCCATTTTAACCCCGATTTCACCA
Found at i:36122184 original size:29 final size:30
Alignment explanation
Indices: 36122035--36122278 Score: 88
Period size: 29 Copynumber: 8.3 Consensus size: 30
36122025 AAAATTACCG
* * *
36122035 TTTTACCCTTAAACTTT-CTAAAATT-CCAT
1 TTTTACCCCT-AACTTTACCAAAATTACTAT
* **
36122064 TTTTAACCCTAA-TTTCACCGAAAATTAC-CG
1 TTTTACCCCTAACTTT-ACC-AAAATTACTAT
* * *
36122094 TTTTATCCTCGAACTTT-CCAAAATT-CCAT
1 TTTTA-CCCCTAACTTTACCAAAATTACTAT
* * *
36122123 TTTAACCCC-GATTTTACCAAAAATTACTA-
1 TTTTACCCCTAACTTTACC-AAAATTACTAT
36122152 TTTTACCCCTAAACTTT-CCAAAATT-CTAT
1 TTTTACCCCT-AACTTTACCAAAATTACTAT
* * *
36122181 TTTTAACCCC-GATTTTACCAAAAATTACCA-
1 TTTT-ACCCCTAACTTTACC-AAAATTACTAT
* *
36122211 TTTTACCCTTGAACCTT-CCAAAA-T-CTCAT
1 TTTTACCCCT-AACTTTACCAAAATTACT-AT
* * *
36122240 TTTTAACCCTAAATTTTCCCAAAATTAC-AT
1 TTTTACCCCT-AACTTTACCAAAATTACTAT
*
36122270 TTTTGCCCC
1 TTTTACCCC
36122279 CCGAGAGTCA
Statistics
Matches: 158, Mismatches: 33, Indels: 47
0.66 0.14 0.20
Matches are distributed among these distances:
27 8 0.05
28 17 0.11
29 65 0.41
30 49 0.31
31 15 0.09
32 4 0.03
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.39
Consensus pattern (30 bp):
TTTTACCCCTAACTTTACCAAAATTACTAT
Found at i:36125123 original size:59 final size:58
Alignment explanation
Indices: 36125042--36125207 Score: 217
Period size: 59 Copynumber: 2.8 Consensus size: 58
36125032 GAAAATTCGG
* * *
36125042 GGTT-AAAATGGAATTTTAGAAAGTGTAAGGGTAAAATGGTAATTTTTGGTGAAATCGA
1 GGTTAAAAATGGAATTTTGGAAAGT-TAGGGGTAAAATGGTAATTTTTAGTGAAATCGA
* * * *
36125100 GGTTAAAAATGGGATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTAGTGAAATTGG
1 GGTTAAAAATGGAATTTTGGAAAG-TTAGGGGTAAAATGGTAATTTTTAGTGAAATCGA
* * *
36125159 GGTTAAAAATGGAATTTTGGAAAGTTTGGGGTAAAACGATAATTTTTAG
1 GGTTAAAAATGGAATTTTGGAAAGTTAGGGGTAAAATGGTAATTTTTAG
36125208 AAGTTTCGGG
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
58 26 0.27
59 68 0.72
60 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.29, T:0.34
Consensus pattern (58 bp):
GGTTAAAAATGGAATTTTGGAAAGTTAGGGGTAAAATGGTAATTTTTAGTGAAATCGA
Found at i:36125135 original size:29 final size:29
Alignment explanation
Indices: 36125103--36125194 Score: 102
Period size: 28 Copynumber: 3.2 Consensus size: 29
36125093 AAATCGAGGT
*
36125103 TAAAAATGGGATTTTGGAAAGTTTGGGGG
1 TAAAAATGGAATTTTGGAAAGTTTGGGGG
*
36125132 T-AAAATGGTAATTTTTAGTGAAA--TTGGGGT
1 TAAAAATGG-AA-TTTT-G-GAAAGTTTGGGGG
36125162 TAAAAATGGAATTTTGGAAAGTTT-GGGG
1 TAAAAATGGAATTTTGGAAAGTTTGGGGG
36125190 TAAAA
1 TAAAA
36125195 CGATAATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
27 4 0.08
28 16 0.30
29 8 0.15
30 13 0.25
31 8 0.15
32 4 0.08
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.34
Consensus pattern (29 bp):
TAAAAATGGAATTTTGGAAAGTTTGGGGG
Found at i:36125166 original size:30 final size:29
Alignment explanation
Indices: 36125074--36125176 Score: 95
Period size: 30 Copynumber: 3.4 Consensus size: 29
36125064 GTGTAAGGGT
* *
36125074 AAAATGGTAATTTTTGGTGAAATCGAGGTTA
1 AAAATGG-AATTTTT-GTGAAATTGGGGTTA
* *
36125105 AAAATGGGA-TTTTG-GAAAGTTTGGGGGT-
1 AAAATGGAATTTTTGTGAAA--TTGGGGTTA
36125133 AAAATGGTAATTTTTAGTGAAATTGGGGTTA
1 AAAATGG-AATTTTT-GTGAAATTGGGGTTA
36125164 AAAATGGAATTTT
1 AAAATGGAATTTT
36125177 GGAAAGTTTG
Statistics
Matches: 59, Mismatches: 6, Indels: 15
0.74 0.08 0.19
Matches are distributed among these distances:
27 4 0.07
28 8 0.14
29 10 0.17
30 18 0.31
31 15 0.25
32 4 0.07
ACGTcount: A:0.35, C:0.01, G:0.28, T:0.36
Consensus pattern (29 bp):
AAAATGGAATTTTTGTGAAATTGGGGTTA
Found at i:36125205 original size:29 final size:29
Alignment explanation
Indices: 36125114--36125235 Score: 78
Period size: 29 Copynumber: 4.2 Consensus size: 29
36125104 AAAAATGGGA
* *
36125114 TTTTGGAAAGTTTGGGGGTAAAATGGTAAT
1 TTTTGGAAAGTTTCGGGGTAAAA-GATAAT
36125144 TTTTAGTGAAA--TT-GGGGTTAAAA-ATGGAA-
1 TTTT-G-GAAAGTTTCGGGG-TAAAAGAT--AAT
36125173 TTTTGGAAAGTTT-GGGGTAAAACGATAAT
1 TTTTGGAAAGTTTCGGGGTAAAA-GATAAT
* * *
36125202 TTTTAG-AAGTTTCGGGGTCAAAGTGTAAT
1 TTTTGGAAAGTTTCGGGGTAAAAG-ATAAT
36125231 TTTTG
1 TTTTG
36125236 AAGTTTTGGG
Statistics
Matches: 75, Mismatches: 5, Indels: 25
0.71 0.05 0.24
Matches are distributed among these distances:
27 4 0.05
28 16 0.21
29 35 0.47
30 15 0.20
31 1 0.01
32 4 0.05
ACGTcount: A:0.31, C:0.02, G:0.29, T:0.38
Consensus pattern (29 bp):
TTTTGGAAAGTTTCGGGGTAAAAGATAAT
Found at i:36125211 original size:28 final size:28
Alignment explanation
Indices: 36125171--36125241 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
36125161 TTAAAAATGG
*
36125171 AATTTTGGAAAGTTT-GGGGTAAAACG-AT
1 AATTTTTG-AAGTTTCGGGGTAAAA-GTAT
* *
36125199 AATTTTTAGAAGTTTCGGGGTCAAAGTGT
1 AATTTTT-GAAGTTTCGGGGTAAAAGTAT
36125228 AATTTTTGAAGTTT
1 AATTTTTGAAGTTT
36125242 TGGGATCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 20 0.54
29 17 0.46
ACGTcount: A:0.31, C:0.04, G:0.25, T:0.39
Consensus pattern (28 bp):
AATTTTTGAAGTTTCGGGGTAAAAGTAT
Found at i:36125235 original size:58 final size:58
Alignment explanation
Indices: 36125017--36125207 Score: 199
Period size: 59 Copynumber: 3.3 Consensus size: 58
36125007 CTCAATGGCA
** * * * **
36125017 AAAACG-TAATTTCGAGAAAATTCGGGGTT-AAAATGGAATTTTAGAAAGTGTAAGGGT
1 AAAACGATAATTTTTAGGAAATT-GGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGT
* * * * * *
36125074 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGT
1 AAAACGATAATTTTTAG-GAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGT
* *
36125133 AAAATGGTAATTTTTAGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTT-GGGGT
1 AAAACGATAATTTTTAG-GAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGT
36125191 AAAACGATAATTTTTAG
1 AAAACGATAATTTTTAG
36125208 AAGTTTCGGG
Statistics
Matches: 113, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
57 5 0.04
58 32 0.28
59 76 0.67
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.33
Consensus pattern (58 bp):
AAAACGATAATTTTTAGGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGT
Found at i:36125259 original size:29 final size:29
Alignment explanation
Indices: 36125197--36125260 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
36125187 GGGTAAAACG
* *
36125197 ATAATTTTTAGAAGTTTCGGGGTCAAAGT
1 ATAATTTTTAGAAGTTTCGGGATCAAAAT
* *
36125226 GTAATTTTT-GAAGTTTTGGGATCATAAAT
1 ATAATTTTTAGAAGTTTCGGGATCA-AAAT
36125255 ATAATT
1 ATAATT
36125261 CATGAACAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.42
Consensus pattern (29 bp):
ATAATTTTTAGAAGTTTCGGGATCAAAAT
Found at i:36126308 original size:25 final size:23
Alignment explanation
Indices: 36126268--36126318 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
36126258 TTTCATTTTT
* *
36126268 TTATTTTATTATTATAAATATTA
1 TTATTTTATTACTATAAATATCA
36126291 TTATTATTAATTACTATAAATATCA
1 TTATT-TT-ATTACTATAAATATCA
36126316 TTA
1 TTA
36126319 ATTAATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.21
24 2 0.08
25 17 0.71
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (23 bp):
TTATTTTATTACTATAAATATCA
Found at i:36126328 original size:25 final size:24
Alignment explanation
Indices: 36126274--36126328 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
36126264 TTTTTTATTT
* * *
36126274 TATTATTATAAATATTATTATTAT
1 TATTACTATAAATATCATTATTAA
36126298 TAATTACTATAAATATCATTAATTAA
1 T-ATTACTATAAATATCATT-ATTAA
36126324 TATTA
1 TATTA
36126329 TTAGTGATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 20 0.77
26 5 0.19
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (24 bp):
TATTACTATAAATATCATTATTAA
Found at i:36127223 original size:27 final size:27
Alignment explanation
Indices: 36127193--36127252 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
36127183 TTCAAATTAT
**
36127193 TTTAAATGTATTTAAATTTAAAA-CAAA
1 TTTAAATGTAAATAAATTTAAAATC-AA
*
36127220 TTTAAATTTAAATAAATTTAAAATCAA
1 TTTAAATGTAAATAAATTTAAAATCAA
36127247 TTTAAA
1 TTTAAA
36127253 ATCCAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (27 bp):
TTTAAATGTAAATAAATTTAAAATCAA
Found at i:36127243 original size:11 final size:11
Alignment explanation
Indices: 36127222--36127254 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
36127212 AAAACAAATT
36127222 TAAATTT-AAA
1 TAAATTTAAAA
36127232 TAAATTTAAAA
1 TAAATTTAAAA
*
36127243 TCAATTTAAAA
1 TAAATTTAAAA
36127254 T
1 T
36127255 CCAAATTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:36127243 original size:17 final size:17
Alignment explanation
Indices: 36127202--36127241 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
36127192 TTTTAAATGT
36127202 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
*
36127219 ATTTAAATTT-AAATAA
1 ATTTAAATTTAAAACAA
36127235 ATTTAAA
1 ATTTAAA
36127242 ATCAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:36127252 original size:17 final size:16
Alignment explanation
Indices: 36127202--36127241 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
36127192 TTTTAAATGT
36127202 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAA-AA
*
36127219 ATTTAAATTTAAATAA
1 ATTTAAATTTAAAAAA
36127235 ATTTAAA
1 ATTTAAA
36127242 ATCAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTTAAATTTAAAAAA
Found at i:36132126 original size:59 final size:59
Alignment explanation
Indices: 36132053--36132479 Score: 637
Period size: 59 Copynumber: 7.3 Consensus size: 59
36132043 ACCCGGGGCC
* *
36132053 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAG-TTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAG-GGGT
* * *
36132112 AAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGT
* * *
36132171 AAAATAGTAATTTTTGGTGAAATCGGGG-T-GAAATGGGATTTTGGGAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGT
* * **
36132228 AAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGGATTTTGGAAAGTCCAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGT
* *
36132287 AAAATGGTAATTTTTGGTGAAATCGGGATTAAAAATGGGATTTTAGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGT
* * *
36132346 AAAATGGTATTTTTTAGTAAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGT
* * *
36132405 AAAATGGTAATTTTTGGTAAAATTGGGGTTAAAAATGTGATTTTGGAAAGTTT-GGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGT
36132463 AAAATGGTAATTTTTGG
1 AAAATGGTAATTTTTGG
36132480 ACAGTCTAGG
Statistics
Matches: 332, Mismatches: 33, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
57 49 0.15
58 24 0.07
59 257 0.77
60 2 0.01
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.34
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGT
Found at i:36132346 original size:175 final size:175
Alignment explanation
Indices: 36132053--36132479 Score: 651
Period size: 175 Copynumber: 2.4 Consensus size: 175
36132043 ACCCGGGGCC
*
36132053 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTCGAGGGTAAAATG
1 AAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGGATTTTGGAAAG-TCG-GGGTAAAATG
* * *
36132118 GTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTAAAATAGTAATT
64 GTAATTTTTGGTGAAATCGGGATTAAAAATGGAATTTTAGAAAGTTCAGGGGTAAAATAGTAATT
* * * *
36132183 TTTGGTGAAATCGGGG-T-GAAATGGGATTTTGGGAAGTTTAGGGGT
129 TTTAGTAAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGT
36132228 AAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGGATTTTGGAAAGTCCAGGGGTAAAATG
1 AAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGGATTTTGGAAAGT-C-GGGGTAAAATG
* * * *
36132293 GTAATTTTTGGTGAAATCGGGATTAAAAATGGGATTTTAGAAAGTTTAGGGGTAAAATGGTATTT
64 GTAATTTTTGGTGAAATCGGGATTAAAAATGGAATTTTAGAAAGTTCAGGGGTAAAATAGTAATT
36132358 TTTAGTAAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGT
129 TTTAGTAAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGT
* * * *
36132405 AAAATGGTAATTTTTGGTAAAATTGGGGTTAAAAATGTGATTTTGGAAAGTTTGGGGTAAAATGG
1 AAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGGATTTTGGAAAG-TCGGGGTAAAATGG
36132470 TAATTTTTGG
65 TAATTTTTGG
36132480 ACAGTCTAGG
Statistics
Matches: 231, Mismatches: 16, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
174 1 0.00
175 132 0.57
176 24 0.10
177 73 0.32
178 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.34
Consensus pattern (175 bp):
AAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGGATTTTGGAAAGTCGGGGTAAAATGGT
AATTTTTGGTGAAATCGGGATTAAAAATGGAATTTTAGAAAGTTCAGGGGTAAAATAGTAATTTT
TAGTAAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGT
Found at i:36132349 original size:29 final size:28
Alignment explanation
Indices: 36132082--36132466 Score: 136
Period size: 29 Copynumber: 13.2 Consensus size: 28
36132072 AAATCGAGGT
*
36132082 TAAAAATGGGATTTTGGAAAGTTCGAGGG
1 TAAAAATGGGATTTTGGAAAGTTTG-GGG
*
