Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008338.1 Hibiscus syriacus cultivar Beakdansim tig00111059_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: 2210178
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 12
Found at i:174930 original size:34 final size:34
Alignment explanation
Indices: 174868--174933 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
174858 GAAATAAGTT
* ** *
174868 TTGTCTCTCTTGAGACAGTTTCTTTTGAAACAAA
1 TTGTCCCTCTTGAGACAGTCCCTCTTGAAACAAA
174902 TTGTCCCTCTTGAGACAGTCCCTCTTGAAACA
1 TTGTCCCTCTTGAGACAGTCCCTCTTGAAACA
174934 CAAAAAAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.36
Consensus pattern (34 bp):
TTGTCCCTCTTGAGACAGTCCCTCTTGAAACAAA
Found at i:175314 original size:84 final size:84
Alignment explanation
Indices: 175012--175341 Score: 383
Period size: 84 Copynumber: 3.9 Consensus size: 84
175002 CAAAACATTT
* * * * * ** * *
175012 GAGTTCGATTACACTCAGCTTCGAGGGAACATCATTCACAACATATCTCAAGGCTAGAAGGGTTA
1 GAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTA
* *
175077 TATGCCAACCAAAGACCTTC
65 TCTGCCAACAAAAGACCTTC
* *
175097 GAGTTCGACTATGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGACTAGAAGGGTTAT
1 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTAT
*
175162 TTGCCAACCAAAA-ACCTTC
66 CTGCCAA-CAAAAGACCTTC
* * * *
175181 GAGTTCGACTACACTTAGCACCAAGGCACAGCATTTGCAGCATAACTCAAGGCTAGAAGGGTTAT
1 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTAT
175246 CTGCCAACAAAAGACCTTC
66 CTGCCAACAAAAGACCTTC
* * *** * * * *
175265 GAGTTCGACTACGCTCAGCTCTAAGGCACATAATTCATAGCACATCTCAAGGCAAGAAGGGCTAT
1 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTAT
*
175330 CTGTCAACAAAA
66 CTGCCAACAAAA
175342 TTGTCGATTT
Statistics
Matches: 209, Mismatches: 34, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
83 5 0.02
84 184 0.88
85 20 0.10
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (84 bp):
GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTAT
CTGCCAACAAAAGACCTTC
Found at i:176467 original size:19 final size:18
Alignment explanation
Indices: 176437--176563 Score: 64
Period size: 18 Copynumber: 6.6 Consensus size: 18
176427 TATATATATA
176437 TATATATGTTATTTTTTAT
1 TATATAT-TTATTTTTTAT
* *
176456 TATATGTTTTATTAATTTA-
1 TATAT-ATTTATT-TTTTAT
176475 TATATATTTACTTTTTTAT
1 TATATATTTA-TTTTTTAT
* * *
176494 T-TTTATTTATATATATAT
1 TATATATTTAT-TTTTTAT
*
176512 ATATATATTATTTTTACTTTAT
1 -TATATATT-TATTT--TTTAT
176534 TATTATATTTTATTTTGTT-T
1 TA-TATA-TTTATTTT-TTAT
176554 TAT-TATTTAT
1 TATATATTTAT
176564 AATCTTCTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 28
0.67 0.10 0.23
Matches are distributed among these distances:
17 6 0.07
18 22 0.27
19 20 0.24
20 15 0.18
21 6 0.07
22 12 0.14
23 2 0.02
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (18 bp):
TATATATTTATTTTTTAT
Found at i:176477 original size:38 final size:35
Alignment explanation
Indices: 176427--176526 Score: 114
Period size: 38 Copynumber: 2.7 Consensus size: 35
176417 ATTACATATA
176427 TATATATATATATATATGTTATTTTTTATTATATGT-TT
1 TATATATATATATATAT-TTATTTTTTATT-T-T-TATT
*
176465 TAT-TAATTTATATATATTTACTTTTTTATTTTTATT
1 TATAT-ATATATATATATTTA-TTTTTTATTTTTATT
176501 TATATATATATATATATATTATTTTT
1 TATATATATATATATAT-TTATTTTT
176527 ACTTTATTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
35 1 0.02
36 22 0.40
37 9 0.16
38 23 0.42
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (35 bp):
TATATATATATATATATTTATTTTTTATTTTTATT
Found at i:176603 original size:14 final size:13
Alignment explanation
Indices: 176568--176609 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
176558 ATTTATAATC
*
176568 TTCTTTATTTATT
1 TTCTTTTTTTATT
*
176581 TACTTTTTTTATT
1 TTCTTTTTTTATT
176594 TTCTTTTTTTTATT
1 TTC-TTTTTTTATT
176608 TT
1 TT
176610 ATTAATTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.12, C:0.07, G:0.00, T:0.81
Consensus pattern (13 bp):
TTCTTTTTTTATT
Found at i:176617 original size:23 final size:22
Alignment explanation
Indices: 176540--176621 Score: 65
Period size: 23 Copynumber: 3.4 Consensus size: 22
176530 TTATTATTAT
*
176540 ATTTTATTTTGTTTTATTATTTATA
1 ATTTTCTTTT-TTTTATT-TTT-TA
* *
176565 ATCTTCTTTATTTATTTACTTTTTTT
1 ATTTTC-TT-TTT-TTTA-TTTTTTA
176591 ATTTTCTTTTTTTTATTTTATTA
1 ATTTTCTTTTTTTTATTTT-TTA
176614 ATTTTCTT
1 ATTTTCTT
176622 CTTCATTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
22 4 0.09
23 14 0.30
24 3 0.06
25 6 0.13
26 9 0.19
27 9 0.19
28 2 0.04
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.74
Consensus pattern (22 bp):
ATTTTCTTTTTTTTATTTTTTA
Found at i:180538 original size:210 final size:214
Alignment explanation
Indices: 180176--180602 Score: 817
Period size: 210 Copynumber: 2.0 Consensus size: 214
180166 AAACTGATCG
180176 ACGCTTGTCAAAGATTCCTTTTAGGTTCGGGAGTCGATTACGCGTGGGGAAGGATTAGCACCCCC
1 ACGCTTGTCAAAGATTCCTTTTAGGTTCGGGAGTCGATTACGCGTGGGGAAGGATTAGCACCCCC
180241 AAAAGTTGGTACCTAATCACTTGTATGTTGTCGTGGTGGTGGAAATTATAAATTCGAACCAATAT
66 AAAAGTTGGTACCTAATCACTTGTATGTTGTCGTGGTGGTGGAAATTATAAATTCGAACCAATAT
*
180306 TTAAAGTGTGATCCTTTTATTGAATA-TAATTAAC-TA-TTTGAATTGATTACTAGGAAA-GCTC
131 TTAAAGTGTGATACTTTTATTGAATATTAATTAACTTATTTTGAATTGATTACTAGGAAATGCTC
180367 CTTAATTTGAGAAGAAATA
196 CTTAATTTGAGAAGAAATA
180386 ACGCTTGTCAAAGATTCCTTTTAGGTTCGGGAGTCGATTACGCGTGGGGAAGGATTAGCACCCCC
1 ACGCTTGTCAAAGATTCCTTTTAGGTTCGGGAGTCGATTACGCGTGGGGAAGGATTAGCACCCCC
180451 AAAAGTTGGTACCTAATCACTTGTATGTTGTCGTGGTGGTGGAAATTATAAATTCGAACCAATAT
66 AAAAGTTGGTACCTAATCACTTGTATGTTGTCGTGGTGGTGGAAATTATAAATTCGAACCAATAT
180516 TTAAAGTGTGATACTTTTATTGAATATTAATTAACTTATTTTGAATTGATTACTAGGAAATGCTC
131 TTAAAGTGTGATACTTTTATTGAATATTAATTAACTTATTTTGAATTGATTACTAGGAAATGCTC
180581 CTTAATTTGAGAAGAAATA
196 CTTAATTTGAGAAGAAATA
180600 ACG
1 ACG
180603 AGATTTGCAC
Statistics
Matches: 212, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
210 155 0.73
211 8 0.04
212 2 0.01
213 21 0.10
214 26 0.12
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (214 bp):
ACGCTTGTCAAAGATTCCTTTTAGGTTCGGGAGTCGATTACGCGTGGGGAAGGATTAGCACCCCC
AAAAGTTGGTACCTAATCACTTGTATGTTGTCGTGGTGGTGGAAATTATAAATTCGAACCAATAT
TTAAAGTGTGATACTTTTATTGAATATTAATTAACTTATTTTGAATTGATTACTAGGAAATGCTC
CTTAATTTGAGAAGAAATA
Found at i:181122 original size:40 final size:40
Alignment explanation
Indices: 181030--181222 Score: 223
Period size: 40 Copynumber: 4.8 Consensus size: 40
181020 AAATGACCAA
* * * **
181030 CAAATTCGCAACGCGA-ACTCCAATTTCGCAACCCAG-TTT
1 CAAATTCGCAACGCGATAGT-CAAATTCGCAACACAGAAGT
*
181069 CTAATTTCGCAACGCGAATATGT-AAA-TCGCAACACAGAAGT
1 C-AAATTCGCAACGCG-ATA-GTCAAATTCGCAACACAGAAGT
* *
181110 CAAATTCACAACGCGATAGTCAAATTCGCAACACAAAAGT
1 CAAATTCGCAACGCGATAGTCAAATTCGCAACACAGAAGT
181150 CAAATTCGCAACGCGATAGTCAAATTCGCAACACAGAAGT
1 CAAATTCGCAACGCGATAGTCAAATTCGCAACACAGAAGT
* *
181190 CAAATTCGCAACGCGAAATTTCAAATTCGCAAC
1 CAAATTCGCAACGCGATA-GTCAAATTCGCAAC
181223 TGAATTTCAA
Statistics
Matches: 133, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.02
39 7 0.05
40 104 0.78
41 18 0.14
42 1 0.01
43 1 0.01
ACGTcount: A:0.39, C:0.26, G:0.15, T:0.20
Consensus pattern (40 bp):
CAAATTCGCAACGCGATAGTCAAATTCGCAACACAGAAGT
Found at i:181130 original size:20 final size:20
Alignment explanation
Indices: 181074--181222 Score: 153
Period size: 20 Copynumber: 7.4 Consensus size: 20
181064 AGTTTCTAAT
181074 TTCGCAACGCGAATATGT-AAA
1 TTCGCAACGCG-ATA-GTCAAA
*
181095 -TCGCAACACAGA-AGTCAAA
1 TTCGCAACGC-GATAGTCAAA
*
181114 TTCACAACGCGATAGTCAAA
1 TTCGCAACGCGATAGTCAAA
* * *
181134 TTCGCAACACAAAAGTCAAA
1 TTCGCAACGCGATAGTCAAA
181154 TTCGCAACGCGATAGTCAAA
1 TTCGCAACGCGATAGTCAAA
*
181174 TTCGCAACACAGA-AGTCAAA
1 TTCGCAACGC-GATAGTCAAA
* *
181194 TTCGCAACGCGAAATTTCAAA
1 TTCGCAACGCGATA-GTCAAA
181215 TTCGCAAC
1 TTCGCAAC
181223 TGAATTTCAA
Statistics
Matches: 108, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
18 2 0.02
19 8 0.07
20 82 0.76
21 16 0.15
ACGTcount: A:0.41, C:0.25, G:0.15, T:0.19
Consensus pattern (20 bp):
TTCGCAACGCGATAGTCAAA
Found at i:181233 original size:40 final size:38
Alignment explanation
Indices: 181074--181241 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 38
181064 AGTTTCTAAT
181074 TTCGCAACGCGAATATGT-AAA-TCGCAACACAGAAGTCAAA
1 TTCGCAACGCGAA-A-GTCAAATTCGC-A-ACAGAAGTCAAA
* * *
181114 TTCACAACGCGATAGTCAAATTCGCAACACAAAAGTCAAA
1 TTCGCAACGCGAAAGTCAAATTCGC-A-ACAGAAGTCAAA
*
181154 TTCGCAACGCGATAGTCAAATTCGCAACACAGAAGTCAAA
1 TTCGCAACGCGAAAGTCAAATTCGC-A-ACAGAAGTCAAA
* * *
181194 TTCGCAACGCGAAATTTCAAATTCGCAACTGAATTTCAAA
1 TTCGCAACGCGAAA-GTCAAATTCGCAACAGAA-GTCAAA
181234 TTCGCAAC
1 TTCGCAAC
181242 TAGATTTCAA
Statistics
Matches: 115, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.02
39 9 0.08
40 94 0.82
41 10 0.09
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.20
Consensus pattern (38 bp):
TTCGCAACGCGAAAGTCAAATTCGCAACAGAAGTCAAA
Found at i:181233 original size:60 final size:60
Alignment explanation
Indices: 181107--181241 Score: 159
Period size: 60 Copynumber: 2.2 Consensus size: 60
181097 GCAACACAGA
* * *
181107 AGTCAAATTCACAACGCGATAGTCAAATTCGCAACACAAAAGTCAAATTCGCAACGCGAT
1 AGTCAAATTCGCAACACGATAGTCAAATTCGCAACACAAAAGTCAAATTCGCAACGCAAT
* **
181167 AGTCAAATTCGCAACACAGA-AGTCAAATTCGCAACGCGAAATTTCAAATTCGCAACTG-AAT
1 AGTCAAATTCGCAACAC-GATAGTCAAATTCGCAACAC-AAAAGTCAAATTCGCAAC-GCAAT
*
181228 -TTCAAATTCGCAAC
1 AGTCAAATTCGCAAC
181242 TAGATTTCAA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
60 44 0.68
61 20 0.31
62 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (60 bp):
AGTCAAATTCGCAACACGATAGTCAAATTCGCAACACAAAAGTCAAATTCGCAACGCAAT
Found at i:181233 original size:80 final size:79
Alignment explanation
Indices: 181030--181241 Score: 248
Period size: 80 Copynumber: 2.6 Consensus size: 79
181020 AAATGACCAA
* * * * * *
181030 CAAATTCGCAACGCGAACTCCAATTTCGCAACCCAGTTTCTAATTTCGCAACGCGAATATGTAAA
1 CAAATTCGCAACGCGAAATTCAAATTCGCAACCAAATTTC-AAATTCGCAACGCGAATATGTAAA
181095 TCGCAACACAGAAGT
65 TCGCAACACAGAAGT
* * * **
181110 CAAATTCACAACGCGATAGTCAAATTCGCAACACAAAAGTCAAATTCGCAACGCG-ATA-GTCAA
1 CAAATTCGCAACGCGAAATTCAAATTCGCAAC-CAAATTTCAAATTCGCAACGCGAATATGT-AA
181173 ATTCGCAACACAGAAGT
64 A-TCGCAACACAGAAGT
**
181190 CAAATTCGCAACGCGAAATTTCAAATTCGCAACTGAATTTCAAATTCGCAAC
