Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008423.1 Hibiscus syriacus cultivar Beakdansim tig00111206_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: 1633377
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 8
Found at i:199423 original size:17 final size:18
Alignment explanation
Indices: 199380--199434 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 18
199370 TAAACTTAAT
* *
199380 TAAAATAATTAAA-ACAA
1 TAAAATAATAAAATAAAA
199397 -AAAATAATAAAA-AAAA
1 TAAAATAATAAAATAAAA
199413 GTAAAAT-ATAAAATAAAA
1 -TAAAATAATAAAATAAAA
199431 TAAA
1 TAAA
199435 CATACAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 14 0.42
17 10 0.30
18 9 0.27
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (18 bp):
TAAAATAATAAAATAAAA
Found at i:201477 original size:59 final size:59
Alignment explanation
Indices: 201364--201477 Score: 158
Period size: 59 Copynumber: 1.9 Consensus size: 59
201354 GCGCTACTGA
* * **
201364 TTCAAAGTGTTGTGAATCGAGCAAAGAAAATGTTAATCCCTCTGGTGGGCCATTGCTGG
1 TTCAAAATGTTATGAATCGAGCAAAGAAAATGTTAATCCCTCAAGTGGGCCATTGCTGG
* *
201423 TTCAAAATGTTATGAATCGAGCAAAGGAAATGTTGATCCCTCAAGTGAGG-CATTG
1 TTCAAAATGTTATGAATCGAGCAAAGAAAATGTTAATCCCTCAAGTG-GGCCATTG
201478 TTCCTTTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 46 0.96
60 2 0.04
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (59 bp):
TTCAAAATGTTATGAATCGAGCAAAGAAAATGTTAATCCCTCAAGTGGGCCATTGCTGG
Found at i:201652 original size:39 final size:39
Alignment explanation
Indices: 201491--201743 Score: 287
Period size: 39 Copynumber: 6.5 Consensus size: 39
201481 CTTTTAAAAA
* * * *
201491 AAACAATCTCAAGTGAGAT-AAATCTTCTATTTTGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
*
201529 AAACTATCTCAAGCGAGATACAAATATGT-TGTTTCGAGTG
1 AAACTATCTCAAGCGAGATA-AAATCT-TCTGTTTCGAGTG
*
201569 AAATTATCTCAAGCGAGATAAAAATCTTCTGTTTCGAGTG
1 AAACTATCTCAAGCGAGAT-AAAATCTTCTGTTTCGAGTG
* ** * *
201609 AAACTATCTCAAGTGAGATAAGGTGTTATGTTTCGAGTG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* * *
201648 AAACTATCTCAAACGAGATAAAATCTTCTGTTTTGAATG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
* * * *
201687 AAATTATCTCAAGCGAGATAAAA-CTTATGTTTCAAGCG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
*
201725 AAACTATTTCAAGCGAGAT
1 AAACTATCTCAAGCGAGAT
201744 GTTGATCTCT
Statistics
Matches: 180, Mismatches: 30, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
38 44 0.24
39 69 0.38
40 65 0.36
41 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (39 bp):
AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTG
Found at i:201704 original size:118 final size:116
Alignment explanation
Indices: 201491--201743 Score: 321
Period size: 118 Copynumber: 2.2 Consensus size: 116
201481 CTTTTAAAAA
* * * *
201491 AAACAATCTCAAGTGAGATAAATCTTCTATTTTGAGTGAAACTATCTCAAGCGAGATACAAATAT
1 AAACTATCTCAAGTGAGATAAATCTTATATTTCGAGTGAAACTATCTCAAACGAGATACAAATAT
* * * *
201556 GTTGTTTCGAGTGAAATTATCTCAAGCGAGATAAAAATCTTCTGTTTCGAGTG
66 GTTGTTTCGAATGAAATTATCTCAAGCGAGAT-AAAA-CTTATGTTTCAAGCG
* * * *
201609 AAACTATCTCAAGTGAGATAAGGTGTTATGTTTCGAGTGAAACTATCTCAAACGAGATA-AAATC
1 AAACTATCTCAAGTGAGATAA-ATCTTATATTTCGAGTGAAACTATCTCAAACGAGATACAAATA
*
201673 T-TCTGTTTTGAATGAAATTATCTCAAGCGAGATAAAACTTATGTTTCAAGCG
65 TGT-TGTTTCGAATGAAATTATCTCAAGCGAGATAAAACTTATGTTTCAAGCG
* *
201725 AAACTATTTCAAGCGAGAT
1 AAACTATCTCAAGTGAGAT
201744 GTTGATCTCT
Statistics
Matches: 118, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
116 29 0.25
117 5 0.04
118 53 0.45
119 31 0.26
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (116 bp):
AAACTATCTCAAGTGAGATAAATCTTATATTTCGAGTGAAACTATCTCAAACGAGATACAAATAT
GTTGTTTCGAATGAAATTATCTCAAGCGAGATAAAACTTATGTTTCAAGCG
Found at i:201887 original size:41 final size:42
Alignment explanation
Indices: 201827--201913 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 42
201817 GCCTGAAGGT
* * * * *
201827 CTTATGGATGGCCCGAAGGACTT-ATCATCTTACTCGAAAGA
1 CTTATAGATGACCCAAAGGACTTAAGCATCATACTCGAAAGA
* *
201868 CTTATAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTATAGATGACCCAAAGGACTTAAGCATCATACTCGAAAGA
201910 CTTA
1 CTTA
201914 CTCATCAAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 19 0.50
42 19 0.50
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (42 bp):
CTTATAGATGACCCAAAGGACTTAAGCATCATACTCGAAAGA
Found at i:202019 original size:38 final size:38
Alignment explanation
Indices: 201977--202066 Score: 126
Period size: 38 Copynumber: 2.4 Consensus size: 38
201967 GAGCGACAAT
* *
201977 ATCTCAAGCGAGATAAATATTTTGTTTTGAGTGAAACC
1 ATCTCAAGCGAGATAAATATTCTGTTTCGAGTGAAACC
* * * *
202015 ATCTCAAGTGAGATACATCTTCTGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAATATTCTGTTTCGAGTGAAACC
202053 ATCTCAAGCGAGAT
1 ATCTCAAGCGAGAT
202067 GTTGATCCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (38 bp):
ATCTCAAGCGAGATAAATATTCTGTTTCGAGTGAAACC
Found at i:202361 original size:38 final size:38
Alignment explanation
Indices: 202319--202410 Score: 157
Period size: 38 Copynumber: 2.4 Consensus size: 38
202309 CGACCAAAAA
* *
202319 TATCTCAAGCGAGATAAATTTTCTGTTTCTAGTGAAAC
1 TATCTCAAGCGAGATAAATATTCTGTTTCGAGTGAAAC
202357 TATCTCAAGCGAGATAAATATTCTGTTTCGAGTGAAAC
1 TATCTCAAGCGAGATAAATATTCTGTTTCGAGTGAAAC
*
202395 TATCTCAAACGAGATA
1 TATCTCAAGCGAGATA
202411 TTGATCCCTC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (38 bp):
TATCTCAAGCGAGATAAATATTCTGTTTCGAGTGAAAC
Found at i:202539 original size:41 final size:40
Alignment explanation
Indices: 202478--202599 Score: 120
Period size: 41 Copynumber: 3.0 Consensus size: 40
202468 ATGTTGAAAA
* * * * *
202478 CATCTTGCCCGAAGGTCTTATGGATGGCCCAAAGGACTTAT
1 CATCTTGCTCGAAAGACTTAT-GATGGCCCGAAGGACTTAG
* *
202519 CATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAG
1 CATCTTGCTCGAAAGACTTAT-GATGGCCCGAAGGACTT-AG
* *
202561 CATCATGCTCGAAAGATTTACTGAT-GCCCGAAGGACTTA
1 CATCTTGCTCGAAAGACTTA-TGATGGCCCGAAGGACTTA
202600 CTAATCAACA
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
40 1 0.01
41 43 0.64
42 22 0.33
43 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (40 bp):
CATCTTGCTCGAAAGACTTATGATGGCCCGAAGGACTTAG
Found at i:202592 original size:343 final size:341
Alignment explanation
Indices: 201898--202865 Score: 1449
Period size: 343 Copynumber: 2.8 Consensus size: 341
201888 TTTAAGCATC
* * * *
201898 ATGCTCGAAAGACTTACTCATCAAGAAACCCTTAAAAATCAAGCTTAGTTTCTTAAAATCTTTTG
1 ATGCCCGAAGGACTTACTAATCAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAAAATCTTTTG
* * * *
201963 TTTCGAGCGACAATATCTCAAGCGAGATAAATATTT-TGTTT-TGAGTGAAACCATCTCAAGTGA
66 TTTCGAGCAAAAATATCTCAAGCGAGATAAAT-TTTCTGTTTCT-AGTGAAACTATCTCAAGCGA
* * *
202026 GATACATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGTTGATCCCTCAAGTGAGGCGTCG
129 GATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGTTGATCCCTCAAGTAAGG-TTCG
* *
202091 CTGATTCAAACTGCCGTGAATCAAGCAAAGGAAATGTTGAAAACATTCTT-CCTGAAGGTCTTAT
193 CTGATTCAAAATGCCGTGAATCAAGCAAAGGAAATGTTGAAAACA-TCTTGCCCGAAGGTCTTAT
* *
202155 GGATGGCACGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATTACCCGAAGGATTTAAGCAT
257 GGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCAT
*
202220 CATGGTCGAAAGATTTACTG
322 CATGCTCGAAAGATTTACTG
* * *
202240 ATGGCCCGAAGGACATACTAATCAAGAAACCCTTGAAAATCAAGCTTAGTTTCATAAAATCATTT
1 AT-GCCCGAAGGACTTACTAATCAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAAAATCTTTT
* *
202305 GCTTCGACCAAAAATATCTCAAGCGAGATAAATTTTCTGTTTCTAGTGAAACTATCTCAAGCGAG
65 GTTTCGAGCAAAAATATCTCAAGCGAGATAAATTTTCTGTTTCTAGTGAAACTATCTCAAGCGAG
* * * *
202370 ATAAATATTCTGTTTCGAGTGAAACTATCTCAAACGAGATATTGATCCCTCAAGTAAGGTATCAC
130 ATAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGTTGATCCCTCAAGTAAGGT-TCGC
202435 TGATTCAAAATGCCGTGAATCAAGCAAAGGAAAATGTTGAAAACATCTTGCCCGAAGGTCTTATG
194 TGATTCAAAATGCCGTGAATCAAGCAAAGG-AAATGTTGAAAACATCTTGCCCGAAGGTCTTATG
*
202500 GATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATC
258 GATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATC
202565 ATGCTCGAAAGATTTACTG
323 ATGCTCGAAAGATTTACTG
* *
202584 ATGCCCGAAGGACTTACTAATCAACAAACCCTTGAAAATCAAGCTTAGTTTCTTAAAATCTTTTA
1 ATGCCCGAAGGACTTACTAATCAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAAAATCTTTTG
* * * * * *
202649 TTTCTAGCAAAACTATCTCAATCGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCATGCGAGA
66 TTTCGAGCAAAAATATCTCAAGCGAGATAAATTTTCTGTTTCTAGTGAAACTATCTCAAGCGAGA
*
202714 TAAATCTTCTGTTTCGAGTTAAACTATCTCAAGCGAGATGTTGATCCCTCAAGTGAAGCGTT-GC
131 TAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGTTGATCCCTCAAGT-AAG-GTTCGC
* * * * *
202778 TTATTCTAAATGTCATGAATCAAGCAAAGGAAATGTTTAAAACATCTTGCCCGAAGGTCTTATGG
194 TGATTCAAAATGCCGTGAATCAAGCAAAGGAAATGTTGAAAACATCTTGCCCGAAGGTCTTATGG
*
202843 ATGGTCCGAAGGACTTACTCATC
259 ATGGCCCGAAGGACTTA-TCATC
202866 AAGAAACCCT
Statistics
Matches: 566, Mismatches: 51, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
342 54 0.10
343 395 0.70
344 115 0.20
345 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (341 bp):
ATGCCCGAAGGACTTACTAATCAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAAAATCTTTTG
TTTCGAGCAAAAATATCTCAAGCGAGATAAATTTTCTGTTTCTAGTGAAACTATCTCAAGCGAGA
TAAATCTTCTGTTTCGAGTGAAACTATCTCAAGCGAGATGTTGATCCCTCAAGTAAGGTTCGCTG
ATTCAAAATGCCGTGAATCAAGCAAAGGAAATGTTGAAAACATCTTGCCCGAAGGTCTTATGGAT
GGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGCATCATG
CTCGAAAGATTTACTG
Found at i:202700 original size:38 final size:38
Alignment explanation
Indices: 202658--202752 Score: 156
Period size: 38 Copynumber: 2.5 Consensus size: 38
202648 ATTTCTAGCA
202658 AAACTATCTCAATCGAGATAAATCTTCTGTTTCGAGTG
1 AAACTATCTCAATCGAGATAAATCTTCTGTTTCGAGTG
*
202696 AAACTATCTC-ATGCGAGATAAATCTTCTGTTTCGAGTT
1 AAACTATCTCAAT-CGAGATAAATCTTCTGTTTCGAGTG
*
202734 AAACTATCTCAAGCGAGAT
1 AAACTATCTCAATCGAGAT
202753 GTTGATCCCT
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
37 2 0.04
38 50 0.94
39 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (38 bp):
AAACTATCTCAATCGAGATAAATCTTCTGTTTCGAGTG
Found at i:202731 original size:19 final size:19
Alignment explanation
Indices: 202670--202736 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
202660 ACTATCTCAA
202670 TCGAGATAAATCTTCTGTT
1 TCGAGATAAATCTTCTGTT
**
202689 TCGAG-TGAAA-CTATCTCAT
1 TCGAGAT-AAATCT-TCTGTT
*
202708 GCGAGATAAATCTTCTGTT
1 TCGAGATAAATCTTCTGTT
*
202727 TCGAGTTAAA
1 TCGAGATAAA
202737 CTATCTCAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 31 0.84
20 3 0.08
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (19 bp):
TCGAGATAAATCTTCTGTT
Found at i:202958 original size:38 final size:38
Alignment explanation
Indices: 202910--203013 Score: 165
Period size: 38 Copynumber: 2.7 Consensus size: 38
202900 AATCTTTTTT
*
202910 TTTCGCGTGAAACTATCTCAAGCGAGATAAATATTCT-
1 TTTCGAGTGAAACTATCTCAAGCGAGATAAATATTCTA
