Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009152.1 Hibiscus syriacus cultivar Beakdansim tig00112678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 885575
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
File 2 of 4
Found at i:183362 original size:21 final size:23
Alignment explanation
Indices: 183338--183383 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
183328 TGATCGTTAC
183338 ATATGATGTT-ATCATGAAT-AT
1 ATATGATGTTAATCATGAATGAT
*
183359 ATATGATTTTAATCATGAATGAT
1 ATATGATGTTAATCATGAATGAT
183382 AT
1 AT
183384 TATGGGTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 9 0.41
23 4 0.18
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.43
Consensus pattern (23 bp):
ATATGATGTTAATCATGAATGAT
Found at i:183817 original size:23 final size:23
Alignment explanation
Indices: 183790--183834 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
183780 ACGAAACTTG
183790 ATTAATAAATGGCAAGTATATTC
1 ATTAATAAATGGCAAGTATATTC
183813 ATTAATAAATGGCAAGTATATT
1 ATTAATAAATGGCAAGTATATT
183835 GGTAAGAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (23 bp):
ATTAATAAATGGCAAGTATATTC
Found at i:199030 original size:16 final size:15
Alignment explanation
Indices: 199001--199030 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
198991 TAAATATTAC
199001 TTATTGAATATATAT
1 TTATTGAATATATAT
199016 TTATATGAATATATA
1 TTAT-TGAATATATA
199031 ATAATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (15 bp):
TTATTGAATATATAT
Found at i:200675 original size:139 final size:140
Alignment explanation
Indices: 200364--200709 Score: 445
Period size: 139 Copynumber: 2.5 Consensus size: 140
200354 CTAGTAAAAA
* * *
200364 GTTG-AACAAATTCTTCTCATTATGAACTTCTTCTTCTTTTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAAACAAATTCTTCTTATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGA
* * * * * * *
200428 AC-TCCTTCTGGAAATGCTGATCTTCAAAAGAGGGATTTGCTGATTCAACTCCATATCTGATGAA
66 ACTTCCTTCTGAAAATACTGATCCTCAAAAGAGGGATTTGCTCAGTCAACTCCATAGCAGATGAA
*
200492 TTAAGGTAAG
131 TCAAGGTAAG
200502 GTTGAAA-AAATTCTTCTTATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAAACAAATTCTTCTTATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGA
* * * * *
200566 ACTTCC-TCTGAAAATATTGATCCTCAAATGA-GG-TTCTTCTTTCAGTCAATTCCATAGGAGAT
66 ACTTCCTTCTGAAAATACTGATCCTCAAAAGAGGGATT-TGC--TCAGTCAACTCCATAGCAGAT
*
200628 GAATCAATGTAAG
128 GAATCAAGGTAAG
* *
200641 GTT-AAACAAGTTCTTCTTATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAAACAAATTCTTCTTATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGA
200705 ACTTC
66 ACTTC
200710 ACCTGGAAAT
Statistics
Matches: 183, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
136 2 0.01
137 4 0.02
138 83 0.45
139 94 0.51
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (140 bp):
GTTGAAACAAATTCTTCTTATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGA
ACTTCCTTCTGAAAATACTGATCCTCAAAAGAGGGATTTGCTCAGTCAACTCCATAGCAGATGAA
TCAAGGTAAG
Found at i:200778 original size:123 final size:122
Alignment explanation
Indices: 200638--201325 Score: 916
Period size: 123 Copynumber: 5.7 Consensus size: 122
200628 GAATCAATGT
* * * *
200638 AAGGTTAAACAAGTTCTTCTTATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
* * * ** * * *
200703 GAAC-TTCACCTGGAAATAGCT-CTGCTTCTCTATCTCTTTCTG-GAAATGGAGTCAAGCA
66 GAACTTTC-TCTGGAAA-AGTTGATGCTGATCTATCTCCTTCTGCG--ATAGAGTCGAGCA
* * *
200761 AAGGTTGAACAAGTTCTTCTTATTATGAA------CTTCCTCTTCAGATAAGGTATTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
* * * * *
200820 GAACTTTCTCTGGAAAAGTTGGTGCTGATCTATCTCGTTCTACGATAAAGTCGTGCAA
66 GAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGCGATAGAGTCGAGC-A
*
200878 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTA
200943 TGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCT-CTTCTGCGATAGAGTC-ATGCAA
65 TGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGCGATAGAGTCGA-GC-A
* * * *
201001 AAGGTTGAACAAGCTATTCTCATTATGAACTTCTTCTTCTTCTTAAGATAAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
* *
201066 GAACTTTCACTGGAAAAGTTGATGCTGATCTATCTCCTTCTGCGATAGAGTCGAGAA
66 GAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGCGATAGAGTCGAGCA
*
201123 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCATCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTA
*
201188 TGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTGCGATAGAGTCGAGCA
65 TGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGCGATAGAGTCGAGCA
*
201246 AAGGTTGAACAAGTTCTTCTCATTATGAACTT-TTCCTTCCTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT-CTTCCTCTTCAGATAAGTTCTTCTCATTA
*
201310 TGAACTCT-TCTGGAAA
65 TGAACTTTCTCTGGAAA
201326 TATTGAAAAC
Statistics
Matches: 509, Mismatches: 40, Indels: 34
0.87 0.07 0.06
Matches are distributed among these distances:
116 11 0.02
117 82 0.16
118 4 0.01
121 8 0.02
122 127 0.25
123 219 0.43
124 58 0.11
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (122 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
GAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGCGATAGAGTCGAGCA
Found at i:201173 original size:245 final size:243
Alignment explanation
Indices: 200638--201315 Score: 928
Period size: 245 Copynumber: 2.8 Consensus size: 243
200628 GAATCAATGT
* * * *
200638 AAGGTTAAACAAGTTCTTCTTATTATGAACTTTTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* * * ** *
200702 TGAAC-TTCACCTGGAAATAGCT-CTGCTTCTCTATCTCTTTCTG-GAAATGGAGTCAAGCAAAG
66 TGAACTTTC-TCTGGAAA-AGTTGATGCTGATCTATCTC-TTCTGCG--ATAGAGTC-AGCAAAG
* * *
200764 GTTGAACAAGTTCTTCTTATTATGAACTTC--C-TCTTC--AGATAAGGTATTCTCATTATGAAC
125 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTAGATAAGTTCTTCTCATTATGAAC
* * * *
200824 TTTCTCTGGAAAAGTTGGTGCTGATCTATCTCGTTCTACGATAAAGTCGTGCAA
190 TTTCACTGGAAAAGTTGATGCTGATCTATCTCCTTCTACGATAAAGTCGAGCAA
*
200878 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
200943 TGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCTTCTGCGATAGAGTCATGCAAAAGGTTG
66 TGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCTTCTGCGATAGAGTCA-GC-AAAGGTTG
* *
201008 AACAAGCTATTCTCATTATGAACTTCTTCTTCTTCTTAAGATAAGTTCTTCTCATTATGAACTTT
129 AACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTT-AGATAAGTTCTTCTCATTATGAACTTT
* *
201073 CACTGGAAAAGTTGATGCTGATCTATCTCCTTCTGCGATAGAGTCGAG-AA
193 CACTGGAAAAGTTGATGCTGATCTATCTCCTTCTACGATAAAGTCGAGCAA
*
201123 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCATCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
*
201188 TGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTGCGATAGAGTCGAGCAAAGGTTG
66 TGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCT-CTTCTGCGATAGAGTC-AGCAAAGGTTG
* *
201253 AACAAGTTCTTCTCATTATGAACTT-TTCCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACT
129 AACAAGTTCTTCTCATTATGAACTTCTT-CTTCTTCTT-AGATAAGTTCTTCTCATTATGAACT
201316 CTTCTGGAAA
Statistics
Matches: 393, Mismatches: 30, Indels: 25
0.88 0.07 0.06
Matches are distributed among these distances:
238 1 0.00
239 9 0.02
240 75 0.19
241 48 0.12
242 4 0.01
243 5 0.01
244 2 0.01
245 163 0.41
246 85 0.22
247 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (243 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
TGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCTTCTGCGATAGAGTCAGCAAAGGTTGAA
CAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTAGATAAGTTCTTCTCATTATGAACTTTCAC
TGGAAAAGTTGATGCTGATCTATCTCCTTCTACGATAAAGTCGAGCAA
Found at i:201500 original size:73 final size:73
Alignment explanation
Indices: 201376--201548 Score: 276
Period size: 73 Copynumber: 2.4 Consensus size: 73
201366 GATGTCTTAT
* * * *
201376 CATCTTGCACTGTAGGGCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGTTT
1 CATCATGCACTGTAGGGCTTACAGATGACCCTAAGGCTTTAAAATCAAAAAGCTCCCGAAGG-CT
201441 TTTTG-AAA
65 TTTTGAAAA
*
201449 CATCATGCACTGTAGGTCTTACAGATGACCCTAAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTT
1 CATCATGCACTGTAGGGCTTACAGATGACCCTAAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTT
201514 TTTGAAAA
66 TTTGAAAA
*
201522 CATCATGCACTGGAGGGCTTACAGATG
1 CATCATGCACTGTAGGGCTTACAGATG
201549 TGGGAAATAG
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
72 6 0.07
73 86 0.93
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (73 bp):
CATCATGCACTGTAGGGCTTACAGATGACCCTAAGGCTTTAAAATCAAAAAGCTCCCGAAGGCTT
TTTGAAAA
Found at i:202229 original size:22 final size:22
Alignment explanation
Indices: 202204--202258 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
202194 AATAAAACTT
*
202204 TCATCTATGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
202226 TCATCTTTGGAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
202248 TCATCTTTGAA
1 TCATCTTTGAA
202259 CAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:206929 original size:7 final size:7
Alignment explanation
Indices: 206917--207045 Score: 190
Period size: 7 Copynumber: 18.7 Consensus size: 7
206907 CTTGATTCAA
*
206917 TTTTTCT
1 TTTTTCC
*
206924 TTTTTCT
1 TTTTTCC
*
206931 TTTTTTC
1 TTTTTCC
206938 TTTTTCC
1 TTTTTCC
*
206945 TTTTTTC
1 TTTTTCC
*
206952 TTTTTCT
1 TTTTTCC
206959 TTTTTCC
1 TTTTTCC
206966 TTTTTCC
1 TTTTTCC
206973 TTTTTCC
1 TTTTTCC
206980 TTTTTCC
1 TTTTTCC
206987 TTTTTCC
1 TTTTTCC
*
206994 TTTTTCT
1 TTTTTCC
207001 TTTTTCC
1 TTTTTCC
207008 TTTTTCC
1 TTTTTCC
207015 TTTTTCC
1 TTTTTCC
207022 TTTTTCC
1 TTTTTCC
207029 TTTTT--
1 TTTTTCC
207034 TTTTTCC
1 TTTTTCC
207041 TTTTT
1 TTTTT
207046 ATGAGTATAG
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
5 5 0.05
7 106 0.95
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTCC
Found at i:209279 original size:18 final size:19
Alignment explanation
Indices: 209240--209284 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
209230 TAAATATTAA
209240 ATAATTTATTTAAAATATAT
1 ATAATTTA-TTAAAATATAT
209260 ATAATTTA-TAAAAGTA-AT
1 ATAATTTATTAAAA-TATAT
209278 AT-ATTTA
1 ATAATTTA
209285 ATTATTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.21
18 9 0.38
19 2 0.08
20 8 0.33
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
ATAATTTATTAAAATATAT
Found at i:209344 original size:126 final size:129
Alignment explanation
Indices: 209123--209361 Score: 319
Period size: 127 Copynumber: 1.9 Consensus size: 129
209113 TAATTTTATG
* * *
209123 AAAATATATTAATTTAAATATAAATAAGATATTTATTTATTTAGAAATATCAGAAAATGGCTTCT
1 AAAATATATTAATTT-AATATAAATAAGATATTTAATTATTTAGAAATATCAGAAAATGGCATCC
*
209188 AGGTGCTTTAAGACAGCTCTTTTCTTAATA-TT-AAAAAATAAATAAATATTAAATAATTTATTT
65 AGGTGCTTTAAGACAGCTCCTTTCTTAATATTTAAAAAAATAAATAAATATTAAATAATTTATTT
*
209251 AAAATATATATAATTT-ATA-AAAGTAATATATTTAATTATTTA-AAATATCAGAAAATGGACAT
1 AAAATATAT-TAATTTAATATAAA-TAAGATATTTAATTATTTAGAAATATCAGAAAATGG-CAT
* * * *
209313 CCAGTTGTTTTAAGACTGC-CCTTTCTTAATATTTAAAAAAATAATTAAA
63 CCAGGTGCTTTAAGACAGCTCCTTTCTTAATATTTAAAAAAATAAATAAA
209362 ATAATTTAAA
Statistics
Matches: 97, Mismatches: 9, Indels: 10
0.84 0.08 0.09
Matches are distributed among these distances:
126 30 0.31
127 39 0.40
128 22 0.23
129 6 0.06
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (129 bp):
AAAATATATTAATTTAATATAAATAAGATATTTAATTATTTAGAAATATCAGAAAATGGCATCCA
GGTGCTTTAAGACAGCTCCTTTCTTAATATTTAAAAAAATAAATAAATATTAAATAATTTATTT
Found at i:209373 original size:11 final size:11
Alignment explanation
Indices: 209349--209386 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
209339 TAATATTTAA
209349 AAAAATAA-TT
1 AAAAATAATTT
209359 -AAAATAATTT
1 AAAAATAATTT
209369 AAAAATAATTT
1 AAAAATAATTT
209380 ATAAAAT
1 A-AAAAT
209387 TTATAAATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.28
10 2 0.08
11 11 0.44
12 5 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAATAATTT
Found at i:209504 original size:2 final size:2
Alignment explanation
Indices: 209497--209541 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