36132111 T-AAAATGGTAATTTTTGGTGAAA--TTGGGG
1 TAAAAATGG-GA-TTTT-G-GAAAGTTTGGGG
* *
36132140 TTAAAAATGGAATTTTGGAAAGTTCAGGGG
1 -TAAAAATGGGATTTTGGAAAGTT-TGGGG
** *
36132170 T-AAAATAGTAATTTTTGGTGAAA--TCGGGG
1 TAAAAAT-GGGA-TTTT-G-GAAAGTTTGGGG
* *
36132199 T-GAAATGGGATTTTGGGAAGTTTAGGGG
1 TAAAAATGGGATTTTGGAAAGTTT-GGGG
* * * *
36132227 T-AAAATGGTAATTTTTGGTAAA-ATCGAGGT
1 TAAAAATGG-GA-TTTTGG-AAAGTTTG-GGG
**
36132257 TAAAAATGGGATTTTGGAAAGTCCAGGGG
1 TAAAAATGGGATTTTGGAAAGT-TTGGGG
* * *
36132286 T-AAAATGGTAATTTTTGGTGAAA--TCGGGAT
1 TAAAAATGG-GA-TTTT-G-GAAAGTTTGGG-G
*
36132316 TAAAAATGGGATTTTAGAAAGTTTAGGGG
1 TAAAAATGGGATTTTGGAAAGTTT-GGGG
* * * *
36132345 T-AAAATGGTATTTTTTAGTAAA-ATCGGGG
1 TAAAAATGGGA--TTTT-GGAAAGTTTGGGG
36132374 TTAAAAATGGGATTTTGGAAAGTTTAGGGG
1 -TAAAAATGGGATTTTGGAAAGTTT-GGGG
* *
36132404 T-AAAATGGTAATTTTTGGTAAA-ATTGGGG
1 TAAAAATGG-GA-TTTTGG-AAAGTTTGGGG
*
36132433 TTAAAAATGTGATTTTGGAAAGTTTGGGG
1 -TAAAAATGGGATTTTGGAAAGTTTGGGG
36132462 TAAAA
1 TAAAA
36132467 TGGTAATTTT
Statistics
Matches: 268, Mismatches: 43, Indels: 91
0.67 0.11 0.23
Matches are distributed among these distances:
25 3 0.01
26 1 0.00
27 13 0.05
28 63 0.24
29 71 0.26
30 59 0.22
31 46 0.17
32 12 0.04
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.34
Consensus pattern (28 bp):
TAAAAATGGGATTTTGGAAAGTTTGGGG
Found at i:36133192 original size:17 final size:18
Alignment explanation
Indices: 36133169--36133211 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
36133159 TTCCTTTAAC
36133169 TTTTCTTTTCTC-CTTT-
1 TTTTCTTTTCTCTCTTTA
36133185 TTTATC-TTTCTCTCTTTA
1 TTT-TCTTTTCTCTCTTTA
36133203 TTTTCTTTT
1 TTTTCTTTT
36133212 TTAAAACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTCTTTTCTCTCTTTA
Found at i:36133196 original size:16 final size:17
Alignment explanation
Indices: 36133169--36133210 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
36133159 TTCCTTTAAC
36133169 TTTTCTTT-TCTCCTTT-
1 TTTTCTTTCTCT-CTTTA
36133185 TTTATCTTTCTCTCTTTA
1 TTT-TCTTTCTCTCTTTA
36133203 TTTTCTTT
1 TTTTCTTT
36133211 TTTAAAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 14 0.61
18 6 0.26
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCTTTCTCTCTTTA
Found at i:36134346 original size:6 final size:6
Alignment explanation
Indices: 36134331--36134389 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
36134321 TTAAATTTGA
* * *
36134331 TTAAAC TTAAAT TTAAA- GTAAAT TTAAAT AAGTAAAT TTAAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
*
36134379 ATAAAT TTAAA
1 TTAAAT TTAAA
36134390 ACCCATTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
5 8 0.19
6 29 0.69
8 5 0.12
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (6 bp):
TTAAAT
Found at i:36134365 original size:14 final size:14
Alignment explanation
Indices: 36134346--36134373 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36134336 CTTAAATTTA
36134346 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
36134360 AAGTAAATTTAAAT
1 AAGTAAATTTAAAT
36134374 TTAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AAGTAAATTTAAAT
Found at i:36135894 original size:21 final size:21
Alignment explanation
Indices: 36135855--36135894 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
36135845 CTTTTTTATT
*
36135855 TATTTTTAGGTTCTAATATGG
1 TATTTTTAGGTTATAATATGG
36135876 TATTTTTA-GTTATATATAT
1 TATTTTTAGGTTATA-ATAT
36135895 ATTTGTGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (21 bp):
TATTTTTAGGTTATAATATGG
Found at i:36136152 original size:68 final size:68
Alignment explanation
Indices: 36136077--36136206 Score: 190
Period size: 68 Copynumber: 1.9 Consensus size: 68
36136067 CTATAGTAAT
* *
36136077 ATTAATTATTAATTTGTTGTATGTACTTCCACCTAACAA-CTTGACCTCTTAGTTTACTATATTT
1 ATTAATTATTAATTTGTTGTATGTACTTCCACCTAACAACCAT-ACCTCTTAATTTACTATATTT
36136141 ATGA
65 ATGA
* * * *
36136145 ATTAATTATTAATTTGTTTTATGTACTTCCATCTACCAACCATACCTCTTAATTTGCTATAT
1 ATTAATTATTAATTTGTTGTATGTACTTCCACCTAACAACCATACCTCTTAATTTACTATAT
36136207 ACTTGCATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 53 0.96
69 2 0.04
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.46
Consensus pattern (68 bp):
ATTAATTATTAATTTGTTGTATGTACTTCCACCTAACAACCATACCTCTTAATTTACTATATTTA
TGA
Found at i:36136510 original size:21 final size:20
Alignment explanation
Indices: 36136465--36136520 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
36136455 TTTAAACATT
*
36136465 ATAAAAATATAAAAAAATTCA
1 ATAAAAAT-TACAAAAATTCA
36136486 ATAAAAATTACAAAAATGATC-
1 ATAAAAATTACAAAAAT--TCA
36136507 ATAAAAATT-CAAAA
1 ATAAAAATTACAAAA
36136521 GAATAGCATG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 13 0.41
21 17 0.53
22 2 0.06
ACGTcount: A:0.68, C:0.07, G:0.02, T:0.23
Consensus pattern (20 bp):
ATAAAAATTACAAAAATTCA
Found at i:36137715 original size:11 final size:11
Alignment explanation
Indices: 36137692--36137752 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 11
36137682 TGAACTTTTG
36137692 ATTAATGTTTAA
1 ATTAAT-TTTAA
36137704 ATTAATTTTAA
1 ATTAATTTTAA
*
36137715 ATTTATTTTTAA
1 A-TTAATTTTAA
* *
36137727 ATTTAAATTTAT
1 A-TTAATTTTAA
* *
36137739 CTTAAATTTAA
1 ATTAATTTTAA
36137750 ATT
1 ATT
36137753 TATCTATTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
11 17 0.41
12 24 0.59
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (11 bp):
ATTAATTTTAA
Found at i:36137719 original size:6 final size:6
Alignment explanation
Indices: 36137699--36137819 Score: 96
Period size: 6 Copynumber: 21.0 Consensus size: 6
36137689 TTGATTAATG
* **
36137699 TTTAAA -TTAAT TTTAAA TTTATT TTTAAA TTTAAA TTT--A TCTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
* * *
36137745 TTTAAA TTTATCTA TTTAAA TTTAAA TTT-AC TTTAAA TTTAAA ATT--A
1 TTTAAA TTTA--AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
36137792 TTTAAA TTTAAA ATT-AA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
36137820 ATTGAATTAA
Statistics
Matches: 91, Mismatches: 13, Indels: 22
0.72 0.10 0.17
Matches are distributed among these distances:
4 7 0.08
5 14 0.15
6 63 0.69
7 2 0.02
8 5 0.05
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:36137745 original size:17 final size:17
Alignment explanation
Indices: 36137705--36137819 Score: 119
Period size: 17 Copynumber: 6.6 Consensus size: 17
36137695 AATGTTTAAA
* *
36137705 TTAATTTTAAATTTATTT
1 TTAAATTTAAATTTA-TC
36137723 TTAAATTTAAATTTATC
1 TTAAATTTAAATTTATC
36137740 TTAAATTTAAATTTATC
1 TTAAATTTAAATTTATC
36137757 TATTTAAATTTAAATTTA-C
1 ---TTAAATTTAAATTTATC
*
36137776 TTTAAATTTAAAATTAT-
1 -TTAAATTTAAATTTATC
* *
36137793 TTAAATTTAAAATTA-A
1 TTAAATTTAAATTTATC
36137809 TTAAATTTAAA
1 TTAAATTTAAA
36137820 ATTGAATTAA
Statistics
Matches: 89, Mismatches: 3, Indels: 12
0.86 0.03 0.12
Matches are distributed among these distances:
16 26 0.29
17 33 0.37
18 14 0.16
19 1 0.01
20 15 0.17
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAATTTAAATTTATC
Found at i:36137769 original size:37 final size:35
Alignment explanation
Indices: 36137705--36137819 Score: 148
Period size: 37 Copynumber: 3.3 Consensus size: 35
36137695 AATGTTTAAA
*
36137705 TTAATTTTAAATTTATT-TTTAAATTTAAATTTATC
1 TTAAATTTAAATTTATTATTTAAATTTAAATTTA-C
36137740 TTAAATTTAAATTTATCTATTTAAATTTAAATTTAC
1 TTAAATTTAAATTTAT-TATTTAAATTTAAATTTAC
* *
36137776 TTTAAATTTAAA---ATTATTTAAATTTAAAATTAA
1 -TTAAATTTAAATTTATTATTTAAATTTAAATTTAC
36137809 TTAAATTTAAA
1 TTAAATTTAAA
36137820 ATTGAATTAA
Statistics
Matches: 74, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
32 11 0.15
33 17 0.23
34 2 0.03
35 15 0.20
36 2 0.03
37 27 0.36
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (35 bp):
TTAAATTTAAATTTATTATTTAAATTTAAATTTAC
Found at i:36137797 original size:16 final size:16
Alignment explanation
Indices: 36137722--36137822 Score: 121
Period size: 16 Copynumber: 5.9 Consensus size: 16
36137712 TAAATTTATT
*
36137722 TTTAAATTTAAATTTA
1 TTTAAATTTAAAATTA
36137738 TCTTAAATTTAAATTTATCTA
1 T-TTAAATTTAAA---AT-TA
*
36137759 TTTAAATTTAAATTTA
1 TTTAAATTTAAAATTA
36137775 CTTTAAATTTAAAATTA
1 -TTTAAATTTAAAATTA
36137792 TTTAAATTTAAAATTA
1 TTTAAATTTAAAATTA
*
36137808 ATTAAATTTAAAATT
1 TTTAAATTTAAAATT
36137823 GAATTAAACT
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
16 33 0.44
17 27 0.36
20 12 0.16
21 3 0.04
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAAATTTAAAATTA
Found at i:36137829 original size:17 final size:16
Alignment explanation
Indices: 36137723--36137835 Score: 100
Period size: 17 Copynumber: 6.6 Consensus size: 16
36137713 AAATTTATTT
* *
36137723 TTAAATTTAAATTTATC
1 TTAAATTTAAAATTA-A
*
36137740 TTAAATTTAAATTTATCTAT
1 TTAAATTTAAA---AT-TAA
* *
36137760 TTAAATTTAAATTTACT
1 TTAAATTTAAAATTA-A
*
36137777 TTAAATTTAAAATTAT
1 TTAAATTTAAAATTAA
36137793 TTAAATTTAAAATTAA
1 TTAAATTTAAAATTAA
36137809 TTAAATTTAAAATTGAA
1 TTAAATTTAAAATT-AA
*
36137826 TTAAACTTAA
1 TTAAATTTAA
36137836 TTAAATGAAT
Statistics
Matches: 84, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
16 32 0.38
17 38 0.45
20 12 0.14
21 2 0.02
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.49
Consensus pattern (16 bp):
TTAAATTTAAAATTAA
Found at i:36137901 original size:27 final size:27
Alignment explanation
Indices: 36137871--36137938 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
36137861 GGAAATCCAT
*
36137871 ATTACAAAAGCCCGAAT-GAAAGGCCCA
1 ATTACAAAAGCCCAAATAGAAA-GCCCA
*
36137898 ATTAC-AAAGGCCAAATAGAAAGCCCA
1 ATTACAAAAGCCCAAATAGAAAGCCCA
**
36137924 ATTACATCAGCCCAA
1 ATTACAAAAGCCCAA
36137939 TTGACCCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 19 0.56
27 15 0.44
ACGTcount: A:0.46, C:0.26, G:0.15, T:0.13
Consensus pattern (27 bp):
ATTACAAAAGCCCAAATAGAAAGCCCA
Found at i:36137908 original size:14 final size:14
Alignment explanation
Indices: 36137889--36137929 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
36137879 AGCCCGAATG
36137889 AAAGGCCCAATTAC
1 AAAGGCCCAATTAC
* *
36137903 AAAGG-CCAAATAG
1 AAAGGCCCAATTAC
36137916 AAA-GCCCAATTAC
1 AAAGGCCCAATTAC
36137929 A
1 A
36137930 TCAGCCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
12 1 0.05
13 16 0.73
14 5 0.23
ACGTcount: A:0.49, C:0.24, G:0.15, T:0.12
Consensus pattern (14 bp):
AAAGGCCCAATTAC
Found at i:36138662 original size:15 final size:13
Alignment explanation
Indices: 36138634--36138670 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 13
36138624 ATTTGTTAAC
36138634 AATTAATAATAAT
1 AATTAATAATAAT
36138647 AATTAATATTATAAT
1 AATTAATA--ATAAT
36138662 AATTAATAA
1 AATTAATAA
36138671 AAAGGAAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.41
15 13 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AATTAATAATAAT
Found at i:36139731 original size:29 final size:29
Alignment explanation
Indices: 36139698--36140202 Score: 301
Period size: 30 Copynumber: 17.4 Consensus size: 29
36139688 GATTTCACCA
*
36139698 AAAATTACCGTTTTACCCTCAAACTTCCC
1 AAAATTACCATTTTACCCTCAAACTTCCC
* *
36139727 AAAATT-CCATTTTTGACCCTAAAACTTCCA
1 AAAATTACCA-TTTT-ACCCTCAAACTTCCC
*
36139757 AAAATTACCATTTTACCCT-AAACTTTCC
1 AAAATTACCATTTTACCCTCAAACTTCCC
* *
36139785 AAAATT-GCATTTTTGA-CCTCGAAACTTCCA
1 AAAATTACCA-TTTT-ACCCTC-AAACTTCCC
*
36139815 AAAATTACCATTTTACCCT-AAACTTTCC
1 AAAATTACCATTTTACCCTCAAACTTCCC
* *
36139843 AAAATT-GCATTTTTGA-CCTCGAAACTTCCA
1 AAAATTACCA-TTTT-ACCCTC-AAACTTCCC
* *
36139873 AAAATTACCATTTCACCC-CTAAACTTTCC
1 AAAATTACCATTTTACCCTC-AAACTTCCC
*
36139902 AAAATT-CCATTATTAACCC-CAAAACTTCCA
1 AAAATTACCATT-TT-ACCCTC-AAACTTCCC
* * *
36139932 AAAATTACTATTTTACCC-CTAAACTTTCT
1 AAAATTACCATTTTACCCTC-AAACTTCCC
*
36139961 AAAATT-CCATTTTTAACCC-CAAAACTTCCA
1 AAAATTACCA-TTTT-ACCCTC-AAACTTCCC
*
36139991 AAAATTACCATTTTA-CCTCCAAACTTTCC
1 AAAATTACCATTTTACCCT-CAAACTTCCC
*
36140020 AAAATT-CCATTTTTAACTCC-GAAACTT-CC
1 AAAATTACCA-TTTT-AC-CCTCAAACTTCCC
* *
36140049 AAAA--A-CATTTTACCCCCAAACTTTCC
1 AAAATTACCATTTTACCCTCAAACTTCCC
* * **
36140075 AAAATT-CCTTTTTTAACCCTAAAACTTCTA
1 AAAATTACC-ATTTT-ACCCTCAAACTTCCC
*
36140105 AAAATTACCATTTTACCC-CTAAACTTTCC
1 AAAATTACCATTTTACCCTC-AAACTTCCC
* * *
36140134 AAAATT-TCATTTTTAACCC-C-GATTTCACC
1 AAAATTACCA-TTTT-ACCCTCAAACTTC-CC
* *
36140163 AAAATT-CCATTTTACCCTCGAAA-GT-CA
1 AAAATTACCATTTTACCCTC-AAACTTCCC
36140190 AAAATTACCATTT
1 AAAATTACCATTT
36140203 CGCCCCCAAG
Statistics
Matches: 378, Mismatches: 54, Indels: 89
0.73 0.10 0.17
Matches are distributed among these distances:
24 2 0.01
25 8 0.02
26 10 0.03
27 17 0.04
28 71 0.19
29 115 0.30
30 137 0.36
31 16 0.04
32 2 0.01
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCAAACTTCCC
Found at i:36139758 original size:59 final size:59