1 CAAATTCGCAACGCGAAA-TTCAAATTCGCAACCAAATTTCAAATTCGCAAC
181242 TAGATTTCAA
Statistics
Matches: 110, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
78 2 0.02
79 6 0.05
80 85 0.77
81 17 0.15
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.21
Consensus pattern (79 bp):
CAAATTCGCAACGCGAAATTCAAATTCGCAACCAAATTTCAAATTCGCAACGCGAATATGTAAAT
CGCAACACAGAAGT
Found at i:181262 original size:19 final size:19
Alignment explanation
Indices: 181149--181267 Score: 105
Period size: 19 Copynumber: 6.1 Consensus size: 19
181139 AACACAAAAG
** *
181149 TCAAATTCGCAACGCGATAG
1 TCAAATTCGCAACTAGAT-T
* **
181169 TCAAATTCGCAACACAGAAG
1 TCAAATTCGCAAC-TAGATT
* *
181189 TCAAATTCGCAACGCGAAATT
1 TCAAATTCGCAA--CTAGATT
181210 TCAAATTCGCAACT-GAATT
1 TCAAATTCGCAACTAG-ATT
181229 TCAAATTCGCAACTAGATT
1 TCAAATTCGCAACTAGATT
*
181248 TCAAATTCACAACTAGATT
1 TCAAATTCGCAACTAGATT
181267 T
1 T
181268 TTGAATTCAC
Statistics
Matches: 84, Mismatches: 10, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
19 40 0.48
20 27 0.32
21 16 0.19
22 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (19 bp):
TCAAATTCGCAACTAGATT
Found at i:182094 original size:12 final size:12
Alignment explanation
Indices: 182073--182106 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
182063 ACCACATTTC
*
182073 CAATACCAAACA
1 CAATATCAAACA
182085 CAATATCAAACA
1 CAATATCAAACA
*
182097 CAATCTCAAA
1 CAATATCAAA
182107 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:182256 original size:24 final size:24
Alignment explanation
Indices: 182229--182282 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
182219 GTATTCGAAA
182229 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
182253 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
182277 TTTGAT
1 TTTGAT
182283 GATGTGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:182461 original size:3 final size:3
Alignment explanation
Indices: 182453--182484 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
182443 ATTATAACCT
182453 GAA GAA GAA GAA G-A GAA GAA G-A GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
182485 TCCCGAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:182471 original size:8 final size:8
Alignment explanation
Indices: 182453--182482 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
182443 ATTATAACCT
182453 GAAGAAGAA
1 GAAG-AGAA
182462 GAAGAGAA
1 GAAGAGAA
182470 GAAGAGAA
1 GAAGAGAA
182478 GAAGA
1 GAAGA
182483 AGTCCCGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (8 bp):
GAAGAGAA
Found at i:184557 original size:18 final size:18
Alignment explanation
Indices: 184523--184563 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
184513 AAGCAAAATG
**
184523 AAATCAAAATCGTAATCA
1 AAATCAAAATCCCAATCA
184541 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
*
184559 CAATC
1 AAATC
184564 GGCTTCACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.24, G:0.02, T:0.20
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:184908 original size:20 final size:20
Alignment explanation
Indices: 184883--185013 Score: 81
Period size: 20 Copynumber: 7.2 Consensus size: 20
184873 AAAATCATAA
184883 TGCGAATTTGACTTTCGCGT
1 TGCGAATTTGACTTTCGCGT
*
184903 TGCGAATTTGACTATCGC--
1 TGCGAATTTGACTTTCGCGT
** * *
184921 AACG--CTT-A-TTTTGCGT
1 TGCGAATTTGACTTTCGCGT
184937 TGCGAATTT-ACCTTTCGCGT
1 TGCGAATTTGA-CTTTCGCGT
*
184957 TGCGAATTTGACTATCGC--
1 TGCGAATTTGACTTTCGCGT
** *
184975 AACG--CTT-A-TTTCGCGT
1 TGCGAATTTGACTTTCGCGT
184991 TGCGAATTTGACTTTCGCGT
1 TGCGAATTTGACTTTCGCGT
185011 TGC
1 TGC
185014 AAAAGTTTAC
Statistics
Matches: 80, Mismatches: 18, Indels: 26
0.65 0.15 0.21
Matches are distributed among these distances:
14 9 0.11
15 2 0.03
16 8 0.10
18 9 0.11
19 1 0.01
20 50 0.62
21 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
TGCGAATTTGACTTTCGCGT
Found at i:184941 original size:54 final size:54
Alignment explanation
Indices: 184883--185013 Score: 237
Period size: 54 Copynumber: 2.4 Consensus size: 54
184873 AAAATCATAA
*
184883 TGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCGCAACGCTTATTTTGCGT
1 TGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCGCAACGCTTATTTCGCGT
184937 TGCGAATTT-ACCTTTCGCGTTGCGAATTTGACTATCGCAACGCTTATTTCGCGT
1 TGCGAATTTGA-CTTTCGCGTTGCGAATTTGACTATCGCAACGCTTATTTCGCGT
184991 TGCGAATTTGACTTTCGCGTTGC
1 TGCGAATTTGACTTTCGCGTTGC
185014 AAAAGTTTAC
Statistics
Matches: 74, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
53 1 0.01
54 72 0.97
55 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (54 bp):
TGCGAATTTGACTTTCGCGTTGCGAATTTGACTATCGCAACGCTTATTTCGCGT
Found at i:185125 original size:25 final size:25
Alignment explanation
Indices: 185087--185134 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
185077 AAATCAATTA
* *
185087 AACATTTTTGTGGGTACATTATTCG
1 AACATTGTTATGGGTACATTATTCG
185112 AACATTGTTATGGGTACATTATT
1 AACATTGTTATGGGTACATTATT
185135 TGGAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTCG
Found at i:185565 original size:24 final size:24
Alignment explanation
Indices: 185514--185566 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
185504 TTTCATATGT
* * * *
185514 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATGTAAATATA
*
185538 AATTTGAGTTTGAATGTCAATATA
1 AATTTGAGTTTGAATGTAAATATA
185562 AATTT
1 AATTT
185567 CGGCTCCACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (24 bp):
AATTTGAGTTTGAATGTAAATATA
Found at i:186534 original size:18 final size:18
Alignment explanation
Indices: 186511--186551 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
186501 AAGCAAAAGG
*
186511 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
186529 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
*
186547 CAATC
1 AAATC
186552 GACTTCACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.54, C:0.27, G:0.02, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:186930 original size:20 final size:20
Alignment explanation
Indices: 186875--186924 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
186865 CAAATCAAAA
186875 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
* **
186895 TTCGCATTGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
186915 ATCGCAACGC
1 ATCGCAACGC
186925 TTATTTCGCG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:187097 original size:14 final size:14
Alignment explanation
Indices: 187078--187127 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
187068 ATTCTTATTT
187078 ACAAATCAAATTAA
1 ACAAATCAAATTAA
* **
187092 ACAAATCAACTTTT
1 ACAAATCAAATTAA
187106 ACAAATC-AATTAA
1 ACAAATCAAATTAA
187119 ACAAA-CAAA
1 ACAAATCAAA
187128 AAATAATTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
12 1 0.03
13 10 0.34
14 18 0.62
ACGTcount: A:0.60, C:0.18, G:0.00, T:0.22
Consensus pattern (14 bp):
ACAAATCAAATTAA
Found at i:187129 original size:67 final size:64
Alignment explanation
Indices: 187024--187168 Score: 227
Period size: 67 Copynumber: 2.2 Consensus size: 64
187014 AATTTAAAAC
*
187024 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAATAATAATTCTTATTTACAAATCAAAT
1 AACAAATCAACTTTTACAAATCAATTAAACAAAC-AAAA-AATAATTCTTATTTACAAATC-AAT
187089 TA
63 TA
* **
187091 AACAAATCAACTTTTACAAATCAATTAAACAAACAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAACAAAAAATAATTCTTATTTACAAATCAATTA
187155 AACAAATCAACTTT
1 AACAAATCAACTTT
187169 CAATGTAAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
64 19 0.26
65 18 0.24
66 4 0.05
67 33 0.45
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.30
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAACAAAAAATAATTCTTATTTACAAATCAATTA
Found at i:188566 original size:21 final size:20
Alignment explanation
Indices: 188542--188619 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 20
188532 GCGGACGGGA
188542 CCTCTTGAACGATGAGAGGGG
1 CCTCTTGAACGAT-AGAGGGG
*
188563 CCTCTTGAACTATAGGAGGGG
1 CCTCTTGAACGATA-GAGGGG
* *
188584 CTTCTTCG-ATGATAAGAGGGG
1 CCTCTT-GAACGAT-AGAGGGG
*
188605 CCTCTTGAATGATAG
1 CCTCTTGAACGATAG
188620 GACTTGAATG
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.08
21 42 0.88
22 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (20 bp):
CCTCTTGAACGATAGAGGGG
Found at i:189080 original size:21 final size:21
Alignment explanation
Indices: 189047--189107 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
189037 ATCTTCACGT
* *
189047 AAAGTACCGACCTCATGACAC
1 AAAGCACCGACCTCATCACAC
* *
189068 AAAGCACCAACCTCATCACGC
1 AAAGCACCGACCTCATCACAC
189089 AAAGCACCGACCTCATCAC
1 AAAGCACCGACCTCATCAC
189108 CGTAACTCCC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.39, G:0.11, T:0.11
Consensus pattern (21 bp):
AAAGCACCGACCTCATCACAC
Found at i:190833 original size:20 final size:19
Alignment explanation
Indices: 190810--190860 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
190800 AGTAGTTTCT
*
190810 GAAACTTAAATTCACAACGC
1 GAAACTAAAATT-ACAACGC
* *
190830 GAAAATGAAAATTGCAACGC
1 GAAACT-AAAATTACAACGC
190850 GAAACTAAAAT
1 GAAACTAAAAT
190861 CGCGTTGCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 5 0.19
20 16 0.62
21 5 0.19
ACGTcount: A:0.51, C:0.18, G:0.14, T:0.18
Consensus pattern (19 bp):
GAAACTAAAATTACAACGC
Found at i:190895 original size:14 final size:14
Alignment explanation
Indices: 190896--190929 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
190886 TGCGATTTTC
190896 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
190910 ATTTTGGTGTTGCG
1 ATTTTCGCGTTGCG
190924 ATTTTC
1 ATTTTC
190930 ATTTTCGTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.15, G:0.26, T:0.50
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:190933 original size:20 final size:20
Alignment explanation
Indices: 190860--190914 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
190850 GAAACTAAAA
190860 TCGCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCATTT
190880 TCGCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCATTT
190900 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
190915 GGTGTTGCGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.09, C:0.20, G:0.22, T:0.49
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATTT
Found at i:190955 original size:20 final size:20
Alignment explanation