209487 ACTAAAATCA
209497 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
209539 AT A
1 AT A
209542 ATAATAATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:211752 original size:36 final size:36
Alignment explanation
Indices: 211705--211774 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
211695 TCAATTATGT
211705 GGTTAAGCACCTTTATGATTAAATGAATAAAATTTG
1 GGTTAAGCACCTTTATGATTAAATGAATAAAATTTG
211741 GGTTAAGCACCTTTATGATTAAATGAATAAAATT
1 GGTTAAGCACCTTTATGATTAAATGAATAAAATT
211775 AGTTTTGCCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.36
Consensus pattern (36 bp):
GGTTAAGCACCTTTATGATTAAATGAATAAAATTTG
Found at i:222427 original size:15 final size:15
Alignment explanation
Indices: 222407--222435 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
222397 ATAAATAATA
222407 AAAAATGCTAAAATC
1 AAAAATGCTAAAATC
222422 AAAAATGCTAAAAT
1 AAAAATGCTAAAAT
222436 ACTAAGCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.21
Consensus pattern (15 bp):
AAAAATGCTAAAATC
Found at i:222562 original size:16 final size:16
Alignment explanation
Indices: 222537--222578 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
222527 AAACATAAAA
222537 TATGACTTTTCGAAAG
1 TATGACTTTTCGAAAG
*
222553 TATGAGTTTTCGAAAG
1 TATGACTTTTCGAAAG
*
222569 TTTGACTTTT
1 TATGACTTTT
222579 TGATCAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (16 bp):
TATGACTTTTCGAAAG
Found at i:223819 original size:18 final size:18
Alignment explanation
Indices: 223796--223830 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
223786 CATGGAGTTA
223796 AACATCAATATAATATAT
1 AACATCAATATAATATAT
* *
223814 AACATCCATATACTATA
1 AACATCAATATAATATA
223831 GGCAACATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.31
Consensus pattern (18 bp):
AACATCAATATAATATAT
Found at i:227477 original size:29 final size:29
Alignment explanation
Indices: 227445--227505 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
227435 CCTTTACTAT
*
227445 TTTTATTTTG-TTTAGATTTAGCCCTCA-TA
1 TTTTAATTTGTTTTA-ATTTAGCCC-CATTA
227474 TTTTAATTTGTTTTAATTTAGCCCCATTA
1 TTTTAATTTGTTTTAATTTAGCCCCATTA
227503 TTT
1 TTT
227506 GTTTAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 2 0.07
29 23 0.79
30 4 0.14
ACGTcount: A:0.21, C:0.13, G:0.08, T:0.57
Consensus pattern (29 bp):
TTTTAATTTGTTTTAATTTAGCCCCATTA
Found at i:227616 original size:16 final size:16
Alignment explanation
Indices: 227597--227632 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
227587 TTTATGTTGT
*
227597 TTTTTACTATTTTTTA
1 TTTTTACTATTTGTTA
*
227613 TTTTTATTATTTGTTA
1 TTTTTACTATTTGTTA
227629 TTTT
1 TTTT
227633 AATTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTTACTATTTGTTA
Found at i:231804 original size:17 final size:18
Alignment explanation
Indices: 231770--231806 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
231760 TTTAAGATTT
231770 TATATTCGATTCAAAATTA
1 TATATTCGATTC-AAATTA
231789 TATATTCGATTC-AATTA
1 TATATTCGATTCAAATTA
231806 T
1 T
231807 TCGAATATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (18 bp):
TATATTCGATTCAAATTA
Found at i:244428 original size:24 final size:22
Alignment explanation
Indices: 244395--244462 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 22
244385 CCACTAGGGG
244395 CATATAAAATTGTCCCGAAGGAC
1 CATATAAAA-TGTCCCGAAGGAC
244418 CATATAGAAATGTCCCGAAGGAC
1 CATATA-AAATGTCCCGAAGGAC
* * *
244441 CACAT-ATATGCCCCGAAGGAC
1 CATATAAAATGTCCCGAAGGAC
244462 C
1 C
244463 GCGTAGAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
21 15 0.37
23 23 0.56
24 3 0.07
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (22 bp):
CATATAAAATGTCCCGAAGGAC
Found at i:244636 original size:29 final size:29
Alignment explanation
Indices: 244594--244662 Score: 122
Period size: 29 Copynumber: 2.4 Consensus size: 29
244584 CTTCTTATCA
244594 CATAGCTCATGTAACATTTCGTATAG-ACT
1 CATAGCTCATGTAACATTTCGTATAGTA-T
244623 CATAGCTCATGTAACATTTCGTATAGTAT
1 CATAGCTCATGTAACATTTCGTATAGTAT
244652 CATAGCTCATG
1 CATAGCTCATG
244663 GGCACATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 38 0.97
30 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.35
Consensus pattern (29 bp):
CATAGCTCATGTAACATTTCGTATAGTAT
Found at i:262202 original size:55 final size:55
Alignment explanation
Indices: 262137--262496 Score: 456
Period size: 55 Copynumber: 6.6 Consensus size: 55
262127 AAAAGTTAAT
*
262137 AAATTCATACTAAGTGTATGAATTTCCGTATGGGCACATTGTGTGAAAAACTAAG
1 AAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGAAAAACTAAG
* * * ** *
262192 AAATTTATACTAAGTGTGTGAATTTCCGTATGGGAACTTTGTGTGCGAAACTATG
1 AAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGAAAAACTAAG
* *
262247 AAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTATG
1 AAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGAAAAACTAAG
* * * *
262302 AAAATCATACTAAGTGTATGAATTTTCGTATGGGCACTTTGTGTGCAAAACAAAG
1 AAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGAAAAACTAAG
* * *
262357 AAATTCATACCAAGTGTATGAATTTCCATATGGGCACTTTGTGTGCAAAAAGTTAAG
1 AAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTG-AAAAA-CTAAG
* ** * * * **
262414 AAATTCATACTAACTGTATGAATTTTTGTATGGTCGCTATGTGT-ACGAACTAAG
1 AAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGAAAAACTAAG
*
262468 AAA-TC-CACTAAGTGTATGAATTTCCGTAT
1 AAATTCATACTAAGTGTATGAATTTCCGTAT
262497 AGGAAATATA
Statistics
Matches: 266, Mismatches: 37, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
52 20 0.08
53 2 0.01
54 7 0.03
55 194 0.73
56 4 0.02
57 39 0.15
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (55 bp):
AAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGAAAAACTAAG
Found at i:262791 original size:68 final size:68
Alignment explanation
Indices: 262711--263184 Score: 639
Period size: 68 Copynumber: 7.0 Consensus size: 68
262701 AAGAATAATA
* * *
262711 GCCTAATTGTGCATTTCACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
*
262776 AAG
66 GAG
* * *
262779 GCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAGACTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
262844 GAG
66 GAG
* *
262847 GCCTAACTGTGCATTTGA-AAAAAGGTGTCAATTATGCCAGTTAGATGAAAGTCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
262911 GAG
66 GAG
* ** * * * *
262914 GCCTAACTATGCATTTGATTGATAGGTGTTAATTATGTCGGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
*
262979 GAT
66 GAG
* *
262982 GCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCATTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
263047 GAG
66 GAG
* *
263050 GCCTAACTGTGCATTTTACAGAAAGGTGTCAATTAT-ACAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
*
263114 GAA
66 GAG
* * * * * * * * *
263117 GCCTAGA-TATGCATTTGATAGAAAGGTGACAATCATGCCAATTAGATGAATGGTTAAATACCTT
1 GCCTA-ACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
263181 TGAG
65 TGAG
263185 TAAAAGACTA
Statistics
Matches: 360, Mismatches: 43, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
67 119 0.33
68 241 0.67
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (68 bp):
GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAG
Found at i:262917 original size:135 final size:136
Alignment explanation
Indices: 262710--263184 Score: 659
Period size: 135 Copynumber: 3.5 Consensus size: 136
262700 AAAGAATAAT
* * * *
262710 AGCCTAATTGTGCATTTCACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 AGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* * *
262775 TAAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAGACTAAGTGC
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGC
262840 CTTTGA
131 CTTTGA
* * * *
262846 GGCCTAACTGTGCATTTGA-AAAAAGGTGTCAATTATGCCAGTTAGATGAAAGTCTAAGTGCCTT
1 AGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* ** * * *
262910 TGAGGCCTAACTATGCATTTGATTGATAGGTGTTAATTATGTCGGTTAGATGAAAGGCTAAGTGC
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGC
262975 CTTTGA
131 CTTTGA
* *
262981 TGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCATTTAGATGAAAGGCTAAGTGCCTT
1 AGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* *
263046 TGAGGCCTAACTGTGCATTTTACAGAAAGGTGTCAATTAT-ACAGTTAGATGAAAGGCTAAGTGC
66 TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGC
263110 CTTTGA
131 CTTTGA
* * * * * * * *
263116 AGCCTAGA-TATGCATTTGATAGAAAGGTGACAATCATGCCAATTAGATGAATGGTTAAATACCT
1 AGCCTA-ACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
263180 TTGAG
65 TTGAG
263185 TAAAAGACTA
Statistics
Matches: 300, Mismatches: 37, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
135 207 0.69
136 93 0.31
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (136 bp):
AGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGC
CTTTGA
Found at i:263183 original size:203 final size:203
Alignment explanation
Indices: 262710--263184 Score: 657
Period size: 203 Copynumber: 2.3 Consensus size: 203
262700 AAAGAATAAT
* * * * *
262710 AGCCTAATTGTGCATTTCACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 AGCCTAACTATGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* * * *
262775 TAAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAGACTAAGTGC
66 TGAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGC
* *
262840 CTTTGAGGCCTAACTGTGCATTTGAAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGTCTAAGT
131 CTTTGAGGCCTAACTGTGCATTTGAAAAAAGGTGTCAATTATGACAGTTAGATGAAAGGCTAAGT
262905 GCCTTTGA
196 GCCTTTGA
* * * * * *
262913 GGCCTAACTATGCATTTGATTGATAGGTGTTAATTATGTCGGTTAGATGAAAGGCTAAGTGCCTT
1 AGCCTAACTATGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
* * *
262978 TGATGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCATTTAGATGAAAGGCTAAGTGC
66 TGAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGC
* *
263043 CTTTGAGGCCTAACTGTGCATTTTACAGAAAGGTGTCAATTAT-ACAGTTAGATGAAAGGCTAAG
131 CTTTGAGGCCTAACTGTGCATTTGA-AAAAAGGTGTCAATTATGACAGTTAGATGAAAGGCTAAG
263107 TGCCTTTGA
195 TGCCTTTGA
* * * * * * *
263116 AGCCTAGA-TATGCATTTGATAGAAAGGTGACAATCATGCCAATTAGATGAATGGTTAAATACCT
1 AGCCTA-ACTATGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
263180 TTGAG
65 TTGAG
263185 TAAAAGACTA
Statistics
Matches: 234, Mismatches: 36, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
203 217 0.93
204 17 0.07
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (203 bp):
AGCCTAACTATGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGC
CTTTGAGGCCTAACTGTGCATTTGAAAAAAGGTGTCAATTATGACAGTTAGATGAAAGGCTAAGT
GCCTTTGA
Found at i:263343 original size:45 final size:46
Alignment explanation
Indices: 263209--263395 Score: 265
Period size: 45 Copynumber: 4.1 Consensus size: 46
263199 TATAGCAATT
* *
263209 CATAAT-GTCGTATAAAAGGGCATGAAAGGATGCCATAAATGAAATG
1 CATAATAG-CGTATAAAAGGGCATGAAAAGATGCCACAAATGAAATG
* * * * *
263255 TATAATAGCGTA-AAAAGGGGCATGAAAGGATGCGATAAGTGAAATG
1 CATAATAGCGTATAAAA-GGGCATGAAAAGATGCCACAAATGAAATG
263301 CATAATAGCGTATAAAA-GGCATGAAAAGATGCCACAAATGAAATG
1 CATAATAGCGTATAAAAGGGCATGAAAAGATGCCACAAATGAAATG
263346 CATAATAGCGTATAAAA-GGCATGAAAAGATGCCACAAATGAAATG
1 CATAATAGCGTATAAAAGGGCATGAAAAGATGCCACAAATGAAATG
263391 CATAA
1 CATAA
263396 GGGTGCATTA
Statistics
Matches: 130, Mismatches: 8, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
45 78 0.60
46 47 0.36
47 5 0.04
ACGTcount: A:0.47, C:0.11, G:0.23, T:0.19
Consensus pattern (46 bp):
CATAATAGCGTATAAAAGGGCATGAAAAGATGCCACAAATGAAATG
Found at i:263422 original size:45 final size:45
Alignment explanation
Indices: 263294--263451 Score: 138
Period size: 45 Copynumber: 3.5 Consensus size: 45
263284 ATGCGATAAG
* * * * * *
263294 TGAAATGCATAATAGCGTATAAAAGGCATGAAAAGATGCCACAAA
1 TGAAATGCATAATGGTGCATTATAGGCACGAAAAGATGCCACAAA
* * * * * *
263339 TGAAATGCATAATAGCGTATAAAAGGCATGAAAAGATGCCACAAA
1 TGAAATGCATAATGGTGCATTATAGGCACGAAAAGATGCCACAAA
* * * * * *
263384 TGAAATGCATAAGGGTGCATTATCGGCGCGAAATGATGCCATAAT
1 TGAAATGCATAATGGTGCATTATAGGCACGAAAAGATGCCACAAA