*
202947 TTATCGAGTGAAACTATCTCAAGCGAGATAAATCTTCTA
1 TT-TCGAGTGAAACTATCTCAAGCGAGATAAATATTCTA
*
202986 TTTTGAGTGAAACTATCTCAAGCGAGAT
1 TTTCGAGTGAAACTATCTCAAGCGAGAT
203014 GTTGATCCCT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
37 2 0.03
38 58 0.94
39 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (38 bp):
TTTCGAGTGAAACTATCTCAAGCGAGATAAATATTCTA
Found at i:202973 original size:19 final size:19
Alignment explanation
Indices: 202916--203011 Score: 58
Period size: 19 Copynumber: 5.1 Consensus size: 19
202906 TTTTTTTCGC
202916 GTGAAACTATCTCAAGCGA
1 GTGAAACTATCTCAAGCGA
** *
202935 GAT-AAA-TATTCTTTATCGA
1 G-TGAAACTA-TCTCAAGCGA
202954 GTGAAACTATCTCAAGCGA
1 GTGAAACTATCTCAAGCGA
***
202973 GAT-AAATCT-TCT-ATTTTGA
1 G-TGAAA-CTATCTCA-AGCGA
202992 GTGAAACTATCTCAAGCGA
1 GTGAAACTATCTCAAGCGA
203011 G
1 G
203012 ATGTTGATCC
Statistics
Matches: 55, Mismatches: 12, Indels: 20
0.63 0.14 0.23
Matches are distributed among these distances:
18 7 0.13
19 41 0.75
20 7 0.13
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (19 bp):
GTGAAACTATCTCAAGCGA
Found at i:203058 original size:261 final size:259
Alignment explanation
Indices: 202583--203125 Score: 824
Period size: 261 Copynumber: 2.1 Consensus size: 259
202573 AAGATTTACT
* *
202583 GATGCCCGAAGGACTTACTAATCAACAAACCCTTGAAAATCAAGCTTAGTTTCTTAAAATCTTTT
1 GATGTCCGAAGGACTTACTCATCAACAAACCCTTGAAAATCAAGCTTAGTTTCTTAAAATCTTTT
* * *
202648 ATTTCTAGCAAAACTATCTCAATCGAGATAAATCTTCTGTTTCGAGTGAAACTATCTCATGCGAG
66 ATTTCTAGCAAAACTATCTCAAGCGAGATAAATATTCTGTTTCGAGTGAAACTATCTCAAGCGAG
* * *
202713 ATAAATCTTCTGTTTCGAGTTAAACTATCTCAAGCGAGATGTTGATCCCTCAAGTGAAGCGTTGC
131 ATAAATCTTCTATTTCGAGTGAAACTATCTCAAGCGAGATGTTGATCCCTCAAGTGAAGCGTCGC
* * * * *
202778 TTATTCTAAATGTCATGAATCAAGCAAAGGAAATGTTTAAAACATCTTGCCCGAAGGTCTTATG
196 TAATTCGAAATGCCATGAATCAAGCAAAGGAAATATTGAAAACATCTTGCCCGAAGGTCTTATG
*
202842 GATGGTCCGAAGGACTTACTCATCAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAAAATCTTT
1 GAT-GTCCGAAGGACTTACTCATCAACAAACCCTTGAAAATCAAGCTTAGTTTCTTAAAATCTTT
* * *
202907 T-TTTTTCGCGTGAAACTATCTCAAGCGAGATAAATATTCT-TTATCGAGTGAAACTATCTCAAG
65 TATTTCTAGC--AAAACTATCTCAAGCGAGATAAATATTCTGTT-TCGAGTGAAACTATCTCAAG
*
202970 CGAGATAAATCTTCTATTTTGAGTGAAACTATCTCAAGCGAGATGTTGATCCCTCAAGT-AAGGC
127 CGAGATAAATCTTCTATTTCGAGTGAAACTATCTCAAGCGAGATGTTGATCCCTCAAGTGAA-GC
*
203034 GTCGCTAATTCGAAATGCCATGAATCAAGCAAAGGAACTATTGAAAACATCTTGCCCGAAGGTCT
191 GTCGCTAATTCGAAATGCCATGAATCAAGCAAAGGAAATATTGAAAACATCTTGCCCGAAGGTCT
203099 TATG
256 TATG
*
203103 GATGTCTTGAAGGACTTA-TCATC
1 GATGTC-CGAAGGACTTACTCATC
203126 TTGCTCGAAA
Statistics
Matches: 258, Mismatches: 20, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
259 9 0.03
260 71 0.28
261 178 0.69
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (259 bp):
GATGTCCGAAGGACTTACTCATCAACAAACCCTTGAAAATCAAGCTTAGTTTCTTAAAATCTTTT
ATTTCTAGCAAAACTATCTCAAGCGAGATAAATATTCTGTTTCGAGTGAAACTATCTCAAGCGAG
ATAAATCTTCTATTTCGAGTGAAACTATCTCAAGCGAGATGTTGATCCCTCAAGTGAAGCGTCGC
TAATTCGAAATGCCATGAATCAAGCAAAGGAAATATTGAAAACATCTTGCCCGAAGGTCTTATG
Found at i:203324 original size:58 final size:56
Alignment explanation
Indices: 203262--203464 Score: 188
Period size: 58 Copynumber: 3.6 Consensus size: 56
203252 ATTTTTAGTT
* * *
203262 ATCATCAAGAAACCCCTAAATATTATGCTTAGCTTCTTAAAACAGTTCTTTGGAAATA
1 ATCATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTAAAA-A-TTCTTTGGAAATA
** **
203320 ATCATCCAA-AAACCCC-AGAAAACCAGGCTTAGTTTC-TAAAAACTAATTT-G-AA-A
1 ATCAT-CAAGAAACCCCTA-AAAATTAGGCTTAGTTTCTTAAAAA-TTCTTTGGAAATA
* * *
203373 A-CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTTAAAAATTCATTGAAAATC
1 ATCATCAAGAAACCCCTAAAAATTAGGCTTAGTTTC--TTAAAAATTCTTTGGAAATA
203430 ATCATCAAGAAACCCCTAAAAATCT-GGCTTAGTTT
1 ATCATCAAGAAACCCCTAAAAAT-TAGGCTTAGTTT
203465 TTTTTTAAAA
Statistics
Matches: 118, Mismatches: 15, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
51 3 0.03
52 26 0.22
53 3 0.03
54 5 0.04
55 7 0.06
56 7 0.06
57 7 0.06
58 56 0.47
59 4 0.03
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (56 bp):
ATCATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTAAAAATTCTTTGGAAATA
Found at i:203409 original size:110 final size:109
Alignment explanation
Indices: 203264--203464 Score: 264
Period size: 110 Copynumber: 1.8 Consensus size: 109
203254 TTTTAGTTAT
* * * *
203264 CATCAAGAAACCCCTAAATATTATGCTTAGCTTC-TTAAAACAGTTCTTTGGAAATAATCATCCA
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAA-A-TTCATTGAAAATAATCAT-CA
203328 A-AAACCCC-AGAAAACCAGGCTTAGTTTCTAAAAACTAATTTGAAAA
63 AGAAACCCCTA-AAAACCAGGCTTAGTTTCTAAAAACTAATTTGAAAA
* *
203374 CATCAAGAAACCCCTAAAAATTAGGCTTAGTTTCTTTTAAAAATTCATTGAAAATCATCATCAAG
1 CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTC-TTTAAAAATTCATTGAAAATAATCATCAAG
* *
203439 AAACCCCTAAAAATCTGGCTTAGTTT
65 AAACCCCTAAAAACCAGGCTTAGTTT
203465 TTTTTTAAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
109 3 0.04
110 68 0.86
111 2 0.03
112 6 0.08
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (109 bp):
CATCAAGAAACCCCTAAAAATTAGGCTTAGCTTCTTTAAAAATTCATTGAAAATAATCATCAAGA
AACCCCTAAAAACCAGGCTTAGTTTCTAAAAACTAATTTGAAAA
Found at i:207616 original size:14 final size:14
Alignment explanation
Indices: 207597--207646 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
207587 ATCATATGAT
207597 TATAACACATGTCA
1 TATAACACATGTCA
*
207611 TATAACACATAT-A
1 TATAACACATGTCA
* *
207624 T-TTATACATGTCA
1 TATAACACATGTCA
207637 TATAACACAT
1 TATAACACAT
207647 ATACCATTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
12 7 0.25
13 4 0.14
14 17 0.61
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.34
Consensus pattern (14 bp):
TATAACACATGTCA
Found at i:207839 original size:18 final size:18
Alignment explanation
Indices: 207816--207861 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
207806 TTGTCCCGAT
*
207816 GGACCACTATATCCTAAA
1 GGACCACTATATCCCAAA
* *
207834 GGACCACTATGTCCCGAA
1 GGACCACTATATCCCAAA
207852 GGACCA-TATA
1 GGACCACTATA
207862 GAACACATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (18 bp):
GGACCACTATATCCCAAA
Found at i:208793 original size:21 final size:22
Alignment explanation
Indices: 208767--208819 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
208757 AAGTTTCCCG
208767 GGTATCGATACC-C-TCCATAT
1 GGTATCGATACCTCTTCCATAT
*
208787 AGGTATCAATACCTCTTCCATAT
1 -GGTATCGATACCTCTTCCATAT
208810 GGTATCGATA
1 GGTATCGATA
208820 TTGTTCATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 11 0.39
22 10 0.36
23 7 0.25
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (22 bp):
GGTATCGATACCTCTTCCATAT
Found at i:226420 original size:26 final size:26
Alignment explanation
Indices: 226391--226444 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
226381 GCTTAGTGCA
* *
226391 TATGGTAGGCATGACCTTATGTGTAT
1 TATGATAGGCACGACCTTATGTGTAT
* *
226417 TATGATGGGCACGACCTTATTTGTAT
1 TATGATAGGCACGACCTTATGTGTAT
226443 TA
1 TA
226445 GCACTTTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.13, G:0.24, T:0.39
Consensus pattern (26 bp):
TATGATAGGCACGACCTTATGTGTAT
Found at i:229942 original size:19 final size:18
Alignment explanation
Indices: 229899--229942 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
229889 TAAATAAGAA
229899 AATTAAAACTTAAAATTT
1 AATTAAAACTTAAAATTT
*
229917 AAATAAAACTTAATAATTT
1 AATTAAAACTTAA-AATTT
*
229936 ACTTAAA
1 AATTAAA
229943 TGCCATAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTAAAACTTAAAATTT
Found at i:230451 original size:23 final size:23
Alignment explanation
Indices: 230425--230475 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
230415 AAGTGCCATG
*
230425 TAGAAATGTTCCAAAGGACCACA
1 TAGAAATGTCCCAAAGGACCACA
* * * *
230448 TAGATATGTCCCGATGGACCACG
1 TAGAAATGTCCCAAAGGACCACA
230471 TAGAA
1 TAGAA
230476 CCCTCGACTC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (23 bp):
TAGAAATGTCCCAAAGGACCACA
Found at i:230588 original size:16 final size:15
Alignment explanation
Indices: 230562--230591 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
230552 TCCCATAGCT
230562 TATATCACATAGACA
1 TATATCACATAGACA
230577 TATATCCACATAGAC
1 TATAT-CACATAGAC
230592 CATTGCCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (15 bp):
TATATCACATAGACA
Found at i:233189 original size:25 final size:25
Alignment explanation
Indices: 233160--233209 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
233150 ACTAAACAAG
* *
233160 TCATAGTCCAGTAAATCTCATAAAA
1 TCATACTCCAGTAAATCCCATAAAA
*
233185 TCATACTGCAGTAAATCCCATAAAA
1 TCATACTCCAGTAAATCCCATAAAA
233210 GAATTACCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
TCATACTCCAGTAAATCCCATAAAA
Found at i:234267 original size:29 final size:29
Alignment explanation
Indices: 234234--234503 Score: 346
Period size: 29 Copynumber: 9.3 Consensus size: 29
234224 AACTATAACG
* **
234234 AAAATAACACATTTTTTTAAATAATTACC
1 AAAATATCACATTTTTCAAAATAATTACC
* *
234263 AAAATATCACCTTTTTGAAAATAATTACC
1 AAAATATCACATTTTTCAAAATAATTACC
* *
234292 AAAATATAACCTTTTTCAAAATAATTACC
1 AAAATATCACATTTTTCAAAATAATTACC
* *
234321 AAAATATTACATTTTTAAAAAAATAATTACC
1 AAAATATCACATTTTT--CAAAATAATTACC
*
234352 AAAATAGCACATTTTTCAAAATAATTACC
1 AAAATATCACATTTTTCAAAATAATTACC
*
234381 AAAATAGCACATTTTTCAAAATAATTACC
1 AAAATATCACATTTTTCAAAATAATTACC
*
234410 AAAATATCAC-TTTTT-TAAATAATTACC
1 AAAATATCACATTTTTCAAAATAATTACC
** *
234437 AAAATATCACCGTTTTCAAAATAATTATC
1 AAAATATCACATTTTTCAAAATAATTACC
* *
234466 AAAATATCACCTTTTTAAAAATAATTACC
1 AAAATATCACATTTTTCAAAATAATTACC
*
234495 AAAAAATCA
1 AAAATATCA
234504 TTGGGTCGGG
Statistics
Matches: 216, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
27 21 0.10
28 9 0.04
29 160 0.74
31 26 0.12
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.34
Consensus pattern (29 bp):
AAAATATCACATTTTTCAAAATAATTACC
Found at i:234373 original size:17 final size:17
Alignment explanation
Indices: 234351--234403 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
234341 AAATAATTAC
234351 CAAAATAGCACATTTTT
1 CAAAATAGCACATTTTT
**
234368 CAAAAT---A-A-TTAC
1 CAAAATAGCACATTTTT
234380 CAAAATAGCACATTTTT
1 CAAAATAGCACATTTTT
234397 CAAAATA
1 CAAAATA
234404 ATTACCAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 10
0.66 0.10 0.24
Matches are distributed among these distances:
12 8 0.30
13 1 0.04
14 1 0.04
15 1 0.04
16 1 0.04
17 15 0.56
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (17 bp):
CAAAATAGCACATTTTT
Found at i:234373 original size:89 final size:85
Alignment explanation
Indices: 234246--234503 Score: 363
Period size: 89 Copynumber: 3.0 Consensus size: 85
234236 AATAACACAT
* * *
234246 TTTTTTAAATAATTACCAAAATATCACCTTTTTGAAAATAATTACCAAAATATAACCTTTTTCAA
1 TTTTTAAAATAATTACCAAAATATCACCTTTTTCAAAATAATTACCAAAATATCACCTTTTTCAA
*
234311 AATAATTACCAAAATATTAC
66 AATAATTACCAAAATATCAC