Indices: 190916--190955 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
190906 TGCGATTTTG
* * *
190916 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGAATTTAAGTTTC
190936 GTGTTGCGAATTTAAGTTTC
1 GTGTTGCGAATTTAAGTTTC
190956 AAAAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.23, T:0.50
Consensus pattern (20 bp):
GTGTTGCGAATTTAAGTTTC
Found at i:195791 original size:20 final size:20
Alignment explanation
Indices: 195766--195834 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
195756 GATTGATTGG
195766 TATCGATA-TCCTATAACTAA
1 TATCGATACT-CTATAACTAA
* *
195786 TATCGATACTATATAACTAG
1 TATCGATACTCTATAACTAA
* *
195806 TATTGATACTCTATAACTAG
1 TATCGATACTCTATAACTAA
*
195826 TACCGATAC
1 TATCGATAC
195835 ACTTTGATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 41 0.98
21 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (20 bp):
TATCGATACTCTATAACTAA
Found at i:197999 original size:20 final size:20
Alignment explanation
Indices: 197944--198001 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
197934 TTTTAAATTA
** *
197944 TTTATTTTATTCTTAAATTAT
1 TTTATTTTA-TCTTTTATAAT
*
197965 TTTATATTTA-GTTTTATAAT
1 TTTAT-TTTATCTTTTATAAT
197985 TTTATTTTATCTTTTAT
1 TTTATTTTATCTTTTAT
198002 TGTTAGATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 4 0.13
20 17 0.57
21 5 0.17
22 4 0.13
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTATTTTATCTTTTATAAT
Found at i:202646 original size:34 final size:34
Alignment explanation
Indices: 202603--202687 Score: 143
Period size: 34 Copynumber: 2.5 Consensus size: 34
202593 TATGATTGAT
202603 CTCTCGGCGTCTTCAGTTGGATTCTTCATAGGAA
1 CTCTCGGCGTCTTCAGTTGGATTCTTCATAGGAA
*
202637 CTCTCGGCGTCTTCAGTTGGATTCTTCGTAGGAA
1 CTCTCGGCGTCTTCAGTTGGATTCTTCATAGGAA
* *
202671 ATCTCGACGTCTTCAGT
1 CTCTCGGCGTCTTCAGT
202688 GCTGTGCATG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (34 bp):
CTCTCGGCGTCTTCAGTTGGATTCTTCATAGGAA
Found at i:202741 original size:22 final size:22
Alignment explanation
Indices: 202709--202761 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
202699 GACTGGACGT
*
202709 GAGAAATCACGGGTTCTGCAAG
1 GAGAAAGCACGGGTTCTGCAAG
202731 GAGAAAGCACGGGTTCTGCAAG
1 GAGAAAGCACGGGTTCTGCAAG
202753 GAGAAAGCA
1 GAGAAAGCA
202762 TAGAAATCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.34, T:0.13
Consensus pattern (22 bp):
GAGAAAGCACGGGTTCTGCAAG
Found at i:202818 original size:23 final size:23
Alignment explanation
Indices: 202792--202835 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
202782 TCCTGCAGGG
202792 CTGCACGTCTGCATGTGGGGGTC
1 CTGCACGTCTGCATGTGGGGGTC
202815 CTGCACGTCTGCATGTGGGGG
1 CTGCACGTCTGCATGTGGGGG
202836 GCATGCAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.09, C:0.25, G:0.41, T:0.25
Consensus pattern (23 bp):
CTGCACGTCTGCATGTGGGGGTC
Found at i:202842 original size:23 final size:22
Alignment explanation
Indices: 202789--202842 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 22
202779 GGGTCCTGCA
202789 GGGCTGCACGTCTGCATGTGGG
1 GGGCTGCACGTCTGCATGTGGG
*
202811 GGTCCTGCACGTCTGCATGTGGG
1 GG-GCTGCACGTCTGCATGTGGG
202834 GGGCATGCA
1 GGGC-TGCA
202843 ACTGTTGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 3 0.11
23 25 0.89
ACGTcount: A:0.11, C:0.24, G:0.43, T:0.22
Consensus pattern (22 bp):
GGGCTGCACGTCTGCATGTGGG
Found at i:203581 original size:172 final size:173
Alignment explanation
Indices: 203294--203652 Score: 560
Period size: 172 Copynumber: 2.1 Consensus size: 173
203284 TTGTAAAGTT
* * *
203294 TTAGGGACCGTTTTGTAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATTAAAAGTTGCTAT
1 TTAGGGATCGTTTTGAAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATAAAAAGTTGCTAT
*
203359 ACTATGCTGGAATTTAGTATTAGTATGCTTAATTGGTTAAATTAGAAAGAA-TTTAAAATTTA-T
66 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTTAAAATTTAGT
*
203422 GGATTAAATTGCTAACTTTGAAAATGTTGAGAACCAAATAGTAA
131 -GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
* * *
203466 TTAGGGATCGTTTTGAAAAATTTGAGGAATTTAAGGAATTAGAGTAAATTATAAAAAGTTGGTAT
1 TTAGGGATCGTTTTGAAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATAAAAAGTTGCTAT
* * * *
203531 ACTATGCTTGAATTTAGTATTAATATGGTTAATTGGTTAAATTTGAAAGAATTTTTAAATTTAGT
66 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTTAAAATTTAGT
* *
203596 GATTAAATTGCAAAGTTTGAAAATGTTGAGAAGCAAATAGTAA
131 GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
*
203639 TTAGGGATCATTTT
1 TTAGGGATCGTTTT
203653 ATATTTGATG
Statistics
Matches: 170, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
172 106 0.62
173 63 0.37
174 1 0.01
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.37
Consensus pattern (173 bp):
TTAGGGATCGTTTTGAAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATAAAAAGTTGCTAT
ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTTAAAATTTAGT
GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
Found at i:205931 original size:14 final size:14
Alignment explanation
Indices: 205912--206544 Score: 313
Period size: 14 Copynumber: 45.6 Consensus size: 14
205902 GTAATTATTA
205912 AAATCATTAAAATT
1 AAATCATTAAAATT
205926 AAATCATTAAAATT
1 AAATCATTAAAATT
* * **
205940 AAGTAATTATTATT
1 AAATCATTAAAATT
*
205954 AAATTATTAAAATT
1 AAATCATTAAAATT
*
205968 AAATCATT-AAAGT
1 AAATCATTAAAATT
*
205981 -AATTATT---ATT
1 AAATCATTAAAATT
205991 AAATCATTAAATCATT
1 AAATCATTAAA--ATT
* **
206007 AAAGTAATTATTATT
1 AAA-TCATTAAAATT
* *
206022 AAAGCATTAAAGTT
1 AAATCATTAAAATT
206036 AAATCATT-AAATT
1 AAATCATTAAAATT
206049 AAATCATTAAATCATT
1 AAATCATTAAA--ATT
* **
206065 AAAGTAATTATTATT
1 AAA-TCATTAAAATT
*
206080 AAATAATTAAATCATT
1 AAATCATTAAA--ATT
* **
206096 AAAGTAATTATTATT
1 AAA-TCATTAAAATT
*
206111 AAATCATTAAAGTT
1 AAATCATTAAAATT
206125 AAATCATTAAATCATT
1 AAATCATTAAA--ATT
206141 AAA--ATTAAATCATT
1 AAATCATTAAA--ATT
* **
206155 AAAGTAATTATTATT
1 AAA-TCATTAAAATT
206170 AAATCATTAAAATT
1 AAATCATTAAAATT
*
206184 AAATCATT-AAAGT
1 AAATCATTAAAATT
*
206197 -AATTATT---ATT
1 AAATCATTAAAATT
*
206207 AAATCATTAAAGTT
1 AAATCATTAAAATT
*
206221 AAATCATT-AAAGT
1 AAATCATTAAAATT
*
206234 -AATTATT---ATT
1 AAATCATTAAAATT
*
206244 AAATCATTAAAGTT
1 AAATCATTAAAATT
* **
206258 AAATAATTATTATT
1 AAATCATTAAAATT
*
206272 AAATCATTAAAGTT
1 AAATCATTAAAATT
*
206286 AAATCATT-AAAGT
1 AAATCATTAAAATT
*
206299 AATTATTATTAAATCATT
1 AA--ATCATTAAA--ATT
206317 AAATCATTAAATCATT
1 AAATCATTAAA--ATT
* **
206333 AAAGTAATTATTATT
1 AAA-TCATTAAAATT
*
206348 AAATCATTAAAGTT
1 AAATCATTAAAATT
206362 AAATCATTAAATCATT
1 AAATCATTAAA--ATT
206378 AAA--ATTAAATCATT
1 AAATCATTAAA--ATT
* **
206392 AAAGTAATTATTATT
1 AAA-TCATTAAAATT
206407 AAATCATTAAAATT
1 AAATCATTAAAATT
*
206421 AAATCATT-AAAGT
1 AAATCATTAAAATT
*
206434 -AATTATT---ATT
1 AAATCATTAAAATT
*
206444 AAATCATTAAAGTT
1 AAATCATTAAAATT
*
206458 AAATCATT-AAAGT
1 AAATCATTAAAATT
*
206471 -AATTATT---ATT
1 AAATCATTAAAATT
*
206481 AAATCATTAAAGTT
1 AAATCATTAAAATT
* **
206495 -AATAATTATTATT
1 AAATCATTAAAATT
*
206508 AAATCATTAAAGTT
1 AAATCATTAAAATT
* *
206522 AAATAATTAAATTT
1 AAATCATTAAAATT
*
206536 AAATAATTA
1 AAATCATTA
206545 TTATTAAATA
Statistics
Matches: 474, Mismatches: 98, Indels: 94
0.71 0.15 0.14
Matches are distributed among these distances:
10 10 0.02
11 30 0.06
12 30 0.06
13 44 0.09
14 240 0.51
15 41 0.09
16 46 0.10
17 29 0.06
18 4 0.01
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (14 bp):
AAATCATTAAAATT
Found at i:205985 original size:9 final size:8
Alignment explanation
Indices: 205922--206544 Score: 137
Period size: 8 Copynumber: 83.6 Consensus size: 8
205912 AAATCATTAA
205922 AATTAAAT
1 AATTAAAT
*
205930 CATT-AA-
1 AATTAAAT
*
205936 AATTAAGT
1 AATTAAAT
205944 AATT--AT
1 AATTAAAT
*
205950 TATTAAAT
1 AATTAAAT
*
205958 TATT-AA-
1 AATTAAAT
205964 AATTAAAT
1 AATTAAAT
*
205972 CATTAAAGT
1 AATTAAA-T
205981 AATT--AT
1 AATTAAAT
*
205987 TATTAAAT
1 AATTAAAT
*
205995 CATTAAAT
1 AATTAAAT
*
206003 CATTAAAGT
1 AATTAAA-T
206012 AATT--AT
1 AATTAAAT
* *
206018 TATTAAAG
1 AATTAAAT
*
206026 CATT-AA-
1 AATTAAAT
*
206032 AGTTAAAT
1 AATTAAAT
*
206040 CATT--A-
1 AATTAAAT
206045 AATTAAAT
1 AATTAAAT
*
206053 CATTAAAT
1 AATTAAAT
*
206061 CATTAAAGT
1 AATTAAA-T
206070 AATT--AT
1 AATTAAAT
*
206076 TATTAAAT
1 AATTAAAT
206084 AATTAAAT
1 AATTAAAT
*
206092 CATTAAAGT
1 AATTAAA-T
206101 AATT--AT
1 AATTAAAT
*
206107 TATTAAAT
1 AATTAAAT
*
206115 CATT-AA-
1 AATTAAAT
*
206121 AGTTAAAT
1 AATTAAAT
*
206129 CATTAAAT
1 AATTAAAT
*
206137 CATT-AA-
1 AATTAAAT
206143 AATTAAAT
1 AATTAAAT
*
206151 CATTAAAGT
1 AATTAAA-T
206160 AATT--AT
1 AATTAAAT
*
206166 TATTAAAT
1 AATTAAAT
*
206174 CATT-AA-
1 AATTAAAT
206180 AATTAAAT
1 AATTAAAT
*
206188 CATTAAAGT
1 AATTAAA-T
206197 AATT--AT
1 AATTAAAT
*
206203 TATTAAAT
1 AATTAAAT
*
206211 CATT-AA-
1 AATTAAAT
*
206217 AGTTAAAT
1 AATTAAAT
*
206225 CATTAAAGT
1 AATTAAA-T
206234 AATT--AT
1 AATTAAAT
*
206240 TATTAAAT
1 AATTAAAT
*
206248 CATT-AA-
1 AATTAAAT
*
206254 AGTTAAAT
1 AATTAAAT
206262 AATT--AT
1 AATTAAAT
*
206268 TATTAAAT
1 AATTAAAT
*
206276 CATT-AA-
1 AATTAAAT
*
206282 AGTTAAAT
1 AATTAAAT
*
206290 CATTAAAGT
1 AATTAAA-T
206299 AATT--AT
1 AATTAAAT
*
206305 TATTAAAT
1 AATTAAAT
*
206313 CATTAAAT
1 AATTAAAT
*
206321 CATTAAAT
1 AATTAAAT
*
206329 CATTAAAGT
1 AATTAAA-T
206338 AATT--AT
1 AATTAAAT
*
206344 TATTAAAT
1 AATTAAAT
*
206352 CATT-AA-
1 AATTAAAT
*
206358 AGTTAAAT
1 AATTAAAT
*
206366 CATTAAAT
1 AATTAAAT
*
206374 CATT-AA-
1 AATTAAAT
206380 AATTAAAT
1 AATTAAAT
*
206388 CATTAAAGT
1 AATTAAA-T
206397 AATT--AT
1 AATTAAAT
*
206403 TATTAAAT
1 AATTAAAT
*
206411 CATT-AA-
1 AATTAAAT
206417 AATTAAAT
1 AATTAAAT
*
206425 CATTAAAGT
1 AATTAAA-T
206434 AATT--AT
1 AATTAAAT
*
206440 TATTAAAT
1 AATTAAAT
*
206448 CATT-AA-
1 AATTAAAT
*
206454 AGTTAAAT
1 AATTAAAT
*
206462 CATTAAAGT
1 AATTAAA-T
206471 AATT--AT
1 AATTAAAT
*
206477 TATTAAAT
1 AATTAAAT
*
206485 CATTAAAGTT
1 AATTAAA--T
206495 AA-TAATTAT
1 AATTAA--AT
*
206504 TATTAAAT
1 AATTAAAT
*
206512 CATT-AA-
1 AATTAAAT
*
206518 AGTTAAAT
1 AATTAAAT
206526 AATTAAAT
1 AATTAAAT
206534 --TTAAAT
1 AATTAAAT
206540 AATTA
1 AATTA
206545 TTATTAAATA
Statistics
Matches: 447, Mismatches: 90, Indels: 156
0.65 0.13 0.23
Matches are distributed among these distances:
5 3 0.01
6 98 0.22
7 68 0.15
8 219 0.49
9 53 0.12
10 5 0.01