Alignment explanation
Indices: 36139695--36140152 Score: 582
Period size: 59 Copynumber: 7.9 Consensus size: 59
36139685 CCCGATTTCA
* * *
36139695 CCAAAAATTACCGTTTTACCCTCAAACTTCCCAAAATTCCATTTTTGACCCTAAAACTT
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTAAAACTT
* * *
36139754 CCAAAAATTACCATTTTACCCT-AAACTTTCCAAAATTGCATTTTTGA-CCTCGAAACTT
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCT-AAAACTT
* * *
36139812 CCAAAAATTACCATTTTACCCT-AAACTTTCCAAAATTGCATTTTTGA-CCTCGAAACTT
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCT-AAAACTT
* * *
36139870 CCAAAAATTACCATTTCACCC-CTAAACTTTCCAAAATTCCATTATTAACCCCAAAACTT
1 CCAAAAATTACCATTTTACCCTC-AAACTTTCCAAAATTCCATTTTTAACCCTAAAACTT
* * *
36139929 CCAAAAATTACTATTTTACCC-CTAAACTTTCTAAAATTCCATTTTTAACCCCAAAACTT
1 CCAAAAATTACCATTTTACCCTC-AAACTTTCCAAAATTCCATTTTTAACCCTAAAACTT
*
36139988 CCAAAAATTACCATTTTA-CCTCCAAACTTTCCAAAATTCCATTTTTAACTCC-GAAACTT
1 CCAAAAATTACCATTTTACCCT-CAAACTTTCCAAAATTCCATTTTTAAC-CCTAAAACTT
* *
36140047 CC-AAAA--A-CATTTTACCCCCAAACTTTCCAAAATTCCTTTTTTAACCCTAAAACTT
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTAAAACTT
* *
36140102 CTAAAAATTACCATTTTACCC-CTAAACTTTCCAAAATTTCATTTTTAACCC
1 CCAAAAATTACCATTTTACCCTC-AAACTTTCCAAAATTCCATTTTTAACCC
36140153 CGATTTCACC
Statistics
Matches: 362, Mismatches: 23, Indels: 28
0.88 0.06 0.07
Matches are distributed among these distances:
54 2 0.01
55 40 0.11
56 7 0.02
57 3 0.01
58 115 0.32
59 190 0.52
60 5 0.01
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.34
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCCTAAAACTT
Found at i:36149056 original size:200 final size:200
Alignment explanation
Indices: 36148691--36149340 Score: 894
Period size: 200 Copynumber: 3.2 Consensus size: 200
36148681 GGAGTAGTTC
* * * *** * * * *
36148691 AACAAGTGAGGCGGTCATCTTCCTGATGAGATGCAGAGAAGAGCGCCAACTCAGCACTCAAACAC
1 AACAAGCGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCT-TAACGC
* * * * * ** *
36148756 GAGCAAATCTTCATAACC-AGCTTCCAGAGGAGACACTAAGAAGCAGGTCAAAATAATAAAACGG
65 GAGCAAATCTTC-GAACCAAGCTTCCAGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAATGG
* *
36148820 TTAGCTTCCTGATGAGATACA-AAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAG
129 TTAGCTTCCTGATGAGATACAGAA-AAGTGGACCAAATTCGTCTTCCTAAGGAGATCCAAAGAAG
*
36148884 TGAATTAA
193 AGAATTAA
*
36148892 AACAAGCGAGGCAATCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTTAACGCG
1 AACAAGCGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTTAACGCG
*
36148957 AGCAAATCTTCGAACCAAGCTTCCGGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAATGGTT
66 AGCAAATCTTCGAACCAAGCTTCCAGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAATGGTT
* *
36149022 AGCTTCCGGATGAGATACAGAAAAGTGAACCAAATTCGTCTTCCTAAGGAGATCCAAAGAAGAGA
131 AGCTTCCTGATGAGATACAGAAAAGTGGACCAAATTCGTCTTCCTAAGGAGATCCAAAGAAGAGA
36149087 ATTAA
196 ATTAA
*
36149092 AACAAGCGAGGCAGTCATCTTCTTGATGAGATACAGAGAAGAATACCAACTCAACGCTTAACGCG
1 AACAAGCGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTTAACGCG
* * *
36149157 AGCAAATCTTTGAACCAAGCTTCCTGATGAGACACTGAGAAGTAAGTCGAAGCAATAAAATGGTT
66 AGCAAATCTTCGAACCAAGCTTCCAGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAATGGTT
*
36149222 AGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTAAGGAGATCCAAAGAAGCA-
131 AGCTTCCTGATGAGATACAGAAAAGTGGACCAAATTCGTCTTCCTAAGGAGATCCAAAGAAG-AG
36149286 AATTAA
195 AATTAA
* * * * * *
36149292 AAC-AGATGATTGCAGTCATTTTCCTGATGAGACACAGGGAAGAAGACCA
1 AACAAG-CGA-GGCAGTCATCTTCCTGATGAGATACAGAGAAGAATACCA
36149341 GGTTAAGGAA
Statistics
Matches: 404, Mismatches: 40, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
199 6 0.01
200 313 0.77
201 85 0.21
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (200 bp):
AACAAGCGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTTAACGCG
AGCAAATCTTCGAACCAAGCTTCCAGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAATGGTT
AGCTTCCTGATGAGATACAGAAAAGTGGACCAAATTCGTCTTCCTAAGGAGATCCAAAGAAGAGA
ATTAA
Found at i:36149697 original size:18 final size:17
Alignment explanation
Indices: 36149676--36149725 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
36149666 AATGTTTAAA
* *
36149676 TTAATTTTAAATTTATTT
1 TTAAATTTAAATTTA-TC
36149694 TTAAATTTAAATTTATC
1 TTAAATTTAAATTTATC
36149711 TTAAATTTAAATTTA
1 TTAAATTTAAATTTA
36149726 AATTTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAAATTTAAATTTATC
Found at i:36149714 original size:29 final size:29
Alignment explanation
Indices: 36149670--36149733 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
36149660 TTGGTTAATG
* **
36149670 TTTAAATTAATTTTAAATTTATTTTTAAA
1 TTTAAATTAATCTTAAATTTAAATTTAAA
*
36149699 TTTAAATTTATCTTAAATTTAAATTTAAA
1 TTTAAATTAATCTTAAATTTAAATTTAAA
36149728 TTTAAA
1 TTTAAA
36149734 ATTGAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (29 bp):
TTTAAATTAATCTTAAATTTAAATTTAAA
Found at i:36149741 original size:12 final size:12
Alignment explanation
Indices: 36149673--36149741 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
36149663 GTTAATGTTT
*
36149673 AAATTAATTTTA
1 AAATTAAATTTA
* **
36149685 AATTTATTTTTA
1 AAATTAAATTTA
*
36149697 AATTTAAATTT-
1 AAATTAAATTTA
**
36149708 ATCTTAAATTTA
1 AAATTAAATTTA
*
36149720 AATTTAAATTTA
1 AAATTAAATTTA
*
36149732 AAATTGAATT
1 AAATTAAATT
36149742 AAACTTAATT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
11 9 0.20
12 37 0.80
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (12 bp):
AAATTAAATTTA
Found at i:36149743 original size:29 final size:29
Alignment explanation
Indices: 36149670--36149749 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
36149660 TTGGTTAATG
* * **
36149670 TTTAAATTAATTTTAAATTTATTTTTAAA
1 TTTAAATTGATATTAAATTTAAATTTAAA
* *
36149699 TTTAAATTTATCTTAAATTTAAATTTAAA
1 TTTAAATTGATATTAAATTTAAATTTAAA
*
36149728 TTTAAAATTGA-ATTAAACTTAA
1 TTT-AAATTGATATTAAATTTAA
36149750 TTAAATGAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 37 0.86
30 6 0.14
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (29 bp):
TTTAAATTGATATTAAATTTAAATTTAAA
Found at i:36149744 original size:23 final size:23
Alignment explanation
Indices: 36149670--36149733 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
36149660 TTGGTTAATG
* **
36149670 TTTAAA-TTAATTTTAAATTTATT
1 TTTAAATTTAAATTTAAA-TTAAA
**
36149693 TTTAAATTTAAATTTATCTTAAA
1 TTTAAATTTAAATTTAAATTAAA
36149716 TTTAAATTTAAATTTAAA
1 TTTAAATTTAAATTTAAA
36149734 ATTGAATTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
23 25 0.76
24 8 0.24
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTAAATTTAAATTTAAATTAAA
Found at i:36149749 original size:6 final size:6
Alignment explanation
Indices: 36149670--36149733 Score: 71
Period size: 6 Copynumber: 11.0 Consensus size: 6
36149660 TTGGTTAATG
* **
36149670 TTTAAA -TTAAT TTTAAA TTTATT TTTAAA TTTAAA TTT--A TCTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
36149716 TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
36149734 ATTGAATTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
4 2 0.04
5 6 0.12
6 38 0.79
7 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:36149822 original size:14 final size:14
Alignment explanation
Indices: 36149803--36149843 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
36149793 AGCCTGAATG
36149803 AAAGGCCCAATTAC
1 AAAGGCCCAATTAC
* *
36149817 AAAGG-CCAAATAG
1 AAAGGCCCAATTAC
36149830 AAA-GCCCAATTAC
1 AAAGGCCCAATTAC
36149843 A
1 A
36149844 TCAGCCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
12 1 0.05
13 16 0.73
14 5 0.23
ACGTcount: A:0.49, C:0.24, G:0.15, T:0.12
Consensus pattern (14 bp):
AAAGGCCCAATTAC
Found at i:36149836 original size:26 final size:26
Alignment explanation
Indices: 36149776--36149843 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
36149766 TTACAAAAAA
* *
36149776 AAAGTCCATATTACAAAAGCCTGAATG
1 AAAGCCCA-ATTACAAAAGCCTAAATG
*
36149803 AAAGGCCCAATTACAAAGGCC-AAATAG
1 AAA-GCCCAATTACAAAAGCCTAAAT-G
36149830 AAAGCCCAATTACA
1 AAAGCCCAATTACA
36149844 TCAGCCCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 14 0.39
27 18 0.50
28 4 0.11
ACGTcount: A:0.47, C:0.22, G:0.15, T:0.16
Consensus pattern (26 bp):
AAAGCCCAATTACAAAAGCCTAAATG
Found at i:36150564 original size:15 final size:17
Alignment explanation
Indices: 36150522--36150570 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 17
36150512 ATAATAACTG
36150522 TGTTAATAATATCAATATT
1 TGTTAATAAT-T-AATATT
36150541 TGTTAATAATTAATA-T
1 TGTTAATAATTAATATT
36150557 TG-TAATAATTAATA
1 TGTTAATAATTAATA
36150571 AAAAGGAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 12 0.40
16 3 0.10
17 4 0.13
18 1 0.03
19 10 0.33
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (17 bp):
TGTTAATAATTAATATT
Found at i:36151444 original size:38 final size:38
Alignment explanation
Indices: 36151369--36151448 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 38
36151359 GTGTCACTAC
* *
36151369 TTTGGCTTATTTATGCAATTAACCCCTTTTATTTTTAA
1 TTTGACTTATTTATGCAATTAACCCCTTTTATATTTAA
36151407 TTTGACTTATTTATGCAATTAACCCCTTTTCA-ATTTAA
1 TTTGACTTATTTATGCAATTAACCCCTTTT-ATATTTAA
36151445 TTTG
1 TTTG
36151449 TTTTAATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
38 38 0.97
39 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.07, T:0.51
Consensus pattern (38 bp):
TTTGACTTATTTATGCAATTAACCCCTTTTATATTTAA
Found at i:36151775 original size:30 final size:27
Alignment explanation
Indices: 36151743--36152016 Score: 250
Period size: 29 Copynumber: 9.5 Consensus size: 27
36151733 GATTTAATCA
36151743 AAAATTACCATTTTACCCCTAAACTTCCC
1 AAAATT-CCATTTTACCCCTAAACTT-CC
* *
36151772 AAAATTCCATTTTTAACCTCGAAACTTCC
1 AAAATTCCA-TTTT-ACCCCTAAACTTCC
*
36151801 AAAAATTACCATTTTACCCCCAAACTTTCC
1 -AAAATT-CCATTTTACCCCTAAAC-TTCC
36151831 AAAATTCCATTTTTGA-CCCTAAAACTTCC
1 AAAATTCCA-TTTT-ACCCCT-AAACTTCC
*
36151860 AATAATTACTATTTTACCCCTAAACTTTCC
1 AA-AATT-CCATTTTACCCCTAAAC-TTCC
36151890 AAAATTCCATTTTTGACCCCTAAACTTCC
1 AAAATTCCA-TTTT-ACCCCTAAACTTCC
36151919 AAAAATTACCATTTTACCCCTAAACTTTCC
1 -AAAATT-CCATTTTACCCCTAAAC-TTCC
*
36151949 AAAATTCCATTTTGGA-CCTTGAAACTTCC
1 AAAATTCCATTTT--ACCCCT-AAACTTCC
* *
36151978 AAAA--ACATTTTACCCCCAAACTTTCC
1 AAAATTCCATTTTACCCCTAAAC-TTCC
*
36152004 AAAATTTCATTTT
1 AAAATTCCATTTT
36152017 TAACCCCGAT
Statistics
Matches: 209, Mismatches: 12, Indels: 49
0.77 0.04 0.18
Matches are distributed among these distances:
25 5 0.02
26 10 0.05
27 6 0.03
28 21 0.10
29 83 0.40
30 76 0.36
31 8 0.04
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.34
Consensus pattern (27 bp):
AAAATTCCATTTTACCCCTAAACTTCC
Found at i:36151804 original size:59 final size:59
Alignment explanation
Indices: 36151699--36152017 Score: 402
Period size: 59 Copynumber: 5.5 Consensus size: 59
36151689 GCTTATAGGT
** *
36151699 CCCTAAACTGTTCCAAAATTTAATTTTTGACCCCGATTTAA--T-CAAAAATTACCATTTTAC
1 CCCTAAACT-TTCCAAAATTCCATTTTTGACCTCGA---AACTTCCAAAAATTACCATTTTAC
* *
36151759 CCCTAAACTTCCCAAAATTCCATTTTTAACCTCGAAACTTCCAAAAATTACCATTTTAC
1 CCCTAAACTTTCCAAAATTCCATTTTTGACCTCGAAACTTCCAAAAATTACCATTTTAC
* * * *
36151818 CCCCAAACTTTCCAAAATTCCATTTTTGACC-CTAAAACTTCCAATAATTACTATTTTAC
1 CCCTAAACTTTCCAAAATTCCATTTTTGACCTC-GAAACTTCCAAAAATTACCATTTTAC
* *
36151877 CCCTAAACTTTCCAAAATTCCATTTTTGACCCCTAAACTTCCAAAAATTACCATTTTAC
1 CCCTAAACTTTCCAAAATTCCATTTTTGACCTCGAAACTTCCAAAAATTACCATTTTAC
* *
36151936 CCCTAAACTTTCCAAAATTCCATTTTGGACCTTGAAACTTCC-AAAA--A-CATTTTAC
1 CCCTAAACTTTCCAAAATTCCATTTTTGACCTCGAAACTTCCAAAAATTACCATTTTAC
* *
36151991 CCCCAAACTTTCCAAAATTTCATTTTT
1 CCCTAAACTTTCCAAAATTCCATTTTT
36152018 AACCCCGATT
Statistics
Matches: 232, Mismatches: 22, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
55 32 0.14
56 3 0.01
58 6 0.03
59 181 0.78
60 10 0.04
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (59 bp):
CCCTAAACTTTCCAAAATTCCATTTTTGACCTCGAAACTTCCAAAAATTACCATTTTAC
Found at i:36154692 original size:68 final size:69
Alignment explanation
Indices: 36154587--36154746 Score: 214
Period size: 71 Copynumber: 2.3 Consensus size: 69
36154577 TTTATTACTA
* * * *
36154587 TATTTATTAATTATTAATTTGTTGCATGTACT-CCCACCTAACAACTTGATTTCTTAGTTTACTA
1 TATTAATTAATTATTAATTTGTTGCACGCACTCCCCACCTAACAACTTGACTTCTTAGTTTACTA
36154651 TATT
66 TATT
**
36154655 TATTAATTAATTATTAATTTGTTTTACGCACTTCCACCACCTAACAACTTGACTTCTTAGTTTAC
1 TATTAATTAATTATTAATTTGTTGCACGCAC-TCC-CCACCTAACAACTTGACTTCTTAGTTTAC
36154720 TATATT
64 TATATT
* *
36154726 TACTGAATTAATTATCAATTT
1 TA-TTAATTAATTATTAATTT
36154747 CTGTAATGTA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
68 26 0.32
69 1 0.01
70 1 0.01
71 36 0.45
72 16 0.20