* * * *
234331 ATTTTTAAAAAAATAATTACCAAAATAGCACATTTTTCAAAATAATTACCAAAATAGCACATTTT
1 -TTTTT---AAAATAATTACCAAAATATCACCTTTTTCAAAATAATTACCAAAATATCACCTTTT
234396 TCAAAATAATTACCAAAATATCAC
62 TCAAAATAATTACCAAAATATCAC
* * * *
234420 TTTTTTAAATAATTACCAAAATATCACCGTTTTCAAAATAATTATCAAAATATCACCTTTTTAAA
1 TTTTTAAAATAATTACCAAAATATCACCTTTTTCAAAATAATTACCAAAATATCACCTTTTTCAA
*
234485 AATAATTACCAAAAAATCA
66 AATAATTACCAAAATATCA
234504 TTGGGTCGGG
Statistics
Matches: 152, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
85 70 0.46
86 5 0.03
88 5 0.03
89 72 0.47
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.35
Consensus pattern (85 bp):
TTTTTAAAATAATTACCAAAATATCACCTTTTTCAAAATAATTACCAAAATATCACCTTTTTCAA
AATAATTACCAAAATATCAC
Found at i:237670 original size:31 final size:32
Alignment explanation
Indices: 237620--237694 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 32
237610 TAATGTGACT
* * *
237620 TTAGGTAGGCTCTGCGGCCCTGAGAT-CATTC
1 TTAGGTAGGCCCTGAGGCCCTAAGATGCATTC
* **
237651 TTGGGTAGGCCCTGAGGCCCTAAGATGTGTTC
1 TTAGGTAGGCCCTGAGGCCCTAAGATGCATTC
237683 TTAGGTAGGCCC
1 TTAGGTAGGCCC
237695 CACGGACCCA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 22 0.61
32 14 0.39
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (32 bp):
TTAGGTAGGCCCTGAGGCCCTAAGATGCATTC
Found at i:242334 original size:24 final size:24
Alignment explanation
Indices: 242307--242390 Score: 114
Period size: 24 Copynumber: 3.5 Consensus size: 24
242297 TTATAATATC
242307 TGACCTGGATTCTGATCGGATACT
1 TGACCTGGATTCTGATCGGATACT
* *
242331 TGACTTGGATTCTGATCGAATACT
1 TGACCTGGATTCTGATCGGATACT
* * *
242355 TAACCTGGATTTTTGATCTGATACT
1 TGACCTGGA-TTCTGATCGGATACT
242380 TGACCTGGATT
1 TGACCTGGATT
242391 ATGTTTTGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
24 31 0.61
25 20 0.39
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (24 bp):
TGACCTGGATTCTGATCGGATACT
Found at i:244770 original size:19 final size:20
Alignment explanation
Indices: 244746--244785 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
244736 GACGACTCCG
*
244746 AACATTTTTAAATTT-CTTA
1 AACATTTCTAAATTTCCTTA
244765 AACATTTCTAAATTTCCTTA
1 AACATTTCTAAATTTCCTTA
244785 A
1 A
244786 TTTCCACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (20 bp):
AACATTTCTAAATTTCCTTA
Found at i:245950 original size:11 final size:11
Alignment explanation
Indices: 245934--245965 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
245924 GCGAGGTACC
245934 AAAACGAAACA
1 AAAACGAAACA
245945 AAAACGAAACA
1 AAAACGAAACA
*
245956 AAAACTAAAC
1 AAAACGAAAC
245966 GTTAGATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.72, C:0.19, G:0.06, T:0.03
Consensus pattern (11 bp):
AAAACGAAACA
Found at i:247529 original size:182 final size:182
Alignment explanation
Indices: 247321--247978 Score: 920
Period size: 181 Copynumber: 3.6 Consensus size: 182
247311 GATACAAATA
* * * *
247321 AAAAATGTATAGATCCATAGCAATATAACATGTTAAAATATGACAAAACCGG-CTTC-ATTATGA
1 AAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTC-TCGA-AATGA
* * * * * * *
247384 CAAAACCGGTAAAGCGGTACCGGATATGTTGAAAATATCGATTAGATTGAA-ATAAATATCGACA
64 CAAAACCGGTAAAGCGCTACCAGATATGTTGAAAGTGTCGA-TA-CTTTAATATAAGTATCGACA
*
247448 CTTTTGGAATTTAAAAGAGAAGAAGTAATAGCGTCTATAAAGTGTCGATACTTTA-
127 CTTTTGGAATTTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
*
247503 AAAAATGTATCGATCCATAACAATATAAC-TGGTAAAAATATGACAAAATCGGTCTCGAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAT-GTAAAAATATGACAAAACCGGTCTCGAAATGAC
* * * * *
247567 AAAACCGGTAAAGAGCTACCATATATGTTGAACGTGTGGATACTTTAATATAAGTATCGAAACTT
65 AAAACCGGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
*
247632 TTGGAATTTAAAAGAGAA-ACAGTTATAGCGCCTATAAAGTGTCGATACTTTAT
130 TTGGAATTTAAAAGAGAAGA-AGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* * *
247685 AAAAATGTATCGCTCCATAACAATATAACAGGTAAAAATATGAC-AAATCGGTCTCGAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACA
* ** *
247749 AAACGGGTAAAATGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACAATTT
66 AAACCGGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTT
* *
247814 TGAAATTTAAAAGAGAAGCAGTAATA-CTGCCTATAAAGTGTCGATACTTTAT
131 TGGAATTTAAAAGAGAAGAAGTAATAGC-GCCTATAAAGTGTCGATACTTTAT
247866 AAAAATGTATCGATCCATAACAATATAACATGT-AAAATATGACAAAACCGGTCTCGAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACA
* *
247930 AAATCGGTTAAGCGCTACCAGATATGTTGAAAGTGTCGATACTTTAATA
66 AAACCGGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATACTTTAATA
247979 AGTACGCGTA
Statistics
Matches: 426, Mismatches: 40, Indels: 21
0.87 0.08 0.04
Matches are distributed among these distances:
180 16 0.04
181 282 0.66
182 126 0.30
183 2 0.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACA
AAACCGGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTT
TGGAATTTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
Found at i:250250 original size:9 final size:9
Alignment explanation
Indices: 250232--250268 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
250222 TTATTAGTAA
250232 GGAGGCAGT
1 GGAGGCAGT
*
250241 GGAGGAAGT
1 GGAGGCAGT
*
250250 GAAGGCAGT
1 GGAGGCAGT
250259 GGAGGCAGT
1 GGAGGCAGT
250268 G
1 G
250269 AAGGAAGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.27, C:0.08, G:0.54, T:0.11
Consensus pattern (9 bp):
GGAGGCAGT
Found at i:250257 original size:18 final size:18
Alignment explanation
Indices: 250234--250272 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
250224 ATTAGTAAGG
250234 AGGCAGTGGAGGAAGTGA
1 AGGCAGTGGAGGAAGTGA
*
250252 AGGCAGTGGAGGCAGTGA
1 AGGCAGTGGAGGAAGTGA
250270 AGG
1 AGG
250273 AAGAGGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.08, G:0.51, T:0.10
Consensus pattern (18 bp):
AGGCAGTGGAGGAAGTGA
Found at i:250321 original size:15 final size:15
Alignment explanation
Indices: 250301--250334 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
250291 AGATGGTAGT
*
250301 AGGGGGATGACGGTG
1 AGGGGGATGACGGTA
250316 AGGGGGATGACGGTA
1 AGGGGGATGACGGTA
250331 AGGG
1 AGGG
250335 AAAAGAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.06, G:0.59, T:0.12
Consensus pattern (15 bp):
AGGGGGATGACGGTA
Found at i:250584 original size:65 final size:66
Alignment explanation
Indices: 250454--250584 Score: 158
Period size: 65 Copynumber: 2.0 Consensus size: 66
250444 AAGGGGGAAG
* * *
250454 TGGGTGGAAAAATAGATGGAGTGGTGAAAGAAGTTTTGGAGTAGAGGGGTGAAGTTAAGATGGTG
1 TGGGTGGAAAAATAGATGGAGTGGTGAAAGAAGTTGTGGAGTAGAGGGGTGAACTTAAGAGGGTG
250519 A
66 A
* * * * * *
250520 TGGGTGG-GAAATTGATGGAGTGGTG-AAGAAAGTTGTGGATTTGAGGGGTGAACTTACGGGGGT
1 TGGGTGGAAAAATAGATGGAGTGGTGAAAG-AAGTTGTGGAGTAGAGGGGTGAACTTAAGAGGGT
250583 GA
65 GA
250585 AGGGAGTGGT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
64 3 0.05
65 45 0.82
66 7 0.13
ACGTcount: A:0.29, C:0.02, G:0.44, T:0.25
Consensus pattern (66 bp):
TGGGTGGAAAAATAGATGGAGTGGTGAAAGAAGTTGTGGAGTAGAGGGGTGAACTTAAGAGGGTG
A
Found at i:250697 original size:17 final size:17
Alignment explanation
Indices: 250675--250709 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
250665 AAAAATATGA
250675 AGAAGAAAAGATAGAGG
1 AGAAGAAAAGATAGAGG
*
250692 AGAAGAAAAGATGGAGG
1 AGAAGAAAAGATAGAGG
250709 A
1 A
250710 AGTGAGGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.37, T:0.06
Consensus pattern (17 bp):
AGAAGAAAAGATAGAGG
Found at i:255094 original size:200 final size:199
Alignment explanation
Indices: 254742--255853 Score: 1432
Period size: 200 Copynumber: 5.6 Consensus size: 199
254732 TTAAAGTAAC
* * *
254742 AGGTCAACATAATGTATCAACACTTTTAAAATTTGTGTCGATACTTTTT-TCCCAGAAAGAATGC
1 AGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTAT-CCAGAATGAATGC
* *
254806 CCAAACGAGGTGCACGCATAAAGTGTTGATACATTTATAAAAAGTATCAATCCCAAAAACATCGA
65 CCAAACGAGGTGCACGCATAAAGTGTCGATACA-TTATAAAAAGTATCGATCCCAAAAACATCGA
* * *
254871 AACCGATAATTAGAATATAATAGGTAATTTTGAAATGTAACCAGTAGAAAATACCGGTTTTATGA
129 AACCGATAATTACAATGTAATAGGTAATTTTGAAATGTAACCAGTAGAAAATACCGATTTTATGA
254936 GAAAAT
194 GAAAAT
* * * * *
254942 ATGTCAACATAATGTATCAACACTTTTAAAATTTATGTCGCTACTTTTTATCCAGAATGAATGCC
1 AGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTATCCAGAATGAATGCC
** * * *
255007 CAAACGAGCAGCACGTATAAAGTGTCGATATATCTATAAAAAGTATCGATCCAAAAAACATCGAA
66 CAAACGAGGTGCACGCATAAAGTGTCGATACAT-TATAAAAAGTATCGATCCCAAAAACATCGAA
* * **
255072 ATCGATAATTACAATGTAATAGGTAAATTT-ACAATGTAACTGGTAGAAAATACCGATTTTATGA
130 ACCGATAATTACAATGTAATAGGTAATTTTGA-AATGTAACCAGTAGAAAATACCGATTTTATGA
255136 GAAAAT
194 GAAAAT
* * * * * *
255142 AGGTCTACATAATGTATCGATACTTTTTAAATTTATGTCAATACTTTTTTTCTAGAAATGAATG-
1 AGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTATCCAG-AATGAATGC
* * * *
255206 ACAAACGAGGTGCACGAATAAAGTGTCGATACAGTTATAGAAAGTATCGATCCGAAAAACATCGA
65 CCAAACGAGGTGCACGCATAAAGTGTCGATACA-TTATAAAAAGTATCGATCCCAAAAACATCGA
* * * * *
255271 AACTGATAATTACAATGTAATAGGTAATTTCGCAATGTAACCAGTATAAAATACCAATTTTATGA
129 AACCGATAATTACAATGTAATAGGTAATTTTGAAATGTAACCAGTAGAAAATACCGATTTTATGA
255336 GAAAAT
194 GAAAAT
* * * *
255342 AGGTCAATATAATATATCGACACTTTTTAAATTTGTGCCGATACTTTTTGTCCAGAATGAATGCC
1 AGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTATCCAGAATGAATGCC
* * * * * * *
255407 CAAACGAGGTCCACGCATAAAGTGTCAAAATATTTATAAAAAGTATCGATCCCAAATACACCAAA
66 CAAACGAGGTGCACGCATAAAGTGTCGATACA-TTATAAAAAGTATCGATCCCAAAAACATCGAA
* * * *
255472 ACCGATAATTAGAATGTAATATGTAATTTTGCAATGTAACC-GTTAGAAAATA-CAAGTTTTATG
130 ACCGATAATTACAATGTAATAGGTAATTTTGAAATGTAACCAG-TAGAAAATACCGA-TTTTATG
255535 AGAAAAT
193 AGAAAAT
* * * *
255542 AGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGTCAACAATGAATGCC
1 AGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTATCCAGAATGAATGCC
* * *
255607 CAAACGAGGTGCATGCATAAAGTGTCGATACATT-TAAAATTGTATCGATCCCAAAAACATCAAA
66 CAAACGAGGTGCACGCATAAAGTGTCGATACATTATAAAA-AGTATCGATCCCAAAAACATCGAA
* *
255671 ACCGATAATTACAATGTAATAGGTAAATTT-ACAATGTAACCGGTAGAAAATACCGATTTTATGA
130 ACCGATAATTACAATGTAATAGGTAATTTTGA-AATGTAACCAGTAGAAAATACCGATTTTATGA
255735 GAAAAT
194 GAAAAT
* * *
255741 AGGTCTACATAATGTATCGACACTTTTTAAATTTGTTTCGATACTTTTTATCCAGAAATAAATG-
1 AGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTATCCAG-AATGAATGC
* * * *
255805 ACAAACTAGGTGCACGCATAAAGTGTCGATAC-TTTTAAAATTGTATCGA
65 CCAAACGAGGTGCACGCATAAAGTGTCGATACATTATAAAA-AGTATCGA
255854 CACAAAATAG
Statistics
Matches: 799, Mismatches: 98, Indels: 31
0.86 0.11 0.03
Matches are distributed among these distances:
198 7 0.01
199 188 0.24
200 594 0.74
201 10 0.01
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (199 bp):
AGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTATCCAGAATGAATGCC
CAAACGAGGTGCACGCATAAAGTGTCGATACATTATAAAAAGTATCGATCCCAAAAACATCGAAA
CCGATAATTACAATGTAATAGGTAATTTTGAAATGTAACCAGTAGAAAATACCGATTTTATGAGA
AAAT
Found at i:260266 original size:15 final size:15