11 1 0.00
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (8 bp):
AATTAAAT
Found at i:205990 original size:37 final size:37
Alignment explanation
Indices: 205940--206394 Score: 513
Period size: 37 Copynumber: 12.7 Consensus size: 37
205930 CATTAAAATT
*
205940 AAGTAATTATTATTAAATTATTAAAATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
205977 AAGTAATTATTATTAAATC------ATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
* *
206008 AAGTAATTATTATTAAAGCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
* * * *
206045 AATTAA--ATCATTAAATCATT-AAAGTAATTATTATTA
1 AAGTAATTATTATTAAATCATTAAAATTAA--ATCATTA
* * **
206081 AA-TAATTAAATCATTAAAGTAATTATTATTAAATCATTA
1 AAGTAATT--ATTATTAAA-TCATTAAAATTAAATCATTA
*
206120 AAGTTAA--ATCATTAAATCATTAAAATTAAATCATTA
1 AAG-TAATTATTATTAAATCATTAAAATTAAATCATTA
206156 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
*
206193 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
*
206230 AAGTAATTATTATTAAATC------ATTAAA--GTTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
*
206259 AA-TAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
206295 AAGTAATTATTATTAAATCATTAAATCATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAA--ATTAAATCATTA
*
206334 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
* **
206371 AA-TCATTAAAATTAAATCATTAAA
1 AAGTAATTATTATTAAATCATTAAA
206395 GTAATTATTA
Statistics
Matches: 361, Mismatches: 28, Indels: 59
0.81 0.06 0.13
Matches are distributed among these distances:
28 16 0.04
29 5 0.01
31 35 0.10
34 10 0.03
35 18 0.05
36 52 0.14
37 161 0.45
39 53 0.15
40 4 0.01
41 7 0.02
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (37 bp):
AAGTAATTATTATTAAATCATTAAAATTAAATCATTA
Found at i:206344 original size:237 final size:235
Alignment explanation
Indices: 206034--206554 Score: 899
Period size: 237 Copynumber: 2.2 Consensus size: 235
206024 AGCATTAAAG
* *
206034 TTAAATCATTAAA-TTAAATCATTAAATCATTAAAGTAATTATTATTAAATAATTAAATCATTAA
1 TTAAATCATTAAAGTTAAATCATTAAATAATTAAAGTAA-TATCATTAAATAATTAAATCATTAA
206098 AGTAATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTAAAATTAAATCATTAAAGTAAT
65 AGTAATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTAAAATTAAATCATTAAAGTAAT
206163 TATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCAT
130 TATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCAT
206228 TAAAGTAATTATTATTAAATCATTAAAGTTAAATAATTATTA
195 TAAAGTAATTATTATTAAATCATTAAAGTT-AATAATTATTA
* * *
206270 TTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAA-ATCATTAAATCATTAAATCATTA
1 TTAAATCATTAAAGTTAAATCATTAAA-TAATTA-AAGTAATATCATTAAATAATTAAATCATTA
206334 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTAAAATTAAATCATTAAAGTAA
64 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTAAAATTAAATCATTAAAGTAA
206399 TTATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCA
129 TTATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCA
206464 TTAAAGTAATTATTATTAAATCATTAAAGTTAATAATTATTA
194 TTAAAGTAATTATTATTAAATCATTAAAGTTAATAATTATTA
* *
206506 TTAAATCATTAAAGTTAAATAATTAAAT--TTAAA-TAATTATTATTAAATA
1 TTAAATCATTAAAGTTAAATCATTAAATAATTAAAGTAA-TATCATTAAATA
206555 TGTACTCGAG
Statistics
Matches: 271, Mismatches: 9, Indels: 13
0.92 0.03 0.04
Matches are distributed among these distances:
231 3 0.01
232 1 0.00
233 12 0.04
235 1 0.00
236 50 0.18
237 195 0.72
238 5 0.02
239 4 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (235 bp):
TTAAATCATTAAAGTTAAATCATTAAATAATTAAAGTAATATCATTAAATAATTAAATCATTAAA
GTAATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTAAAATTAAATCATTAAAGTAATT
ATTATTAAATCATTAAAATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATT
AAAGTAATTATTATTAAATCATTAAAGTTAATAATTATTA
Found at i:206460 original size:37 final size:37
Alignment explanation
Indices: 206055--206496 Score: 345
Period size: 37 Copynumber: 12.1 Consensus size: 37
206045 AATTAAATCA
206055 TTAAATCATTAAAGTAATTATTATT-AA--A-T-AA-
1 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAG
206086 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAG
1 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAG
* **
206123 TTAAATCATTAAA-TCATTAAAATTAAATCATTAAAG
1 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAG
* * **
206159 -TAATTATTATTAAA-TCATTAAAATTAAATCATTAAAG
1 TTAA--ATCATTAAAGTAATTATTATTAAATCATTAAAG
* * *
206196 -TAATTATTATTAAA-TCATTA-AAGTTAAATCATTAAAG
1 TTAA--ATCATTAAAGTAATTATTA-TTAAATCATTAAAG
* * * * *
206233 -TAATTATTATTAAA-TCATTA-AAGTTAAATAATTATTA-
1 TTAA--ATCATTAAAGTAATTATTA-TTAAATCATTA-AAG
* * *
206270 TTAAATCATTAAAGTTAA--ATCATTAAAGTAATTATTA-
1 TTAAATCATTAAAG-TAATTATTATTAAA-TCATTA-AAG
* * * *
206307 TTAAATCATTAAA-TCATTAAATCATTAAAGTAATTATTA-
1 TTAAATCATTAAAGTAATT--ATTATTAAA-TCATTA-AAG
* *
206346 TTAAATCATTAAAGTTAA--ATCATTAAATCATTAAAA
1 TTAAATCATTAAAG-TAATTATTATTAAATCATTAAAG
*
206382 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAA
1 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAG
206419 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAG
1 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAG
206456 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAG
1 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAG
206493 TTAA
1 TTAA
206497 TAATTATTAT
Statistics
Matches: 372, Mismatches: 15, Indels: 42
0.87 0.03 0.10
Matches are distributed among these distances:
31 25 0.07
32 2 0.01
34 1 0.00
35 10 0.03
36 57 0.15
37 237 0.64
38 6 0.02
39 32 0.09
41 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (37 bp):
TTAAATCATTAAAGTAATTATTATTAAATCATTAAAG
Found at i:206507 original size:27 final size:27
Alignment explanation
Indices: 206456--206530 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
206446 ATCATTAAAG
206456 TTAAATCATTAAAG----TAATTATTA
1 TTAAATCATTAAAGTTAATAATTATTA
206479 TTAAATCATTAAAGTTAATAATTATTA
1 TTAAATCATTAAAGTTAATAATTATTA
206506 TTAAATCATTAAAGTTAAATAATTA
1 TTAAATCATTAAAGTT-AATAATTA
206531 AATTTAAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
23 14 0.30
27 25 0.53
28 8 0.17
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (27 bp):
TTAAATCATTAAAGTTAATAATTATTA
Found at i:214496 original size:21 final size:20
Alignment explanation
Indices: 214410--214567 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
214400 AAATGACCAA
**
214410 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
214429 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
214449 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
214469 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
214490 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
214511 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
214531 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
214552 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
214568 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:214596 original size:20 final size:20
Alignment explanation
Indices: 214534--214727 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
214524 CGATTTTCCA
* ** *
214534 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
214554 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
214574 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
214594 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
214614 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
214634 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
214654 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
214674 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
214694 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
214715 AAATCGCAACGCG
1 AAATCGCAACGCG
214728 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:214618 original size:60 final size:60
Alignment explanation
Indices: 214534--214727 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
214524 CGATTTTCCA
* ** * *
214534 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
214594 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
214654 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
214715 AAATCGCAACGCG
1 AAATCGCAACGCG
214728 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:215147 original size:33 final size:33
Alignment explanation
Indices: 215108--215175 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
215098 TTCACTTAGA
* *
215108 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
215141 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
215174 TT
1 TT
215176 CAAGTTAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.10, C:0.24, G:0.18, T:0.49
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:215301 original size:20 final size:20
Alignment explanation
Indices: 215257--215366 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
215247 TGCAGAAGAG
*
215257 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
215278 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
215298 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
215319 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
215333 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
215352 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
215367 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:215314 original size:41 final size:38
Alignment explanation
Indices: 215250--215366 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
215240 TTCAATTTGC
* *
215250 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
215288 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
215329 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
215362 AGAAT
1 AGAAT
215367 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:215336 original size:14 final size:14
Alignment explanation
Indices: 215317--215373 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
215307 GAGAAATGAA
215317 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
215331 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
215350 AATCGCAACGAGAG
1 AATCGCAACGAGAG
215364 AATCGCAACG
1 AATCGCAACG
215374 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:215349 original size:33 final size:33
Alignment explanation
Indices: 215309--215389 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