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (69 bp):
TATTAATTAATTATTAATTTGTTGCACGCACTCCCCACCTAACAACTTGACTTCTTAGTTTACTA
TATT
Found at i:36154939 original size:12 final size:12
Alignment explanation
Indices: 36154924--36154948 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36154914 TAAAATTTTG
36154924 ATTTGTAATTGT
1 ATTTGTAATTGT
36154936 ATTTGTAATTGT
1 ATTTGTAATTGT
36154948 A
1 A
36154949 ATTATTTTTT
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:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (12 bp):
ATTTGTAATTGT
Found at i:36156211 original size:21 final size:21
Alignment explanation
Indices: 36156172--36156211 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
36156162 CTTCTTTATT
*
36156172 TATTTTTAGGTTCTAATATGG
1 TATTTTTAGGTTATAATATGG
36156193 TATTTTTA-GTTATATATAT
1 TATTTTTAGGTTATA-ATAT
36156212 ATTTGTGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (21 bp):
TATTTTTAGGTTATAATATGG
Found at i:36156680 original size:17 final size:17
Alignment explanation
Indices: 36156650--36156686 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
36156640 AAGTAATTAC
*
36156650 AAGAATATGAAAGGTTA
1 AAGAAGATGAAAGGTTA
*
36156667 AAGAAGATGGAAGGTTA
1 AAGAAGATGAAAGGTTA
36156684 AAG
1 AAG
36156687 GTCAAAGGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.30, T:0.19
Consensus pattern (17 bp):
AAGAAGATGAAAGGTTA
Found at i:36171023 original size:76 final size:76
Alignment explanation
Indices: 36170927--36172214 Score: 2014
Period size: 76 Copynumber: 17.0 Consensus size: 76
36170917 CCGCACCAAC
* *
36170927 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGTTAACAAGTCTTTATCTCTGAAACTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
36170992 GTAAGAGCAAG
66 GTAAGAGCAAG
* * *
36171003 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATACCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
36171068 GTAAGAGCAAG
66 GTAAGAGCAAG
* * *
36171079 ATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
36171144 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * *
36171155 ATCATTTCTTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
36171220 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * *
36171231 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTAGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
36171296 GTAAGAGCAAG
66 GTAAGAGCAAG
* * *
36171307 ATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
36171372 GTAAGAGCAAG
66 GTAAGAGCAAG
* * *
36171383 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTC----T-T-T-AAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
36171441 GTAAGAGCAAG
66 GTAAGAGCAAG
* * *
36171452 ATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
36171517 GTAAGAGCAAG
66 GTAAGAGCAAG
* * *
36171528 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
36171593 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * * *
36171604 ATCGTTTCCCATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
36171669 GTAAGAGCAAG
66 GTAAGAGCAAG
* * *
36171680 ATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
36171745 GTAAGAGCAAG
66 GTAAGAGCAAG
* * *
36171756 ATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAACTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
*
36171821 GTAAGAGCTAG
66 GTAAGAGCAAG
* *
36171832 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAATCTTTATCTCTGAAACTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
36171897 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * *
36171908 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTAGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
*
36171973 GTAAGAGTAAG
66 GTAAGAGCAAG
* * *
36171984 ATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
36172049 GTAAGAGCAAG
66 GTAAGAGCAAG
*
36172060 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAACTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
* *
36172125 GTAGGAGCTAG
66 GTAAGAGCAAG
* *
36172136 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGTCTTTATCTCTCTGAAATTG
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA--TCTCTGAAATTG
36172201 AAGTAAGAGCAAG
64 AAGTAAGAGCAAG
36172214 A
1 A
36172215 AGGAGCACCA
Statistics
Matches: 1119, Mismatches: 84, Indels: 16
0.92 0.07 0.01
Matches are distributed among these distances:
69 60 0.05
70 1 0.00
71 1 0.00
72 1 0.00
73 1 0.00
74 1 0.00
75 1 0.00
76 1030 0.92
78 23 0.02
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (76 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
GTAAGAGCAAG
Found at i:36171207 original size:152 final size:152
Alignment explanation
Indices: 36170927--36172378 Score: 2153
Period size: 152 Copynumber: 9.5 Consensus size: 152
36170917 CCGCACCAAC
* * *
36170927 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGTTAACAAGTCTTTATCTCTGAAACTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
*
36170992 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATACCAAGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCT
36171057 CTGAAATTGAAGTAAGAGCAAG
131 CTGAAATTGAAGTAAGAGCAAG
* * * *
36171079 ATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
* *
36171144 GTAAGAGCAAGATCATTTCTTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCT
36171209 CTGAAATTGAAGTAAGAGCAAG
131 CTGAAATTGAAGTAAGAGCAAG
* * *
36171231 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTAGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
* * * * *
36171296 GTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCT
36171361 CTGAAATTGAAGTAAGAGCAAG
131 CTGAAATTGAAGTAAGAGCAAG
* *
36171383 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTC----T-T-T-AAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
* * * * *
36171441 GTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCT
36171506 CTGAAATTGAAGTAAGAGCAAG
131 CTGAAATTGAAGTAAGAGCAAG
* *
36171528 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
* * *
36171593 GTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCT
36171658 CTGAAATTGAAGTAAGAGCAAG
131 CTGAAATTGAAGTAAGAGCAAG
* * * *
36171680 ATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
* * * *
36171745 GTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCT
* *
36171810 CTGAAACTGAAGTAAGAGCTAG
131 CTGAAATTGAAGTAAGAGCAAG
* * *
36171832 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAATCTTTATCTCTGAAACTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
* *
36171897 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTAGATATCAAGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCT
*
36171962 CTGAAATTGAAGTAAGAGTAAG
131 CTGAAATTGAAGTAAGAGCAAG
* * * *
36171984 ATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
* *
36172049 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCT
* * *
36172114 CTGAAACTGAAGTAGGAGCTAG
131 CTGAAATTGAAGTAAGAGCAAG
*
36172136 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGTCTTTATCTCTCTGAAATTG
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTA--TCTCTGAAATTG
*
36172201 AAGTAAGAGCAAGAAGGAGCACCAACATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATGGAT
64 AAGTAAGAGC----A--AG-------ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGAT
* *
36172266 ATCAAGTCTTGATCTCTGAAATTGAAGTAAGAGCAAG
116 AACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
* * *
36172303 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTGTCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
*
36172368 GTAAGAACAAG
66 GTAAGAGCAAG
36172379 TCACGGTGGA
Statistics
Matches: 1199, Mismatches: 79, Indels: 37
0.91 0.06 0.03
Matches are distributed among these distances:
145 142 0.12
146 1 0.00
147 1 0.00
148 1 0.00
149 1 0.00
150 1 0.00
151 1 0.00
152 884 0.74
154 22 0.02
158 1 0.00
159 2 0.00
160 2 0.00
161 1 0.00
165 21 0.02
167 118 0.10
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (152 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCT
CTGAAATTGAAGTAAGAGCAAG
Found at i:36171324 original size:228 final size:228
Alignment explanation
Indices: 36170927--36172378 Score: 2234
Period size: 228 Copynumber: 6.3 Consensus size: 228
36170917 CCGCACCAAC
* * * * *
36170927 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGTTAACAAGTCTTTATCTCTGAAACTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
*
36170992 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATACCAAGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCT
36171057 CTGAAATTGAAGTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACA
131 CTGAAATTGAAGTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACA
*
36171122 CGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
196 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
*
36171155 ATCATTTCTTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
*
36171220 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTAGATATCAAGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCT
36171285 CTGAAATTGAAGTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACA
131 CTGAAATTGAAGTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACA
*
36171350 CGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
196 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
36171383 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTC----T-T-T-AAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
* * * * * *
36171441 GTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCT
* * * * *
36171506 CTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCA
131 CTGAAATTGAAGTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACA
36171571 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
196 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
* *
36171604 ATCGTTTCCCATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
* * * * * *
36171669 GTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCT
36171734 CTGAAATTGAAGTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACA
131 CTGAAATTGAAGTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACA
* *
36171799 AGTCTTTATCTCTGAAACTGAAGTAAGAGCTAG
196 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
* * * * *
36171832 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAATCTTTATCTCTGAAACTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
*
36171897 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTAGATATCAAGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCT
*
36171962 CTGAAATTGAAGTAAGAGTAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACA
131 CTGAAATTGAAGTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACA
*
36172027 CGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
196 AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
* * * *
36172060 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAACTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
* * *
36172125 GTAGGAGCTAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTA--T
* *
36172190 CTCTGAAATTGAAGTAAGAGCAAGAAGGAGCACCAACATCATTTCCTATCCTCTTGAAATTGAAG
129 CTCTGAAATTGAAGTAAGAGC----A--AG-------ATCGTTTCCCATCCTCTTGAAATTGAAG
* * * *
36172255 TAAAGATGGATATCAAGTCTTGATCTCTGAAATTGAAGTAAGAGCAAG
181 TAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
*
36172303 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTGTCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
*
36172368 GTAAGAACAAG
66 GTAAGAGCAAG
36172379 TCACGGTGGA
Statistics
Matches: 1132, Mismatches: 70, Indels: 29
0.92 0.06 0.02
Matches are distributed among these distances:
221 203 0.18
222 1 0.00
223 1 0.00
224 1 0.00
225 1 0.00
226 1 0.00
227 1 0.00
228 762 0.67
230 21 0.02
234 1 0.00
236 2 0.00
243 137 0.12
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (228 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAATTGAA
GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCT
CTGAAATTGAAGTAAGAGCAAGATCGTTTCCCATCCTCTTGAAATTGAAGTAGAGTTGGATAACA
AGTCTTTATCTCTGAAATTGAAGTAAGAGCAAG
Found at i:36172295 original size:38 final size:38
Alignment explanation
Indices: 36172244--36172371 Score: 138
Period size: 38 Copynumber: 3.4 Consensus size: 38
36172234 CCTATCCTCT
36172244 TGAAATTGAAGTAAAGATGGATATCAAGTCTTGATCTC
1 TGAAATTGAAGTAAAGATGGATATCAAGTCTTGATCTC
* * ** *
36172282 TGAAATTGAAGT-AAGA-GCAAGATCATTTCCT-ATCCTC
1 TGAAATTGAAGTAAAGATG-GATATCAAGTCTTGAT-CTC
*
36172319 TTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTG-TCTC
1 -TGAAATTGAAGTAAAGATGGATATCAAGTC-TTGATCTC
36172358 TGAAATTGAAGTAA
1 TGAAATTGAAGTAA
36172372 GAACAAGTCA
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
36 3 0.04
37 15 0.21
38 38 0.53
39 13 0.18