Alignment explanation
Indices: 260246--260276 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
260236 ATGTATCAAC
260246 ACATAAAGTTTCCAA
1 ACATAAAGTTTCCAA
260261 ACATAAAGTTTCCAA
1 ACATAAAGTTTCCAA
260276 A
1 A
260277 AAAGTGTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.26
Consensus pattern (15 bp):
ACATAAAGTTTCCAA
Found at i:260745 original size:199 final size:198
Alignment explanation
Indices: 260387--260957 Score: 806
Period size: 199 Copynumber: 2.9 Consensus size: 198
260377 AAAAAATGTG
* * *
260387 TCGATATATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTTTAATGTAATAGA
1 TCGATATATTTA--AAATTGTATCGATCCCAAAAACATC-AAACCGATAATTATAATGTAATAGG
* * *
260451 TAAATTTACAATGTAACTGGTAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTAT
63 TAAATTTAAAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTAT
* * * *
260516 CGACACTTTTTAAATTTTTGTCTATACTTTTTGTCCATAATGAATGACAAACTAGGTGTACGCAT
128 CGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCAT
*
260581 AAAGTA
193 AAAATA
*
260587 TCGATATATTTAAAATTGTATCGATCCCAAAAACATCATAACCGATAATTACAATGTAATAGGTA
1 TCGATATATTTAAAATTGTATCGATCCCAAAAACATCA-AACCGATAATTATAATGTAATAGGTA
* * * * * *
260652 AATTTAAAATGTAACCGGTAGAAATATACCGGTTTTATAATAGAATAGGTCAATATAATGTATCA
65 AATTTAAAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTATCG
* * *
260717 ACACTTTTTATATTTGTGTCGATACTTTTTTTCCAGAATGAATGACATACTAGGTGCACGCATAA
130 ACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAA
*
260782 AATG
195 AATA
* * *
260786 TTGATACATTTAAAATTGTATCGATCCCAAAAACATTGAAACCGATAATTATAATGTAA-AGGTA
1 TCGATATATTTAAAATTGTATCGATCCCAAAAACA-TCAAACCGATAATTATAATGTAATAGGTA
* * *
260850 AATTTACAAA-GTAACCGGTATAAATATACCGATTTTATGAGAAAATAGGTCTACATAATGTATT
65 AATTTA-AAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTATC
*
260914 GACGCTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAAT
129 GACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAAT
260958 ACCGTTTATG
Statistics
Matches: 329, Mismatches: 38, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
198 101 0.31
199 214 0.65
200 14 0.04
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (198 bp):
TCGATATATTTAAAATTGTATCGATCCCAAAAACATCAAACCGATAATTATAATGTAATAGGTAA
ATTTAAAATGTAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTATCGA
CACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAA
ATA
Found at i:261154 original size:23 final size:23
Alignment explanation
Indices: 261128--261187 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
261118 CCAATAATTA
* * *
261128 ACCTATTTTATTATATAAGTGCT
1 ACCTATTATATTATATAAGCGAT
261151 ACCTATTATATTATATAAGCGAT
1 ACCTATTATATTATATAAGCGAT
* *
261174 ACCTAATATGTTAT
1 ACCTATTATATTAT
261188 TGTACTTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.43
Consensus pattern (23 bp):
ACCTATTATATTATATAAGCGAT
Found at i:266000 original size:6 final size:7
Alignment explanation
Indices: 265984--266009 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
265974 TATTGGATTG
265984 TTTTTAT
1 TTTTTAT
265991 TTTTTAT
1 TTTTTAT
265998 TTTTTAT
1 TTTTTAT
266005 TTTTT
1 TTTTT
266010 TCTTTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:267375 original size:19 final size:20
Alignment explanation
Indices: 267351--267392 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
267341 TAGTGATCGG
267351 TCAACGG-CCAGGTAAGCTT
1 TCAACGGTCCAGGTAAGCTT
*
267370 TCAACGGTCCAGGTCAGCTT
1 TCAACGGTCCAGGTAAGCTT
267390 TCA
1 TCA
267393 TCACCCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (20 bp):
TCAACGGTCCAGGTAAGCTT
Found at i:273858 original size:29 final size:28
Alignment explanation
Indices: 273816--273871 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
273806 TTAATACATA
*
273816 TTTAATTATTATTTAAATTTTGTAATATT
1 TTTAATTAATATTTAAATTTT-TAATATT
* *
273845 TTTATTTAATATTTCAATTTTTAATAT
1 TTTAATTAATATTTAAATTTTTAATAT
273872 ATAATTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTAATTAATATTTAAATTTTTAATATT
Found at i:274936 original size:15 final size:16
Alignment explanation
Indices: 274915--274955 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
274905 TACTTTTCAA
274915 ATTATTGTATT-TATTT
1 ATTATTGT-TTATATTT
274931 -TTATTGTTTATATTT
1 ATTATTGTTTATATTT
274946 ATTATATGTT
1 ATTAT-TGTT
274956 CCTTTTAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.09
15 12 0.55
16 4 0.18
17 4 0.18
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (16 bp):
ATTATTGTTTATATTT
Found at i:278048 original size:15 final size:15
Alignment explanation
Indices: 278013--278054 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
278003 CATGCATTTC
278013 ACATTTTTCATTTTA
1 ACATTTTTCATTTTA
* *
278028 AAATTTTTCATTTTT
1 ACATTTTTCATTTTA
*
278043 ACATTTTGCATT
1 ACATTTTTCATT
278055 AATGTACATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.12, G:0.02, T:0.60
Consensus pattern (15 bp):
ACATTTTTCATTTTA
Found at i:280518 original size:15 final size:15
Alignment explanation
Indices: 280498--280541 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
280488 TTTGTCTGGG
280498 TTATTATTAATATTA
1 TTATTATTAATATTA
*
280513 TTATTATTACTATTA
1 TTATTATTAATATTA
* *
280528 TAATTATTTATATT
1 TTATTATTAATATT
280542 TATATTTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTATTAATATTA
Found at i:280612 original size:18 final size:19
Alignment explanation
Indices: 280591--280626 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
280581 CAACCGGGCT
*
280591 CCAAATTAC-AACCCAAAC
1 CCAAACTACAAACCCAAAC
280609 CCAAACTACAAACCCAAA
1 CCAAACTACAAACCCAAA
280627 ATCTCAGCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.53, C:0.39, G:0.00, T:0.08
Consensus pattern (19 bp):
CCAAACTACAAACCCAAAC
Found at i:283242 original size:2 final size:2
Alignment explanation
Indices: 283237--283289 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
283227 TGTGTGTGTG
283237 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
283279 TA TA TA TA TA T
1 TA TA TA TA TA T
283290 GGTTCTACTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:300310 original size:60 final size:60
Alignment explanation
Indices: 300237--300773 Score: 761
Period size: 60 Copynumber: 8.9 Consensus size: 60
300227 AAAATGAAAT
* *
300237 TTAAATGCCTAGCAGTGCATTTTGGCAGAAAGGTGTCACTAATGCAAGTTAGATGATAAG
1 TTAAATGCCTAACAGTGCATTTTGGCAGAAAGGTGACACTAATGCAAGTTAGATGATAAG
* * * *
300297 TTAAATGCCTAGCAGTGCGTTTTGGTAGAAAGGTGACACAAATGCAAGTTAGATGATAAG
1 TTAAATGCCTAACAGTGCATTTTGGCAGAAAGGTGACACTAATGCAAGTTAGATGATAAG
* * * *
300357 TTAAATGCCTAACAATGCATTTTGGAAGAAATGTGACACTAATGCAAATTAGATGATAAG
1 TTAAATGCCTAACAGTGCATTTTGGCAGAAAGGTGACACTAATGCAAGTTAGATGATAAG
* * * * *
300417 TTAAATGCCTAACGGTGTATTTCGGCAGAAAGGTGCCATTAATGCAAGTTAGATGATAAG
1 TTAAATGCCTAACAGTGCATTTTGGCAGAAAGGTGACACTAATGCAAGTTAGATGATAAG
* * * *
300477 TTAAATGCCTAACGGTGCATTTTGGCAGAAATGTGACTCTAATGCAAGTTTGATGATAAG
1 TTAAATGCCTAACAGTGCATTTTGGCAGAAAGGTGACACTAATGCAAGTTAGATGATAAG
* * **
300537 TTAAATGCCTAACAATGCATTTTGGAAGAAAGGTTCCACTAATGCAAGTTAGATGATAAG
1 TTAAATGCCTAACAGTGCATTTTGGCAGAAAGGTGACACTAATGCAAGTTAGATGATAAG
* * *
300597 TTAAATGCCTAACGGTGCATTTTGGAAGAAAGGTGCCACTAATGCAAGTTAGATGATAAG
1 TTAAATGCCTAACAGTGCATTTTGGCAGAAAGGTGACACTAATGCAAGTTAGATGATAAG
* * * *
300657 TTAAATGCCTAACAGTGCATTTTGGCAGAAAGTTGCCATTAATGCAAGTTATATGATAAG
1 TTAAATGCCTAACAGTGCATTTTGGCAGAAAGGTGACACTAATGCAAGTTAGATGATAAG
* *
300717 TTAAATGCCTAACTGAGCATTTTTGGCAGAAAGGTG-CAACTAATGCAAGTTAGATGA
1 TTAAATGCCTAACAGTGCA-TTTTGGCAGAAAGGTGAC-ACTAATGCAAGTTAGATGA
300774 AAAATAGTGC
Statistics
Matches: 427, Mismatches: 48, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
60 395 0.93
61 32 0.07
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (60 bp):
TTAAATGCCTAACAGTGCATTTTGGCAGAAAGGTGACACTAATGCAAGTTAGATGATAAG
Found at i:301982 original size:53 final size:53
Alignment explanation
Indices: 301920--302030 Score: 213
Period size: 53 Copynumber: 2.1 Consensus size: 53
301910 ATGTCAATTC
*
301920 CAAATCACAACAATAGTGTCACAACTCTACTTAATCCACTCAATTGAAACGAA
1 CAAATCACAACAATAGTGTCACAACCCTACTTAATCCACTCAATTGAAACGAA
301973 CAAATCACAACAATAGTGTCACAACCCTACTTAATCCACTCAATTGAAACGAA
1 CAAATCACAACAATAGTGTCACAACCCTACTTAATCCACTCAATTGAAACGAA
302026 CAAAT
1 CAAAT
302031 TTGATTCTCT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.44, C:0.27, G:0.07, T:0.22
Consensus pattern (53 bp):
CAAATCACAACAATAGTGTCACAACCCTACTTAATCCACTCAATTGAAACGAA
Found at i:302644 original size:134 final size:134
Alignment explanation
Indices: 302502--302771 Score: 470
Period size: 134 Copynumber: 2.0 Consensus size: 134
302492 ATAGAAAATT
302502 TATAATTATAATAATTTGGATAAATTATATATAATTAAAATTTTATTCATATTGAATTCAAATAT
1 TATAATTATAATAATTTGGATAAATTATATATAATTAAAATTTTATTCATATTGAATTCAAATAT
* * *
302567 TTATTTTAATTAAATTTT-AAATTGTTTAACATTACAAACAATAAGTGTCATTTAACAATGCATC
66 TGATTTTAATTAAATTTTAAAATT-TCTAACATTACAAACAATAAGTGTCATTTAACAATCCATC
302631 ATTTC
130 ATTTC
* * *
302636 TATAATTATAATATTTTGGATAAATTATATATAATTAAACTTTTATTCATATTGAATTCAATTAT
1 TATAATTATAATAATTTGGATAAATTATATATAATTAAAATTTTATTCATATTGAATTCAAATAT
302701 TGATTTTAATTAAATTTTAAAATTTCTAACATTACAAACAATAAGTGTCATTTAACAATCCATCA
66 TGATTTTAATTAAATTTTAAAATTTCTAACATTACAAACAATAAGTGTCATTTAACAATCCATCA
302766 TTTC
131 TTTC
302770 TA
1 TA
302772 CCAAGGTTAT
Statistics
Matches: 129, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
134 124 0.96
135 5 0.04
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.45
Consensus pattern (134 bp):
TATAATTATAATAATTTGGATAAATTATATATAATTAAAATTTTATTCATATTGAATTCAAATAT
TGATTTTAATTAAATTTTAAAATTTCTAACATTACAAACAATAAGTGTCATTTAACAATCCATCA
TTTC
Found at i:305676 original size:3 final size:3
Alignment explanation
Indices: 305661--305714 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
305651 CATTTGCCAT
* *
305661 TTA TTA TTT TTA TTA TTA TTT TTA TTA TTA TCT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
305706 TTA TTA TTA
1 TTA TTA TTA
305715 AATAATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 43 0.96
4 1 0.02
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:305678 original size:12 final size:12
Alignment explanation
Indices: 305661--305714 Score: 90
Period size: 12 Copynumber: 4.5 Consensus size: 12
305651 CATTTGCCAT
305661 TTATTATTTTTA
1 TTATTATTTTTA
305673 TTATTATTTTTA
1 TTATTATTTTTA
*
305685 TTATTATCTTTA
1 TTATTATTTTTA
*
305697 TTATTATTATTA
1 TTATTATTTTTA
305709 TTATTA
1 TTATTA
305715 AATAATAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (12 bp):
TTATTATTTTTA
Found at i:307083 original size:2 final size:2
Alignment explanation
Indices: 307076--307121 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
307066 AGCCACATTA
307076 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
307118 AT AT
1 AT AT
307122 GAAAGATTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:308452 original size:2 final size:2