*
263429 TGAGATGCAT-ATGGTGCATTATA
1 TGAAATGCATAATGGTGCATTATA
263452 AGTATGAAAG
Statistics
Matches: 98, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 11 0.11
45 87 0.89
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (45 bp):
TGAAATGCATAATGGTGCATTATAGGCACGAAAAGATGCCACAAA
Found at i:263422 original size:90 final size:90
Alignment explanation
Indices: 263220--263439 Score: 226
Period size: 90 Copynumber: 2.4 Consensus size: 90
263210 ATAATGTCGT
* * * *
263220 ATAAAAGGGCATGAAAGGATGCCATAAATGAAATGTATAATAGCGTAAAAAGGGGCATGAAAGGA
1 ATAAAA-GGCACGAAAAGATGCCATAAATGAAATGCATAATAGCGTAAAAA-GGGCATGAAAAGA
* * * * *
263285 TGCGATAAGTGAAATGCATAATAGCGT
64 TGCCACAAATGAAATGCATAAGAGCGC
* *
263312 ATAAAAGGCATGAAAAGATGCCACAAATGAAATGCATAATAGCGTATAAAA-GGCATGAAAAGAT
1 ATAAAAGGCACGAAAAGATGCCATAAATGAAATGCATAATAGCGTA-AAAAGGGCATGAAAAGAT
* *
263376 GCCACAAATGAAATGCATAAGGGTGC
65 GCCACAAATGAAATGCATAAGAGCGC
* ** * * * *
263402 ATTATCGGCGCGAAATGATGCCATAATTGAGATGCATA
1 ATAAAAGGCACGAAAAGATGCCATAAATGAAATGCATA
263440 TGGTGCATTA
Statistics
Matches: 107, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
90 60 0.56
91 37 0.35
92 10 0.09
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.20
Consensus pattern (90 bp):
ATAAAAGGCACGAAAAGATGCCATAAATGAAATGCATAATAGCGTAAAAAGGGCATGAAAAGATG
CCACAAATGAAATGCATAAGAGCGC
Found at i:268376 original size:31 final size:30
Alignment explanation
Indices: 268294--268379 Score: 84
Period size: 32 Copynumber: 2.8 Consensus size: 30
268284 GGGAGTATCT
* *
268294 TAGGGCCTGC-GAGCCTACCGAAGAAAATTC
1 TAGGGCC-GCAGAGCCTACCCAAGAAAAATC
* **
268324 TCGAGGCCATAGAGGCCTACCCAAGAAAAATC
1 TAG-GGCCGCAGA-GCCTACCCAAGAAAAATC
268356 TAAGGGCCGCAGAGCCTACCCAAG
1 T-AGGGCCGCAGAGCCTACCCAAG
268380 GGTCACCTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
30 2 0.05
31 17 0.39
32 24 0.55
33 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.26, T:0.13
Consensus pattern (30 bp):
TAGGGCCGCAGAGCCTACCCAAGAAAAATC
Found at i:268542 original size:12 final size:12
Alignment explanation
Indices: 268522--268592 Score: 79
Period size: 12 Copynumber: 5.9 Consensus size: 12
268512 ACAAAGATAT
* *
268522 CAGAGATCATAA
1 CAGAAATCAGAA
*
268534 CAGAAATCAGAG
1 CAGAAATCAGAA
*
268546 CAGAAATCAAAA
1 CAGAAATCAGAA
*
268558 CAGAATTCAGAA
1 CAGAAATCAGAA
* *
268570 CATAAATCATAA
1 CAGAAATCAGAA
268582 CAGAAATCAGA
1 CAGAAATCAGA
268593 TAAAATATTT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.55, C:0.17, G:0.14, T:0.14
Consensus pattern (12 bp):
CAGAAATCAGAA
Found at i:268554 original size:24 final size:24
Alignment explanation
Indices: 268522--268592 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
268512 ACAAAGATAT
* *
268522 CAGAGATCATAACAGAAATCAGAG
1 CAGAAATCATAACAGAAATCAGAA
* *
268546 CAGAAATCAAAACAGAATTCAGAA
1 CAGAAATCATAACAGAAATCAGAA
*
268570 CATAAATCATAACAGAAATCAGA
1 CAGAAATCATAACAGAAATCAGA
268593 TAAAATATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.55, C:0.17, G:0.14, T:0.14
Consensus pattern (24 bp):
CAGAAATCATAACAGAAATCAGAA
Found at i:269982 original size:13 final size:13
Alignment explanation
Indices: 269964--269988 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
269954 TTGACAATTT
269964 GGTCAAAGTCAAC
1 GGTCAAAGTCAAC
269977 GGTCAAAGTCAA
1 GGTCAAAGTCAA
269989 TGCCAGTCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (13 bp):
GGTCAAAGTCAAC
Found at i:270014 original size:17 final size:18
Alignment explanation
Indices: 269984--270039 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 18
269974 AACGGTCAAA
*
269984 GTCAA-TGCCAGTCAACG
1 GTCAACTGCAAGTCAACG
*
270001 GTCAACT-CAGGTCAACG
1 GTCAACTGCAAGTCAACG
*
270018 GTC-AGTGCAAGTCAACG
1 GTCAACTGCAAGTCAACG
270035 GTCAA
1 GTCAA
270040 TGGCTCTATC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 2 0.06
17 28 0.88
18 2 0.06
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.18
Consensus pattern (18 bp):
GTCAACTGCAAGTCAACG
Found at i:272432 original size:15 final size:15
Alignment explanation
Indices: 272412--272449 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
272402 TACATGGAGT
272412 GATGAAGAAGGTTCC
1 GATGAAGAAGGTTCC
272427 GATGAAGAAGGTTCC
1 GATGAAGAAGGTTCC
272442 GATGAAGA
1 GATGAAGA
272450 GGAATAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.37, C:0.11, G:0.34, T:0.18
Consensus pattern (15 bp):
GATGAAGAAGGTTCC
Found at i:281786 original size:12 final size:12
Alignment explanation
Indices: 281769--281875 Score: 81
Period size: 12 Copynumber: 8.9 Consensus size: 12
281759 ACATAGATAT
281769 CAGAAATCAGAA
1 CAGAAATCAGAA
*
281781 CAGAAATCAGAG
1 CAGAAATCAGAA
* *
281793 CATAAATCAGAG
1 CAGAAATCAGAA
* *
281805 CATAAATCATAA
1 CAGAAATCAGAA
*
281817 CAGAATTCA-AA
1 CAGAAATCAGAA
* *
281828 GAAGAAAGCAGAA
1 -CAGAAATCAGAA
* * * *
281841 AAGAACTTAGAG
1 CAGAAATCAGAA
281853 CAGAAATCAGAA
1 CAGAAATCAGAA
*
281865 TAGAAATCAGA
1 CAGAAATCAGA
281876 TAAAATATTC
Statistics
Matches: 75, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
11 2 0.03
12 71 0.95
13 2 0.03
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.13
Consensus pattern (12 bp):
CAGAAATCAGAA
Found at i:283262 original size:13 final size:13
Alignment explanation
Indices: 283244--283270 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
283234 TTAACTTTTT
283244 GGTCAAAGTCAAC
1 GGTCAAAGTCAAC
283257 GGTCAAAGTCAAC
1 GGTCAAAGTCAAC
283270 G
1 G
283271 CCGATCAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (13 bp):
GGTCAAAGTCAAC
Found at i:283348 original size:18 final size:18
Alignment explanation
Indices: 283321--283359 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
283311 GGCTCGGCTC
*
283321 GGCTCGACTCGACTCAGT
1 GGCTCAACTCGACTCAGT
283339 GGCTCAACTCGACTCAGT
1 GGCTCAACTCGACTCAGT
283357 GGC
1 GGC
283360 ACGGCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.21
Consensus pattern (18 bp):
GGCTCAACTCGACTCAGT
Found at i:284488 original size:54 final size:54
Alignment explanation
Indices: 284298--284499 Score: 323
Period size: 55 Copynumber: 3.7 Consensus size: 54
284288 TGCAGAAAGT
* *
284298 TAAGAAATTCATACTATGTGTATGAATTTTCGTATGGGCACTTTGTGTGCAAACC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAA-C
*
284353 TAAGAAATTCATACTAAGTGTATGAATTTCCATATGGGCACTTTGTGTGCAATAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAA-AC
* * *
284408 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTATATGTGCTAAC
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAC
*
284462 TAAGAAATCCATACTAAGTGTATGAATTTCCGTATGGG
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
284500 AAATATGTGC
Statistics
Matches: 138, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
54 39 0.28
55 98 0.71
56 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.34
Consensus pattern (54 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGTGCAAAC
Found at i:284789 original size:68 final size:68
Alignment explanation
Indices: 284710--285253 Score: 775
Period size: 68 Copynumber: 8.0 Consensus size: 68
284700 AAGATTAATA
* *
284710 GCCTAACTGTGCATTTGACATAAAGGTGTCAATTATGCCAGTTAGATGAATGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
284775 GAG
66 GAG
* * * *
284778 GCCTAACTGTGCATTTGACATATATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGTCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
284843 GAG
66 GAG
* * *
284846 GCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGACTATGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
*
284911 GAA
66 GAG
** * * *
284914 GCCTATTTGTGCATTTGAGAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGCTAAGTGACTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
284979 GAG
66 GAG
* *
284982 GCCTAACTGTGCATTTGACATAAAGGTGTCAATTATGCCAGTTAGATGAAAAGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
285047 GAG
66 GAG
* * * * * *
285050 GCCCAATTGTGCATTAGATAGAAATGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
285115 GAG
66 GAG
* *
285118 GCCTAACTGTGCATTTGACAGAAAGGTTTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
285183 GAG
66 GAG
* * * * * * * *
285186 GCCTAGCAGTGCATTTGGA-AGAAAGGTGTAAATCATGCCAATTAGATGAAAAGTTAAATGCCTT
1 GCCTAACTGTGCATTT-GACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
285250 TGAG
65 TGAG
285254 TAAAACACTA
Statistics
Matches: 422, Mismatches: 53, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
68 420 1.00
69 2 0.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (68 bp):
GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAG
Found at i:285406 original size:45 final size:45
Alignment explanation
Indices: 285274--285418 Score: 209
Period size: 46 Copynumber: 3.2 Consensus size: 45
285264 GATGTATAAC
* *
285274 AATGCATAATATCATATAAAAGAGCATGAAAGGATGCCATAAATGA
1 AATGCATAATAGCGTATAAAAG-GCATGAAAGGATGCCATAAATGA
** * * *
285320 AATATATAATAGCGTAGAAAGGGGCATGAAAGAATGCCATAAATGA
1 AATGCATAATAGCGTATAAA-AGGCATGAAAGGATGCCATAAATGA
285366 AATGCATAATAGCGTATAAAAGGCATGAAAGGATGCCATAAATGA
1 AATGCATAATAGCGTATAAAAGGCATGAAAGGATGCCATAAATGA
285411 AATGCATA
1 AATGCATA
285419 GGGGTGCATT
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
45 31 0.36
46 54 0.63
47 1 0.01
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (45 bp):
AATGCATAATAGCGTATAAAAGGCATGAAAGGATGCCATAAATGA
Found at i:285437 original size:45 final size:44
Alignment explanation
Indices: 285343--285490 Score: 138
Period size: 45 Copynumber: 3.3 Consensus size: 44
285333 GTAGAAAGGG
* * * * *
285343 GCATGAAAGAATGCCATAAATGAAATGCATAATAGCGTA-TAAAA
1 GCATGAAAGGATGCCATAAATGAAATGCAT-ATGGTGCATTATAA
* *
285387 GGCATGAAAGGATGCCATAAATGAAATGCATAGGGGTGCATTATCA
1 -GCATGAAAGGATGCCATAAATGAAATGCATA-TGGTGCATTATAA
* * *
285433 GCATGAAAGGATGCCA-AAATTGAGATGCATATGGTTCATTATGA
1 GCATGAAAGGATGCCATAAA-TGAAATGCATATGGTGCATTATAA
* *
285477 GTATGAATGGATGC
1 GCATGAAAGGATGC
285491 TTTCGATGAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
44 26 0.30
45 58 0.67
46 3 0.03
ACGTcount: A:0.40, C:0.11, G:0.25, T:0.24
Consensus pattern (44 bp):
GCATGAAAGGATGCCATAAATGAAATGCATATGGTGCATTATAA
Found at i:290621 original size:293 final size:293
Alignment explanation
Indices: 290081--291297 Score: 1205
Period size: 293 Copynumber: 4.1 Consensus size: 293
290071 TTCAAGTGGA
*
290081 AAAATAATCACTTTGAACCAATTGGTTTTGTCTAACGTTATACTTTAGGTTGAAACCTTGAATGT
1 AAAATAATCACTTTGAACCAATTGGTTTTGACTAACGTTATACTTTAGGTTGAAACCTTGAATGT
* * * *
290146 TCAGGCATAGTAAACCAAATGGAAACCCATAACGACTTATGATTTTTGTCACAATATGTTGGTAA
66 ACAGGCATAGTAAACCAAATTGAAACCCATAACGACTTATGA-TGTTGTCACAACATGTTGGTAA
* * *
290211 CAAACC-TTATAATTGTAACATTAGTTGGAATGCACCGAGTTTGAAGATTTATCCTGACGAGTTC
130 CAAACCTTTATAATTGTAACATGAGTTGGAATGCACCAAGTTTGAAGATTTATCCCGACGAGTTC
* * *
290275 TAAAACTTAGTTAATGAGTTTTGATACTCTA-AACCTAAATTGTTACCAGGAACAACCTAAATTG
195 TAAAACTTAGTCAATGAGTTTCGATACT-GAGAACCTAAATTGTTACCAGGAACAACCTAAATTG
* *
290339 TATACGTTTAAGTCGCATTTTAGTTTGAAAACTGG
259 TATACGTTTAAGTCACATTTTAGGTTGAAAACTGG
* * *
290374 AAAATCATCACTTTGAACCAATTTGTTTTGAGTAACGTTATACTTTAGGTTGAAACCTTGAATGT
1 AAAATAATCACTTTGAACCAATTGGTTTTGACTAACGTTATACTTTAGGTTGAAACCTTGAATGT
** * *
290439 ACTTGCATAGTAAACCAAATTGAAGCCCATAACGACTTATGATGCTGTCACAACATGTTGGTAAC
66 ACAGGCATAGTAAACCAAATTGAAACCCATAACGACTTATGATGTTGTCACAACATGTTGGTAAC
* * * ** * *
290504 AAACCTTTATAATTTTAACATGAGTTGGAATGCGCTAAGTTCAAAAATTTAACCCGACGAGTTCT
131 AAACCTTTATAATTGTAACATGAGTTGGAATGCACCAAGTTTGAAGATTTATCCCGACGAGTTCT
* *
290569 AAAACTTAGTCAATGAGTTTCGATACTGAGAACCTAAATTGTTACGAGGAACAACCTAAATTATT
196 AAAACTTAGTCAATGAGTTTCGATACTGAGAACCTAAATTGTTACCAGGAACAACCTAAATT-GT
* * * *
290634 AAACGTTTAGGTTATATTTTAGGTTGAAAA-TAGG
260 ATACGTTTAAGTCACATTTTAGGTTGAAAACT-GG
* * **
290668 AAAAGTAATCAC-TTGAAACCTATTGGTTTTGAGTAACGTTATACTTTAGGTTGAAACCTCAAAT
1 AAAA-TAATCACTTTG-AACCAATTGGTTTTGACTAACGTTATACTTTAGGTTGAAACCTTGAAT
* * * * * * *