40 3 0.04
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (38 bp):
TGAAATTGAAGTAAAGATGGATATCAAGTCTTGATCTC
Found at i:36172340 original size:167 final size:165
Alignment explanation
Indices: 36172060--36172378 Score: 530
Period size: 167 Copynumber: 1.9 Consensus size: 165
36172050 TAAGAGCAAG
* * *
36172060 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAACTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATAACAAGTCTTGATCTCTGAAACTGAA
* * *
36172125 GTAGGAGCTAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGCTGGATATCAAGTCTTTATCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTC-TT-TCT
*
36172190 CTCTGAAATTGAAGTAAGAGCAAGAAGGAGCACCAAC
129 CTCTGAAATTGAAGTAAGAACAAGAAGGAGCACCAAC
* *
36172227 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATATCAAGTCTTGATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATAACAAGTCTTGATCTCTGAAACTGAA
*
36172292 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTGTCT
66 GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTCTCT
36172357 CTGAAATTGAAGTAAGAACAAG
131 CTGAAATTGAAGTAAGAACAAG
36172379 TCACGGTGGA
Statistics
Matches: 142, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
165 25 0.18
166 2 0.01
167 115 0.81
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (165 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATAACAAGTCTTGATCTCTGAAACTGAA
GTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTCTCT
CTGAAATTGAAGTAAGAACAAGAAGGAGCACCAAC
Found at i:36172358 original size:76 final size:76
Alignment explanation
Indices: 36172227--36172378 Score: 270
Period size: 76 Copynumber: 2.0 Consensus size: 76
36172217 GAGCACCAAC
36172227 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATATCAAGTCTTGATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATATCAAGTCTTGATCTCTGAAATTGAA
*
36172292 GTAAGAGCAAG
66 GTAAGAACAAG
*
36172303 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTG-TCTCTGAAATTGA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATATCAAGTC-TTGATCTCTGAAATTGA
36172367 AGTAAGAACAAG
65 AGTAAGAACAAG
36172379 TCACGGTGGA
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
76 70 0.96
77 3 0.04
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (76 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATATCAAGTCTTGATCTCTGAAATTGAA
GTAAGAACAAG
Found at i:36172612 original size:6 final size:6
Alignment explanation
Indices: 36172601--36172692 Score: 75
Period size: 6 Copynumber: 15.2 Consensus size: 6
36172591 TTTTTAATTT
36172601 ATTTAA ATTTAA ATTT-- ATCTTAA ATTTAA ATTTAA TTATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA --ATTTAA ATTTAA
** * *
36172649 CCTTAA ATTTAA ATTTAA A-TTAA GATTAAA ATACTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA -ATTTAA AT-TTAA ATTTAA A
36172693 CATTAAAAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
4 2 0.03
5 9 0.13
6 43 0.62
7 9 0.13
8 6 0.09
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (6 bp):
ATTTAA
Found at i:36172623 original size:11 final size:11
Alignment explanation
Indices: 36172609--36172659 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
36172599 TTATTTAAAT
36172609 TTAAATTTATC
1 TTAAATTTATC
**
36172620 TTAAATTTAAA
1 TTAAATTTATC
*
36172631 TTTAA-TTAT-
1 TTAAATTTATC
*
36172640 TTAAATTTACC
1 TTAAATTTATC
36172651 TTAAATTTA
1 TTAAATTTA
36172660 AATTTAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 4 0.12
10 6 0.19
11 22 0.69
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (11 bp):
TTAAATTTATC
Found at i:36172623 original size:17 final size:17
Alignment explanation
Indices: 36172596--36172665 Score: 94
Period size: 17 Copynumber: 4.4 Consensus size: 17
36172586 ATTGATTTTT
36172596 AATTTAT-TTAAATTTA
1 AATTTATCTTAAATTTA
36172612 AATTTATCTTAAATTTA
1 AATTTATCTTAAATTTA
*
36172629 AATTTA-ATT--ATTTA
1 AATTTATCTTAAATTTA
*
36172643 AATTTACCTTAAATTTA
1 AATTTATCTTAAATTTA
36172660 AATTTA
1 AATTTA
36172666 AATTAAGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
14 11 0.23
15 2 0.04
16 9 0.19
17 26 0.54
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTATCTTAAATTTA
Found at i:36172644 original size:31 final size:31
Alignment explanation
Indices: 36172607--36172666 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
36172597 ATTTATTTAA
*
36172607 ATTTAAATTTATCTTAAATTTAAATTTAATT
1 ATTTAAATTTACCTTAAATTTAAATTTAATT
36172638 ATTTAAATTTACCTTAAATTTAAATTTAA
1 ATTTAAATTTACCTTAAATTTAAATTTAA
36172667 ATTAAGATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (31 bp):
ATTTAAATTTACCTTAAATTTAAATTTAATT
Found at i:36172661 original size:37 final size:38
Alignment explanation
Indices: 36172593--36172669 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 38
36172583 TAAATTGATT
*
36172593 TTTAATTTATTTAAATTTAAATTTATCTTAAATTTAAA
1 TTTAATTTATTTAAATTTAAATTAATCTTAAATTTAAA
**
36172631 TTTAA-TTATTTAAATTTACCTTAAAT-TTAAATTTAAA
1 TTTAATTTATTTAAATTTAAATT-AATCTTAAATTTAAA
36172668 TT
1 TT
36172670 AAGATTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 28 0.80
38 7 0.20
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (38 bp):
TTTAATTTATTTAAATTTAAATTAATCTTAAATTTAAA
Found at i:36174695 original size:58 final size:59
Alignment explanation
Indices: 36174523--36174777 Score: 318
Period size: 59 Copynumber: 4.4 Consensus size: 59
36174513 CTGGATGGTC
* **** * *
36174523 CAAAAATT--CATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACAGTAATTTCAC
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTCCAT
* * *
36174580 CAAAAATTACCATTTTACCCCCGAATTTTCCAAAATTCCATTTTTAACCCCGGTTCCAT
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTCCAT
** *
36174639 CAAAAATTACCATTTTA-CCCTGAACTTTTCAAAATTCCATTTTTAACCCCGATTCCAT
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTCCAT
* * * *
36174697 CAAAAATTACCACTTTACCCCCAAACTTTCCAAAATTCTATTTTTGACCCCGATTTCAT
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTCCAT
* *
36174756 CGAAAATTACCATTTTGCCCCC
1 CAAAAATTACCATTTTACCCCC
36174778 GCGAGTCCAA
Statistics
Matches: 171, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
57 8 0.05
58 53 0.31
59 110 0.64
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.35
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTCCAT
Found at i:36174762 original size:117 final size:118
Alignment explanation
Indices: 36174523--36174776 Score: 334
Period size: 117 Copynumber: 2.2 Consensus size: 118
36174513 CTGGATGGTC
** *
36174523 CAAAAATT--CATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACAGTAATTTCACCAAAAA
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACACCAATTCCACCAAAAA
* * * *
36174586 TTACCATTTTACCCCCGAATTTTCCAAAATTCCATTTTTAACCCCGGTTCCAT
66 TTACCACTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTCCAT
* * * * *
36174639 CAAAAATTACCATTTTA-CCCTGAACTTTTCAAAATTCCATTTTTAACCCCGATTCCATCAAAAA
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACACCAATTCCACCAAAAA
* * *
36174703 TTACCACTTTACCCCCAAACTTTCCAAAATTCTATTTTTGACCCCGATTTCAT
66 TTACCACTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTCCAT
* *
36174756 CGAAAATTACCATTTTGCCCC
1 CAAAAATTACCATTTTACCCC
36174777 CGCGAGTCCA
Statistics
Matches: 118, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
116 8 0.07
117 100 0.85
118 10 0.08
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.35
Consensus pattern (118 bp):
CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACACCAATTCCACCAAAAA
TTACCACTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTCCAT
Found at i:36182464 original size:20 final size:20
Alignment explanation
Indices: 36182424--36182464 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
36182414 GTTCTTAAAA
* * *
36182424 TTTTCCTTTTTTTTCTTTTT
1 TTTTCCTTTCTTCTCTATTT
36182444 TTTTCCTTTCTTCTCTATTT
1 TTTTCCTTTCTTCTCTATTT
36182464 T
1 T
36182465 GTTTTAACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTCCTTTCTTCTCTATTT
Found at i:36182869 original size:25 final size:26
Alignment explanation
Indices: 36182838--36182888 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
36182828 GAAGAGAATG
36182838 AAAAGAA-A-AAAAGAAAAATTAAAAT
1 AAAAGAACATAAAA-AAAAATTAAAAT
*
36182863 AAAAGAACATAAAAAAAACTTAAAAT
1 AAAAGAACATAAAAAAAAATTAAAAT
36182889 GCTCAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 12 0.52
27 4 0.17
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (26 bp):
AAAAGAACATAAAAAAAAATTAAAAT
Found at i:36186726 original size:58 final size:59
Alignment explanation
Indices: 36186647--36186944 Score: 217
Period size: 58 Copynumber: 5.1 Consensus size: 59
36186637 AAAATACGAC
* * * *
36186647 TTTTGGATGCTCGAGGGTAAAATGGTAATTTTT-GGAGGTTTGGGGGTAAAATTGTAAT
1 TTTTGGAAGCTCGAGGGTAAAATGGTAATTTTTAGGAAGTTTAGGGGTAAAATGGTAAT
* * * *
36186705 TTTTGGAAACTCGGGGGTAAAATGG-AATTTTTGGGACA-TTCAGGGGTAAAATGGTAAT
1 TTTTGGAAGCTCGAGGGTAAAATGGTAATTTTTAGGA-AGTTTAGGGGTAAAATGGTAAT
* * **
36186763 TTTTGGATGTTCGAGGGTAAAA-CATAATTTTT-GGAAAGTTT-GGGGTCAAAAAT-GTAAT
1 TTTTGGAAGCTCGAGGGTAAAATGGTAATTTTTAGG-AAGTTTAGGGGT--AAAATGGTAAT
** * * *
36186821 TTTAAGAAGTTTGAGGGGTTAAAAAT-GTAATTTTTAGGAAGTTTAAGGGTAAAATGGTAA-
1 TTTTGGAAGCTCGA-GGG-T-AAAATGGTAATTTTTAGGAAGTTTAGGGGTAAAATGGTAAT
** * *
36186881 TTTTGGAAAG-TTTAGGGTTAAAAT-GTAAATTTT-GTGAAGTTTAAGGGTTAAAAT-GTAAT
1 TTTTGG-AAGCTCGAGGG-TAAAATGGTAATTTTTAG-GAAGTTT-AGGGGTAAAATGGTAAT
36186940 TTTTG
1 TTTTG
36186945 AAAAGTTCAG
Statistics
Matches: 196, Mismatches: 26, Indels: 35
0.76 0.10 0.14
Matches are distributed among these distances:
57 16 0.08
58 109 0.56
59 27 0.14
60 13 0.07
61 25 0.13
62 6 0.03
ACGTcount: A:0.32, C:0.03, G:0.28, T:0.37
Consensus pattern (59 bp):
TTTTGGAAGCTCGAGGGTAAAATGGTAATTTTTAGGAAGTTTAGGGGTAAAATGGTAAT
Found at i:36186808 original size:28 final size:29
Alignment explanation
Indices: 36186759--36186813 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
36186749 GGTAAAATGG
*
36186759 TAATTTTTGGATGTTCGAGGGT-AAAACA
1 TAATTTTTGGAAGTTCGAGGGTCAAAACA
*
36186787 TAATTTTTGGAAAGTTTG-GGGTCAAAA
1 TAATTTTTGG-AAGTTCGAGGGTCAAAA
36186814 ATGTAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (29 bp):
TAATTTTTGGAAGTTCGAGGGTCAAAACA
Found at i:36186885 original size:90 final size:87
Alignment explanation
Indices: 36186746--36186986 Score: 252
Period size: 90 Copynumber: 2.7 Consensus size: 87
36186736 TGGGACATTC
* * * *
36186746 AGGGGTAAAATGGTAATTTTTGGATGTTCGAGGGTAAAACATAATTTTTGGAAAGTTTGGGGTCA
1 AGGGTTAAAAT-GTAATTTTTGGAAGTTCAAGGGTAAAACATAATTTTTGGAAAGTTTAGGGT-A
36186811 AAAATGT-AATTTTAAGAAGTTTGA
64 AAAATGTAAATTTTAAGAAGTTT-A
* * **
36186835 GGGGTTAAAAATGTAATTTTTAGGAAGTTTAAGGGTAAAATGGTAA-TTTTGGAAAGTTTAGGGT
1 AGGGTT-AAAATGTAATTTTT-GGAAGTTCAAGGGTAAAA-CATAATTTTTGGAAAGTTTAGGGT
* **
36186899 TAAAATGTAAATTTTGTGAAGTTTA
63 AAAAATGTAAATTTTAAGAAGTTTA
* * * * *
36186924 AGGGTTAAAATGTAATTTTTGAAAAGTTCAGGGGTTAAAATATGATTTTTGGATAGTTTAGGG
1 AGGGTTAAAATGTAATTTTTG-GAAGTTCAAGGG-TAAAACATAATTTTTGGAAAGTTTAGGG
36186987 ACCTTCTGGG
Statistics
Matches: 126, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
87 1 0.01
88 25 0.20
89 47 0.37
90 50 0.40
91 3 0.02
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.37
Consensus pattern (87 bp):
AGGGTTAAAATGTAATTTTTGGAAGTTCAAGGGTAAAACATAATTTTTGGAAAGTTTAGGGTAAA
AATGTAAATTTTAAGAAGTTTA
Found at i:36186903 original size:119 final size:118
Alignment explanation
Indices: 36186748--36186983 Score: 263
Period size: 119 Copynumber: 2.0 Consensus size: 118
36186738 GGACATTCAG
* * *
36186748 GGGTAAAATGGTAATTTTTGGATGTTCGAGGGTAAAACATAATTTTTG-GAAAGTTT-GGGGTCA
1 GGGTAAAATGGTAATTTTTGGAAGTTCGAGGGTAAAACATAAATTTTGTG-AAGTTTAAGGGT-A
*
36186811 AAAATGTAA-TTTT-AAGAAGTTTGAGGGGTTAAAA-ATGTAATTTTTAGGA-AGTTTAA
64 AAAATGTAATTTTTGAA-AAG-TTCAGGGGTTAAAATATG--ATTTTT-GGATAGTTTAA
* ** *
36186867 GGGTAAAATGGTAA-TTTTGGAAAGTT-TAGGGTTAAAATGTAAATTTTGTGAAGTTTAAGGGTT
1 GGGTAAAATGGTAATTTTTGG-AAGTTCGAGGG-TAAAACATAAATTTTGTGAAGTTTAAGGGTA
36186930 AAAATGTAATTTTTGAAAAGTTCAGGGGTTAAAATATGATTTTTGGATAGTTTA
64 AAAATGTAATTTTTGAAAAGTTCAGGGGTTAAAATATGATTTTTGGATAGTTTA
36186984 GGGACCTTCT
Statistics
Matches: 101, Mismatches: 8, Indels: 17
0.80 0.06 0.13
Matches are distributed among these distances:
117 3 0.03
118 22 0.22
119 59 0.58
120 15 0.15
121 2 0.02
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (118 bp):
GGGTAAAATGGTAATTTTTGGAAGTTCGAGGGTAAAACATAAATTTTGTGAAGTTTAAGGGTAAA
AATGTAATTTTTGAAAAGTTCAGGGGTTAAAATATGATTTTTGGATAGTTTAA
Found at i:36186956 original size:29 final size:29
Alignment explanation
Indices: 36186660--36186986 Score: 190
Period size: 29 Copynumber: 11.1 Consensus size: 29
36186650 TGGATGCTCG
* *
36186660 AGGG-TAAAATGGTAATTTTTGG-AGGTTT