Alignment explanation
Indices: 308445--308476 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
308435 ATGAGGTTAG
308445 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
308477 CCATGATAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:312555 original size:89 final size:88
Alignment explanation
Indices: 312441--312690 Score: 298
Period size: 89 Copynumber: 2.9 Consensus size: 88
312431 TGGAGTCATA
* * * * *
312441 TATTCATATTATATGTGCAAAAAAGCTTCAGTTATCCCTCTAAAGCAATAGGTTAATCGCCCAGG
1 TATT-ATATTATATATGCAATAAAGCTT-AGTTGTCCCTCTAAAGCAATTGGTTAATAGCCCAGG
312506 CTTTATGGATAATATTCAGATAGCC
64 CTTTATGGATAATATTCAGATAGCC
* * *
312531 TA-TATTATTATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGTAATTGGTTAATAGCCCCGG
1 TATTA-TATTATATATGCAATAAAGCTT-AGTTGTCCCTCTAAAGCAATTGGTTAATAGCCCAGG
*
312595 CTTTATGGATAATATTCAGCTAGCC
64 CTTTATGGATAATATTCAGATAGCC
* *
312620 TGTTATATTATTATATGCAATAAA----A-TTGTCCCTCTAGAGCAATTGGTTAATAGCCCCA-G
1 TATTATATTA-TATATGCAATAAAGCTTAGTTGTCCCTCTAAAGCAATTGGTTAATAG-CCCAGG
312679 CTTTATGGATAA
64 CTTTATGGATAA
312691 GTTTCAATTA
Statistics
Matches: 141, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
84 39 0.28
85 4 0.03
88 1 0.01
89 81 0.57
90 16 0.11
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (88 bp):
TATTATATTATATATGCAATAAAGCTTAGTTGTCCCTCTAAAGCAATTGGTTAATAGCCCAGGCT
TTATGGATAATATTCAGATAGCC
Found at i:315430 original size:123 final size:123
Alignment explanation
Indices: 315206--315935 Score: 977
Period size: 123 Copynumber: 6.0 Consensus size: 123
315196 ATTTCAGGAA
* * *
315206 AGAATGAGTTCGTAATAAGAATAACTCATCTGAAGAGGAATG-AGAAGTTCATAACCTGAAGAAC
1 AGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAA-GAAGAAGTTCATAATCTGAAGAAC
* *
315270 TTATTCAACCTTTTGCTCGATTCTATCGTAGAAAGAGATAGAGCAGCATCAACCTTTCC
65 TTATTCAACCTTTTGCTCGACTCTATCGCAGAAAGAGATAGAGCAGCATCAACCTTTCC
* * *
315329 AGAAAGAGTTCATAATAAGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAATTTGAAGAACT
1 AGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACT
*
315394 TATTCAACCTTTTGCTCGACTCTATCACAGAAAGAGATAGAGCAGCATC-ACCATTTCC
66 TATTCAACCTTTTGCTCGACTCTATCGCAGAAAGAGATAGAGCAGCATCAACC-TTTCC
* * * *
315452 AGAAGGAGTTCGTAATAAGAAGAACTCATCTAAAAAGGAAGAAGAAGTTCATAATCTGAAGAAAT
1 AGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACT
* * * *
315517 TATTCAACCTTTTTCTTGACTCTATCGCAGAAGGAGATAGAGCAGCATC-ACCATTTTC
66 TATTCAACCTTTTGCTCGACTCTATCGCAGAAAGAGATAGAGCAGCATCAACC-TTTCC
*
315575 AGACAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACT
1 AGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACT
* * * * *
315640 TATTCAACATTTTTCTTGACTCTATCGCAGAAGGAGATAGAGCAGCAT-AACTATTTCC
66 TATTCAACCTTTTGCTCGACTCTATCGCAGAAAGAGATAGAGCAGCATCAAC-CTTTCC
* * *
315698 AGAATGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTAAAGAAAT
1 AGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACT
* * * * * *
315763 TATTCAACCTTTTGCTCGATTCTATCGCAGAATGAGATAAAGTAGCATTAACGTTTCC
66 TATTCAACCTTTTGCTCGACTCTATCGCAGAAAGAGATAGAGCAGCATCAACCTTTCC
* * * * *
315821 ATAAGGAGTTCGTAATAAGAAGAACTCGTCTGAAGAGGAAAAAGAAGTTCATAATTTGAAGAACT
1 AGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACT
* * * * * * * *
315886 TGTTCAACC-TTAGCTTGATTC-ATCGCAGAAGGAGAAAGATCAGCAACAAC
66 TATTCAACCTTTTGCTCGACTCTATCGCAGAAAGAGATAGAGCAGCATCAAC
315936 GTTTACATCT
Statistics
Matches: 546, Mismatches: 56, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
121 22 0.04
122 14 0.03
123 507 0.93
124 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (123 bp):
AGAAAGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATCTGAAGAACT
TATTCAACCTTTTGCTCGACTCTATCGCAGAAAGAGATAGAGCAGCATCAACCTTTCC
Found at i:316083 original size:3 final size:3
Alignment explanation
Indices: 316068--316118 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
316058 CATTTGCCAT
* *
316068 TTA TTA TTT TTA TTA TTA TCT- TTA TTA TTA TCT- TTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA
316113 TTA TTA
1 TTA TTA
316119 ATAATAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 2 0.05
3 36 0.90
4 2 0.05
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:316118 original size:12 final size:12
Alignment explanation
Indices: 316068--316110 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
316058 CATTTGCCAT
*
316068 TTATTATTTTTA
1 TTATTATCTTTA
316080 TTATTATCTTTA
1 TTATTATCTTTA
316092 TTATTATCTTTA
1 TTATTATCTTTA
316104 TTATTAT
1 TTATTAT
316111 AATTATTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (12 bp):
TTATTATCTTTA
Found at i:319771 original size:6 final size:6
Alignment explanation
Indices: 319766--319802 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
319756 GCTTTCCTTG
* *
319766 ATCTTG ATCTCC ATCTTC ATCTTC ATCTTC ATCTTC A
1 ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC ATCTTC A
319803 CGTTCATCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.19, C:0.32, G:0.03, T:0.46
Consensus pattern (6 bp):
ATCTTC
Found at i:333884 original size:22 final size:22
Alignment explanation
Indices: 333859--333912 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
333849 TCAGAATGGG
333859 GTATCGGTACCATAGTATAAAA
1 GTATCGGTACCATAGTATAAAA
** *
333881 GTATTTGTACCATAGTATAGAA
1 GTATCGGTACCATAGTATAAAA
333903 GTATCGGTAC
1 GTATCGGTAC
333913 TAGGTTAGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (22 bp):
GTATCGGTACCATAGTATAAAA
Found at i:334650 original size:68 final size:68
Alignment explanation
Indices: 334537--334894 Score: 473
Period size: 68 Copynumber: 5.2 Consensus size: 68
334527 AAAGATTAAT
* * * * *
334537 AGGCCTAATTGTGCATTTGACAGAAATGTATCATTTATGATAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAAAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
334602 TTG
66 TTG
* * *
334605 AGGCCTAACTATGCATTTGACATAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAAAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
334670 TTG
66 TTG
* * ** * * *
334673 GGGCCTAACAGTGTGTTTGACAGAAATGTGTCATTTATGCTAGTTAGATGAAAGGCTAAATGCCT
1 AGGCCTAACTGTGCATTTGACAAAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
*
334738 TTA
66 TTG
* * * *
334741 AGGCCTAACTGTGCATTTTACAAAAAGGTGTCATTTATGCTAGTTATATGAAAAGCTAAGTTCCT
1 AGGCCTAACTGTGCATTTGACAAAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
334806 TTG
66 TTG
* * * * *
334809 AGGCCTAACTGTGCATTTGATAGAAAAGGTGTCATTTATGCCAGATAGAAGAAAGACTAAGTGCC
1 AGGCCTAACTGTGCATTTGACA-AAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCC
334874 TTTG
65 TTTG
*
334878 AGGCCTAATTGTGCATT
1 AGGCCTAACTGTGCATT
334895 ATACCAATTA
Statistics
Matches: 250, Mismatches: 39, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
68 195 0.78
69 55 0.22
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAAAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:335063 original size:81 final size:81
Alignment explanation
Indices: 334928--335215 Score: 391
Period size: 81 Copynumber: 3.6 Consensus size: 81
334918 GTGCCTTTGA
* * * * * * *
334928 GGCCTAACAGTGCATTTGGCATAAAAGTGCCAATTATGACAGTTAGATGAACGGTTAAATACCGC
1 GGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAATACCG-
334993 TT-AGTAAAAGAATAAT
65 TTGAGTAAAAGAATAAT
* * *
335009 GGCCTAGCGGTTCATTTGGAAGAAAGATGTCAATTAT-TCCAGTTAGATGAACGGTTAAATACCG
1 GGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGT-CAGTTAGATGAACGGTTAAATACCG
335073 TTGAGTAAAAGAATAAT
65 TTGAGTAAAAGAATAAT
* * ** * *
335090 GGCCTAGTTGTGCATTTGGAATAAAGGTGTCAATTATGTCAGTTAGATGAATAGTTAAATATCAT
1 GGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAATACCGT
335155 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
*
335171 GGCCTAGCTGTGCATTTGGGAGAAAGGTGTCAATTATGTCAGTTA
1 GGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGTCAGTTA
335216 AATACCGTTG
Statistics
Matches: 183, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.01
81 180 0.98
82 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (81 bp):
GGCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGTCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAAAGAATAAT
Found at i:335327 original size:143 final size:145
Alignment explanation
Indices: 335062--335520 Score: 485
Period size: 143 Copynumber: 3.0 Consensus size: 145
335052 TAGATGAACG
*
335062 GTTAAATACCGTTGAGTAAAAGAATAATGGCCTAGTTGTGCATTTGGAATAAAGGTGTCAATTAT
1 GTTAAATACCGTTGAGTAAAAG---AA--GCCTAGTTGTGCATTTGGAAGAAAGGTGTCAATTAT
* ** * * *
335127 GTCAGTTAGATGAATAGTTAAATA-TCATTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGGG
61 GCCAGTTAGATGAACGGTTAAATACT-GTTGAGTAAAAGAATAATGGCCTAGTTGTGCATTTGGC
*
335191 AGAAAGGTGTCAATTATGTCA
125 AAAAAGGTGTCAATTATGTCA
*
335212 GTTAAATACCGTTGAGTAAAAG-A-CCTAGTTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAG
1 GTTAAATACCGTTGAGTAAAAGAAGCCTAGTTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAG
* *
335275 TTAGATGAACGGTTAAATACTGTTGAGAAAAAGAATAATGGCCTAGTTGTGCATCTGGCAAAAAG
66 TTAGATGAACGGTTAAATACTGTTGAGTAAAAGAATAATGGCCTAGTTGTGCATTTGGCAAAAAG
*
335340 GTGTCATTTATGTCAGTTAGATGAA
131 GTGTCA---AT-T-A--T-G-T-CA
* *
335365 TGGTTAAATACCGTTGAGTAAAAGAATAATGGCC-AGTTTGTGCATTTGGCAGAAAGGTGTCATT
1 --GTTAAATACCGTTGAGTAAAAG---AA--GCCTAG-TTGTGCATTTGGAAGAAAGGTGTCAAT
* * * **
335429 TATGCTAGTTAGATGAACGGTTAAATACCGTTGAGTAAAATAATAATAACCTAGTTGTGCATTTG
58 TATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAAAGAATAATGGCCTAGTTGTGCATTTG
* *
335494 GCATAAAGGTGTCAATTATGCCA
123 GCAAAAAGGTGTCAATTATGTCA
335517 GTTA
1 GTTA
335521 GATGAATGGT
Statistics
Matches: 264, Mismatches: 24, Indels: 42
0.80 0.07 0.13
Matches are distributed among these distances:
143 98 0.37
144 1 0.00
146 3 0.01
147 1 0.00
148 1 0.00
150 27 0.10
151 1 0.00
152 2 0.01
153 1 0.00
154 1 0.00
155 23 0.09
157 1 0.00
158 1 0.00
159 3 0.01
161 2 0.01
162 98 0.37
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (145 bp):
GTTAAATACCGTTGAGTAAAAGAAGCCTAGTTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAG
TTAGATGAACGGTTAAATACTGTTGAGTAAAAGAATAATGGCCTAGTTGTGCATTTGGCAAAAAG
GTGTCAATTATGTCA
Found at i:335370 original size:81 final size:81
Alignment explanation
Indices: 335233--335615 Score: 547
Period size: 81 Copynumber: 4.7 Consensus size: 81
335223 TTGAGTAAAA
* * * *
335233 GACCTAGTTGTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGT
1 GACCTAGTTGTGCATTTGGCAGAAAGGTGTCATTTATGCCAGTTAGATGAATGGTTAAATACCGT
335298 TGAGAAAAAGAATAAT
66 TGAGAAAAAGAATAAT
* * * *
335314 GGCCTAGTTGTGCATCTGGCAAAAAGGTGTCATTTATGTCAGTTAGATGAATGGTTAAATACCGT
1 GACCTAGTTGTGCATTTGGCAGAAAGGTGTCATTTATGCCAGTTAGATGAATGGTTAAATACCGT
*
335379 TGAGTAAAAGAATAAT
66 TGAGAAAAAGAATAAT
* * *
335395 GGCC-AGTTTGTGCATTTGGCAGAAAGGTGTCATTTATGCTAGTTAGATGAACGGTTAAATACCG
1 GACCTAG-TTGTGCATTTGGCAGAAAGGTGTCATTTATGCCAGTTAGATGAATGGTTAAATACCG
* *
335459 TTGAGTAAAATAATAAT
65 TTGAGAAAAAGAATAAT
* * *