290732 GTACAGGAATAGTAAACAAAATTGAAACTCATAGCGACCTATGATGTTTTCACAACATGTCATTA
64 GTACAGGCATAGTAAACCAAATTGAAACCCATAACGACTTATGATGTTGTCACAACATG---TTG
* * ** * * ** *
290797 TTAACAAACTTTTGCAATTGTAACATGAGTTGGAATGTATCGAA-TTTGAAGATTTATCTTGTCG
126 GTAACAAACCTTTATAATTGTAACATGAGTTGGAATGCA-CCAAGTTTGAAGATTTATCCCGACG
* * * * * **
290861 CA-TTTTGAAACTTAGTCAATGAGTTTCAATACTGAGAACCTTAAGTGTTACCACTAACAACCTA
190 -AGTTCTAAAACTTAGTCAATGAGTTTCGATACTGAGAACCTAAATTGTTACCAGGAACAACCT-
* * * *
290925 AAATGCGACGATGTTATAGGTTTACGTCACATTTTAGGTT-AAAAGCAGA
253 AAAT-------TG-TATACGTTTAAGTCACATTTTAGGTTGAAAA-CTGG
* ** * * * * * * *
290974 AAAAGTAATTACTTCAAAGCAATAGGTTTTGCCCAACGTTATACTTCATGTTGAAACCTTGAAAG
1 AAAA-TAATCACTTTGAACCAATTGGTTTTGACTAACGTTATACTTTAGGTTGAAACCTTGAATG
* * * * * * *
291039 -ATCAGACATAGTAAATCAAATTGAAACCCATAAAGAAC-TATGACGTTTGTAACAATATCTTGG
65 TA-CAGGCATAGTAAACCAAATTGAAACCCATAACG-ACTTATGATG-TTGTCACAACATGTTGG
* *
291102 TAACAGACCTTTATAATTGTAACATGAGTTGGAATGCACCGAGTTTGAAGATTTATCCCGACGAG
127 TAACAAACCTTTATAATTGTAACATGAGTTGGAATGCACCAAGTTTGAAGATTTATCCCGACGAG
* * * * * * * * **
291167 TT-TCGAAATTTAATCAATGAGTTTTGATACTAAAAACCTCTAA-TGTTTCCAATAACAACCTAA
192 TTCT-AAAACTTAGTCAATGAGTTTCGATACTGAGAACCT-AAATTGTTACCAGGAACAACCTAA
* * * *
291230 GTTGTGATAGGTTTTAGTCACATCTTAGGTTGAAAACTGG
255 ATTGT-ATACGTTTAAGTCACATTTTAGGTTGAAAACTGG
* *
291270 AAAAATTATCACTTTGAACTAATTGGTT
1 -AAAATAATCACTTTGAACCAATTGGTT
291298 ATTTGTAACG
Statistics
Matches: 752, Mismatches: 139, Indels: 63
0.79 0.15 0.07
Matches are distributed among these distances:
292 26 0.03
293 204 0.27
294 34 0.05
295 100 0.13
296 42 0.06
297 8 0.01
298 100 0.13
299 8 0.01
303 7 0.01
304 99 0.13
305 8 0.01
306 104 0.14
307 12 0.02
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (293 bp):
AAAATAATCACTTTGAACCAATTGGTTTTGACTAACGTTATACTTTAGGTTGAAACCTTGAATGT
ACAGGCATAGTAAACCAAATTGAAACCCATAACGACTTATGATGTTGTCACAACATGTTGGTAAC
AAACCTTTATAATTGTAACATGAGTTGGAATGCACCAAGTTTGAAGATTTATCCCGACGAGTTCT
AAAACTTAGTCAATGAGTTTCGATACTGAGAACCTAAATTGTTACCAGGAACAACCTAAATTGTA
TACGTTTAAGTCACATTTTAGGTTGAAAACTGG
Found at i:291308 original size:602 final size:587
Alignment explanation
Indices: 290077--291326 Score: 1279
Period size: 602 Copynumber: 2.1 Consensus size: 587
290067 TTGGTTCAAG
* * **
290077 TGGAAAAATAATCACTTTGAACCAATTGGTTTTGTCTAACGTTATACTTTAGGTTGAAACCTTGA
1 TGGAAAAATAATCACTTTGAACTAATTGGTTTTGTGTAACGTTATACTTTAGGTTGAAACCTCAA
* * * * * * *
290142 ATGTTCAGGCATAGTAAACCAAATGGAAACCCATAACGACTTATGATTTTTGTCACAATATGTTG
66 ATGTACAGGAATAGTAAACAAAATGGAAACCCATAACGACCTATGATGTTTGTCACAACATGTTA
* *
290207 GTAACAAACCTTATAATTGTAACATTAGTTGGAATGCACCGAGTTTGAAGATTTATCCTGACGAG
131 GTAACAAACCTTATAATTGTAACATGAGTTGGAATGCACCGAATTTGAAGATTTATCCTGACGAG
* ** * * *
290272 TTCTAAAACTTAGTTAATGAGTTTTGATACTCTAAACCTAAATTGTTACCAGGAACAACCTAAAT
196 TTCTAAAACTTAGTCAATGAGTTTCAATACTCGAAACCTAAAGTGTTACCACGAACAACCTAAAT
* * * * * ** **
290337 TGTATACGTTTAAGTCGCATTTTAGTTTGAAAACTGGAAAATCATCACTTTGAACCAATTTGTTT
261 TGTATACGTTTAAGTCACATTTTAGGTTGAAAACAGAAAAATAATCACTTCAAACCAATAGGTTT
** * * * *
290402 TGAGTAACGTTATACTTTAGGTTGAAACCTTGAATGTACTTGCATAGTAAACCAAATTGAAGCCC
326 TGACCAACGTTATACTTCAGGTTGAAACCTTGAAAGTACTAGCATAGTAAACCAAATTGAAACCC
* * * * *
290467 ATAACGACTTATGATGCTGTCACAACATGTTGGTAACAAACCTTTATAATTTTAACATGAGTTGG
391 ATAAAGACTTATGACGCTGTAACAACATCTTGGTAACAAACCTTTATAATTGTAACATGAGTTGG
* * * *
290532 AATGCGCTAAGTTCAAAAATTTAACCCGACGAGTTCTAAAACTTAGTCAATGAGTTTCGATACTG
456 AATGCACCAAGTTCAAAAATTTAACCCGACGAGTTCTAAAACTTAATCAATGAGTTTCGATACTA
* * * * * * *
290597 AGAACCTAAATTGTTACGAGGAACAACCTAAATTATTAAACGTTTAGGTTATATTTTAGGTTGAA
521 AAAACCTAAATTGTTACCAAGAACAACCTAAATTATGAAACGTTTAGGTCACATCTTAGGTTGAA
290662 AA
586 AA
* *
290664 TAGGAAAAGTAATCAC-TTGAAACCT-ATTGGTTTTGAGTAACGTTATACTTTAGGTTGAAACCT
1 T-GGAAAAATAATCACTTTG-AA-CTAATTGGTTTTGTGTAACGTTATACTTTAGGTTGAAACCT
* * *
290727 CAAATGTACAGGAATAGTAAACAAAATTGAAACTCATAGCGACCTATGATGTTT-TCACAACATG
63 CAAATGTACAGGAATAGTAAACAAAATGGAAACCCATAACGACCTATGATGTTTGTCACAACATG
* * * *
290791 TCATTATTAACAAA-CTTTTGCAATTGTAACATGAGTTGGAATGTATCGAATTTGAAGATTTATC
128 ---TTAGTAACAAACCTTAT--AATTGTAACATGAGTTGGAATGCACCGAATTTGAAGATTTATC
* * * * * *
290855 TTGTCGCA-TTTTGAAACTTAGTCAATGAGTTTCAATACT-GAGAACCTTAAGTGTTACCACTAA
188 CTGACG-AGTTCTAAAACTTAGTCAATGAGTTTCAATACTCGA-AACCTAAAGTGTTACCACGAA
* *
290918 CAACCTAAAATGCGACGATGTTATAGGTTTACGTCACATTTTAGGTT-AAAAGCAGAAAAAGTAA
251 CAACCT-AAAT-------TG-TATACGTTTAAGTCACATTTTAGGTTGAAAA-CAGAAAAA-TAA
* * * *
290982 TTACTTCAAAGCAATAGGTTTTGCCCAACGTTATACTTCATGTTGAAACCTTGAAAG-A-TCAGA
305 TCACTTCAAACCAATAGGTTTTGACCAACGTTATACTTCAGGTTGAAACCTTGAAAGTACT-AG-
* * * *
291045 CATAGTAAATCAAATTGAAACCCATAAAGAAC-TATGACGTTTGTAACAATATCTTGGTAACAGA
368 CATAGTAAACCAAATTGAAACCCATAAAG-ACTTATGACG-CTGTAACAACATCTTGGTAACAAA
* ** * * *
291109 CCTTTATAATTGTAACATGAGTTGGAATGCACCGAGTTTGAAGATTTATCCCGACGAGTT-TCGA
431 CCTTTATAATTGTAACATGAGTTGGAATGCACCAAGTTCAAAAATTTAACCCGACGAGTTCT-AA
* * * * * * *
291173 AATTTAATCAATGAGTTTTGATACTAAAAACCTCTAA-TGTTTCCAATAACAACCTAAGTTGTGA
495 AACTTAATCAATGAGTTTCGATACTAAAAACCT-AAATTGTTACCAAGAACAACCTAAATTATGA
* *
291237 TAGGTTTTA-GTCACATCTTAGGTTGAAAA
559 AACG-TTTAGGTCACATCTTAGGTTGAAAA
* * *
291266 CTGGAAAAATTATCACTTTGAACTAATTGGTTATT-TGTAACG-TAAAATTTAAGGTTGAAAC
1 -TGGAAAAATAATCACTTTGAACTAATTGGTT-TTGTGTAACGTTATACTTT-AGGTTGAAAC
291327 AACTAATCGA
Statistics
Matches: 535, Mismatches: 95, Indels: 51
0.79 0.14 0.07
Matches are distributed among these distances:
587 13 0.02
588 95 0.18
589 5 0.01
590 10 0.02
591 92 0.17
592 5 0.01
599 7 0.01
600 30 0.06
601 88 0.16
602 178 0.33
603 12 0.02
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (587 bp):
TGGAAAAATAATCACTTTGAACTAATTGGTTTTGTGTAACGTTATACTTTAGGTTGAAACCTCAA
ATGTACAGGAATAGTAAACAAAATGGAAACCCATAACGACCTATGATGTTTGTCACAACATGTTA
GTAACAAACCTTATAATTGTAACATGAGTTGGAATGCACCGAATTTGAAGATTTATCCTGACGAG
TTCTAAAACTTAGTCAATGAGTTTCAATACTCGAAACCTAAAGTGTTACCACGAACAACCTAAAT
TGTATACGTTTAAGTCACATTTTAGGTTGAAAACAGAAAAATAATCACTTCAAACCAATAGGTTT
TGACCAACGTTATACTTCAGGTTGAAACCTTGAAAGTACTAGCATAGTAAACCAAATTGAAACCC
ATAAAGACTTATGACGCTGTAACAACATCTTGGTAACAAACCTTTATAATTGTAACATGAGTTGG
AATGCACCAAGTTCAAAAATTTAACCCGACGAGTTCTAAAACTTAATCAATGAGTTTCGATACTA
AAAACCTAAATTGTTACCAAGAACAACCTAAATTATGAAACGTTTAGGTCACATCTTAGGTTGAA
AA
Found at i:291579 original size:39 final size:39
Alignment explanation
Indices: 291533--291690 Score: 160
Period size: 39 Copynumber: 4.0 Consensus size: 39
291523 AGATTGGTGT
* * **
291533 AACCGAAAATGTT-TCAAACCATATAATGTTTTAGGTTGC
1 AACCGAAAATATTACCAAA-CATATAACATTTTAGGTTGC
*
291572 AACCGAAAATATTACCAAACATATAACATTGTAGGTTGATGC
1 AACCGAAAATATTACCAAACATATAACATTTTAGG-T--TGC
* * *
291614 AACCGAAAATGTTTA--AATCATGTAACATTTTAGGTTGC
1 AACCGAAAAT-ATTACCAAACATATAACATTTTAGGTTGC
*
291652 ATACCGGAAATATTACCAAACATATAACATTTTAGGTTG
1 A-ACCGAAAATATTACCAAACATATAACATTTTAGGTTG
291691 ATTATATTTC
Statistics
Matches: 98, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
38 7 0.07
39 33 0.34
40 26 0.27
41 16 0.16
42 13 0.13
43 3 0.03
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (39 bp):
AACCGAAAATATTACCAAACATATAACATTTTAGGTTGC
Found at i:291663 original size:81 final size:81
Alignment explanation
Indices: 291495--291692 Score: 254
Period size: 81 Copynumber: 2.4 Consensus size: 81
291485 AAAAGTTACT
* * * * * * * *
291495 GAAAATGTAACCAAACATAAAATATTCTAGATTGGTGTAACCGAAAATGTTTCAAACCATATAAT
1 GAAAATATTACCAAACATATAACATTCTAGGTTGATGCAACCGAAAATGTTTCAAACCATATAAC
*
291560 GTTTTAGGTTGCAACC
66 ATTTTAGGTTGCAACC
* * *
291576 GAAAATATTACCAAACATATAACATTGTAGGTTGATGCAACCGAAAATGTTT-AAATCATGTAAC
1 GAAAATATTACCAAACATATAACATTCTAGGTTGATGCAACCGAAAATGTTTCAAACCATATAAC
291640 ATTTTAGGTTGCATACC
66 ATTTTAGGTTGCA-ACC
* *
291657 GGAAATATTACCAAACATATAACATTTTAGGTTGAT
1 GAAAATATTACCAAACATATAACATTCTAGGTTGAT
291693 TATATTTCTT
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 21 0.21
81 81 0.79
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (81 bp):
GAAAATATTACCAAACATATAACATTCTAGGTTGATGCAACCGAAAATGTTTCAAACCATATAAC
ATTTTAGGTTGCAACC
Found at i:293358 original size:73 final size:73
Alignment explanation
Indices: 293239--293384 Score: 283
Period size: 73 Copynumber: 2.0 Consensus size: 73
293229 TGCAACACGT
*
293239 CATTTTGAAGAAGTCGAATTTGATAATTAAGTTGATGTTTTTCTTTTATTATTATTGTTTAACTG
1 CATTTTCAAGAAGTCGAATTTGATAATTAAGTTGATGTTTTTCTTTTATTATTATTGTTTAACTG
293304 ACCAAATC
66 ACCAAATC
293312 CATTTTCAAGAAGTCGAATTTGATAATTAAGTTGATGTTTTTCTTTTATTATTATTGTTTAACTG
1 CATTTTCAAGAAGTCGAATTTGATAATTAAGTTGATGTTTTTCTTTTATTATTATTGTTTAACTG
293377 ACCAAATC
66 ACCAAATC
293385 AAGATACTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (73 bp):
CATTTTCAAGAAGTCGAATTTGATAATTAAGTTGATGTTTTTCTTTTATTATTATTGTTTAACTG
ACCAAATC
Found at i:296269 original size:2 final size:2
Alignment explanation
Indices: 296262--296294 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
296252 CCTGATGTGT
296262 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
296295 GAGTTTGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:296755 original size:2 final size:2
Alignment explanation
Indices: 296748--296776 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
296738 CCTAGTCCAT
296748 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
296777 TAGTTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:297963 original size:54 final size:54
Alignment explanation
Indices: 297760--297965 Score: 209
Period size: 54 Copynumber: 3.8 Consensus size: 54
297750 TTATTTACTA
* * * * *
297760 CACAGAGGTACCATATTTTAGATTGAAGCACAGAGGTGCTCAATCGTCCCTAAAAG
1 CACAGAGGTGCCAGATTCTAGATTGAAGCACAAAGGTGCTCAATAGTCCC--AAAG
* * * *
297816 TACAAAGGTGCCAGATCCTAGATTGAAGCACAAAGGTGCTCAATCA-TCCCAAAA
1 CACAGAGGTGCCAGATTCTAGATTGAAGCACAAAGGTGCTCAAT-AGTCCCAAAG
* * * *
297870 CACTGAGGTGCCAGA-TCATAGATTGATGCAAAAATGTGCTCAATAGTCCCAAAG
1 CACAGAGGTGCCAGATTC-TAGATTGAAGCACAAAGGTGCTCAATAGTCCCAAAG
* * * *
297924 CACAGAGGTGCCATATTCTATACTGAAGCACAGAGGTGCTCA
1 CACAGAGGTGCCAGATTCTAGATTGAAGCACAAAGGTGCTCA
297966 GTCATTTTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
53 2 0.02
54 76 0.63
55 2 0.02
56 41 0.34
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (54 bp):
CACAGAGGTGCCAGATTCTAGATTGAAGCACAAAGGTGCTCAATAGTCCCAAAG
Found at i:314048 original size:32 final size:32
Alignment explanation
Indices: 314012--314080 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
314002 CCTTGTGCTA
* * *
314012 GTATAATTATAATCAGGAAAAGACTATGTAGT
1 GTATAATCAAAATCAGAAAAAGACTATGTAGT
*
314044 GTATAATCAAAATCATAAAAAGACTATGTAGT
1 GTATAATCAAAATCAGAAAAAGACTATGTAGT
*
314076 CTATA
1 GTATA
314081 GAGATGCATC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.30
Consensus pattern (32 bp):
GTATAATCAAAATCAGAAAAAGACTATGTAGT
Found at i:327797 original size:24 final size:24
Alignment explanation
Indices: 327769--327831 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
327759 GAATGTTTTA
*
327769 TCTGATTTCTGATTTGAATTCTAT
1 TCTGATTTCTGATATGAATTCTAT
*
327793 TCTGATTTCTGATATGAATTCTGT
1 TCTGATTTCTGATATGAATTCTAT
*
327817 TCTGATTCCTGATAT
1 TCTGATTTCTGATAT
327832 CTCCGTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.51
Consensus pattern (24 bp):
TCTGATTTCTGATATGAATTCTAT
Found at i:327802 original size:12 final size:13
Alignment explanation
Indices: 327769--327829 Score: 58
Period size: 12 Copynumber: 5.0 Consensus size: 13
327759 GAATGTTTTA
327769 TCTGATTTCTGAT
1 TCTGATTTCTGAT
*
327782 T-TGAATTCT-AT
1 TCTGATTTCTGAT
327793 TCTGATTTCTGA-
1 TCTGATTTCTGAT
* *
327805 TATGAATTCTG-T
1 TCTGATTTCTGAT
*
327817 TCTGATTCCTGAT
1 TCTGATTTCTGAT
327830 ATCTCCGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
11 3 0.08
12 31 0.84
13 3 0.08
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.51
Consensus pattern (13 bp):
TCTGATTTCTGAT
Found at i:336186 original size:21 final size:21
Alignment explanation