1 AGGGTTAAAAT-GTAATTTTTGGAAAGTTC
* * *
36186688 GGGGGTAAAATTGTAATTTTTGGAAA-CTC
1 AGGGTTAAAA-TGTAATTTTTGGAAAGTTC
* * * *
36186717 GGGGGTAAAATGGAATTTTTGGGACA-TTC
1 AGGGTTAAAATGTAATTTTT-GGAAAGTTC
* *
36186746 AGGGGTAAAATGGTAATTTTTGG-ATGTTC
1 AGGGTTAAAAT-GTAATTTTTGGAAAGTTC
** *
36186775 GAGGG-TAAAACATAATTTTTGGAAAGTTT
1 -AGGGTTAAAATGTAATTTTTGGAAAGTTC
* * ** *
36186804 GGGGTCAAAAATGTAATTTTAAG-AAGTTTG
1 AGGGT-TAAAATGTAATTTTTGGAAAG-TTC
*
36186834 AGGGGTTAAAAATGTAATTTTTAGG-AAGTTTA
1 A-GGGTT-AAAATGTAATTTTT-GGAAAG-TTC
*
36186866 AGGG-TAAAATGGTAA-TTTTGGAAAGTTT
1 AGGGTTAAAAT-GTAATTTTTGGAAAGTTC
* *
36186894 AGGGTTAAAATGTAAATTTTGTG-AAGTTTA
1 AGGGTTAAAATGTAATTTTTG-GAAAG-TTC
*
36186924 AGGGTTAAAATGTAATTTTTGAAAAGTTC
1 AGGGTTAAAATGTAATTTTTGGAAAGTTC
* * * *
36186953 AGGGGTTAAAATATGATTTTTGGATAGTTT
1 A-GGGTTAAAATGTAATTTTTGGAAAGTTC
36186983 AGGG
1 AGGG
36186987 ACCTTCTGGG
Statistics
Matches: 240, Mismatches: 37, Indels: 43
0.75 0.12 0.13
Matches are distributed among these distances:
28 37 0.15
29 92 0.38
30 83 0.35
31 20 0.08
32 8 0.03
ACGTcount: A:0.33, C:0.02, G:0.28, T:0.36
Consensus pattern (29 bp):
AGGGTTAAAATGTAATTTTTGGAAAGTTC
Found at i:36188832 original size:6 final size:6
Alignment explanation
Indices: 36188823--36188884 Score: 74
Period size: 6 Copynumber: 10.7 Consensus size: 6
36188813 TATAATAATC
* * *
36188823 TTAAAT TTAAAA ATAAAT TTAAAC TTAAA- TTAAAT TTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
36188870 TTAAA- ATAAAT TTAA
1 TTAAAT TTAAAT TTAA
36188885 TCTTAAAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
5 9 0.19
6 38 0.81
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:36188840 original size:29 final size:27
Alignment explanation
Indices: 36188807--36188898 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 27
36188797 TGTATTTATT
36188807 TAAATTTATAATAATCTTAAATTTAAAAA
1 TAAATTTA-AATAAT-TTAAATTTAAAAA
* **
36188836 TAAATTTAAACTTAAATTAAATTTAAATT
1 TAAATTTAAA--TAATTTAAATTTAAAAA
36188865 TAAATTTAAAATAAATTT-AATCTT-AAAA
1 TAAATTT-AAAT-AATTTAAAT-TTAAAAA
36188893 TAAATT
1 TAAATT
36188899 AAAAAAATGG
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
28 14 0.27
29 32 0.62
30 6 0.12
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.42
Consensus pattern (27 bp):
TAAATTTAAATAATTTAAATTTAAAAA
Found at i:36188858 original size:17 final size:17
Alignment explanation
Indices: 36188804--36188884 Score: 78
Period size: 17 Copynumber: 4.7 Consensus size: 17
36188794 GCTTGTATTT
36188804 ATTTAAATTTATAA-T-A
1 ATTTAAATTTA-AATTAA
*
36188820 ATCTTAAATTTAAAAATAA
1 AT-TTAAATTT-AAATTAA
*
36188839 ATTTAAACTTAAATTAA
1 ATTTAAATTTAAATTAA
36188856 ATTTAAATTTAAATTTAA
1 ATTTAAATTTAAA-TTAA
*
36188874 A-ATAAATTTAA
1 ATTTAAATTTAA
36188885 TCTTAAAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
16 2 0.04
17 37 0.66
18 14 0.25
19 3 0.05
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTTAAATTTAAATTAA
Found at i:36188880 original size:23 final size:23
Alignment explanation
Indices: 36188836--36188884 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
36188826 AATTTAAAAA
*
36188836 TAAATTTAAACTTAAATTAAATT
1 TAAATTTAAACTTAAAATAAATT
*
36188859 TAAATTTAAATTTAAAATAAATT
1 TAAATTTAAACTTAAAATAAATT
36188882 TAA
1 TAA
36188885 TCTTAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAATTTAAACTTAAAATAAATT
Found at i:36189514 original size:124 final size:124
Alignment explanation
Indices: 36189353--36189623 Score: 506
Period size: 124 Copynumber: 2.2 Consensus size: 124
36189343 CTTCGACCTG
* * *
36189353 CTTCTCAGTATCTCATCAGAAAGCTGGGGTTCGAAGATTCGCTCACATTGAGCTTGGTTTCATTG
1 CTTCTCTGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCACATTGAGCTTGGTTTCATTG
36189418 ATTTGGTATACTTCTTAGTATCTCATCAGGAAGATGACCGCATCATTTGTTTTGATCCA
66 ATTTGGTATACTTCTTAGTATCTCATCAGGAAGATGACCGCATCATTTGTTTTGATCCA
36189477 CTTCTCTGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCACATTGAGCTTGGTTTCATTG
1 CTTCTCTGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCACATTGAGCTTGGTTTCATTG
36189542 ATTTGGTATACTTCTTAGTATCTCATCAGGAAGATGACCGCATCATTTGTTTTGATCCA
66 ATTTGGTATACTTCTTAGTATCTCATCAGGAAGATGACCGCATCATTTGTTTTGATCCA
*
36189601 CTTCTCTGTGTCTCATTAGGAAG
1 CTTCTCTGTGTCTCATCAGGAAG
36189624 ATGGATTTGG
Statistics
Matches: 143, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 143 1.00
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (124 bp):
CTTCTCTGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCACATTGAGCTTGGTTTCATTG
ATTTGGTATACTTCTTAGTATCTCATCAGGAAGATGACCGCATCATTTGTTTTGATCCA
Found at i:36190065 original size:209 final size:209
Alignment explanation
Indices: 36189477--36190843 Score: 1717
Period size: 209 Copynumber: 6.6 Consensus size: 209
36189467 TTTTGATCCA
* *
36189477 CTTCTCTGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCACATTGAGCTTGGTTTCATTG
1 CTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCACATTGAGCTTGGTTTCATTG
* * * *
36189542 ATTTGGTATACTTCTTAGTATCTCATCAGGAAGATGACCGCATCATTTGTTTTGATCCACTTCTC
66 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTC
* * * * * * *
36189607 TGTGTCTCATTAGGAAGATGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAACCATTTT
131 TGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCACTTT
36189672 ATTACTTCGACCTG
196 ATTACTTCGACCTG
* * * * * *
36189686 TTTCTCAGTATCTCATCAGGAAG-T--TG-TCGAAGATTTGCTTACTTTGAGCCTGGTTTCATTG
1 CTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCACATTGAGCTTGGTTTCATTG
* * *
36189747 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTA
66 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTC
*
36189812 TGTATCTCATCAGGAAGACGAATTTGGTCCACTTCT-TAGTATCTCATCAGGAAGCTAACCATTT
131 TGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCT-GTATCTCATCAGGAAGCTAACCACTT
36189876 TATTACTTCGACCTG
195 TATTACTTCGACCTG
* *
36189891 CTTCTCAGTATCTCATCAGGAAGCTGGGGTTTGAAGATTCGCTCACATTGAGCTTGGTTTTATTG
1 CTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCACATTGAGCTTGGTTTCATTG
* * ** *
36189956 ATTTGATCTACTTCTCAATATCTCATCAGGAAGATGATTGCATCACTTGTTTTAATCTACTTCTC
66 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTC
* * * * * * * * **
36190021 TGTGTCTCATCAAGAAGACGGATCTGGTTCACTACTCTGTATCTCATCAAGAAGGTAACCGTTTT
131 TGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCACTTT
* * *
36190086 ATTACTTTGATCTA
196 ATTACTTCGACCTG
* * *
36190100 CTTCTCAGTATCTCATCAGGAAGTTAGGGTTCGAAGATTCGCTCACATCGAGTCTT-GTTTCATT
1 CTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCACATTGAG-CTTGGTTTCATT
* * * * * * *
36190164 GATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGACCACATTATTTATTTCAATCCGCTTCT
65 GATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCT
* * * * * *
36190229 TTGTATCTCATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCGGGAAGCTGACCGCTT
130 CTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCACTT
*
36190294 TATTGCTTCGACCTG
195 TATTACTTCGACCTG
* *
36190309 CTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCATATCGAGCCTT-GTTTCATT
1 CTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCACATTGAG-CTTGGTTTCATT
* * * *
36190373 AATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCATTTGTTTCAATCCGCTTCT
65 GATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCT
* * *
36190438 CTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTGATCAGGAAGCTGA-CAGCT
130 CTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCA-CT
* *
36190502 TTATTGCTTTGACCTG
194 TTATTACTTCGACCTG
* * * * * * *
36190518 CTTTTTAGTATCTCATCAGGAAGCTGAGGTTCGAAGTTTCGCTCATATTGAGCTTTGTTTCACTG
1 CTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCACATTGAGCTTGGTTTCATTG
* * * *
36190583 ATTTGGTCTACTTCTCAGTATCTTATCAAGAAGATGACCGCCTCACTTGTTTTGATCCACTTCTC
66 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTC
* * * * * * *
36190648 TGTGTCTCATCAGGAAGACGGATCTGATTCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTT
131 TGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCACTTT
*
36190713 ATTGCTTCGACCTG
196 ATTACTTCGACCTG
* * * * * **
36190727 CTTCTCAGCATCTCATCAGGAAGCTGAGGTTCGAAGATTCACTCACTTTGAGCTTGGTTTTATCA
1 CTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCACATTGAGCTTGGTTTCATTG
* * * * *
36190792 AGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGATCGCCTCA-TTGTTTT
66 ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTT
36190844 GGATAATCGC
Statistics
Matches: 1006, Mismatches: 142, Indels: 21
0.86 0.12 0.02
Matches are distributed among these distances:
204 1 0.00
205 182 0.18
206 2 0.00
208 13 0.01
209 803 0.80
210 5 0.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.37
Consensus pattern (209 bp):
CTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCACATTGAGCTTGGTTTCATTG
ATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCACTTCTC
TGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCACTTT
ATTACTTCGACCTG
Found at i:36190657 original size:627 final size:622
Alignment explanation
Indices: 36189468--36190828 Score: 1909
Period size: 627 Copynumber: 2.2 Consensus size: 622
36189458 CATCATTTGT
* * *
36189468 TTTGATCCACTTCTCTGTGTCTCATCAGGAAGCTGGGGTTCGAAGATTCGCTCACATTGAGCTTG
1 TTTGATCTACTTCTCAGTATCTCATCAGGAAGCT-GGGTTCGAAGATTCGCTCACATTGAGCTTG
* * * **
36189533 GTTTCATTGATTTGGTATACTTCTTAGTATCTCATCAGGAAGATGACCGCATCATTTGTTTTGAT
65 GTTTCATTGATTTGGTATACTTCTCAGTATCTCATCAGGAAGATGACCACATCATTTATTTCAAT
* * *** * * *
36189598 CCACTTCTCTGTGTCTCATTAGGAAGATGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGGT
130 CCACTTCTCTGTATCTCATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCT
* * * * *
36189663 AACCATTTTATTACTTCGACCTGTTTCTCAGTATCTCATCAGGAAGTTGTCGAAGATTTGCTTAC
195 AACCACTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTGGTCGAAGATTCGCTCAC
* *
36189728 TTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCAC
260 TTCGAGCCTGGTTTCATTAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCAC
*
36189793 TTGTTTCAATCCGCTTCTATGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTTAGTATCTCA
325 TTGTTTCAATCCGCTTCTATGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCA
* * *
36189858 TCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTT
390 TCAGGAAGCTAACCACTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGAGGTTC
* * *
36189923 GAAGATTCGCTCACATTGAGCTTGGTTTTATTGATTTGATCTACTTCTCAATATCTCATCAGGAA
455 GAAGATTCGCTCACATTGAGCTTGGTTTCACTGATTTGATCTACTTCTCAATATCTCATCAAGAA
** * *
36189988 GATGATTGCATCACTTGTTTTAATCTACTTCTCTGTGTCTCATCAAGAAGACGGATCTGGTTCAC
520 GATGACCGCATCACTTGTTTTAATCCACTTCTCTGTGTCTCATCAAGAAGACGGATCTGATTCAC
*
36190053 TACTCTGTATCTCATCAAGAAGGTAACCGTTTTATTAC
585 TACTCTGTATCTCATCAAGAAGGTAACCGCTTTATTAC
* *
36190091 TTTGATCTACTTCTCAGTATCTCATCAGGAAGTTAGGGTTCGAAGATTCGCTCACATCGAGTCTT
1 TTTGATCTACTTCTCAGTATCTCATCAGGAAGCT-GGGTTCGAAGATTCGCTCACATTGAG-CTT
* * *
36190156 -GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGACCACATTATTTATTTCAA
64 GGTTTCATTGATTTGGTATACTTCTCAGTATCTCATCAGGAAGATGACCACATCATTTATTTCAA
* * *
36190220 TCCGCTTCTTTGTATCTCATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCGGGAAGC
129 TCCACTTCTCTGTATCTCATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGC
* * *
36190285 TGACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTCG
194 TAACCACTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAG-T--GG-TCGAAGATTCG
*
36190350 CTCA-TATCGAGCCTTGTTTCATTAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCG
255 CTCACT-TCGAGCCTGGTTTCATTAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCG
* *
36190414 CATCATTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGT
319 CATCACTTGTTTCAATCCGCTTCTATGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGT
* * * * * *
36190479 ATCTGATCAGGAAGCTGA-CAGCTTTATTGCTTTGACCTGCTTTTTAGTATCTCATCAGGAAGCT
384 ATCTCATCAGGAAGCTAACCA-CTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT
* * * * * *
36190543 GAGGTTCGAAGTTTCGCTCATATTGAGCTTTGTTTCACTGATTTGGTCTACTTCTCAGTATCTTA
448 GAGGTTCGAAGATTCGCTCACATTGAGCTTGGTTTCACTGATTTGATCTACTTCTCAATATCTCA
* * *
36190608 TCAAGAAGATGACCGCCTCACTTGTTTTGATCCACTTCTCTGTGTCTCATCAGGAAGACGGATCT
513 TCAAGAAGATGACCGCATCACTTGTTTTAATCCACTTCTCTGTGTCTCATCAAGAAGACGGATCT
* * *
36190673 GATTCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGC
578 GATTCACTACTCTGTATCTCATCAAGAAGGTAACCGCTTTATTAC
* * * * * *
36190718 TTCGACCTGCTTCTCAGCATCTCATCAGGAAGCTGAGGTTCGAAGATTCACTCACTTTGAGCTTG
1 TTTGATCTACTTCTCAGTATCTCATCAGGAAGCTG-GGTTCGAAGATTCGCTCACATTGAGCTTG
* ** * *
36190783 GTTTTATCAAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGA
65 GTTTCATTGATTTGGTATACTTCTCAGTATCTCATCAGGAAGATGA