335476 AACCTAGTTGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACCGT
1 GACCTAGTTGTGCATTTGGCAGAAAGGTGTCATTTATGCCAGTTAGATGAATGGTTAAATACCGT
335541 TGAGTAAAAA-AATAAT
66 TGAG-AAAAAGAATAAT
* *
335557 GACCTAGATGTGCATTTGGCAGAAAGGTGTAATTTATGCCAGTTAGATGAAAT-GTTAAA
1 GACCTAGTTGTGCATTTGGCAGAAAGGTGTCATTTATGCCAGTTAGATG-AATGGTTAAA
335616 CACTGTCGAG
Statistics
Matches: 271, Mismatches: 27, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
80 2 0.01
81 260 0.96
82 9 0.03
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (81 bp):
GACCTAGTTGTGCATTTGGCAGAAAGGTGTCATTTATGCCAGTTAGATGAATGGTTAAATACCGT
TGAGAAAAAGAATAAT
Found at i:335411 original size:224 final size:232
Alignment explanation
Indices: 335021--335630 Score: 776
Period size: 224 Copynumber: 2.6 Consensus size: 232
335011 CCTAGCGGTT
* * *
335021 CATTTGGAAGAAAGATGTCAATTATTCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGAA
1 CATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGAAAAAGAA
*
335086 TAATGGCCTAGTTGTGCATTTGG-AATAAAGGTGTCAATTATGTCAGTTAGATGAATAGTTAAAT
66 TAATGGCCTAGTTGTGCATTTGGCAA-AAAGGTGTCATTTATGTCAGTTAGATGAAT-GTTAAAT
* * *
335150 ATCATTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGGGAGAAAGGTGTCA-AT-TA-T-G-T
129 ACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCATATCTAGTAGAT
*
335210 -CAGTTAAATACCGTTGAG-TAA-AA-GACCTAGTTGTG
194 ACAGTTAAATACCGTTGAGATAATAATAACCTAGTTGTG
* *
335245 CATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGAAAAAGAA
1 CATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGAAAAAGAA
*
335310 TAATGGCCTAGTTGTGCATCTGGCAAAAAGGTGTCATTTATGTCAGTTAGATGAATGGTTAAATA
66 TAATGGCCTAGTTGTGCATTTGGCAAAAAGGTGTCATTTATGTCAGTTAGATGAAT-GTTAAATA
*
335375 CCGTTGAGTAAAAGAATAATGGCC-AGTTTGTGCATTTGGCAGAAAGGTGTCATTTATGCTAGTT
130 CCGTTGAGTAAAAGAATAATGGCCTAG-CTGTGCATTTGGCAGAAAGGTGTCA--TAT-CTAG-T
*
335439 AGATGAACGGTTAAATACCGTTGAGTAAAATAATAATAACCTAGTTGTG
190 AGAT--ACAGTTAAATACCGTTGAG----ATAATAATAACCTAGTTGTG
* * *
335488 CATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAATACCGTTGAGTAAAAA-A
1 CATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAG-AAAAAGA
* * * * * *
335552 ATAATGACCTAGATGTGCATTTGGCAGAAAGGTGTAATTTATGCCAGTTAGATGAAATGTTAAAC
65 ATAATGGCCTAGTTGTGCATTTGGCAAAAAGGTGTCATTTATGTCAGTTAGATG-AATGTTAAAT
* *
335617 ACTGTCGAGTAAAA
129 ACCGTTGAGTAAAA
335631 AATGAACGGT
Statistics
Matches: 336, Mismatches: 27, Indels: 27
0.86 0.07 0.07
Matches are distributed among these distances:
223 2 0.01
224 164 0.49
225 2 0.01
227 2 0.01
229 2 0.01
231 1 0.00
232 1 0.00
233 1 0.00
236 17 0.05
241 3 0.01
242 2 0.01
243 131 0.39
244 8 0.02
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (232 bp):
CATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGAAAAAGAA
TAATGGCCTAGTTGTGCATTTGGCAAAAAGGTGTCATTTATGTCAGTTAGATGAATGTTAAATAC
CGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCATATCTAGTAGATAC
AGTTAAATACCGTTGAGATAATAATAACCTAGTTGTG
Found at i:335490 original size:305 final size:305
Alignment explanation
Indices: 334937--335520 Score: 836
Period size: 305 Copynumber: 1.9 Consensus size: 305
334927 AGGCCTAACA
* *
334937 GTGCATTTGGCATAAAAGTGCCAATTATGACAGTTAGATGAACGGTTAAATACCGCTTAGTAAAA
1 GTGCATTTGGCAGAAAAGTGCCAATTATGACAGTTAGATGAACGGTTAAATACCGCTTAGAAAAA
* *
335002 GAATAATGGCCTAGCGGTTCATTTGGAAGAAAGATGTCAATTATTCCAGTTAGATGAACGGTTAA
66 GAATAATGGCCTAGCGGTGCATCTGGAAGAAAGATGTCAATTATTCCAGTTAGATGAACGGTTAA
*
335067 ATACCGTTGAGTAAAAGAATAATGGCCTAGTTGTGCATTTGGAATAAAGGTGTCAATTATGTCAG
131 ATACCGTTGAGTAAAAGAATAATGGCCTAGTTGTGCATTTGGAAGAAAGGTGTCAATTATGTCAG
* * ** *
335132 TTAGATGAATAGTTAAATATCATTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGGGAGAAAG
196 TTAGATGAACAGTTAAATACCATTGAGTAAAAGAATAATAACCTAGCTGTGCATTTGGCAGAAAG
*
335197 GTGTCAATTATGTCAGTTAAATACCGTTGAGTAAAAGACCTAGTT
261 GTGTCAATTATGCCAGTTAAATACCGTTGAGTAAAAGACCTAGTT
* * * * *
335242 GTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTG-TTGAGAAAA
1 GTGCATTTGGCAGAAAAGTGCCAATTATGACAGTTAGATGAACGGTTAAATACCGCTT-AGAAAA
** * * *
335306 AGAATAATGGCCTAGTTGTGCATCTGGCAA-AAAGGTGTCATTTATGT-CAGTTAGATGAATGGT
65 AGAATAATGGCCTAGCGGTGCATCTGG-AAGAAAGATGTCAATTAT-TCCAGTTAGATGAACGGT
* *
335369 TAAATACCGTTGAGTAAAAGAATAATGGCC-AGTTTGTGCATTTGGCAGAAAGGTGTCATTTATG
128 TAAATACCGTTGAGTAAAAGAATAATGGCCTAG-TTGTGCATTTGGAAGAAAGGTGTCAATTATG
* * * *
335433 -CTAGTTAGATGAACGGTTAAATACCGTTGAGTAAAATAATAATAACCTAGTTGTGCATTTGGCA
192 TC-AGTTAGATGAACAGTTAAATACCATTGAGTAAAAGAATAATAACCTAGCTGTGCATTTGGCA
*
335497 TAAAGGTGTCAATTATGCCAGTTA
256 GAAAGGTGTCAATTATGCCAGTTA
335521 GATGAATGGT
Statistics
Matches: 246, Mismatches: 28, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
304 5 0.02
305 238 0.97
306 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.30
Consensus pattern (305 bp):
GTGCATTTGGCAGAAAAGTGCCAATTATGACAGTTAGATGAACGGTTAAATACCGCTTAGAAAAA
GAATAATGGCCTAGCGGTGCATCTGGAAGAAAGATGTCAATTATTCCAGTTAGATGAACGGTTAA
ATACCGTTGAGTAAAAGAATAATGGCCTAGTTGTGCATTTGGAAGAAAGGTGTCAATTATGTCAG
TTAGATGAACAGTTAAATACCATTGAGTAAAAGAATAATAACCTAGCTGTGCATTTGGCAGAAAG
GTGTCAATTATGCCAGTTAAATACCGTTGAGTAAAAGACCTAGTT
Found at i:335689 original size:29 final size:29
Alignment explanation
Indices: 335601--335690 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 29
335591 TATGCCAGTT
*
335601 AGATGAAAT-GTTAAACACTGTCGAGTAAA
1 AGATG-AATGGTTAAACACTGTTGAGTAAA
* * *
335630 AAATGAACGGTTAAACGCTGTTGAGTAAA
1 AGATGAATGGTTAAACACTGTTGAGTAAA
*
335659 AGATGAATGGTTAAACACTGTTGAGTGAA
1 AGATGAATGGTTAAACACTGTTGAGTAAA
335688 AGA
1 AGA
335691 ATAATGGACT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 2 0.04
29 50 0.96
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (29 bp):
AGATGAATGGTTAAACACTGTTGAGTAAA
Found at i:340743 original size:68 final size:68
Alignment explanation
Indices: 340632--341153 Score: 713
Period size: 68 Copynumber: 7.7 Consensus size: 68
340622 AGATTAATAT
* * *
340632 GCCTAACTGTGCATTTGACAAAAAGGTATCATTTATGACAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
340697 GAG
66 GAG
* * * * *
340700 GACTAACTGTGCATTTAACAGAAAGGTGTCACTTATGCCAGTTAGATGAAAGGCTAAATGGCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
*
340765 CAG
66 GAG
* **
340768 GTCTAACTGTGTGTTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
*
340833 CA-
66 GAG
* * * * * **
340835 TCCTAATTGTACATTGGACAGAAATGTGTCATTTATATCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
340900 GAG
66 GAG
* *
340903 GCCTAACTATGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTACCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
340968 GAG
66 GAG
* * * * * *
340971 ACCTAATTGTACATTTGATAGAAAGGTGACATTTAAGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
341036 GAG
66 GAG
* * * *
341039 GCCTAACTATGCATTTGATAGTAAGGTGTCATTTTTGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
341104 GAG
66 GAG
* ** *
341107 GCCTAACTTTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGAT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGAT
341154 TAACGGTTCA
Statistics
Matches: 396, Mismatches: 57, Indels: 2
0.87 0.13 0.00
Matches are distributed among these distances:
67 56 0.14
68 340 0.86
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (68 bp):
GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAG
Found at i:341013 original size:203 final size:203
Alignment explanation
Indices: 340632--341153 Score: 704
Period size: 203 Copynumber: 2.6 Consensus size: 203
340622 AGATTAATAT
* *
340632 GCCTAACTGTGCATTTGACAAAAAGGTATCATTTATGACAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTAT-ACAGTTAGATGAAAGGCTAAGTGCCTTT
* * * * **
340697 GAGGACTAACTGTGCATTTAACAGAAAGGTGTCACTTATGCCAGTTAGATGAAAGGCTAAATGGC
65 GAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATACC
** *** * *
340762 TTTCAGGTCTAACTGTGTGTTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
130 TTTCAGACCTAACTGTACATTTGACAGAAAGGTGACATTTAAGCCAGTTAGATGAAAGGCTAAGT
340827 GCCTTTCA-
195 GCCTTTCAG
* * * * *
340835 TCCTAATTGTACATTGGACAGAAATGTGTCATTTATATCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATA-CAGTTAGATGAAAGGCTAAGTGCCTTT
* *
340900 GAGGCCTAACTATGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTACC
65 GAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATACC
* * *
340965 TTTGAGACCTAATTGTACATTTGATAGAAAGGTGACATTTAAGCCAGTTAGATGAAAGGCTAAGT
130 TTTCAGACCTAACTGTACATTTGACAGAAAGGTGACATTTAAGCCAGTTAGATGAAAGGCTAAGT
*
341030 GCCTTTGAG
195 GCCTTTCAG
* * * * *
341039 GCCTAACTATGCATTTGATAGTAAGGTGTCATTTTTGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTAT-ACAGTTAGATGAAAGGCTAAGTGCCTTT
* **
341104 GAGGCCTAACTTTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGAT
65 GAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
341154 TAACGGTTCA
Statistics
Matches: 277, Mismatches: 39, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
202 1 0.00
203 176 0.64
204 100 0.36
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (203 bp):
GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATACAGTTAGATGAAAGGCTAAGTGCCTTTG
AGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATACCT
TTCAGACCTAACTGTACATTTGACAGAAAGGTGACATTTAAGCCAGTTAGATGAAAGGCTAAGTG
CCTTTCAG
Found at i:342312 original size:81 final size:81
Alignment explanation
Indices: 341106--342298 Score: 1503
Period size: 81 Copynumber: 14.7 Consensus size: 81
341096 GTGCCTTTGA
* * * * * *
341106 GGCCTAACTTTGCATTTGGTAGAAAGGTGTCAATTATGCCAGTTAGATTAACGGTTCAATACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
341171 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
*
341187 GGCCTAGCTATGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
341252 TCAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
341268 GGCCTAGCTGTGCAGTTGGCAAAAATGAGTTAATTATGCCAGTTAGATGAACGATTAAATACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
341333 TGAGTAAAATAATAAT
66 TGAGTAAAAGAATAAT
* * * ** *
341349 GGTCTAACTGTGTATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAATTGTTAAATACTGT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
341414 TGAGTAAAACAATAAT
66 TGAGTAAAAGAATAAT
* * * * * * * *
341430 GGTCTAGTTGTGCACTTGGCAAAAATGTGTCATTTATTCTAGTTAGATGTACGGTTAAATACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
341495 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
341511 GGCCTAGCTGTGCATTTGGAAAAAATGTGTCATTTATGCCAATTAGATGAACGGTTAAATACCAT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
341576 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
**
341592 AACCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
341657 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
** * * * * * * *
341673 AACCTAGTTGTGCATCTAGCATAAATGTGTCATTTATGCCAGTTAGATGAGCGGTTAAATAGCGT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
341738 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