Indices: 336151--336211 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 21
336141 AGAACTCGTG
* *
336151 GGGGGTATCGATTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
336171 GGAGGGAATCGGTTCCCATTCAAA
1 GG-GGGAATCGGTTCCC--TCAAA
336195 GGGGGAATCGGTTCCCT
1 GGGGGAATCGGTTCCCT
336212 TATGGGGGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 2 0.06
21 13 0.37
23 16 0.46
24 4 0.11
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:355131 original size:19 final size:20
Alignment explanation
Indices: 355099--355136 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
355089 AATTAAACAA
*
355099 AAATTAAGATCAAATTTATT
1 AAATTAAGATCAAAATTATT
355119 AAATTAA-ATCAAAATTAT
1 AAATTAAGATCAAAATTAT
355137 AACCCCATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
AAATTAAGATCAAAATTATT
Found at i:357984 original size:8 final size:8
Alignment explanation
Indices: 357971--358016 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
357961 GACCCGACCC
357971 GACCCGTT
1 GACCCGTT
357979 GACCC---
1 GACCCGTT
357984 GA-CCGTT
1 GACCCGTT
357991 GACCCGTT
1 GACCCGTT
357999 GACCC-TT
1 GACCCGTT
358006 GA-CCGTT
1 GACCCGTT
358013 GACC
1 GACC
358017 TCTCGAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
4 2 0.06
5 2 0.06
6 2 0.06
7 10 0.31
8 16 0.50
ACGTcount: A:0.15, C:0.39, G:0.24, T:0.22
Consensus pattern (8 bp):
GACCCGTT
Found at i:357989 original size:12 final size:13
Alignment explanation
Indices: 357966--357996 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
357956 CCCATGACCC
357966 GACCCGACCCGTT
1 GACCCGACCCGTT
357979 GACCCGA-CCGTT
1 GACCCGACCCGTT
357991 GACCCG
1 GACCCG
357997 TTGACCCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.16, C:0.45, G:0.26, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:357996 original size:20 final size:21
Alignment explanation
Indices: 357971--358016 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
357961 GACCCGACCC
357971 GACCCGTTGACCC-GACCGTT
1 GACCCGTTGACCCTGACCGTT
357991 GACCCGTTGACCCTTGACCGTT
1 GACCCGTTGACCC-TGACCGTT
358013 GACC
1 GACC
358017 TCTCGAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.54
22 11 0.46
ACGTcount: A:0.15, C:0.39, G:0.24, T:0.22
Consensus pattern (21 bp):
GACCCGTTGACCCTGACCGTT
Found at i:358185 original size:18 final size:18
Alignment explanation
Indices: 358164--358202 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
358154 CGACCCGTTT
358164 ACCCGACCCATTGACCCG
1 ACCCGACCCATTGACCCG
* *
358182 ACCCGACCCGTTGACCTG
1 ACCCGACCCATTGACCCG
358200 ACC
1 ACC
358203 AAAACTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.49, G:0.18, T:0.13
Consensus pattern (18 bp):
ACCCGACCCATTGACCCG
Found at i:358197 original size:13 final size:13
Alignment explanation
Indices: 358150--358186 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
358140 GTCATAACCC
358150 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
358163 TACCCGACCCATT
1 GACCCGACCCGTT
358176 GACCCGACCCG
1 GACCCGACCCG
358187 ACCCGTTGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.19, C:0.49, G:0.19, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:360733 original size:24 final size:24
Alignment explanation
Indices: 360703--360818 Score: 137
Period size: 24 Copynumber: 4.8 Consensus size: 24
360693 TTTTATTTGA
360703 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
* *
360727 ATTCTGATATGATA-TCTGACATAG
1 ATTCTGATCTGATACT-TGACATGG
* *
360751 ATTTTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* *
360775 ATTCTGATCTGTTACTTGACCT-G
1 ATTCTGATCTGATACTTGACATGG
*
360798 ATTTCTGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
360819 CTGATTTATG
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
23 3 0.04
24 74 0.95
25 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:360778 original size:48 final size:48
Alignment explanation
Indices: 360704--360818 Score: 153
Period size: 48 Copynumber: 2.4 Consensus size: 48
360694 TTTATTTGAA
360704 TTCTGATCTGATACTTGACATGGATTCTGATATGATA-TCTGACATAGAT
1 TTCTGATCTGATACTTGACATGGATTCTGATATGATACT-TGACAT-GAT
* * * *
360753 TT-TGATCTGATACTTGACTTGGATTCTGATCTGTTACTTGACCTGAT
1 TTCTGATCTGATACTTGACATGGATTCTGATATGATACTTGACATGAT
*
360800 TTCTGATATGATACTTGAC
1 TTCTGATCTGATACTTGAC
360819 CTGATTTATG
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
47 5 0.08
48 51 0.86
49 3 0.05
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (48 bp):
TTCTGATCTGATACTTGACATGGATTCTGATATGATACTTGACATGAT
Found at i:367784 original size:42 final size:44
Alignment explanation
Indices: 367737--367819 Score: 152
Period size: 42 Copynumber: 1.9 Consensus size: 44
367727 TGAATAGGAA
367737 GAGATGTGATGAATAAT-AGTGGAAACGT-GATTGAAATGATAG
1 GAGATGTGATGAATAATCAGTGGAAACGTGGATTGAAATGATAG
367779 GAGATGTGATGAATAATCAGTGGAAACGTGGATTGAAATGA
1 GAGATGTGATGAATAATCAGTGGAAACGTGGATTGAAATGA
367820 AAGCCATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 17 0.44
43 11 0.28
44 11 0.28
ACGTcount: A:0.40, C:0.04, G:0.31, T:0.25
Consensus pattern (44 bp):
GAGATGTGATGAATAATCAGTGGAAACGTGGATTGAAATGATAG
Found at i:373026 original size:43 final size:42
Alignment explanation
Indices: 372979--373094 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 42
372969 AGTGGTTTTA
*
372979 ACTGATCCAACTCCTTCTCTGAAGAATCAAATGAAATATTGTT
1 ACTGATCCAACTCCTTCTCTGAAG-ATCAAATGAAACATTGTT
* * *
373022 ACTGATCTAACTCCTTTTTTGAATGATCAAATGAAACATTGTT
1 ACTGATCCAACTCCTTCTCTGAA-GATCAAATGAAACATTGTT
* * *
373065 ATTGATCCAACTTCTTCTGTGAAGGATCAA
1 ACTGATCCAACTCCTTCTCTGAA-GATCAA
373095 GTAACATGAC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
43 61 0.98
44 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (42 bp):
ACTGATCCAACTCCTTCTCTGAAGATCAAATGAAACATTGTT
Found at i:373741 original size:13 final size:13
Alignment explanation
Indices: 373723--373747 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
373713 GTTCCACCTC
373723 ATGGTTTCATCTT
1 ATGGTTTCATCTT
373736 ATGGTTTCATCT
1 ATGGTTTCATCT
373748 CACGTTCGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (13 bp):
ATGGTTTCATCTT
Found at i:373935 original size:39 final size:36
Alignment explanation
Indices: 373898--373977 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 36
373888 CTTTTTTTTC
*
373898 TTTCATTTTT-TTCTTC-CTCTTTGTTTTCTCTTCTT
1 TTTC-TTTTTCTTGTTCTCTCTTTGTTTTCTCTTCTT
*
373933 TTTCTTTTTCTTGTTCTCTCTTTATTTT-TCTTTCTT
1 TTTCTTTTTCTTGTTCTCTCTTTGTTTTCTC-TTCTT
373969 TTTCTTTTT
1 TTTCTTTTT
373978 ATTTCTTTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
34 5 0.12
35 11 0.28
36 24 0.60
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.75
Consensus pattern (36 bp):
TTTCTTTTTCTTGTTCTCTCTTTGTTTTCTCTTCTT
Found at i:373937 original size:6 final size:6
Alignment explanation
Indices: 373928--373977 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
373918 TTGTTTTCTC
* *
373928 TTCTTT TTCTTT TTCTTGT TCTCTCT TTATTT TTC--T TTCTTT TTCTTT
1 TTCTTT TTCTTT TTCTT-T T-TCTTT TTCTTT TTCTTT TTCTTT TTCTTT
373976 TT
1 TT
373978 ATTTCTTTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
4 4 0.11
6 25 0.69
7 4 0.11
8 3 0.08
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (6 bp):
TTCTTT
Found at i:373938 original size:20 final size:20
Alignment explanation
Indices: 373915--374044 Score: 61
Period size: 20 Copynumber: 6.2 Consensus size: 20
373905 TTTTTCTTCC
373915 TCTTTGTTTTCTCTTCTTTT
1 TCTTTGTTTTCTCTTCTTTT
* *
373935 TCTTTTTCTTGTTCTCTCTTTATTTT
1 TC----T-TTGTTTTCTC-TTCTTTT
* *
373961 TCTTTCTTTT-TCTTTTTATT
1 TCTTTGTTTTCTCTTCTT-TT
**
373981 TCTTTCATTTCT-TTCTTTCT
1 TCTTTGTTTTCTCTTCTTT-T
374001 TCCACTTTGTTTTCTCTTCTTTT
1 T---CTTTGTTTTCTCTTCTTTT
* *
374024 TCTGT-TTTTCT-TTCTTCT
1 TCTTTGTTTTCTCTTCTTTT
374042 TCT
1 TCT
374045 GTTTTTCTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
18 9 0.10
19 11 0.13
20 24 0.28
21 6 0.07
22 1 0.01
23 11 0.13
24 7 0.08
25 9 0.10
26 8 0.09
ACGTcount: A:0.03, C:0.22, G:0.03, T:0.72
Consensus pattern (20 bp):
TCTTTGTTTTCTCTTCTTTT
Found at i:373944 original size:26 final size:26
Alignment explanation
Indices: 373905--373981 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 26
373895 TTCTTTCATT
* * *
373905 TTTTTCTTCCTCTTTGTTTTCTC-TTC
1 TTTTTCTTTCTC-TTGTTCTCTCTTTA
*
373931 TTTTTCTTTTTCTTGTTCTCTCTTTA
1 TTTTTCTTTCTCTTGTTCTCTCTTTA
373957 TTTTTCTTTCT-TT-TTCT-T-TTTA
1 TTTTTCTTTCTCTTGTTCTCTCTTTA
373979 TTT
1 TTT
373982 CTTTCATTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
22 7 0.16
23 1 0.02
24 4 0.09
25 11 0.24
26 22 0.49
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (26 bp):
TTTTTCTTTCTCTTGTTCTCTCTTTA
Found at i:373969 original size:30 final size:33
Alignment explanation
Indices: 373933--374001 Score: 90
Period size: 30 Copynumber: 2.2 Consensus size: 33
373923 TTCTCTTCTT
*
373933 TTTCTTTTTCTTGTTCTCTCTTT-A-TT-TTTC
1 TTTCTTTTTCTTGTTATCTCTTTCATTTCTTTC
* *
373963 TTTCTTTTTCTTTTTATTTCTTTCATTTCTTTC
1 TTTCTTTTTCTTGTTATCTCTTTCATTTCTTTC
373996 TTTCTT
1 TTTCTT
374002 CCACTTTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 20 0.61
31 1 0.03
32 2 0.06
33 10 0.30
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.75
Consensus pattern (33 bp):
TTTCTTTTTCTTGTTATCTCTTTCATTTCTTTC
Found at i:374054 original size:18 final size:18
Alignment explanation
Indices: 374010--374054 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
374000 TTCCACTTTG
*
374010 TTTTCTCTTCTTTTTCTGT
1 TTTTCT-TTCTTCTTCTGT
374029 TTTTCTTTCTTCTTCTGT
1 TTTTCTTTCTTCTTCTGT
374047 TTTTCTTT
1 TTTTCTTT
374055 ATTTATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTTCTTTCTTCTTCTGT
Found at i:374066 original size:89 final size:89
Alignment explanation
Indices: 373894--374066 Score: 230
Period size: 89 Copynumber: 1.9 Consensus size: 89
373884 TTCACTTTTT
* *
373894 TTTCTTTCATTTTTTTCTTCCTCTTTGTTTTCTCTTCTTTTTCTTTTTCTTGTTCTCTCTTTATT
1 TTTCTTTCATTTCTTTCTTCCACTTTGTTTTCTCTTCTTTTTCTTTTTCTTGTTCTCTCTTTATT
*
373959 TTTCTTTCTTTTTCTTTTTATTTC
66 TTTCTTTATTTTTCTTTTTATTTC
373983 TTTCATTTC-TTTCTTTCTTCCACTTTGTTTTCTCTTCTTTTTCTGTTTT-TCT-TTCT-TCTTC
1 TTTC-TTTCATTTCTTTCTTCCACTTTGTTTTCTCTTCTTTTTCT-TTTTCT-TGTTCTCTCTT-
*
374044 TGTTTTTCTTTATTTATT-TTTTT
62 TATTTTTCTTTATTT-TTCTTTTT
374067 GAAAACTGTG
Statistics
Matches: 75, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
88 4 0.05
89 60 0.80
90 11 0.15
ACGTcount: A:0.04, C:0.20, G:0.03, T:0.73
Consensus pattern (89 bp):
TTTCTTTCATTTCTTTCTTCCACTTTGTTTTCTCTTCTTTTTCTTTTTCTTGTTCTCTCTTTATT
TTTCTTTATTTTTCTTTTTATTTC
Found at i:374835 original size:23 final size:23
Alignment explanation
Indices: 374759--374835 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
374749 TTTTCTATTT
* *
374759 TTTCTATTTTTTATTTT-GTCTTC
1 TTTCT-TTTTTTATTTTAATTTTC
**
374782 TTTCTTTCTTTTA-TTTAATTTAA
1 TTTCTTT-TTTTATTTTAATTTTC
* *
374805 TTTATTTTTTTATTTTATTTTTC
1 TTTCTTTTTTTATTTTAATTTTC
374828 TTTCTTTT
1 TTTCTTTT
374836 CTTCTTCAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
22 10 0.24
23 32 0.76
ACGTcount: A:0.13, C:0.09, G:0.01, T:0.77
Consensus pattern (23 bp):
TTTCTTTTTTTATTTTAATTTTC
Found at i:375027 original size:5 final size:5
Alignment explanation
Indices: 375013--375093 Score: 55
Period size: 5 Copynumber: 16.6 Consensus size: 5
375003 TGGTGACATA
* * * * *
375013 TTTC- TTTCT TTTCT TTTCT TTTAT TTT-T TTTCA TTTCA TTTCA TTTCA
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT
375061 TTTCAT TTT-T CTTT-T TTTCT TTT-T CTTTCT TTT
1 TTTC-T TTTCT -TTTCT TTTCT TTTCT -TTTCT TTT
375094 ATTCTTCAAG
Statistics
Matches: 67, Mismatches: 3, Indels: 13
0.81 0.04 0.16
Matches are distributed among these distances:
4 13 0.19
5 50 0.75
6 4 0.06
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTCT
Found at i:375053 original size:15 final size:14
Alignment explanation
Indices: 375013--375092 Score: 65
Period size: 15 Copynumber: 5.5 Consensus size: 14