36190829 TCGCCTCATT
Statistics
Matches: 646, Mismatches: 83, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
623 207 0.32
624 4 0.01
626 8 0.01
627 427 0.66
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (622 bp):
TTTGATCTACTTCTCAGTATCTCATCAGGAAGCTGGGTTCGAAGATTCGCTCACATTGAGCTTGG
TTTCATTGATTTGGTATACTTCTCAGTATCTCATCAGGAAGATGACCACATCATTTATTTCAATC
CACTTCTCTGTATCTCATCAGGAAGACAAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTA
ACCACTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGTGGTCGAAGATTCGCTCACT
TCGAGCCTGGTTTCATTAATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACT
TGTTTCAATCCGCTTCTATGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCAT
CAGGAAGCTAACCACTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGAGGTTCG
AAGATTCGCTCACATTGAGCTTGGTTTCACTGATTTGATCTACTTCTCAATATCTCATCAAGAAG
ATGACCGCATCACTTGTTTTAATCCACTTCTCTGTGTCTCATCAAGAAGACGGATCTGATTCACT
ACTCTGTATCTCATCAAGAAGGTAACCGCTTTATTAC
Found at i:36202763 original size:23 final size:23
Alignment explanation
Indices: 36202715--36202886 Score: 188
Period size: 23 Copynumber: 7.5 Consensus size: 23
36202705 TATACGGAAC
* * *
36202715 AAACAGAGCGTAC-CAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
36202737 -AACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
36202759 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
36202782 AATCAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
36202805 AATCAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
36202828 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
36202851 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
36202876 AAACAGAGAGC
1 AAACAGAGAGC
36202887 GCGCTAGTGT
Statistics
Matches: 130, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
21 10 0.08
22 7 0.05
23 94 0.72
24 2 0.02
25 16 0.12
26 1 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:36202795 original size:46 final size:46
Alignment explanation
Indices: 36202715--36202862 Score: 219
Period size: 46 Copynumber: 3.2 Consensus size: 46
36202705 TATACGGAAC
*
36202715 AAACAGAGCGTAC-CAAAGTACTAA-CAGAGAGCACACACAGTGCT
1 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACACACAGTGCT
*
36202759 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACACAAAGTGCT
1 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACACACAGTGCT
* * *
36202805 AATCAGAGAGCACACAAAGTGCTAATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACACACAGTGCT
36202851 AATAACAGAGAG
1 -A-AACAGAGAG
36202863 CACGAGACGT
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
44 12 0.13
45 11 0.12
46 61 0.66
47 1 0.01
48 8 0.09
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.12
Consensus pattern (46 bp):
AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACACACAGTGCT
Found at i:36206694 original size:18 final size:18
Alignment explanation
Indices: 36206662--36206713 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
36206652 CAGGAACGAG
36206662 AATAAATTT--TTAATTA
1 AATAAATTTAATTAATTA
36206678 AATAAATTTAATTAATTA
1 AATAAATTTAATTAATTA
*
36206696 AA-AAGTTTACATTAATTA
1 AATAAATTTA-ATTAATTA
36206714 TTCCTTGAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 9 0.28
17 6 0.19
18 17 0.53
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
AATAAATTTAATTAATTA
Found at i:36207847 original size:26 final size:25
Alignment explanation
Indices: 36207782--36207849 Score: 64
Period size: 27 Copynumber: 2.6 Consensus size: 25
36207772 TGGAGATGTG
* *
36207782 TTTTTGTAAAAAAAATATATTTTTA
1 TTTTTTTAAAAAAAATAAATTTTTA
** *
36207807 TTTACTTTTTTAAAAAGTAAATTTTATA
1 TTT--TTTTAAAAAAAATAAATTTT-TA
36207835 TTTTTTTAAAAAAAA
1 TTTTTTTAAAAAAAA
36207850 ATTGGAACAG
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
25 3 0.09
26 9 0.28
27 15 0.47
28 5 0.16
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (25 bp):
TTTTTTTAAAAAAAATAAATTTTTA
Found at i:36209081 original size:96 final size:96
Alignment explanation
Indices: 36208908--36209117 Score: 332
Period size: 96 Copynumber: 2.2 Consensus size: 96
36208898 ATATGATCGC
* * *
36208908 TACT-CTTTACCCAAAAATACTGGTATCAGGCATCTTCTACACTTGGTACATACTACTTTCCATC
1 TACTGCTTT-CCCAAAATTACTAGTATCAGGCATCTTCAACACTTGGTACATACTACTTTCCATC
* *
36208972 CTTCACCTCCAGGAATTCGAGCAGAAGTACCA
65 CTTCACCTCCAGGAATCCAAGCAGAAGTACCA
*
36209004 TACTGCTTTCCCAAAATTACTAGTATCAGGCATCTTCAACGCTTGGTACATACTACTTTCCATCC
1 TACTGCTTTCCCAAAATTACTAGTATCAGGCATCTTCAACACTTGGTACATACTACTTTCCATCC
*
36209069 TTCACCTCCAGGAATCCAAGCAGAAGTAGCA
66 TTCACCTCCAGGAATCCAAGCAGAAGTACCA
36209100 TACTGCTTTCCCAGAAAT
1 TACTGCTTTCCCA-AAAT
36209118 AGTTTCCAAA
Statistics
Matches: 105, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
96 97 0.92
97 8 0.08
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (96 bp):
TACTGCTTTCCCAAAATTACTAGTATCAGGCATCTTCAACACTTGGTACATACTACTTTCCATCC
TTCACCTCCAGGAATCCAAGCAGAAGTACCA
Found at i:36211861 original size:28 final size:26
Alignment explanation
Indices: 36211796--36211861 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 26
36211786 GAAGAGAATG
36211796 AAAAAA-GAAAAGAAAAATTAAAATA
1 AAAAAATGAAAAGAAAAATTAAAATA
*
36211821 AAAGAACAT-AAAAGAAAAACTTAAAATGC
1 AAA-AA-ATGAAAAGAAAAA-TTAAAAT-A
*
36211850 ACAAAATGAAAA
1 AAAAAATGAAAA
36211862 AACATGGGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
25 3 0.09
26 2 0.06
27 13 0.39
28 13 0.39
29 2 0.06
ACGTcount: A:0.73, C:0.06, G:0.09, T:0.12
Consensus pattern (26 bp):
AAAAAATGAAAAGAAAAATTAAAATA
Found at i:36213603 original size:27 final size:27
Alignment explanation
Indices: 36213565--36213621 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
36213555 GTTCTTTGGT
* *
36213565 AGAAACTTATGACCATCGGTGTAGCTC
1 AGAAACTGATGACCATCGGTCTAGCTC
* * *
36213592 AGAAACTGATGATCATTGGTCTATCTC
1 AGAAACTGATGACCATCGGTCTAGCTC
36213619 AGA
1 AGA
36213622 GTTCTACTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (27 bp):
AGAAACTGATGACCATCGGTCTAGCTC
Found at i:36218692 original size:31 final size:31
Alignment explanation
Indices: 36218659--36218730 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
36218649 CAACTTAGCT
* *
36218659 TTTTTTAAAA-AATTAAATTTGACTATCAAC
1 TTTTTAAAAATAATCAAATTTGACTATCAAC
*
36218689 TTTTTAAAAATAATCGAATTTGACTATCAAC
1 TTTTTAAAAATAATCAAATTTGACTATCAAC
*
36218720 GTTTTGAAAAA
1 -TTTTTAAAAA
36218731 AAGTCGAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 9 0.25
31 18 0.50
32 9 0.25
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
TTTTTAAAAATAATCAAATTTGACTATCAAC
Found at i:36218738 original size:32 final size:31
Alignment explanation
Indices: 36218674--36218738 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
36218664 TAAAAAATTA
*
36218674 AATTTGACTATCAACTTTTTAAAAATAATCG
1 AATTTGACTATCAACTTTTGAAAAATAATCG
36218705 AATTTGACTATCAACGTTTTGAAAAA-AAGTCG
1 AATTTGACTATCAAC-TTTTGAAAAATAA-TCG
36218737 AA
1 AA
36218739 ATGATATCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 17 0.55
32 14 0.45
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (31 bp):
AATTTGACTATCAACTTTTGAAAAATAATCG
Found at i:36220161 original size:7 final size:7
Alignment explanation
Indices: 36220149--36220198 Score: 75
Period size: 7 Copynumber: 7.0 Consensus size: 7
36220139 AAAATTAGTA
36220149 CATTTTT
1 CATTTTT
36220156 CATTTTTTT
1 CA--TTTTT
36220165 CATTTTT
1 CATTTTT
36220172 CATTTTT
1 CATTTTT
36220179 CATTTTT
1 CATTTTT
36220186 CATTTTT
1 CATTTTT
36220193 -ATTTTT
1 CATTTTT
36220199 AGTTTTAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.15
7 28 0.68
9 7 0.17
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (7 bp):
CATTTTT
Found at i:36220184 original size:6 final size:5
Alignment explanation
Indices: 36220182--36220239 Score: 62
Period size: 5 Copynumber: 10.4 Consensus size: 5
36220172 CATTTTTCAT
36220182 TTTTCA TTTTTA TTTTTA GTTTTA GTTTTA TTTTA TTTTA TTTTA TTTTTA
1 TTTT-A TTT-TA T-TTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA -TTTTA
36220233 TTTTA TT
1 TTTTA TT
36220240 ATGTACTATT
Statistics
Matches: 48, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
5 22 0.46
6 22 0.46
7 4 0.08
ACGTcount: A:0.17, C:0.02, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:36220215 original size:5 final size:5
Alignment explanation
Indices: 36220189--36220239 Score: 66
Period size: 5 Copynumber: 9.4 Consensus size: 5
36220179 CATTTTTCAT
36220189 TTTTA TTTTTA GTTTTA GTTTTA TTTTA TTTTA TTTTA TTTTTA TTTTA
1 TTTTA -TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA
36220238 TT
1 TT
36220240 ATGTACTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
5 22 0.51
6 21 0.49
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:36220231 original size:21 final size:22
Alignment explanation
Indices: 36220175--36220256 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 22
36220165 CATTTTTCAT
36220175 TTTTCATTTTTCATTTTTATTTTTAG
1 TTTT-ATTTTT-A-TTTTA-TTTTAG
*
36220201 TTTTAGTTTTATTTTATTTTA-
1 TTTTATTTTTATTTTATTTTAG
*
36220222 TTTTATTTTTATTTTATTAT-G
1 TTTTATTTTTATTTTATTTTAG
**
36220243 TACTATTTTTATTT
1 TTTTATTTTTATTT
36220257 CTATGGTTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
21 30 0.60
22 5 0.10
23 5 0.10
24 1 0.02
25 5 0.10
26 4 0.08
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (22 bp):
TTTTATTTTTATTTTATTTTAG
Found at i:36220255 original size:6 final size:6
Alignment explanation
Indices: 36220160--36220236 Score: 79
Period size: 6 Copynumber: 12.7 Consensus size: 6
36220150 ATTTTTCATT
* *
36220160 TTTTTCA TTTTTCA TTTTTCA TTTTTCA TTTTTA TTTTTA GTTTTA GTTTTA
1 TTTTT-A TTTTT-A TTTTT-A TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA
36220212 -TTTTA -TTTTA -TTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
36220237 ATTATGTACT
Statistics
Matches: 68, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
5 15 0.22
6 27 0.40
7 26 0.38
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:36228998 original size:84 final size:84
Alignment explanation
Indices: 36228822--36228998 Score: 257
Period size: 84 Copynumber: 2.1 Consensus size: 84
36228812 TTCCACCTTT
* * *
36228822 CAGGAATCCAAGCAGACGTAGCAAGAGAAGTGAATCTCCAAATCTTAATGAACTCAATGCTTAGC
1 CAGGAATCCAAGCAGAAGTAGCAAGAGAAGAGAATCTCCAAATCTTAATGAACTCAATGCCTAGC
36228887 GCAACAGACCTGGAAAAGG
66 GCAACAGACCTGGAAAAGG
* * * *
36228906 CAGAAATCCAAGCAGAAGTAG-ATAGAGAAGAGAATCTCCAGATCTTACTGAACTCGATGCCTAG
1 CAGGAATCCAAGCAGAAGTAGCA-AGAGAAGAGAATCTCCAAATCTTAATGAACTCAATGCCTAG
*
36228970 CGCAACAGAGCTGGAAAAGG
65 CGCAACAGACCTGGAAAAGG
*
36228990 CGGGAATCC
1 CAGGAATCC
36228999 GTTTCTTACC
Statistics
Matches: 82, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
83 1 0.01
84 81 0.99
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.16
Consensus pattern (84 bp):
CAGGAATCCAAGCAGAAGTAGCAAGAGAAGAGAATCTCCAAATCTTAATGAACTCAATGCCTAGC
GCAACAGACCTGGAAAAGG
Found at i:36233178 original size:27 final size:27
Alignment explanation
Indices: 36233140--36233193 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
36233130 CTAACATAGC
36233140 TAACTATCACAACACTCTATAGCATTG
1 TAACTATCACAACACTCTATAGCATTG
36233167 TAACTATCACAACACTCTATAGCATTG
1 TAACTATCACAACACTCTATAGCATTG
36233194 ATTTCATTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (27 bp):
TAACTATCACAACACTCTATAGCATTG
Found at i:36237734 original size:58 final size:58
Alignment explanation
Indices: 36237646--36237791 Score: 174
Period size: 58 Copynumber: 2.5 Consensus size: 58
36237636 ATATATTATA
* * *
36237646 ATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAA-AT-ATT-ATTAAATTACAT
1 ATTTTTATTAAATT-ATA-TTTAATAATAATTATACTAAAATATAATTAAATAAATTA-AT
* *
36237703 ATTATTTTATTAAATTGTATTTAATAATAATTATGCTAAAATATAATTAAATAAATTAAT
1 A-T-TTTTATTAAATTATATTTAATAATAATTATACTAAAATATAATTAAATAAATTAAT
36237763 ATTTTTATTAAATTATATTTAATAATAAT
1 ATTTTTATTAAATTATATTTAATAATAAT
36237792 CATTAAAATT
Statistics
Matches: 77, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
57 1 0.01
58 47 0.61
59 11 0.14
60 10 0.13
61 8 0.10
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (58 bp):
ATTTTTATTAAATTATATTTAATAATAATTATACTAAAATATAATTAAATAAATTAAT
Found at i:36237930 original size:39 final size:44
Alignment explanation
Indices: 36237875--36237979 Score: 114
Period size: 46 Copynumber: 2.5 Consensus size: 44
36237865 TTTCTTATGC
*
36237875 TATTACAGCATC-ATTCCATT-CAACCAA-ACACAA-GAA-TA-T
1 TATTACAGC-TCTATTCCATTCCAACCAACAAACAATGAATTACT
*
36237914 TATTACAGCTCTATTCCATTCCAATCAACCAAACAATTGAATTACT
1 TATTACAGCTCTATTCCATTCCAACCAA-CAAACAA-TGAATTACT
*
36237960 GATTACAGCTCTATTCCATT
1 TATTACAGCTCTATTCCATT
36237980 ACAGCTCTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