215299 CGCAACGAGA
215309 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
215342 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
215375 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
215390 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:215407 original size:19 final size:19
Alignment explanation
Indices: 215385--215482 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
215375 GAAACCAAAA
*
215385 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
215404 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
215418 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
215437 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
215451 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
215470 TCGCGTTGCGATT
1 TCGCGTTGCGATT
215483 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:215426 original size:14 final size:14
Alignment explanation
Indices: 215407--215496 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
215397 TTTCATTTCG
215407 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
215421 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
215440 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
215454 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
215471 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
215487 CGTTGCGATT
1 CGTTGCGATT
215497 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:215432 original size:33 final size:33
Alignment explanation
Indices: 215390--215504 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
215380 CAAAATCGCA
215390 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
215423 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
215456 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
215489 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
215505 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:217361 original size:93 final size:93
Alignment explanation
Indices: 217202--217767 Score: 1098
Period size: 93 Copynumber: 6.1 Consensus size: 93
217192 TAGATTGCTT
*
217202 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
217267 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
217295 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
217360 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
217387 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
217452 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
217480 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
217545 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
217573 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
217638 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
217666 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
217731 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
217759 AGTAAATTT
1 AGTAAATTT
217768 ATCCATTCAA
Statistics
Matches: 467, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
92 91 0.19
93 376 0.81
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:217851 original size:19 final size:19
Alignment explanation
Indices: 217811--217939 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
217801 TAGTTTACTT
* *
217811 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
217831 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
217850 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
217869 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
217883 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
217902 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
217916 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
217935 TCGCA
1 TCGCA
217940 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:217890 original size:33 final size:32
Alignment explanation
Indices: 217847--217939 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
217837 CGCGAAACCA
**
217847 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
217879 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
217912 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
217940 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:217937 original size:52 final size:52
Alignment explanation
Indices: 217811--217939 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
217801 TAGTTTACTT
**
217811 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
217863 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
217916 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
217940 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:217957 original size:19 final size:19
Alignment explanation
Indices: 217935--218069 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
217925 GAAACCAAAA
*
217935 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
217954 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
217970 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
217987 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
218003 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
218020 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
218039 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
218059 TCGTGTTGCGA
1 TCGCGTTGCGA
218070 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:217976 original size:14 final size:14
Alignment explanation
Indices: 217957--218013 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
217947 TTTCATTTCG
217957 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
217971 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
217988 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
218004 CGTTGCGATT
1 CGTTGCGATT
218014 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:217982 original size:33 final size:33
Alignment explanation
Indices: 217940--218032 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
217930 CAAAATCGCA
*
217940 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
217973 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
218006 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
218033 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:220008 original size:14 final size:14
Alignment explanation
Indices: 219989--220026 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
219979 ATTGTTTAAT
219989 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
220003 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
220017 TGATTTGTAA
1 TGATTTGTAA
220027 TTGATGCGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:220169 original size:19 final size:19
Alignment explanation
Indices: 220129--220263 Score: 148
Period size: 19 Copynumber: 7.6 Consensus size: 19
220119 AAAATTGACT
220129 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
220147 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
220166 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
220180 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
220199 ATCGCAATGCGAAAATGAAA
1 ATCGCAATGCG-AAATGAAA
*
220219 ATCGCAATG-G----GAGA
1 ATCGCAATGCGAAATGAAA
*
220233 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
220252 ATCGCATTGCGA
1 ATCGCAATGCGA
220264 TTCTCTCGTT
Statistics
Matches: 98, Mismatches: 7, Indels: 23
0.77 0.05 0.18
Matches are distributed among these distances:
14 21 0.21
15 2 0.02
16 2 0.02
17 2 0.02
18 17 0.17
19 37 0.38
20 17 0.17
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:220233 original size:53 final size:53
Alignment explanation
Indices: 220129--220263 Score: 220
Period size: 53 Copynumber: 2.6 Consensus size: 53
220119 AAAATTGACT
220129 ATCGCAATGCGAAATG-AAATCGCAATGCG-AAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
* *
220180 ATCGCAATGCGAAATGAAAATCGCAATGCGAAAATGAAAATCGCAATGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
* *
220233 ATCACAATGCGAAATGAAAATCGCATTGCGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGA
220264 TTCTCTCGTT
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
51 16 0.21
52 13 0.17
53 49 0.63
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
Found at i:220290 original size:33 final size:33
Alignment explanation
Indices: 220253--220401 Score: 142
Period size: 33 Copynumber: 4.3 Consensus size: 33
220243 GAAATGAAAA
220253 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
* *
220286 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTT
1 TCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TCATT
* * * *
220326 GCG-ATTTTC-ATT-TCGCATTGCGATTTTCATT
1 TCGCA-TTGCGATTCTCTCGTTGCGATTTTCATT
220357 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
220390 TCCGCATTGCGA
1 T-CGCATTGCGA
220402 AATGTAATGG
Statistics
Matches: 92, Mismatches: 12, Indels: 23
0.72 0.09 0.18
Matches are distributed among these distances:
31 9 0.10
32 5 0.05
33 37 0.40
34 10 0.11
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.09
39 3 0.03
40 9 0.10
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.44
Consensus pattern (33 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:220296 original size:19 final size:19
Alignment explanation
Indices: 220272--220401 Score: 163
Period size: 19 Copynumber: 7.3 Consensus size: 19
220262 GATTCTCTCG
220272 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
220291 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
220310 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
220324 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
220343 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
220362 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
220376 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
220396 TTGCGA
1 TTGCGA
220402 AATGTAATGG
Statistics
Matches: 96, Mismatches: 4, Indels: 21
0.79 0.03 0.17
Matches are distributed among these distances:
14 12 0.12
16 14 0.15
17 12 0.12
18 2 0.02
19 50 0.52
20 6 0.06
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:220310 original size:52 final size:52
Alignment explanation
Indices: 220253--220401 Score: 289
Period size: 52 Copynumber: 2.8 Consensus size: 52
220243 GAAATGAAAA
220253 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
220305 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
220357 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGA
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGA
220402 AATGTAATGG
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
52 86 0.90
53 10 0.10
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:220487 original size:19 final size:19
Alignment explanation
Indices: 220460--220557 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
220450 AAAATTGACT
220460 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
220479 ATCGTAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
220498 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
220512 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
220531 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
220551 ATCGCAA
1 ATCGCAA
220558 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 37 0.54
20 16 0.23
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:220589 original size:53 final size:53
Alignment explanation
Indices: 220460--220576 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
220450 AAAATTGACT
*
220460 ATCGCAATGCGAAATGAAAATCGTAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
220512 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
220565 ATCGCAATGCGA
1 ATCGCAATGCGA
220577 TTTTCATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 28 0.44
53 35 0.56
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:222908 original size:12 final size:12
Alignment explanation
Indices: 222891--222915 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
222881 TCTTCGGGGA
222891 CTTTTTCTTCTT
1 CTTTTTCTTCTT
222903 CTTTTTCTTCTT
1 CTTTTTCTTCTT
222915 C
1 C
222916 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:223124 original size:24 final size:24
Alignment explanation
Indices: 223090--223136 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
223080 CTGAAACATC
223090 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
223114 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
223137 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:223848 original size:20 final size:20
Alignment explanation
Indices: 223820--224069 Score: 268
Period size: 20 Copynumber: 12.5 Consensus size: 20
223810 AAATTTCAGT
* *
223820 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
223840 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
223860 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
223880 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
223900 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
223920 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
223940 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
223960 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
223980 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* * *
224000 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
224020 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
224040 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
224060 GTTGCGATTT
1 GTTGCGATTT
224070 TGGAAAATCG
Statistics
Matches: 200, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 199 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:224086 original size:21 final size:21
Alignment explanation
Indices: 224056--224138 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
224046 ATTTTCATAT
*
224056 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
224077 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
224098 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
224119 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
224139 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:224129 original size:42 final size:43
Alignment explanation
Indices: 224036--224134 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
224026 ATTTATGTGT
* *
224036 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
224077 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
224119 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
224135 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:225673 original size:21 final size:21
Alignment explanation
Indices: 225600--225663 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
225590 ATTCTGACTA
* *
225600 TCGCATTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCTAAT
225621 TCGCGTTGCGATTTTCCTAAT
1 TCGCGTTGCGATTTTCCTAAT
225642 TCGCGTTGCGATTTTCCTAAT
1 TCGCGTTGCGATTTTCCTAAT
225663 T
1 T
225664 TGCAATGCGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCTAAT
Found at i:225690 original size:20 final size:20
Alignment explanation
Indices: 225665--225715 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
225655 TTCCTAATTT
225665 GCAATGCGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
225685 GCAATGCGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
225705 GCAATGCGAAT
1 GCAATGCGAAT
225716 CTGACTATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20
Consensus pattern (20 bp):
GCAATGCGAATACGTAAATC
Found at i:225940 original size:22 final size:22
Alignment explanation
Indices: 225915--225976 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
225905 TCATCCGTCT
*
225915 CCATCTCCGACGAAATTAGTCC
1 CCATCTCCGACGAAATCAGTCC
* *
225937 CCATCTCCGACGATATCAGTCT
1 CCATCTCCGACGAAATCAGTCC
*
225959 CCATCTCCAACGAAATCA
1 CCATCTCCGACGAAATCA
225977 TTCACGGTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.29, C:0.37, G:0.11, T:0.23
Consensus pattern (22 bp):
CCATCTCCGACGAAATCAGTCC
Found at i:226334 original size:19 final size:19
Alignment explanation
Indices: 226306--226483 Score: 106
Period size: 20 Copynumber: 9.6 Consensus size: 19
226296 GCGATTCTAT
226306 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
226325 CGTTGTGA--TTC--TT-G
1 CGTTGCGATTTTCATTTCG
**
226339 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
226359 TGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
226378 CGTTGCGA--TTC--TT-G
1 CGTTGCGATTTTCATTTCG
** *
226392 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTTTC-ATTTCG
* **
226412 CATTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
* **
226432 TGTTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
226452 TGTTGCGATTTTCATTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
226472 TGTTGCGATTTT
1 CGTTGCGATTTT
226484 AAGTTTCAGA
Statistics
Matches: 132, Mismatches: 14, Indels: 25
0.77 0.08 0.15
Matches are distributed among these distances:
14 17 0.13
15 4 0.03
16 4 0.03
17 6 0.05
19 24 0.18
20 77 0.58
ACGTcount: A:0.13, C:0.17, G:0.24, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:226388 original size:53 final size:53
Alignment explanation
Indices: 226307--226483 Score: 192
Period size: 53 Copynumber: 3.2 Consensus size: 53
226297 CGATTCTATC
*
226307 GTTGCGATTTTCATTTCGCGTTGTGATTCTTGCGTTGCGATAGTCATTTTCGT
1 GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCATTTTCGT
** *
226360 GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGC
1 GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCATTTTCGT
* ** * * **
226413 ATTGCGATAGTCATTTTCGTGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCA-TTTCGCGTTGCGAT--TC---TT-GCGTTGCGATAGTCATTTTCGT
226473 GTTGCGATTTT
1 GTTGCGATTTT
226484 AAGTTTCAGA
Statistics
Matches: 100, Mismatches: 17, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
53 59 0.59
54 13 0.13
56 2 0.02
59 2 0.02
60 24 0.24
ACGTcount: A:0.14, C:0.17, G:0.24, T:0.46
Consensus pattern (53 bp):
GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCATTTTCGT
Found at i:226483 original size:20 final size:20
Alignment explanation
Indices: 226340--226480 Score: 143
Period size: 20 Copynumber: 7.4 Consensus size: 20
226330 TGATTCTTGC
226340 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
** *
226360 GTTGCGATTTTCA-TTTCGC
1 GTTGCGATAGTCATTTTCGT
*
226379 GTTGCGAT--TC---TT-GC
1 GTTGCGATAGTCATTTTCGT
** *
226393 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCATTTTCGT
*
226413 ATTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
226433 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
226453 GTTGCGATTTTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
226473 GTTGCGAT
1 GTTGCGAT
226481 TTTAAGTTTC
Statistics
Matches: 105, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
14 10 0.10
15 2 0.02
16 2 0.02
17 2 0.02
19 15 0.14
20 74 0.70
ACGTcount: A:0.15, C:0.17, G:0.24, T:0.44
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:228381 original size:20 final size:20
Alignment explanation
Indices: 228355--228433 Score: 122
Period size: 20 Copynumber: 4.0 Consensus size: 20
228345 AGAATAGTTT
*
228355 ACTATCGCAATGCGAAAATG
1 ACTATCGCAACGCGAAAATG
*
228375 GCTATCGCAACGCGAAAATG
1 ACTATCGCAACGCGAAAATG
*
228395 ACTATCGCAACGCAAAAATG
1 ACTATCGCAACGCGAAAATG
*
228415 ACTATCGCAACGAGAAAAT
1 ACTATCGCAACGCGAAAAT
228434 CGCAACAACA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (20 bp):
ACTATCGCAACGCGAAAATG
Found at i:228437 original size:14 final size:14
Alignment explanation
Indices: 228418--228461 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
228408 AAAAATGACT
228418 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
* *
228432 ATCGCAACAACAAA
1 ATCGCAACGAGAAA
* *
228446 ATCGTAACGCGAAA
1 ATCGCAACGAGAAA
228460 AT
1 AT
228462 GACTATCACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:228492 original size:68 final size:68
Alignment explanation
Indices: 228378--228506 Score: 188
Period size: 68 Copynumber: 1.9 Consensus size: 68
228368 GAAAATGGCT
*
228378 ATCGCAACGCGAAAATGACTATCGCAACGCAAAAATGACTATCGCAACGAGAA-AATCGCAACAA
1 ATCGCAACGCGAAAATGACTATCACAACGCAAAAATGACTATCGCAACGA-AAGAATCGCAACAA
228442 CAAA
65 CAAA
* * * **
228446 ATCGTAACGCGAAAATGACTATCACAATGCGAATTTGACTATCGCAACGAAAGAATCGCAA
1 ATCGCAACGCGAAAATGACTATCACAACGCAAAAATGACTATCGCAACGAAAGAATCGCAA
228507 TGCGAAATGA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 2 0.04
68 52 0.96
ACGTcount: A:0.44, C:0.23, G:0.17, T:0.16
Consensus pattern (68 bp):
ATCGCAACGCGAAAATGACTATCACAACGCAAAAATGACTATCGCAACGAAAGAATCGCAACAAC
AAA
Found at i:228723 original size:96 final size:94
Alignment explanation
Indices: 228559--228741 Score: 258
Period size: 96 Copynumber: 1.9 Consensus size: 94
228549 TAAATTCGCA