375003 TGGTGACATA
375013 TTTCTTTC-TTTTCT
1 TTTCTTTCATTTT-T
*
375027 TTTCTTTTATTTTT
1 TTTCTTTCATTTTT
**
375041 TTTCATTTCATTTCA
1 TTTC-TTTCATTTTT
375056 TTTCATTTCATTTTT
1 TTTC-TTTCATTTTT
*
375071 CTTTTTTTC-TTTTT
1 -TTTCTTTCATTTTT
375085 CTTTCTTT
1 -TTTCTTT
375093 TATTCTTCAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
14 24 0.44
15 28 0.51
16 3 0.05
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTCTTTCATTTTT
Found at i:375093 original size:15 final size:15
Alignment explanation
Indices: 375013--375093 Score: 64
Period size: 14 Copynumber: 5.5 Consensus size: 15
375003 TGGTGACATA
375013 TTTC-TTTC-TTTTC
1 TTTCTTTTCTTTTTC
*
375026 TTTTCTTTTATTTTT-
1 -TTTCTTTTCTTTTTC
* *
375041 TTTCATTTC-ATTTC
1 TTTCTTTTCTTTTTC
*
375055 ATTTCATTTCATTTTTC
1 -TTTCTTTTC-TTTTTC
375072 TTT-TTTTCTTTTTC
1 TTTCTTTTCTTTTTC
375086 TTTCTTTT
1 TTTCTTTT
375094 ATTCTTCAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
13 3 0.06
14 20 0.37
15 20 0.37
16 7 0.13
17 4 0.07
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTCTTTTCTTTTTC
Found at i:375907 original size:16 final size:16
Alignment explanation
Indices: 375886--375927 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
375876 AAAAATGAAG
*
375886 AATAAA-AATAAGTAAA
1 AATAAATAA-AAGGAAA
375902 AATAAATAAAAGGAAA
1 AATAAATAAAAGGAAA
375918 AATAAATAAA
1 AATAAATAAA
375928 TAAATGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (16 bp):
AATAAATAAAAGGAAA
Found at i:375943 original size:2 final size:2
Alignment explanation
Indices: 375936--375966 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
375926 AATAAATGAA
375936 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
375967 GTAAAATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:376030 original size:15 final size:17
Alignment explanation
Indices: 375964--376031 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 17
375954 ATATATATAT
*
375964 ATAGTAAAATAGAAAATA
1 ATAGTAATATA-AAAATA
* *
375982 ATAATCATA-ACAATAATA
1 ATAGTAATATA-AA-AATA
376000 ATAGTAATATGAAAAATA
1 ATAGTAATAT-AAAAATA
376018 ATA-TAATATAAAAA
1 ATAGTAATATAAAAA
376032 AAACCAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
16 5 0.12
17 9 0.22
18 24 0.59
19 2 0.05
20 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (17 bp):
ATAGTAATATAAAAATA
Found at i:376223 original size:2 final size:2
Alignment explanation
Indices: 376218--376250 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
376208 TTAAAAAAAG
376218 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
376251 AATAAGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:376836 original size:37 final size:37
Alignment explanation
Indices: 376795--376891 Score: 124
Period size: 37 Copynumber: 2.6 Consensus size: 37
376785 GGATCCTATC
* *
376795 TTTAGGAATTTAAATCATAGTAGAACTCTATCATATT
1 TTTAGGAGTTTGAATCATAGTAGAACTCTATCATATT
* * *
376832 TTTAGGAGTTTGAATCCA-AGAAAAATTCTATCATATT
1 TTTAGGAGTTTGAAT-CATAGTAGAACTCTATCATATT
*
376869 TTTAGGAGTTTGAATCCTAGTAG
1 TTTAGGAGTTTGAATCATAGTAG
376892 GACGAAAAGG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
36 1 0.02
37 47 0.94
38 2 0.04
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.39
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCATAGTAGAACTCTATCATATT
Found at i:377934 original size:106 final size:106
Alignment explanation
Indices: 377623--379844 Score: 3071
Period size: 106 Copynumber: 21.0 Consensus size: 106
377613 CATTGTTCCA
* * **** * *
377623 AGTCCAATATCCTCCG-TCGTGAAGTTTAAATTGGCTCTGAAACCAAGAAATTATTTGTTGACAA
1 AGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* * * * * *
377687 CCAGCCGTCCCTTCGTTGTGAAATTGAACTTGTGTTATCTCG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** * * * * *
377729 AAACCAATATCATTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAAA-T-TTTGTTGATAAT
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* * * * *
377788 CAGCCGCCCCTTCATCGTGAAGTTGAGCTTGTGTTGTCTTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGG
* * * *
377830 -GTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAAATGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* *
377894 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
377935 AGTCCAATATCCTAT-GCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 AGTCCAATATCCT-TCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
* *
377999 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTATCTGG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * * *
378041 AGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* * *
378106 CAGTGGTCCCTTCGTCGCGAAGTTGAACTTGCGTTGTCTAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
378147 AGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* *
378212 CAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
378253 AGTCCAATATCCTTCGTTGTGAAATTTAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
378318 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * ** * *
378359 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAAATTGATAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* * *
378424 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTTTGT
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
378465 AGTTCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTAACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* *
378530 CAGCGGTCCCTTCGTCGTGAAGTTGAAGTTGCGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
378571 AGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* *
378636 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCATTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
378677 AGTCCAATATCATTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
*
378742 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * * * *
378783 AGTCCAATATCCTTCGATGCGAAGTTGAAATTGGCTTTTAAATTGGGAAGTTATTTATTGACAAT
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
*
378848 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
378889 AGTCTAATATCTTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* *
378954 CAGCGGTCCCTTCATCGTGAAGTTGAATTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
378995 AGTCCAATATCCTTCGTTATGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* *
379060 CAGCGGTCCCTTCTTCGTGAAGTTGAACTTGCGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
379101 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* *
379166 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCATTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** ** * * *
379207 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTAAGAAGTTATTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
*
379272 CAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
379313 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* *
379378 CAGTGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
379419 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* * *
379484 CAGCGGTCCTTTCGTCGTGAAGTTAAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
379525 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAAGTTGTTTATTGACAA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TTGTTTATTGACAA
* * *** * **
379589 GCAGCGTTTTTTTCGTCTTGAAGTTGAACTTATGTTGTCTGG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
379631 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAAATTAGGAAATTATTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
*
379696 CAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
379737 AGTCCAATATCCTTCGATGTGAAGTTGAAATTAGCTCAGAAATTGGAAAATTG-TTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
* * * * ** *
379801 CAGCCGTCGCTTTGTTGTGAAGTTGAACTTATGTTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
379842 AGT
1 AGT
379845 GGCACGATAT
Statistics
Matches: 1884, Mismatches: 219, Indels: 27
0.88 0.10 0.01
Matches are distributed among these distances:
100 74 0.04
101 5 0.00
102 5 0.00
104 3 0.00
105 56 0.03
106 1734 0.92
107 7 0.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (106 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:380674 original size:22 final size:22
Alignment explanation
Indices: 380647--380745 Score: 162
Period size: 22 Copynumber: 4.5 Consensus size: 22
380637 TTATGTTTGA
380647 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
380669 TCAAAGGTTTAGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
380691 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* *
380713 TCATAGGTTTGGCATCTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
380735 TCAACGGTTTG
1 TCAAAGGTTTG
380746 ATGGGGTAGC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 71 1.00
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:381362 original size:22 final size:22
Alignment explanation
Indices: 381337--381417 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 22
381327 CTTTTTCTCC
*
381337 CTTTTTCTTTTGATTTTTGCTT
1 CTTTTTTTTTTGATTTTTGCTT
* *
381359 CTTTTCTTTTTTG-TTCTTGATT
1 CTTTT-TTTTTTGATTTTTGCTT
381381 CTCTTTTTTATTTGATTTTTGCTT
1 CT-TTTTTT-TTTGATTTTTGCTT
*
381405 CTTTACTTTTTTG
1 CTTT-TTTTTTTG
381418 TTCTTGATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
22 17 0.35
23 19 0.40
24 12 0.25
ACGTcount: A:0.06, C:0.14, G:0.09, T:0.72
Consensus pattern (22 bp):
CTTTTTTTTTTGATTTTTGCTT
Found at i:381375 original size:15 final size:15
Alignment explanation
Indices: 381350--381422 Score: 51
Period size: 16 Copynumber: 4.7 Consensus size: 15
381340 TTTCTTTTGA
381350 TTTTTGCTTCTTTTCT
1 TTTTTG-TTCTTTTCT
381366 TTTTTGTTCTTGATTCT
1 TTTTTGTTCTT--TTCT
* * **
381383 CTTTT-TT-ATTTGA
1 TTTTTGTTCTTTTCT
*
381396 TTTTTGCTTCTTTACT
1 TTTTTG-TTCTTTTCT
381412 TTTTTGTTCTT
1 TTTTTGTTCTT
381423 GATTGGATCT
Statistics
Matches: 43, Mismatches: 9, Indels: 11
0.68 0.14 0.17
Matches are distributed among these distances:
13 6 0.14
15 13 0.30
16 16 0.37
17 8 0.19
ACGTcount: A:0.05, C:0.14, G:0.08, T:0.73
Consensus pattern (15 bp):
TTTTTGTTCTTTTCT
Found at i:381396 original size:46 final size:46
Alignment explanation
Indices: 381337--381426 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
381327 CTTTTTCTCC
*
381337 CTTTTTCTTTTGATTTTTGCTTCTTTTCTTTTTTGTTCTTGATTCT
1 CTTTTTCTTTTGATTTTTGCTTCTTTACTTTTTTGTTCTTGATTCT
381383 CTTTTT-TATTTGATTTTTGCTTCTTTACTTTTTTGTTCTTGATT
1 CTTTTTCT-TTTGATTTTTGCTTCTTTACTTTTTTGTTCTTGATT
381427 GGATCTTCGC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
45 1 0.02
46 41 0.98
ACGTcount: A:0.07, C:0.13, G:0.09, T:0.71
Consensus pattern (46 bp):
CTTTTTCTTTTGATTTTTGCTTCTTTACTTTTTTGTTCTTGATTCT
Found at i:381546 original size:34 final size:37
Alignment explanation
Indices: 381507--381608 Score: 158
Period size: 34 Copynumber: 2.8 Consensus size: 37
381497 TTTTGTCCTA
381507 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
381542 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
*
381577 GCTAGGATTCAAACTCCTAAAAATATGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
381609 GTTCTACTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 7
0.88 0.01 0.10
Matches are distributed among these distances:
33 1 0.02
34 29 0.48
35 3 0.05
37 27 0.44
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:381592 original size:37 final size:35
Alignment explanation
Indices: 381507--381642 Score: 159
Period size: 37 Copynumber: 3.8 Consensus size: 35
381497 TTTTGTCCTA
381507 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
381542 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
* *
381577 GCTAGGATTCAAACTCCTAAAAATATGATAGAGTTCT
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGAATT-T
* * * *
381614 ACTAAGATTTAAATTCCTAAAGATAGGAT
1 -CTAGGATTCAAACTCCTAAAAATAGGAT
381643 CCACAAGCAC
Statistics
Matches: 87, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
33 1 0.01
34 29 0.33
35 3 0.03