** * * * * *
341754 AACCTAGCTATGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCAT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
341819 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * *
341835 GGCCTAGCTGTGTATTTTGG-AAAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAA-ATCC
1 GGCCTAGCTGTGCA-TTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATA-CC
* *
341898 ATTGAGTAAAAGAATAAA
64 GTTGAGTAAAAGAATAAT
* * * * * *
341916 GGCATAGTTGTGCATCTGGAAGAAA-GATGTCATTTATGCCAGTTAGATGAACGGTTAAATACCA
1 GGCCTAGCTGTGCATTTGGCAGAAATG-TGTCAATTATGCCAGTTAGATGAACGGTTAAATACCG
*
341980 TTGAGTAAAGGAATAAT
65 TTGAGTAAAAGAATAAT
* * * * * * *
341997 GACCTAGTTGTGCATCTGGCAGAAAGGTGTCATTTAGGCCAGTTGGATGAACGGTTAAATACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
342062 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
** * * ** * **
342078 AACCTAGCTGTGCATTTGGAAGAAAGGTGTCAATTATGCCAACTAGATGAATGGTTAAATATTGT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
342143 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * **
342159 AGCCTAGCTTTGCATTTGGAAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATATTGT
1 GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
342224 TGAGTAAAAGAATATT
66 TGAGTAAAAGAATAAT
* * *
342240 GGCCTAGTTGTGCATTTGGCAGAAA-GATCTCATTTATGCCAGTTAGATGAACGGTTAAA
1 GGCCTAGCTGTGCATTTGGCAGAAATG-TGTCAATTATGCCAGTTAGATGAACGGTTAAA
342299 CATTGTTGGG
Statistics
Matches: 980, Mismatches: 125, Indels: 14
0.88 0.11 0.01
Matches are distributed among these distances:
80 7 0.01
81 966 0.99
82 7 0.01
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (81 bp):
GGCCTAGCTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAAAGAATAAT
Found at i:342318 original size:29 final size:29
Alignment explanation
Indices: 342284--342373 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 29
342274 TATGCCAGTT
*
342284 AGATGAACGGTTAAACATTGTTGGGTAAA
1 AGATGAACGGTTAAACATTGTTGAGTAAA
* * *
342313 CGATGAATGGTTAAACGTTGTTGAGTAAA
1 AGATGAACGGTTAAACATTGTTGAGTAAA
* * *
342342 AGATGAACGGTTAAACACTATTAAGTAAA
1 AGATGAACGGTTAAACATTGTTGAGTAAA
342371 AGA
1 AGA
342374 ATAATGGACT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (29 bp):
AGATGAACGGTTAAACATTGTTGAGTAAA
Found at i:346504 original size:14 final size:14
Alignment explanation
Indices: 346485--346520 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
346475 AGGGTATCGA
*
346485 TACTGATAGAACGG
1 TACTGATAGAACAG
346499 TACTGATAGAACAG
1 TACTGATAGAACAG
346513 TACTGATA
1 TACTGATA
346521 CTATAGGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (14 bp):
TACTGATAGAACAG
Found at i:347438 original size:68 final size:68
Alignment explanation
Indices: 347327--347784 Score: 738
Period size: 68 Copynumber: 6.7 Consensus size: 68
347317 AGATTAATAC
* *
347327 GCCTAACTGTGCATTTGACAGAAAGGTATCATTTATGACAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
*
347392 GAA
66 GAG
* * * *
347395 GACTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATAAAAGGCTAAGTGGCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
347460 GAG
66 GAG
**
347463 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAAACTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
347528 GAG
66 GAG
*
347531 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTCCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
347596 GAG
66 GAG
* * * *
347599 ACCTAACTGTGTATTTGACAGAAACGTGTCATTTATGCCAGTTAGATGAAAGGCTAACTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
347664 GAG
66 GAG
* * *
347667 GCCTAACTATGCATTTGACAGAAAGATGACATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
347732 GAG
66 GAG
*
347735 GCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTT-TGCCAGTTAGATGAA
1 GCCTAACTGTGCATTTGACAGAAAGGTGTC-ATTTATGCCAGTTAGATGAA
347785 CAGTTAAATA
Statistics
Matches: 357, Mismatches: 32, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
68 353 0.99
69 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (68 bp):
GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAG
Found at i:347872 original size:81 final size:81
Alignment explanation
Indices: 347734--348941 Score: 1341
Period size: 81 Copynumber: 14.9 Consensus size: 81
347724 GTGCCTTTGA
* * * *
347734 GGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTTTGCCAGTTAGATGAACAGTTAAATACTGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
347799 TGATTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * ** * *
347815 GGCCTAGCTATGCATTTGGAAAAAATGTGTCAATTATAACAGTTAGATGAATGGTTAAATACTGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
347880 TGAGTAAAACAATAA-
66 TGAGTAAAAGAATAAT
* * * * * * * *
347895 AGACTGAGCTTTGTATTTGGCATAAAGGTCTCAATTATGCTAGTTAGATG-ATGTGTTAAATACC
1 GGCCT-AGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG-GTTAAATACC
*
347959 ATTGAGTAAAAGAATAAT
64 GTTGAGTAAAAGAATAAT
* * * * * * * *
347977 GGTCTATCTGTGCATTTGTCATAAATGTGTCAATTATGTCAGTTAGATGAACAGTTAAATATCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
348042 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * * *
348058 GGCCTAGTTGTGCATTTGGGAGGAAGGTATCAATTATGCCAGTTAGATGAAGGGTTAAATACCAT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
348123 TGAGTAAAAGAATAATT
66 TGAGTAAAAGAATAA-T
* * * * * * * *
348140 GG-CTAGTTGTGCATTTGGTAGAAAGGTGTTATTTATGTCAGTTATATGAACTGTTAAATATCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
348204 TGAGTAAAATAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
348220 GGCCTAGCGGTGCATTTGGTAGAAAGGTGTAAATTATGCCATTTAGATGAACAGTTAAATACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
* *
348285 TGATTAAAAAAATAAT
66 TGAGTAAAAGAATAAT
* * * * * ** *
348301 TGCCTAGCTATGCATTTGGAAAAAAGATGTCAATTATAACAGTTAAATGAACGGTTAAATACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
348366 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * *
348382 -GACTGAGCTTTGCATTTGGCATAAAGGTGTCAATTATGCTAGTTAGATG-ATGTGTTAAATACC
1 GGCCT-AGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACG-GTTAAATACC
*
348445 ATTGAGTAAAAGAATAAT
64 GTTGAGTAAAAGAATAAT
* * * * *
348463 GGTCTAGCTGTGCATTTGGCAGAAA-TTGTCAATTATGCCAGTTAGATGAACAGTTGAATATCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
348527 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * * * * * *
348543 GACTTAGCTGTGCATTTGGGAGGAAGGTATCAATTATGCCAGTTAGATGAATGGTTAAATACCAT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
348608 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
** * * * * * * *
348624 TTCCTAGTTGTGCATTTGGTATAAAGGTGTTACTTATGCCAGTTATATGAACGGTTAAATATCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
348689 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
** ** * * *
348705 GGCCTAGCAATGCATTTGGCAGAAATATGTCATTTATGCCAGTTAGATGAACTGTTAAATTCCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
* *
348770 TGAGTAAAATAATAAG
66 TGAGTAAAAGAATAAT
* * * * *
348786 GGACTAGTTGTGCATTTGGAAGAAATGTGTCAATTATGTCAGTTAGATGAACGGTT-AATACCGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
*
348850 TGAGTAAAACAATAAT
66 TGAGTAAAAGAATAAT
* * * * * *
348866 GGCCTAACTGTGCATTTGGCAAAAAGGTGTCATTTATGCCAGTTAGATGAATGGTTAAACACTGT
1 GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
348931 TGAGTAAAAGA
66 TGAGTAAAAGA
348942 TGAATGGTTA
Statistics
Matches: 936, Mismatches: 179, Indels: 24
0.82 0.16 0.02
Matches are distributed among these distances:
80 148 0.16
81 778 0.83
82 10 0.01
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (81 bp):
GGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAAAGAATAAT
Found at i:348952 original size:29 final size:29
Alignment explanation
Indices: 348910--348995 Score: 138
Period size: 29 Copynumber: 3.0 Consensus size: 29
348900 TATGCCAGTT
348910 AGATGAATGGTTAAACACTGTTGAGTAAA
1 AGATGAATGGTTAAACACTGTTGAGTAAA
*
348939 AGATGAATGGTTAAACGCTGTTGAGTAAA
1 AGATGAATGGTTAAACACTGTTGAGTAAA
*
348968 AAATGAACT-GTTAAACACTGTTGAGTAA
1 AGATGAA-TGGTTAAACACTGTTGAGTAA
348996 CAGAATAATG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
29 52 0.98
30 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (29 bp):
AGATGAATGGTTAAACACTGTTGAGTAAA
Found at i:354823 original size:17 final size:16
Alignment explanation
Indices: 354796--354827 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
354786 TATTTTATGA
354796 AGTTTTAAAGATTTAG
1 AGTTTTAAAGATTTAG
354812 AGTTTATAAAGATTTA
1 AGTTT-TAAAGATTTA
354828 AGAATTTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.00, G:0.16, T:0.44
Consensus pattern (16 bp):
AGTTTTAAAGATTTAG
Found at i:355628 original size:15 final size:15
Alignment explanation
Indices: 355608--355642 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
355598 GAGTATATTG
355608 ATATTTTAAAATAAT
1 ATATTTTAAAATAAT
**
355623 ATATTTTGTAATAAT
1 ATATTTTAAAATAAT
355638 ATATT
1 ATATT
355643 CATAATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
ATATTTTAAAATAAT
Found at i:355720 original size:21 final size:20
Alignment explanation
Indices: 355682--355720 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
355672 AAATAATTTA
*
355682 TTTTATAATAATTTTTATAT
1 TTTTATAATAATTCTTATAT
*
355702 TTTTAATAATTATTCTTAT
1 TTTT-ATAATAATTCTTAT
355721 TTGAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTATAATAATTCTTATAT
Found at i:356390 original size:17 final size:17
Alignment explanation
Indices: 356364--356396 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
356354 TTTTGTTTTT
356364 AATTTATTTAAGTATTTA
1 AATTTATTTAA-TATTTA
356382 AATTT-TTTAATATTT
1 AATTTATTTAATATTT
356397 TATTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AATTTATTTAATATTTA
Found at i:356398 original size:17 final size:19
Alignment explanation
Indices: 356359--356398 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
356349 TAATATTTTG
*
356359 TTTTTAATTTATTTAAGTA
1 TTTTAAATTTATTTAAGTA
356378 -TTTAAATTT-TTTAA-TA
1 TTTTAAATTTATTTAAGTA
356394 TTTTA
1 TTTTA
356399 TTTAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 2 0.11
17 9 0.47
18 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTAAATTTATTTAAGTA
Found at i:357539 original size:2 final size:2
Alignment explanation
Indices: 357532--357573 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
357522 TATTTTGATA
357532 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
357574 TTGTTTTAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:358218 original size:27 final size:27
Alignment explanation
Indices: 358180--358235 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
358170 GATGCCACCG
***
358180 CCGCCACTGTCACCTGGTTTTATGACC
1 CCGCCACTGTCACAAAGTTTTATGACC
358207 CCGCCA-TCGTCACAAAGTTTTATGACC
1 CCGCCACT-GTCACAAAGTTTTATGACC
358234 CC
1 CC
358236 TCCTAGAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.20, C:0.38, G:0.16, T:0.27
Consensus pattern (27 bp):
CCGCCACTGTCACAAAGTTTTATGACC