** * ** * * *
228559 TTGCGATAGTCATTTTCGCATTGCGATATTCATTTTCGCGTTGCAATAGTCATTTTCGCTTTGCG
1 TTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCAATAGTCATTTCCGCGTTGCG
*
228624 ATAGTCATTTTCGTGCATTGCGATTCTCTCG
66 ATAGTCATTTCCGTG--TTGCGATTCTCTCG
*
228655 TTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCATTTCCGCGTTGCG
1 TTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCAATAGTCATTTCCGCGTTGCG
228720 ATAGTCATTTCCGTGTTGCGAT
66 ATAGTCATTTCCGTGTTGCGAT
228742 AGTCATTTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 7 0.09
96 70 0.91
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (94 bp):
TTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCAATAGTCATTTCCGCGTTGCG
ATAGTCATTTCCGTGTTGCGATTCTCTCG
Found at i:228726 original size:116 final size:116
Alignment explanation
Indices: 228522--228752 Score: 374
Period size: 116 Copynumber: 2.0 Consensus size: 116
228512 AATGAAAATC
* **
228522 GCATTGCGATTCTCTCGTTACGATAGTTAAATTCGCATTGCGATAGTCATTTTCGCATTGCGATA
1 GCATTGCGATTCTCTCGTTACGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATA
* * *
228587 TTCATTTTCGCGTTGCAATAGTCATTTTCGCT-TTGCGATAGTCATTTTCGT
66 GTCATTTCCGCGTTGCAATAGTCATTTCCG-TGTTGCGATAGTCATTTTCGT
*
228638 GCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATA
1 GCATTGCGATTCTCTCGTTACGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATA
*
228703 GTCATTTCCGCGTTGCGATAGTCATTTCCGTGTTGCGATAGTCATTTTCG
66 GTCATTTCCGCGTTGCAATAGTCATTTCCGTGTTGCGATAGTCATTTTCG
228753 CGTTACGATT
Statistics
Matches: 106, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
115 1 0.01
116 105 0.99
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (116 bp):
GCATTGCGATTCTCTCGTTACGATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATTGCGATA
GTCATTTCCGCGTTGCAATAGTCATTTCCGTGTTGCGATAGTCATTTTCGT
Found at i:228727 original size:20 final size:20
Alignment explanation
Indices: 228553--228761 Score: 212
Period size: 20 Copynumber: 10.7 Consensus size: 20
228543 GATAGTTAAA
*
228553 TTCGCATTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
* *
228573 TTCGCATTGCGATATTCATT
1 TTCGCGTTGCGATAGTCATT
*
228593 TTCGCGTTGCAATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
228613 TTCGCTTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
228633 TT--CG-TGC-ATTG-CGATT
1 TTCGCGTTGCGATAGTC-ATT
* * **
228649 CTCTCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCATT
* **
228669 TTCGCATTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCATT
*
228689 TTCGCATTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
228709 TCCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
* *
228729 TCCGTGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
228749 TTCGCGTTACGAT
1 TTCGCGTTGCGAT
228762 TTTAAGTTTC
Statistics
Matches: 160, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
15 1 0.01
16 7 0.04
17 3 0.02
18 3 0.02
19 3 0.02
20 142 0.89
21 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCATT
Found at i:230759 original size:14 final size:14
Alignment explanation
Indices: 230740--230775 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
230730 ATTGTTTAAT
230740 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
230754 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
230768 TGATTTGT
1 TGATTTGT
230776 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:230920 original size:14 final size:14
Alignment explanation
Indices: 230901--230987 Score: 66
Period size: 14 Copynumber: 5.5 Consensus size: 14
230891 AGAAATGACT
230901 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
230915 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
230934 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
230948 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
230967 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
230981 ATCGCAA
1 ATCGCAA
230988 TGCGAAAATG
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 27 0.46
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 20 0.34
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:230931 original size:33 final size:33
Alignment explanation
Indices: 230881--231009 Score: 213
Period size: 33 Copynumber: 3.8 Consensus size: 33
230871 AAAACAGACT
* **
230881 ATCGCAACGCAGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
230915 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
230948 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
230981 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
231010 CGAAACTAAT
Statistics
Matches: 91, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
33 65 0.71
34 26 0.29
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:231005 original size:20 final size:19
Alignment explanation
Indices: 230914--231014 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 19
230904 GCAACGAGAG
230914 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
230933 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
230947 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
230966 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
230980 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
231000 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
231015 CTAATTTCGC
Statistics
Matches: 66, Mismatches: 5, Indels: 22
0.71 0.05 0.24
Matches are distributed among these distances:
14 20 0.30
15 2 0.03
16 4 0.06
17 4 0.06
18 1 0.02
19 22 0.33
20 13 0.20
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:231044 original size:20 final size:20
Alignment explanation
Indices: 231019--231159 Score: 105
Period size: 20 Copynumber: 7.8 Consensus size: 20
231009 GCGAAACTAA
*
231019 TTTCGCGTTGCGATTTTCAT
1 TTTCGCATTGCGATTTTCAT
231039 TTTCGCATTGCGA--TTC--
1 TTTCGCATTGCGATTTTCAT
*
231055 TCTCG--TTGCGATTTTCAT
1 TTTCGCATTGCGATTTTCAT
*
231073 TTT-GCATTGCGATTCTC-T
1 TTTCGCATTGCGATTTTCAT
* * *
231091 CTATCGCGTTGCGCTTTTCAT
1 -TTTCGCATTGCGATTTTCAT
231112 TTTCGCATTGCGA--TTC--
1 TTTCGCATTGCGATTTTCAT
*
231128 TCTCG--TTGCGATTTTCA-
1 TTTCGCATTGCGATTTTCAT
231145 TTTCGCATTGCGATT
1 TTTCGCATTGCGATT
231160 CTCTCGTTGC
Statistics
Matches: 94, Mismatches: 13, Indels: 29
0.69 0.10 0.21
Matches are distributed among these distances:
14 12 0.13
16 14 0.15
17 5 0.05
18 9 0.10
19 20 0.21
20 33 0.35
21 1 0.01
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.47
Consensus pattern (20 bp):
TTTCGCATTGCGATTTTCAT
Found at i:231085 original size:33 final size:34
Alignment explanation
Indices: 231024--231172 Score: 221
Period size: 33 Copynumber: 4.3 Consensus size: 34
231014 ACTAATTTCG
231024 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
231058 CGTTGCGATTTTCATTTT-GCATTGCGATTCTCTCTAT
1 CGTTGCGATTTTCATTTTCGCATTGCGA-T-TCTC--T
*
231095 CGCGTTGCGCTTTTCATTTTCGCATTGCGATTCTCT
1 --CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
231131 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
231164 CGTTGCGAT
1 CGTTGCGAT
231173 AGTCATTTCC
Statistics
Matches: 106, Mismatches: 2, Indels: 15
0.86 0.02 0.12
Matches are distributed among these distances:
33 37 0.35
34 32 0.30
35 4 0.04
36 1 0.01
37 1 0.01
38 4 0.04
39 18 0.17
40 9 0.08
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:231109 original size:73 final size:73
Alignment explanation
Indices: 231021--231164 Score: 270
Period size: 73 Copynumber: 2.0 Consensus size: 73
231011 GAAACTAATT
*
231021 TCGCGTTGCGATTTTCATTTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTTGCATTGCGAT
1 TCGCGTTGCGATTTTCATTTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGAT
231086 TCTCTCTA
66 TCTCTCTA
*
231094 TCGCGTTGCGCTTTTCATTTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGAT
1 TCGCGTTGCGATTTTCATTTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGAT
231159 TCTCTC
66 TCTCTC
231165 GTTGCGATAG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.11, C:0.25, G:0.18, T:0.46
Consensus pattern (73 bp):
TCGCGTTGCGATTTTCATTTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGAT
TCTCTCTA
Found at i:231138 original size:14 final size:14
Alignment explanation
Indices: 231119--231172 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
231109 CATTTTCGCA
231119 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
231133 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
231150 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
231166 TTGCGAT
1 TTGCGAT
231173 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:231208 original size:20 final size:19
Alignment explanation
Indices: 231164--231218 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
231154 GCGATTCTCT
*
231164 CGTTGCGATAGTC-ATTTC
1 CGTTGCGATAGTCAATTTA
231182 CGTGTTGCGATAGTCATATTTA
1 C--GTTGCGATAGTCA-ATTTA
231204 CGTTGCGATAGTCAA
1 CGTTGCGATAGTCAA
231219 ATGAATATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 25 0.78
22 5 0.16
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (19 bp):
CGTTGCGATAGTCAATTTA
Found at i:233665 original size:24 final size:24
Alignment explanation
Indices: 233631--233684 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
233621 CTGAAAAATC
233631 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
233655 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
233679 ATCAAA
1 ATCAAA
233685 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:233698 original size:24 final size:24
Alignment explanation
Indices: 233631--233698 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
233621 CTGAAAAATC
* * *
233631 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
233655 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
233679 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
233699 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:234588 original size:20 final size:20
Alignment explanation
Indices: 234526--234579 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
234516 AAATTCAGTA
234526 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
234546 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
234566 TTGCGATAGTCAGA
1 TTGCGATAGTCAGA
234580 TTCGCGTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:234612 original size:20 final size:20
Alignment explanation
Indices: 234588--234709 Score: 192