36 2 0.02
37 51 0.59
38 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (35 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:382019 original size:17 final size:18
Alignment explanation
Indices: 381993--382035 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
381983 ATTATATGGA
*
381993 TATT-TTATTCAT-TTTT
1 TATTATTATTCATGTTAT
*
382009 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
382027 TATTATTAT
1 TATTATTAT
382036 ATGTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 8 0.36
18 11 0.50
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:387279 original size:16 final size:16
Alignment explanation
Indices: 387258--387318 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
387248 AAAAATGAAG
387258 AATAAAAATAAGTAAA
1 AATAAAAATAAGTAAA
*
387274 AATAAATAA-AAGGAAA
1 AATAAA-AATAAGTAAA
*
387290 AATAAATAAATAAATAAA
1 AAT-AA-AAATAAGTAAA
*
387308 ATATTAAAATA
1 A-ATAAAAATA
387319 TATATATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
16 15 0.42
17 11 0.31
18 8 0.22
19 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
AATAAAAATAAGTAAA
Found at i:387412 original size:22 final size:22
Alignment explanation
Indices: 387370--387412 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
387360 AATCATAACA
* *
387370 ATAATAATAGTAATATGAAAAT
1 ATAATAATAGTAAAATAAAAAT
387392 ATAAT-ATAGTATAAATAAAAA
1 ATAATAATAGTA-AAATAAAAA
387413 AACCAAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (22 bp):
ATAATAATAGTAAAATAAAAAT
Found at i:387556 original size:2 final size:2
Alignment explanation
Indices: 387549--387589 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
387539 GATAATTACA
387549 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
387590 GTAATAATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:394660 original size:22 final size:22
Alignment explanation
Indices: 394635--394678 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
394625 TTTAATGAAT
394635 GAAAATGAATATAAATG-TAAAA
1 GAAAATGAATA-AAATGATAAAA
*
394657 GAAAATTAATAAAATGATAAAA
1 GAAAATGAATAAAATGATAAAA
394679 ATATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (22 bp):
GAAAATGAATAAAATGATAAAA
Found at i:395548 original size:22 final size:22
Alignment explanation
Indices: 395523--395568 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
395513 AAATTTAATG
395523 AATGAACATGAATATAAATG-TA
1 AATGAACATGAATA-AAATGATA
* *
395545 AATGAATATTAATAAAATGATA
1 AATGAACATGAATAAAATGATA
395567 AA
1 AA
395569 AATGCAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.28
Consensus pattern (22 bp):
AATGAACATGAATAAAATGATA
Found at i:396514 original size:21 final size:21
Alignment explanation
Indices: 396484--396534 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
396474 ATTCCATCTC
*
396484 CTCAATCTCCTTACGCTGGCG
1 CTCAACCTCCTTACGCTGGCG
396505 CTCAACCTCCTTACGCTGGCG
1 CTCAACCTCCTTACGCTGGCG
396526 CTCAACCTC
1 CTCAACCTC
396535 TAGTTCTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.16, C:0.43, G:0.16, T:0.25
Consensus pattern (21 bp):
CTCAACCTCCTTACGCTGGCG
Found at i:397830 original size:37 final size:37
Alignment explanation
Indices: 397780--397880 Score: 130
Period size: 37 Copynumber: 2.7 Consensus size: 37
397770 TTCGTCCTAT
* *
397780 TAGGATTCAAACTCCTAAAAATAGGATAAAATTTTGC
1 TAGGATTCAAACTCCTAAAAATAGGATAAAATTCTAC
* *
397817 TAGGATTCAAACTCCTAAAAATAGAATAAAGTTCTAC
1 TAGGATTCAAACTCCTAAAAATAGGATAAAATTCTAC
* * * *
397854 TAAGATTTAAATTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
397881 CCACAAGCAC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.30
Consensus pattern (37 bp):
TAGGATTCAAACTCCTAAAAATAGGATAAAATTCTAC
Found at i:398275 original size:18 final size:17
Alignment explanation
Indices: 398236--398278 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
398226 ATTATATGGA
398236 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
398252 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
398270 TATTATTAT
1 TATTATTAT
398279 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:398288 original size:56 final size:53
Alignment explanation
Indices: 398235--398344 Score: 125
Period size: 56 Copynumber: 2.0 Consensus size: 53
398225 TATTATATGG
* * *
398235 ATATT-TTA-TTCATTTATTTTTATTATTCATGTTATTATTATTATATGTATATAT
1 ATATTATTATTTCATTTATTTTT-TTACT-ATATT-TTATTATTATATATATATAT
398289 ATATTAAATTATTTTCATTTATTTTTTTACTATATTTTATTATTATATATATATAT
1 ATATT--ATTA-TTTCATTTATTTTTTTACTATATTTTATTATTATATATATATAT
398345 TTCTTTAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
54 5 0.10
56 19 0.40
57 7 0.15
58 4 0.08
59 13 0.27
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (53 bp):
ATATTATTATTTCATTTATTTTTTTACTATATTTTATTATTATATATATATAT
Found at i:398851 original size:21 final size:22
Alignment explanation
Indices: 398822--398862 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
398812 ATATATATTA
* *
398822 TTATTTTAC-TATTTTTTTTTC
1 TTATCTTACTTATTTATTTTTC
398843 TTATCTTACTTATTTATTTT
1 TTATCTTACTTATTTATTTT
398863 ATTTATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (22 bp):
TTATCTTACTTATTTATTTTTC
Found at i:403169 original size:183 final size:182
Alignment explanation
Indices: 402861--403397 Score: 871
Period size: 183 Copynumber: 2.9 Consensus size: 182
402851 ATTAAATCCG
*
402861 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCGGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* *
402926 ATAGATTATGTTCAAATTATGACACTGCTCGGA-ATCTTGGCAATTCGGTGTTTGCTCCACTACT
66 ATAGATTATGTTCAAA-TATGACACTGCTTGGACA-CTTGGCAATTCGGTGTTTGCTCCACTGCT
*
402990 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCGTTCAGTGATTTGTCCCTC
129 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
* *
403044 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAATCCCTAGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
403109 ATAGATTATGTTCAAACTATGACACTACTTGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAA-TATGACACTGCTTGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
* *
403174 TTGTCAGGCCAAAGACTTTGTGATGAGACGTACCCTTCAGTGATTTGTCCCTC
130 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
* *
403227 TAAAGCTGAGCTATTCCACTAAGGCAATTGATTATAGAGGAAAATCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * *
403292 ATAGATTACATTCAAATCATGACATTGCTCT-AACACTTGGCAATTCGGTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAAT-ATGACACTGCT-TGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
*
403356 TTTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGT
129 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
403398 TAAACCTGAT
Statistics
Matches: 329, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
182 1 0.00
183 326 0.99
184 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (182 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAATATGACACTGCTTGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTTT
TGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:404615 original size:73 final size:76
Alignment explanation
Indices: 404520--404691 Score: 185
Period size: 72 Copynumber: 2.3 Consensus size: 76
404510 ATGCAGATGA
* * * *
404520 TTATCTCACTCAA-ATTTGTTTTTTCTTAAAACATA-CTTTGTCTCACTTGAGACTGTTTT-TCT
1 TTATTTCACTCAAGATTT-TTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACCGTTTTCACT
404582 CGAAA-AAAG-AT
64 CGAAAGAAAGCAT
* * *
404593 TTATTTCACTCAAGA-TTTTTTTTCTTAAAACAAGATTTGTCTCGCTTTAGACCGTTTTCACTTG
1 TTATTTCACTCAAGATTTTTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCG
*
404657 AAAGAAGGCAT
66 AAAGAAAGCAT
*
404668 TTAATTTCACTCAATGCTTTTTTT
1 TT-ATTTCACTCAA-GATTTTTTT
404692 AAGAAGATTT
Statistics
Matches: 82, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
71 1 0.01
72 35 0.43
73 20 0.24
74 4 0.05
75 4 0.05
76 11 0.13
77 1 0.01
78 6 0.07
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.45
Consensus pattern (76 bp):
TTATTTCACTCAAGATTTTTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCG
AAAGAAAGCAT
Found at i:405014 original size:104 final size:104
Alignment explanation
Indices: 404767--405080 Score: 442
Period size: 101 Copynumber: 3.1 Consensus size: 104
404757 GTTTCTCTTA
* *
404767 AAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAG-TTCCCTCGAAACAGAAAATTTT
1 AAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAATTTT
*
404831 GTCT-CCTTGAGATAGTTTCTCTTTAAACATAAACATTG
66 GTCTCCCTTGAGATAGTTTCTCTTCAAACATAAACATTG
* * * *
404869 -AAATATTTCCCTTAAAATGATTTTTTTTTCTCTCTTGAGATAGTTTCCCTCAAAACAGAAAATT
1 AAAACATTTCCCTTGAAATGA--ATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAATT
*
404933 TTGTCTCCCTTGAGATAGTTTCTCTTGAAACATAAACATTG
64 TTGTCTCCCTTGAGATAGTTTCTCTTCAAACATAAACATTG
* * *
404974 AAAACATTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-G--AATTTT
1 AAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAATTTT
* * *
405036 GTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACTTTG
66 GTCTCCCTTGAGATAGTTTCTCTTCAAACATAAACATTG
405075 AAAACA
1 AAAACA
405081 ATTTAACGAA
Statistics
Matches: 189, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
101 64 0.34
103 20 0.11
104 54 0.29
105 33 0.17
106 18 0.10
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (104 bp):
AAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAATTTT
GTCTCCCTTGAGATAGTTTCTCTTCAAACATAAACATTG
Found at i:405027 original size:36 final size:36
Alignment explanation
Indices: 404980--405055 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
404970 ATTGAAAACA
* * *
404980 TTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
*
405016 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
405052 TTTC
1 TTTC
405056 TCTCCAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
Found at i:405581 original size:105 final size:104
Alignment explanation
Indices: 405222--405878 Score: 875
Period size: 105 Copynumber: 6.3 Consensus size: 104
405212 CAAACATCCG
* * * * * * *
405222 AATTTCAACTCCACGACGGAGGATATCGTGACACTCGAGACAACACAAGTTCAACTTCACAACGA
1 AATTTCAACTTCACAACGAAGGATAT--TG-GACTCCAGACAACGCAAGTTCAACTTCACGACGA
*
405287 AGGGA---C-G-TTGTCAACAAACAACTTCTCAATTTCAGAGCC
63 AGGGACCGCTGCTTGTCAAC-AACAACTTCCCAA-TTCAGAGCC
405326 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
405391 GACCGCTACTTGTCAACAACAACTTCTCAATTTCA-AGCC
66 GACCGCTGCTTGTCAACAACAACTTCCCAA-TTCAGAGCC
* * *
405430 AATTTCAACTTCACAACGAATGATATTGGACTTCAGACAATGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
405495 GACCGCTGCTTGTCAACAGCAACTTCCCAATCTCAGAGCC
66 GACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCC
405535 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
405600 GACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCC
66 GACCGCTGCTTGTCAACAACAACTTCCCAAT-TCAGAGCC
*
405640 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTCCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
405705 GACCACTGCTTGTCAACAA-AA-TT-TC-ATTCAGAGTC
66 GACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCC
* * * * * * *
405740 AATTTTAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAGTTCAACTTGACAACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * **
405805 GACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCC
66 GACCGCTGCTTGTCAAC-AACAACTTCCCAATT-CAGAGCC
*
405846 AATTTCAACTTCACGACGAAGGATATTGGACTC
1 AATTTCAACTTCACAACGAAGGATATTGGACTC
405879 GGAACAATGC
Statistics
Matches: 500, Mismatches: 40, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
100 78 0.16
101 39 0.08
102 5 0.01
103 5 0.01
104 123 0.25
105 207 0.41
106 43 0.09
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (104 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGCTTGTCAACAACAACTTCCCAATTCAGAGCC
Found at i:405623 original size:209 final size:207
Alignment explanation
Indices: 405222--405878 Score: 880
Period size: 209 Copynumber: 3.2 Consensus size: 207
405212 CAAACATCCG
* * * * * * *