38 2 0.04
39 17 0.31
40 6 0.11
42 5 0.09
44 3 0.05
45 2 0.04
46 20 0.36
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (44 bp):
TATTACAGCTCTATTCCATTCCAACCAACAAACAATGAATTACT
Found at i:36237978 original size:46 final size:44
Alignment explanation
Indices: 36237886--36237979 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
36237876 ATTACAGCAT
* *
36237886 CATTCCATTCAACCAAACACAAGAATATTATTACAGCTCTATTC
1 CATTCCAATCAACCAAACACAAGAATATGATTACAGCTCTATTC
*
36237930 CATTCCAATCAACCAAACA-ATTGAATTACTGATTACAGCTCTATTC
1 CATTCCAATCAACCAAACACA-AGAA-TA-TGATTACAGCTCTATTC
36237976 CATT
1 CATT
36237980 ACAGCTCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 2 0.05
46 20 0.45
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCCAATCAACCAAACACAAGAATATGATTACAGCTCTATTC
Found at i:36237982 original size:16 final size:16
Alignment explanation
Indices: 36237961--36238032 Score: 117
Period size: 16 Copynumber: 4.5 Consensus size: 16
36237951 TGAATTACTG
36237961 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
36237977 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
36237993 ATTACAGTTCTATTCT
1 ATTACAGCTCTATTCC
*
36238009 ATTACACCTCTATTCC
1 ATTACAGCTCTATTCC
36238025 ATTACAGC
1 ATTACAGC
36238033 GAACCAAACG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:36243736 original size:75 final size:75
Alignment explanation
Indices: 36243599--36243740 Score: 239
Period size: 75 Copynumber: 1.9 Consensus size: 75
36243589 CCTTCAAGTG
* * *
36243599 CAGCCATCCAATACAGATCATAAATAGATAACTGAAAGATTTAAGAGATCTAAAAGGGAAGTAAT
1 CAGCCATCCAATACAGATCATAAACAGACAACTGAAAGATTTAAGAGATCTAAAAGGAAAGTAAT
36243664 TTAACATAAA
66 TTAACATAAA
* *
36243674 CAGCTATCCGATACAGATCATAAACAGACAACTGAAAGATTTAAGAGATCTAAAAGGAAAGTAAT
1 CAGCCATCCAATACAGATCATAAACAGACAACTGAAAGATTTAAGAGATCTAAAAGGAAAGTAAT
36243739 TT
66 TT
36243741 CCTCCTTGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 62 1.00
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.23
Consensus pattern (75 bp):
CAGCCATCCAATACAGATCATAAACAGACAACTGAAAGATTTAAGAGATCTAAAAGGAAAGTAAT
TTAACATAAA
Found at i:36248494 original size:183 final size:183
Alignment explanation
Indices: 36248177--36248515 Score: 475
Period size: 183 Copynumber: 1.9 Consensus size: 183
36248167 ATGGTACTCG
*
36248177 GTGCCCAGCGGATAAATCGCAAAAGTAAGCCCAGCTCTAGTTAAATTAACCAACAATAATTCCGT
1 GTGCCCAGCGGATAAATCGCAAAAGTAAGCCCAGCTCTAGTTAAATTAACCAACAATAATTCCAT
* * * * * *
36248242 CAATTCCTGGTACCTAATGCCTAGTGGATAAACCGCAAAAGTGAGCCCAGCTCTAATTGGATTAA
66 CAAATCCTAGCACCCAATGCCTAGTGGATAAACCGCAAAAGTGAACCCAGCTCTAATTGGATCAA
** *
36248307 CCAACGGTTTTGCGCCCAGCGCTAGTCGGGTAAACCGACGATCCTGGCACCCA
131 CCAACGGTTTTAAGCCCAACGCTAGTCGGGTAAACCGACGATCCTGGCACCCA
* * * *
36248360 GTGCCTAGCGGATAAATCGCAAAGGTGAGCCC-GACTCTAGTTAGATTAACCAACAAATAA-TCC
1 GTGCCCAGCGGATAAATCGCAAAAGTAAGCCCAG-CTCTAGTTAAATTAACCAAC-AATAATTCC
* * * * *
36248423 ATCAAATCCTAGCACCCAGTGCCTAGTGGATAAACCTCAAAAGTGAACTCAGTTCTAGTTGGATC
64 ATCAAATCCTAGCACCCAATGCCTAGTGGATAAACCGCAAAAGTGAACCCAGCTCTAATTGGATC
36248488 AACCAACGGTTTTAAGCCCAACGCTAGT
129 AACCAACGGTTTTAAGCCCAACGCTAGT
36248516 TAGTTAAACT
Statistics
Matches: 135, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
182 1 0.01
183 129 0.96
184 5 0.04
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (183 bp):
GTGCCCAGCGGATAAATCGCAAAAGTAAGCCCAGCTCTAGTTAAATTAACCAACAATAATTCCAT
CAAATCCTAGCACCCAATGCCTAGTGGATAAACCGCAAAAGTGAACCCAGCTCTAATTGGATCAA
CCAACGGTTTTAAGCCCAACGCTAGTCGGGTAAACCGACGATCCTGGCACCCA
Found at i:36250130 original size:18 final size:18
Alignment explanation
Indices: 36250079--36250131 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
36250069 TAATTTTTTA
* *
36250079 TATTATTAAATTTTTAAT
1 TATTTTTAAATTTATAAT
* *
36250097 TATTTTTAGATATTATATT
1 TATTTTTAAAT-TTATAAT
*
36250116 TTTTTTTAAATTTATA
1 TATTTTTAAATTTATA
36250132 CACATTTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TATTTTTAAATTTATAAT
Found at i:36255967 original size:31 final size:31
Alignment explanation
Indices: 36255929--36255990 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
36255919 CCAAGAAACC
*
36255929 TAAAAAGACAGAGTTGAATTTCATAATGAAA
1 TAAAAAGACACAGTTGAATTTCATAATGAAA
36255960 TAAAAAGACACAGTTGAATTTCATAATGAAA
1 TAAAAAGACACAGTTGAATTTCATAATGAAA
36255991 CTGTAGATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.52, C:0.08, G:0.15, T:0.26
Consensus pattern (31 bp):
TAAAAAGACACAGTTGAATTTCATAATGAAA
Found at i:36262233 original size:46 final size:44
Alignment explanation
Indices: 36262165--36262278 Score: 122
Period size: 48 Copynumber: 2.5 Consensus size: 44
36262155 ACACTAGCAC
* *
36262165 GCCCTCTATTTAGCACGTTTCGTGCCCTCT-ATTTAGCACTGTGTGT
1 GCCCTCTATTAAGTAC--TTCGTGCCCTCTGA-TTAGCACTGTGTGT
*
36262211 GCCCTCTATTATTAGTACTTCGTGTGCCCTCTGATTAGCACTTTGTGT
1 GCCCTCTATTA--AGTACTTC--GTGCCCTCTGATTAGCACTGTGTGT
*
36262259 GCCCTCTGTTAAGTACTTCG
1 GCCCTCTATTAAGTACTTCG
36262279 GTACTTTCTG
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
44 1 0.02
46 21 0.36
48 36 0.61
49 1 0.02
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.39
Consensus pattern (44 bp):
GCCCTCTATTAAGTACTTCGTGCCCTCTGATTAGCACTGTGTGT
Found at i:36262251 original size:48 final size:46
Alignment explanation
Indices: 36262186--36262278 Score: 134
Period size: 48 Copynumber: 2.0 Consensus size: 46
36262176 AGCACGTTTC
36262186 GTGCCCTCTATTTAGCACTGTGTGTGCCCTCTATTATTAGTACTTCGT
1 GTGCCCTCTATTTAGCACTGTGTGTGCCCTCTATTA--AGTACTTCGT
* *
36262234 GTGCCCTCTGA-TTAGCACTTTGTGTGCCCTCTGTTAAGTACTTCG
1 GTGCCCTCT-ATTTAGCACTGTGTGTGCCCTCTATTAAGTACTTCG
36262279 GTACTTTCTG
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
46 9 0.21
48 32 0.76
49 1 0.02
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.40
Consensus pattern (46 bp):
GTGCCCTCTATTTAGCACTGTGTGTGCCCTCTATTAAGTACTTCGT
Found at i:36262266 original size:23 final size:23
Alignment explanation
Indices: 36262165--36262265 Score: 116
Period size: 23 Copynumber: 4.3 Consensus size: 23
36262155 ACACTAGCAC
*
36262165 GCCCTCTATTTAGCACGTTT-CGT
1 GCCCTCTATTTAGCAC-TTTGTGT
*
36262188 GCCCTCTATTTAGCACTGTGTGT
1 GCCCTCTATTTAGCACTTTGTGT
* *
36262211 GCCCTCTATTATTAGTACTTCGTGT
1 GCCCTCTA-T-TTAGCACTTTGTGT
36262236 GCCCTCTGA-TTAGCACTTTGTGT
1 GCCCTCT-ATTTAGCACTTTGTGT
36262259 GCCCTCT
1 GCCCTCT
36262266 GTTAAGTACT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
22 2 0.03
23 45 0.67
24 1 0.01
25 18 0.27
26 1 0.01
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.40
Consensus pattern (23 bp):
GCCCTCTATTTAGCACTTTGTGT
Found at i:36270626 original size:16 final size:16
Alignment explanation
Indices: 36270605--36270638 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36270595 AAATTTATAT
*
36270605 TTAATATATCTAAATA
1 TTAATAAATCTAAATA
*
36270621 TTAATAAATTTAAATA
1 TTAATAAATCTAAATA
36270637 TT
1 TT
36270639 GTTTATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAATAAATCTAAATA
Found at i:36272313 original size:15 final size:15
Alignment explanation
Indices: 36272293--36272324 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
36272283 AAATATGAAC
36272293 TTCATTTGAAACAAT
1 TTCATTTGAAACAAT
36272308 TTCATTTGAAACAAT
1 TTCATTTGAAACAAT
36272323 TT
1 TT
36272325 TATTAAACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (15 bp):
TTCATTTGAAACAAT
Found at i:36280172 original size:19 final size:19
Alignment explanation
Indices: 36280134--36280172 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
36280124 AGTCCTCAGT
*
36280134 TTATTGCTTAAACTCTAAA
1 TTATTGCTTAAACTCAAAA
36280153 TTATT-CTTAAACTTCAAAA
1 TTATTGCTTAAAC-TCAAAA
36280172 T
1 T
36280173 ATTTTAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (19 bp):
TTATTGCTTAAACTCAAAA
Found at i:36281361 original size:17 final size:18
Alignment explanation
Indices: 36281339--36281380 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
36281329 TTTAATCATT
36281339 TAAATT-TTATAAA-AATA
1 TAAATTATTA-AAATAATA
36281356 TAAATTATTAAAATAATA
1 TAAATTATTAAAATAATA
36281374 -AAATTAT
1 TAAATTAT
36281381 ATTTTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATTATTAAAATAATA
Found at i:36281409 original size:22 final size:23
Alignment explanation
Indices: 36281345--36281409 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 23
36281335 CATTTAAATT
*
36281345 TTATAAAA-ATATAAATTATTAAAA
1 TTATAAAATATATAATTTATT--AA
* *
36281369 TAATAAAAT-TATATTTTTATT-A
1 TTATAAAATATATA-ATTTATTAA
36281391 TTATAAAATATATAATTTA
1 TTATAAAATATATAATTTA
36281410 ATTCTACCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
22 13 0.39
23 4 0.12
24 11 0.33
25 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTATAAAATATATAATTTATTAA
Found at i:36291007 original size:11 final size:11
Alignment explanation
Indices: 36290993--36291080 Score: 63
Period size: 11 Copynumber: 8.1 Consensus size: 11
36290983 TATTCAAATC
*
36290993 ATAATAATAAA
1 ATAACAATAAA
36291004 ATAACAA-AAA
1 ATAACAATAAA
* *
36291014 TATAATAACAAA
1 -ATAACAATAAA
*
36291026 ATGACAATAAA
1 ATAACAATAAA
*
36291037 ATAACAAAAAA
1 ATAACAATAAA
* *
36291048 ATGACAA-CAA
1 ATAACAATAAA
* * *
36291058 ACAATAACAAA
1 ATAACAATAAA
36291069 ATAACAATAAA
1 ATAACAATAAA
36291080 A
1 A
36291081 AAATTTAAAT
Statistics
Matches: 58, Mismatches: 16, Indels: 6
0.73 0.20 0.08
Matches are distributed among these distances:
10 9 0.16
11 46 0.79
12 3 0.05
ACGTcount: A:0.72, C:0.10, G:0.02, T:0.16
Consensus pattern (11 bp):
ATAACAATAAA
Found at i:36291018 original size:22 final size:21
Alignment explanation
Indices: 36290993--36291080 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 21
36290983 TATTCAAATC
*
36290993 ATAATAATAAAATAACAAAAA
1 ATAATAACAAAATAACAAAAA
*
36291014 TATAATAACAAAATGACAATAAA
1 -ATAATAACAAAATAACAA-AAA
* * * *
36291037 ATAACAAAAAAATGACAACAA
1 ATAATAACAAAATAACAAAAA
*
36291058 ACAATAACAAAATAACAATAAA
1 ATAATAACAAAATAACAA-AAA
36291080 A
1 A
36291081 AAATTTAAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
21 16 0.30
22 35 0.65
23 3 0.06
ACGTcount: A:0.72, C:0.10, G:0.02, T:0.16
Consensus pattern (21 bp):
ATAATAACAAAATAACAAAAA
Found at i:36293370 original size:21 final size:21
Alignment explanation
Indices: 36293330--36293371 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36293320 TGTGCCTGCG
*
36293330 TTTCTTTAGTTATTTATTTAT
1 TTTCTTTAGTGATTTATTTAT
36293351 TTTCTTTAGCTGATTT-TTTAT
1 TTTCTTTAG-TGATTTATTTAT
36293372 ACATGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.69
Consensus pattern (21 bp):
TTTCTTTAGTGATTTATTTAT
Found at i:36301431 original size:17 final size:17
Alignment explanation
Indices: 36301409--36301441 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36301399 TTTTCTCGGA
36301409 TATAATTAAAATCTTTT
1 TATAATTAAAATCTTTT
*
36301426 TATAATTGAAATCTTT
1 TATAATTAAAATCTTT
36301442 GTACTTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (17 bp):
TATAATTAAAATCTTTT
Found at i:36303382 original size:27 final size:27
Alignment explanation
Indices: 36303340--36303391 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
36303330 TCATTAGTGG
36303340 GTAACTCACCAAAAGAGGAAGATTCGA
1 GTAACTCACCAAAAGAGGAAGATTCGA
*
36303367 GTAACTCACCAGAAGAGGAAGATTC
1 GTAACTCACCAAAAGAGGAAGATTC
36303392 TTGGCACATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.15
Consensus pattern (27 bp):
GTAACTCACCAAAAGAGGAAGATTCGA
Found at i:36303522 original size:17 final size:19
Alignment explanation
Indices: 36303488--36303528 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
36303478 TAATTTCCTT
36303488 TTGAATAGTAGTCTT-CCC
1 TTGAATAGTAGTCTTCCCC
*
36303506 TTGAGTAGTAG-CTTCCCC
1 TTGAATAGTAGTCTTCCCC
36303524 TTGAA
1 TTGAA
36303529 CAATGGTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (19 bp):
TTGAATAGTAGTCTTCCCC
Found at i:36305952 original size:74 final size:77
Alignment explanation
Indices: 36305854--36306004 Score: 238
Period size: 78 Copynumber: 2.0 Consensus size: 77
36305844 TGTACAATTA
36305854 ATCAATAAGTTTGACTCAATCCCA-GA-AGAG-AT-TATATATATTTGAAACTGATCACTGGAGA
1 ATCAATAAGTTTGACTCAATCCCAGGAGAGAGTATATATATATATTTGAAACTGATCACTGGAGA
*
36305915 ATACGGGCTAAC
66 ATACAGGCTAAC
* *
36305927 ATCAATAAGTTTGGACTCAATCCCAGGAGGGAGTATATATATATATTTGAAGCTGATCACTGGAG
1 ATCAATAAGTTT-GACTCAATCCCAGGAGAGAGTATATATATATATTTGAAACTGATCACTGGAG
36305992 AATACAGGCTAAC
65 AATACAGGCTAAC
36306005 TAATAGACTA
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
73 12 0.17
74 12 0.17
75 2 0.03
76 3 0.04
77 2 0.03
78 39 0.56
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (77 bp):
ATCAATAAGTTTGACTCAATCCCAGGAGAGAGTATATATATATATTTGAAACTGATCACTGGAGA
ATACAGGCTAAC
Done.