Period size: 20 Copynumber: 6.1 Consensus size: 20
234578 GATTCGCGTT
*
234588 GATTTACAG-ATTCGCATTGT
1 GATTTAC-GTATTCGCATTGC
*
234608 GATTTACGTATTCGCATTGT
1 GATTTACGTATTCGCATTGC
*
234628 GATTTACGTATTCACATTGC
1 GATTTACGTATTCGCATTGC
*
234648 GATTTACGTTTTCGCATTGC
1 GATTTACGTATTCGCATTGC
234668 GATTTACGTATTCGCATTGC
1 GATTTACGTATTCGCATTGC
234688 GATTTACGTATTCGCATTGC
1 GATTTACGTATTCGCATTGC
234708 GA
1 GA
234710 ATTAGGAAAA
Statistics
Matches: 96, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
19 1 0.01
20 95 0.99
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (20 bp):
GATTTACGTATTCGCATTGC
Found at i:234730 original size:21 final size:21
Alignment explanation
Indices: 234706--234751 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
234696 TATTCGCATT
234706 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
234727 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
234748 GCGA
1 GCGA
234752 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:237592 original size:13 final size:13
Alignment explanation
Indices: 237571--237623 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
237561 TTTTTTTTGT
*
237571 GTTTGTGTTGTTC
1 GTTTATGTTGTTC
237584 GTTTATG-T-TT-
1 GTTTATGTTGTTC
237594 GTTTAT-TGTGTTC
1 GTTTATGT-TGTTC
237607 GTTTATGTTCGTTC
1 GTTTATGTT-GTTC
237621 GTT
1 GTT
237624 CGTTCGTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
10 6 0.18
11 3 0.09
12 3 0.09
13 13 0.39
14 8 0.24
ACGTcount: A:0.06, C:0.08, G:0.25, T:0.62
Consensus pattern (13 bp):
GTTTATGTTGTTC
Found at i:238427 original size:20 final size:21
Alignment explanation
Indices: 238390--238429 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
238380 AAATTAAGTT
238390 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
238411 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
238430 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:238622 original size:19 final size:19
Alignment explanation
Indices: 238598--238649 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
238588 ATTTGAGGTG
238598 ATGCACCGATGCATCAACC
1 ATGCACCGATGCATCAACC
238617 ATGCACCGATGCATCAACC
1 ATGCACCGATGCATCAACC
*
238636 ATGCATCGATGCAT
1 ATGCACCGATGCAT
238650 TAGTGAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (19 bp):
ATGCACCGATGCATCAACC
Found at i:238733 original size:65 final size:65
Alignment explanation
Indices: 238615--238759 Score: 170
Period size: 65 Copynumber: 2.2 Consensus size: 65
238605 GATGCATCAA
* * *
238615 CCATGCACCGATGCATCAACCATGCATCGATGCATTAGTGAATTAATTGAAACATCGAATGCATT
1 CCATGCACCGATGCATCAACCATGCATCGATGCACTACTGAATTAATTAAAACATCGAATGCATT
* *
238680 CCATGCACCGATGCATTC-TCCATGCATCGATGCACT-CTGAA-TATTTTCAAAACATCGAATGC
1 CCATGCACCGATGCA-TCAACCATGCATCGATGCACTACTGAATTA-ATT-AAAACATCGAATGC
238742 ATT
63 ATT
** *
238745 TGATGCATCGATGCA
1 CCATGCACCGATGCA
238760 CTCAGGCTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
63 2 0.03
64 6 0.09
65 59 0.86
66 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (65 bp):
CCATGCACCGATGCATCAACCATGCATCGATGCACTACTGAATTAATTAAAACATCGAATGCATT
Found at i:238796 original size:45 final size:46
Alignment explanation
Indices: 238690--238805 Score: 171
Period size: 45 Copynumber: 2.5 Consensus size: 46
238680 CCATGCACCG
*
238690 ATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGA
1 ATGCATT-T-CATGCATCGATGCACTCAGAATATTTTCAAAACATCGA
* **
238738 ATGCATTTGATGCATCGATGCACTCAGGCTATTTTC-AAACATCGA
1 ATGCATTTCATGCATCGATGCACTCAGAATATTTTCAAAACATCGA
238783 ATGCATTTCATGCATCGATGCAC
1 ATGCATTTCATGCATCGATGCAC
238806 ACTTGGTGCA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
45 31 0.49
46 24 0.38
47 1 0.02
48 7 0.11
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (46 bp):
ATGCATTTCATGCATCGATGCACTCAGAATATTTTCAAAACATCGA
Found at i:246174 original size:21 final size:21
Alignment explanation
Indices: 246132--246175 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
246122 ACCCCGGGAG
*
246132 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
246153 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
246174 CT
1 CT
246176 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:246951 original size:20 final size:21
Alignment explanation
Indices: 246914--246953 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
246904 AAATTAAGTT
246914 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
246935 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
246954 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:247239 original size:65 final size:63
Alignment explanation
Indices: 247123--247329 Score: 229
Period size: 65 Copynumber: 3.2 Consensus size: 63
247113 ATTTGAGGTG
* * * * *
247123 ATGCACCGATGCATCAACCATGCATCGATGCATTAGTGAAT-TAATTGAAACATCGAATGCATTC
1 ATGCACCGATGCATC-ACCATGCATCGATGCACT-CTGAATAT-TTTCAAACATCGAATGCATTT
247187 C
63 C
* *
247188 ATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTTG
1 ATGCACCGATGCA-TCACCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTTC
* * **
247253 ATGCATCGATGCA-CAAGCCATGCATCGATGCACTCAGGCTATTTTCAAACATCGAATGCATTTC
1 ATGCACCGATGCATC-A-CCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTTC
*
247317 ATGCATCGATGCA
1 ATGCACCGATGCA
247330 CACTTGGTGC
Statistics
Matches: 124, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
63 1 0.01
64 37 0.30
65 84 0.68
66 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (63 bp):
ATGCACCGATGCATCACCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTTC
Found at i:247348 original size:64 final size:65
Alignment explanation
Indices: 247170--247333 Score: 231
Period size: 65 Copynumber: 2.5 Consensus size: 65
247160 GAATTAATTG
* * ** *
247170 AAACATCGAATGCATTCCATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCA
1 AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCA
* ** **
247235 AAACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACTCAGGCTATTTTC-
1 AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCA
247299 AAACATCGAATGCATTTCATGCATCGATGCACACT
1 AAACATCGAATGCATTTCATGCATCGATGCACACT
247334 TGGTGCACCG
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
64 32 0.37
65 54 0.63
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCA
Found at i:248063 original size:19 final size:19
Alignment explanation
Indices: 248039--248087 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
248029 CTCAACAGTG
* * *
248039 ATTTAAACATTTAAATTTT
1 ATTTAAAAATTTAAATATA
248058 ATTTAAAAAATTTAAATATA
1 ATTT-AAAAATTTAAATATA
248078 ATTTAAAAAT
1 ATTTAAAAAT
248088 CATAAATTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAAAATTTAAATATA
Found at i:250418 original size:30 final size:30
Alignment explanation
Indices: 250382--250443 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
250372 TCATATAGCG
*
250382 TAGACATATTATTTCCATACCTTTATCACA
1 TAGACATATCATTTCCATACCTTTATCACA
250412 TAGACATATCATTTCCATACCTTTATCACA
1 TAGACATATCATTTCCATACCTTTATCACA
250442 TA
1 TA
250444 ACTCATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
TAGACATATCATTTCCATACCTTTATCACA
Found at i:254474 original size:14 final size:13
Alignment explanation
Indices: 254457--254496 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
254447 TTCCGTTATA
*
254457 TTTTTATTTTTAT
1 TTTTTATTTTTTT
*
254470 TTTTTATTTTTTCG
1 TTTTTATTTTTT-T
254484 TTTTTATTTTTTT
1 TTTTTATTTTTTT
254497 CAACCAGGCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTT
Found at i:254481 original size:21 final size:21
Alignment explanation
Indices: 254452--254495 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
254442 TTCAATTCCG
*
254452 TTATATTTTTATTTTTATTTT
1 TTATATTTTCATTTTTATTTT
* *
254473 TTATTTTTTCGTTTTTATTTT
1 TTATATTTTCATTTTTATTTT
254494 TT
1 TT
254496 TCAACCAGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (21 bp):
TTATATTTTCATTTTTATTTT
Found at i:254525 original size:11 final size:11
Alignment explanation
Indices: 254509--254538 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
254499 ACCAGGCGTG
254509 TTTAATTTAAT
1 TTTAATTTAAT
254520 TTTAATTTAAT
1 TTTAATTTAAT
*
254531 TTTTATTT
1 TTTAATTT
254539 TGCAGGAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTAATTTAAT
Found at i:257909 original size:18 final size:18
Alignment explanation
Indices: 257872--257916 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
257862 TTCTCTTATT
*
257872 TTTATTTAAATTACTTTTA
1 TTTATTT-AATCACTTTTA
*
257891 TTTATTTAATCATTTTTA
1 TTTATTTAATCACTTTTA
257909 -TTATTTAA
1 TTTATTTAA
257917 ATAGCTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 9 0.38
19 7 0.29
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTATTTAATCACTTTTA
Found at i:259377 original size:3 final size:3
Alignment explanation
Indices: 259365--259420 Score: 51
Period size: 3 Copynumber: 17.3 Consensus size: 3
259355 TCTATAAAAA
*
259365 TAT T-T TAT TAT TAT TATT TATT TATT TAT TAT TAT TAT TAA TATT TATT
1 TAT TAT TAT TAT TAT TA-T TA-T TA-T TAT TAT TAT TAT TAT TA-T TA-T
259414 TAT TAT T
1 TAT TAT T
259421 TTTGCAAGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 2 0.04
3 29 0.60
4 17 0.35
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:259409 original size:27 final size:26
Alignment explanation
Indices: 259365--259422 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 26
259355 TCTATAAAAA
*
259365 TATTTTATTATTATTATTTATTTATT
1 TATTTTATTATTAATATTTATTTATT
259391 TATTATTATTATTAATATTTATTTA-T
1 TATT-TTATTATTAATATTTATTTATT
259417 TATTTT
1 TATTTT
259423 TGCAAGCCCC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 2 0.07
26 9 0.30
27 19 0.63
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (26 bp):
TATTTTATTATTAATATTTATTTATT
Found at i:259512 original size:33 final size:33
Alignment explanation
Indices: 259470--259555 Score: 129
Period size: 33 Copynumber: 2.6 Consensus size: 33
259460 TTCAGAAAAT
259470 AAACCAACGTATTTGAGTCATATTGAAACACTA
1 AAACCAACGTATTTGAGTCATATTGAAACACTA
* *
259503 AAACCAACGTATTTGAATCTTATTGAAACACTA
1 AAACCAACGTATTTGAGTCATATTGAAACACTA
259536 AAACCGAA-GTATTTTGAGTC
1 AAACC-AACGTA-TTTGAGTC
259556 CAAGTAGGAC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
33 39 0.81
34 9 0.19
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (33 bp):
AAACCAACGTATTTGAGTCATATTGAAACACTA
Done.