405222 AATTTCAACTCCACGACGGAGGATATCGTGACACTCGAGACAACACAAGTTCAACTTCACAACGA
1 AATTTCAACTTCACAACGAAGGATAT--TG-GACTCCAGACAACGCAAGTTCAACTTCACGACGA
405287 AGGGA--C-G-TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
63 AGGGACCCTGCTTGTCAAC--ACAACTTCTCAA-TTCAGAGCCAATTTCAACTTCACAACGAAGG
*
405348 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTACTTGTCAACAACAA
125 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA
*
405413 CTTCTCAATTTCA-AGCC
190 CTTCCCAATTTCAGAGCC
* * *
405430 AATTTCAACTTCACAACGAATGATATTGGACTTCAGACAATGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
405495 GACCGCTGCTTGTCAACAGCAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATA
66 GACC-CTGCTTGTCAACA-CAACTTCTCAAT-TCAGAGCCAATTTCAACTTCACAACGAAGGATA
405560 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTT
128 TTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTT
*
405625 CCCAATCTCAGAGCC
193 CCCAATTTCAGAGCC
*
405640 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTCCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * * *
405705 GACCACTGCTTGTCAACA-AAATT-TC-ATTCAGAGTCAATTTTAACTTCACAGCGAAGGATATT
66 GACC-CTGCTTGTCAACACAACTTCTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
* * * * * * * *
405767 AGACTCGAGACAACACAAGTTCAACTTGACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTC
130 GGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTC
** *
405832 CCGGTTCCAGAGCC
194 CCAATTTCAGAGCC
*
405846 AATTTCAACTTCACGACGAAGGATATTGGACTC
1 AATTTCAACTTCACAACGAAGGATATTGGACTC
405879 GGAACAATGC
Statistics
Matches: 403, Mismatches: 37, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
205 113 0.28
206 54 0.13
207 1 0.00
208 29 0.07
209 116 0.29
210 90 0.22
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (207 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCCTGCTTGTCAACACAACTTCTCAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCC
AATTTCAGAGCC
Found at i:406474 original size:37 final size:37
Alignment explanation
Indices: 406421--406525 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
406411 TATTTTTCTC
406421 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
406458 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
406495 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
406526 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:406904 original size:17 final size:18
Alignment explanation
Indices: 406878--406917 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
406868 ATTATATGGA
406878 TATT-TTATTCAT-TTAT
1 TATTATTATTCATGTTAT
*
406894 TTTTATTATTCATGTTAT
1 TATTATTATTCATGTTAT
406912 TATTAT
1 TATTAT
406918 ATGTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.15
17 8 0.40
18 9 0.45
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTATTATTCATGTTAT
Found at i:406968 original size:17 final size:16
Alignment explanation
Indices: 406946--406998 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
406936 AATTATTTTC
406946 ATTTATTTTTTTACTAT
1 ATTTATTTTTTTA-TAT
*
406963 ATTTATTATTATTATAT
1 ATTTATT-TTTTTATAT
* *
406980 ATATATTTCTTTA-AT
1 ATTTATTTTTTTATAT
406995 ATTT
1 ATTT
406999 TACTTATAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.17
16 4 0.13
17 16 0.53
18 5 0.17
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTTATTTTTTTATAT
Found at i:407214 original size:21 final size:20
Alignment explanation
Indices: 407160--407215 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
407150 ACTTTATAAC
* *
407160 TTTATATTATTTTTTATTAT
1 TTTATATTATTATTCATTAT
* *
407180 TTTCATTTTTTTATTCATTAT
1 TTT-ATATTATTATTCATTAT
407201 TATTATATTATTATT
1 T-TTATATTATTATT
407216 TTAAAAAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 3 0.11
21 23 0.82
22 2 0.07
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTATATTATTATTCATTAT
Found at i:407389 original size:36 final size:38
Alignment explanation
Indices: 407340--407415 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 38
407330 ATTGGGAGGG
*
407340 TAGCTTTTCTA-TTT-TTAAGTA-TTTGGTATATATATA
1 TAGCTTTTCTATTTTATTAA-TACTTTGATATATATATA
407376 TAGCTTATT-TATTTTATTAATACTTTGATATATATATA
1 TAGCTT-TTCTATTTTATTAATACTTTGATATATATATA
407414 TA
1 TA
407416 TTTATATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 8 0.23
37 7 0.20
38 20 0.57
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (38 bp):
TAGCTTTTCTATTTTATTAATACTTTGATATATATATA
Found at i:411802 original size:67 final size:67
Alignment explanation
Indices: 411693--411823 Score: 208
Period size: 67 Copynumber: 2.0 Consensus size: 67
411683 ACTTAAAGAT
* * * *
411693 TGATTTTTGGATGATATTTGCCCCACTATGACAATTTTATTTGGTGTTGGATGACGCTTGAATGA
1 TGATTTTTGGATAATATTTGCCACACCATGACAATTTGATTTGGTGTTGGATGACGCTTGAATGA
411758 TA
66 TA
**
411760 TGATTTTTGGATAATATTTGCCACACCATGATTATTTGATTTGGTGTTGGATGACGCTTGAATG
1 TGATTTTTGGATAATATTTGCCACACCATGACAATTTGATTTGGTGTTGGATGACGCTTGAATG
411824 GTACTTTGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.42
Consensus pattern (67 bp):
TGATTTTTGGATAATATTTGCCACACCATGACAATTTGATTTGGTGTTGGATGACGCTTGAATGA
TA
Found at i:427590 original size:41 final size:41
Alignment explanation
Indices: 427504--427591 Score: 99
Period size: 41 Copynumber: 2.1 Consensus size: 41
427494 TATCGCTTAG
* **
427504 TAAGTCCTTCGGGCCATCTGTAAGCATTCCAAGCATGATGT
1 TAAGTCCTTCGGACCATCTGTAAGCATTCCAAGCATGATAC
* *
427545 TAAGTCCTTCGGACCATTTGTAAGTC-TTCCTAGCA-GAATAC
1 TAAGTCCTTCGGACCATCTGTAAG-CATTCCAAGCATG-ATAC
427586 TAAGTC
1 TAAGTC
427592 ATCCGGGCCA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 1 0.03
41 38 0.95
42 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (41 bp):
TAAGTCCTTCGGACCATCTGTAAGCATTCCAAGCATGATAC
Found at i:429494 original size:65 final size:64
Alignment explanation
Indices: 429369--429502 Score: 173
Period size: 65 Copynumber: 2.1 Consensus size: 64
429359 ACCCTATTTT
* * * *
429369 GAATGCATTTTGTGTACCGATGCACAGTCATGCATAGATGCACTCTTGAATTTATTGAAACATC
1 GAATGCATTTTGTGTACCAATACACAGCCATGCATAGATGCACTCTAGAATTTATTGAAACATC
* *
429433 GAATGCATTTTGTGTACCAATACACAGACCATGCATCGATGCACTCCTAG-CTCTT-TTGAAACA
1 GAATGCATTTTGTGTACCAATACACAG-CCATGCATAGATGCACT-CTAGAAT-TTATTGAAACA
429496 TC
63 TC
429498 GAATG
1 GAATG
429503 TAATTAGTGT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
64 25 0.41
65 31 0.51
66 5 0.08
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (64 bp):
GAATGCATTTTGTGTACCAATACACAGCCATGCATAGATGCACTCTAGAATTTATTGAAACATC
Found at i:429531 original size:19 final size:19
Alignment explanation
Indices: 429507--429579 Score: 137
Period size: 19 Copynumber: 3.8 Consensus size: 19
429497 CGAATGTAAT
429507 TAGTGTACCGATGCACCCC
1 TAGTGTACCGATGCACCCC
*
429526 TAGTGTGCCGATGCACCCC
1 TAGTGTACCGATGCACCCC
429545 TAGTGTACCGATGCACCCC
1 TAGTGTACCGATGCACCCC
429564 TAGTGTACCGATGCAC
1 TAGTGTACCGATGCAC
429580 TAAGTCTTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.21, C:0.34, G:0.23, T:0.22
Consensus pattern (19 bp):
TAGTGTACCGATGCACCCC
Found at i:435619 original size:14 final size:14
Alignment explanation
Indices: 435600--435637 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
435590 AATGGGAAGT
*
435600 AATCCCTGCAAATA
1 AATCCCTGCAAAAA
435614 AATCCCTGCAAAAA
1 AATCCCTGCAAAAA
*
435628 AATCTCTGCA
1 AATCCCTGCA
435638 TATAGACAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.29, G:0.08, T:0.21
Consensus pattern (14 bp):
AATCCCTGCAAAAA
Found at i:442304 original size:25 final size:25
Alignment explanation
Indices: 442270--442319 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
442260 TATAATGAAA
442270 ATATTGTTTGGATTGAGATGGATTC
1 ATATTGTTTGGATTGAGATGGATTC
442295 ATATTGTTTGGATTGAGATGGATTC
1 ATATTGTTTGGATTGAGATGGATTC
442320 TCAAGGACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.04, G:0.28, T:0.44
Consensus pattern (25 bp):
ATATTGTTTGGATTGAGATGGATTC
Found at i:450395 original size:47 final size:45
Alignment explanation
Indices: 450318--450427 Score: 141
Period size: 47 Copynumber: 2.4 Consensus size: 45
450308 TATAATATGG
* * *
450318 TTATGGAAT-AATAGCAAGTATATTGATAAAATAAGCTTATGAGC
1 TTATGGAATAAATGGTAAGTATATTGATAAAATAAGCTTACGAGC
* *
450362 TTATGGAATTTAAATGGTAAGTATTTTGTTAAAATAAGCTTACGAGC
1 TTATGGAA--TAAATGGTAAGTATATTGATAAAATAAGCTTACGAGC
*
450409 TTATGGGATAAATGGTAAG
1 TTATGGAATAAATGGTAAG
450428 AGATTTTATA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
44 8 0.14
45 11 0.19
46 1 0.02
47 37 0.65
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (45 bp):
TTATGGAATAAATGGTAAGTATATTGATAAAATAAGCTTACGAGC
Found at i:457427 original size:14 final size:14
Alignment explanation
Indices: 457408--457437 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
457398 AAATTTAAAG
457408 ATTTATTTGAATAA
1 ATTTATTTGAATAA
*
457422 ATTTATTTGACTAA
1 ATTTATTTGAATAA
457436 AT
1 AT
457438 GGTAAATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (14 bp):
ATTTATTTGAATAA
Found at i:459087 original size:81 final size:81
Alignment explanation
Indices: 458905--459522 Score: 834
Period size: 81 Copynumber: 7.7 Consensus size: 81
458895 CATCTAACAT
* * *
458905 AAAGATGTCAATTATGCCAGTTAAATGAAAGGTTAAATACCTTTGAGTAAGAGA-TAATGGCCTA
1 AAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTA
*
458969 ACTGTGCATTTTACAG
66 ACTGTGCATTTGACAG
* *
458985 AAAGGT-TCCAATTATGCCAGTTAGATGAAAGGTTAAATACATTTGAGTAAAAGACTAATGGCCT
1 AAAGGTGT-CAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCT
* * *
459049 AGCTGTGTATTTGATAG
65 AACTGTGCATTTGACAG
*
459066 AAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAATATTAATGGCCT-
1 AAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTA
* * *
459130 ACATATGCATTTGGCAT
66 AC-TGTGCATTTGACAG
* * *
459147 AAAGGTGTCAATTATTCCAGTTAGATGAAAGGTTAAATATCTTTGAGTAAAATATTAATGGCCTA
1 AAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTA
* *
459212 GA-TGTGCATTTGGCAT
66 -ACTGTGCATTTGACAG
* * *
459228 AAAGGTGCCAATTATTCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAATATTAATGGCCTA
1 AAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTA
** *
459293 GTTGTGCATTTGAGAG
66 ACTGTGCATTTGACAG
* * **
459309 GAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACATTTGAGTAAAAGATTAATGGATTA
1 AAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTA
*
459374 ACTGTGCATTTGGCAG
66 ACTGTGCATTTGACAG
* * * *
459390 AAAAGTTTCAATTATGCCAGTTAGATGAAAGGTT-AATAACTTTGAGTAAAATATTAATGGCCTA
1 AAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTA
459454 ACTGTGCATTTGACAGG
66 ACTGTGCATTTGACA-G
* * *
459471 AAA-GTGTCAATCATGCAAGTTAGATGAAAGGTTAAATACCTTTGGGTAAAAG
1 AAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAG
459523 TCTAAATGTT
Statistics
Matches: 477, Mismatches: 52, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
79 1 0.00
80 115 0.24
81 359 0.75
82 1 0.00
83 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (81 bp):
AAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTA
ACTGTGCATTTGACAG
Found at i:463258 original size:96 final size:96
Alignment explanation
Indices: 463143--463338 Score: 295
Period size: 96 Copynumber: 2.0 Consensus size: 96
463133 ATCATTGATT
* * * *
463143 TACTGGTTTATTAACTATGGTTACTTGAAATATATTATCTGGTTACATGTTTTCACTGTAAAATA
1 TACTGGTTTATAAACTATGGTTACCTGAAATATATTATCTGATTACATGTTTTCACTGGAAAATA
*
463208 TAATCGTTCTTGATTTATGGATAATTG-AATC
66 TAATCGTTCTTGAATTATGGATAA-TGAAATC
* * *
463239 TACTGGTTTATAAACTATGGTTACCTGAAATGTGTTATCTGATTACTTGTTTTCACTGGAAAATA
1 TACTGGTTTATAAACTATGGTTACCTGAAATATATTATCTGATTACATGTTTTCACTGGAAAATA
*
463304 TAATCGTTCTTGAATTATGGATCATGAAATC
66 TAATCGTTCTTGAATTATGGATAATGAAATC
463335 TACT
1 TACT
463339 AGTTACTACT
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
95 2 0.02
96 88 0.98
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.43
Consensus pattern (96 bp):
TACTGGTTTATAAACTATGGTTACCTGAAATATATTATCTGATTACATGTTTTCACTGGAAAATA
TAATCGTTCTTGAATTATGGATAATGAAATC
Done.