Found at i:363439 original size:28 final size:28
Alignment explanation
Indices: 363385--363489 Score: 120
Period size: 28 Copynumber: 3.8 Consensus size: 28
363375 CGTCGAGCAT
* * *
363385 ATGCTCGAAACATTATGTCATCAAGTCA
1 ATGCTTGAAACATTATGTCGTCAAGTCG
* **
363413 ATGCTTGAAACATTATGTTGTTTAGTCG
1 ATGCTTGAAACATTATGTCGTCAAGTCG
* ** *
363441 ATGCTTGAAACACTATGTCGTCGGGTTG
1 ATGCTTGAAACATTATGTCGTCAAGTCG
363469 ATGCTTGAAACATTATGTCGT
1 ATGCTTGAAACATTATGTCGT
363490 GGAACTAGTG
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (28 bp):
ATGCTTGAAACATTATGTCGTCAAGTCG
Found at i:364506 original size:16 final size:16
Alignment explanation
Indices: 364487--364520 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
364477 CAATATACGA
364487 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
364503 ATAAATTTATATTTAT
1 ATAAAAATATATTTAT
364519 AT
1 AT
364521 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:364595 original size:16 final size:18
Alignment explanation
Indices: 364563--364596 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
364553 TATTAATATA
364563 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
364581 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
364597 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:365272 original size:130 final size:130
Alignment explanation
Indices: 365068--365315 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
365058 AATTTTCTTC
* *
365068 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
365133 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
365198 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
365263 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
365316 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:368152 original size:21 final size:21
Alignment explanation
Indices: 368126--368185 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
368116 AACCTCTAAC
* *
368126 GCTTCTAGCTAGTTGTTTTGG
1 GCTTCTAACAAGTTGTTTTGG
*
368147 GCTTCTAACCAGTTGTTTTGG
1 GCTTCTAACAAGTTGTTTTGG
368168 GCTTCTAACAAGTTGTTT
1 GCTTCTAACAAGTTGTTT
368186 CGCGATTTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.15, C:0.17, G:0.23, T:0.45
Consensus pattern (21 bp):
GCTTCTAACAAGTTGTTTTGG
Found at i:368398 original size:63 final size:63
Alignment explanation
Indices: 368299--368425 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
368289 AATTGTCAAT
368299 CACCCTAAATTAATATAAAAAAAGTAGTTGCTTTGACTTTTACTTTTTTTTAGAGTATTTAAA
1 CACCCTAAATTAATATAAAAAAAGTAGTTGCTTTGACTTTTACTTTTTTTTAGAGTATTTAAA
368362 CACCCTAAATTAATATAAAAAAAGTAGTTGCTTTGACTTTTACTTTTTTTTAGAGTATTTAAA
1 CACCCTAAATTAATATAAAAAAAGTAGTTGCTTTGACTTTTACTTTTTTTTAGAGTATTTAAA
368425 C
1 C
368426 TTCAACGTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.43
Consensus pattern (63 bp):
CACCCTAAATTAATATAAAAAAAGTAGTTGCTTTGACTTTTACTTTTTTTTAGAGTATTTAAA
Found at i:369340 original size:19 final size:19
Alignment explanation
Indices: 369316--369361 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
369306 GTTAGGGTTA
369316 ATTTTAATATTATCATTAT
1 ATTTTAATATTATCATTAT
369335 ATTTTAATATTATCATTAT
1 ATTTTAATATTATCATTAT
369354 ATTTTAAT
1 ATTTTAAT
369362 CAACAGTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTAATATTATCATTAT
Found at i:369949 original size:25 final size:27
Alignment explanation
Indices: 369894--369950 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 27
369884 TATTTGGAAA
* * **
369894 AAAAACAACCCAAACACTTTTTTTTTT
1 AAAAACAACCCAAACACATTTTCTTAG
369921 AAAAA-AACCCAAACA-ATTTTCTTAG
1 AAAAACAACCCAAACACATTTTCTTAG
369946 AAAAA
1 AAAAA
369951 TTATTCATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 11 0.42
26 10 0.38
27 5 0.19
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (27 bp):
AAAAACAACCCAAACACATTTTCTTAG
Found at i:369950 original size:26 final size:27
Alignment explanation
Indices: 369893--369950 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
369883 TTATTTGGAA
* * **
369893 AAAAAACAACCCAAACACTTTTTTTTT
1 AAAAAACAACCCAAACAATTTTCTTAG
*
369920 TAAAAA-AACCCAAACAATTTTCTTAG
1 AAAAAACAACCCAAACAATTTTCTTAG
369946 AAAAA
1 AAAAA
369951 TTATTCATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.28
Consensus pattern (27 bp):
AAAAAACAACCCAAACAATTTTCTTAG
Found at i:372104 original size:14 final size:14
Alignment explanation
Indices: 372082--372133 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
372072 GTTAGTAAAC
372082 AAATCAAAAAAATCA
1 AAAT-AAAAAAATCA
372097 AAATAAAAAAATC-
1 AAATAAAAAAATCA
*
372110 AGA-AAAAAAA-CA
1 AAATAAAAAAATCA
372122 AAATAAAGAAAA
1 AAATAAA-AAAA
372134 AGTTTAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
11 1 0.03
12 9 0.28
13 5 0.16
14 13 0.41
15 4 0.12
ACGTcount: A:0.79, C:0.08, G:0.04, T:0.10
Consensus pattern (14 bp):
AAATAAAAAAATCA
Found at i:380884 original size:11 final size:13
Alignment explanation
Indices: 380858--380896 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
380848 TTTCTTACTG
380858 CTCTTCCCCTTCT
1 CTCTTCCCCTTCT
380871 CTCTTCCCCTTCT
1 CTCTTCCCCTTCT
380884 CTCTTCCCCTTCT
1 CTCTTCCCCTTCT
380897 TTATTATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (13 bp):
CTCTTCCCCTTCT
Found at i:381082 original size:31 final size:29
Alignment explanation
Indices: 381034--381107 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 29
381024 TATTTTGATA
* * *
381034 ATTTTT-TATTTCATTTTAGTTATTTAA-T
1 ATTTTTATATTTAATTTTAATTA-ATAATT
381062 ATTTTTAATAGTTTAATTTTAATTAATAATT
1 ATTTTT-ATA-TTTAATTTTAATTAATAATT
381093 ATTTTTATATTTAAT
1 ATTTTTATATTTAAT
381108 ATATATTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 6 0.15
29 6 0.15
30 8 0.21
31 19 0.49
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (29 bp):
ATTTTTATATTTAATTTTAATTAATAATT
Found at i:381357 original size:17 final size:17
Alignment explanation
Indices: 381318--381366 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
381308 ATCCTATATT
* *
381318 ATTTATATATAATATATA
1 ATTTATAAAT-ATTTATA
381336 ATTTATAAATATTTATA
1 ATTTATAAATATTTATA
* *
381353 GTTTATAATTATTT
1 ATTTATAAATATTT
381367 TTGTTCGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
ATTTATAAATATTTATA
Found at i:382341 original size:16 final size:16
Alignment explanation
Indices: 382320--382356 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
382310 ATTAAAGGTA
382320 AGTACGCTATATTAAT
1 AGTACGCTATATTAAT
382336 AGTACGCTATATTAAT
1 AGTACGCTATATTAAT
382352 AGTAC
1 AGTAC
382357 AAAAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (16 bp):
AGTACGCTATATTAAT
Found at i:384007 original size:16 final size:16
Alignment explanation
Indices: 383986--384019 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
383976 AGATGTTACT
383986 TTTTTCTAATTAATCA
1 TTTTTCTAATTAATCA
384002 TTTTTCTAATTAATCA
1 TTTTTCTAATTAATCA
384018 TT
1 TT
384020 AGGGTATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTTCTAATTAATCA
Found at i:393884 original size:54 final size:54
Alignment explanation
Indices: 393800--393920 Score: 188
Period size: 54 Copynumber: 2.2 Consensus size: 54
393790 CTCATAGGGT
* *
393800 GTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACATAATGCCAAATGG
1 GTACCGATACCCCTATGCCAATTTTAGCTCCGAGAAAAACAGAATGCCAAATGG
* * *
393854 GTACCGATACCCCTATGCCAATTTTAGCTCCTAGAAAAATAGAATGCCCAATGG
1 GTACCGATACCCCTATGCCAATTTTAGCTCCGAGAAAAACAGAATGCCAAATGG
*
393908 GTACTGATACCCC
1 GTACCGATACCCC
393921 CTTAGAGGTA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (54 bp):
GTACCGATACCCCTATGCCAATTTTAGCTCCGAGAAAAACAGAATGCCAAATGG
Found at i:400514 original size:12 final size:12
Alignment explanation
Indices: 400479--400516 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
400469 AAACCGACCA
*
400479 CCAAACCCACCT
1 CCAAATCCACCT
400491 CCAAATCCACCT
1 CCAAATCCACCT
400503 CCAAATCCACCT
1 CCAAATCCACCT
400515 CC
1 CC
400517 TATTAAACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.32, C:0.55, G:0.00, T:0.13
Consensus pattern (12 bp):
CCAAATCCACCT
Found at i:401892 original size:13 final size:14
Alignment explanation
Indices: 401874--401904 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
401864 TCTTGATTTA
401874 TTTTGAATTTAAT-
1 TTTTGAATTTAATG
401887 TTTTGAATTTAATG
1 TTTTGAATTTAATG
401901 TTTT
1 TTTT
401905 ATTTTGGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (14 bp):
TTTTGAATTTAATG
Found at i:402437 original size:23 final size:22
Alignment explanation
Indices: 402411--402454 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
402401 TAAGTTTTAA
402411 ATAGGGAGGTACCAATACCCCTC
1 ATAGGG-GGTACCAATACCCCTC
* *
402434 ATAGGGTGTACCGATACCCCT
1 ATAGGGGGTACCAATACCCCT
402455 ATACCAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (22 bp):
ATAGGGGGTACCAATACCCCTC
Found at i:402530 original size:74 final size:74
Alignment explanation
Indices: 402417--402602 Score: 239
Period size: 74 Copynumber: 2.5 Consensus size: 74
402407 TTAAATAGGG
* * *
402417 AGGTACCAATACCCCTCATAGGGTGTACCGATACCCCTATACCAATTTTGGCTCTAAGAAAAATA
1 AGGTACCGATACCCCTCATA-GG-GTACCGATACCCCTATACCAATTTTGGCTCTAAAAAAAACA
402482 GAATACCAAAT
64 GAATACCAAAT
* * * * *
402493 GGGTATCGATACCTCTCATAGGGTACCGAAACCCCTATGCCAATTTTGGCTCTAAAAAAAACAGA
1 AGGTACCGATACCCCTCATAGGGTACCGATACCCCTATACCAATTTTGGCTCTAAAAAAAACAGA
* *
402558 ATGCCCAAT
66 ATACCAAAT
*
402567 AGGTACCGATACCCCT-TTAGAGGTACCGATACCCCT
1 AGGTACCGATACCCCTCATAG-GGTACCGATACCCCT
402603 GGTCATTTAA
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
73 3 0.03
74 73 0.78
75 2 0.02
76 16 0.17
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (74 bp):
AGGTACCGATACCCCTCATAGGGTACCGATACCCCTATACCAATTTTGGCTCTAAAAAAAACAGA
ATACCAAAT
Found at i:406416 original size:122 final size:121
Alignment explanation
Indices: 406180--406478 Score: 343
Period size: 122 Copynumber: 2.4 Consensus size: 121
406170 ACTTGTAGCG
* * * * *
406180 TTTGTAT-TTAAAACGCCACTAATTCACTAACCTT-TTGTGGCATTTGTTTAAAAACGCCACAAA
1 TTTGTATCTAAAAACGCCACTAATGCACTGA-TTTATTGTGGCATTT-TTTAAAAACACCACAAA
* * *
406243 AGATAAGTCAATAGCGACGTTTATGGAAAAACGCCACTAATGTTACAATTTTGTGGCA
64 AGACAAGTCAATAGCGACATTTATGGAAAAACACCACTAATGTTACAATTTTGTGGCA
*
406301 TTTGTATCTAAAAACGCCACTAATGCACTGATTTATTGTGGCATTTTTTAAAATACACTACAAAA
1 TTTGTATCTAAAAACGCCACTAATGCACTGATTTATTGTGGCATTTTTTAAAA-ACACCACAAAA
* * * * ** *
406366 GACAAGTCAATAGTGGCATTTCTGGAAAAATACTGCTAAAT-TTACCATTTTGTGGCA
65 GACAAGTCAATAGCGACATTTATGGAAAAACACCACT-AATGTTACAATTTTGTGGCA
* * * *
406423 TTTGTATCTAAACACGCCACTAATGCACTGATATATTATGGCGTTTTCTTTAAAAA
1 TTTGTATCTAAAAACGCCACTAATGCACTGATTTATTGTGGC-ATTT-TTTAAAAA
406479 TGCTGCAAAA
Statistics
Matches: 152, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
121 16 0.11
122 122 0.80
123 7 0.05
124 7 0.05
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.33
Consensus pattern (121 bp):
TTTGTATCTAAAAACGCCACTAATGCACTGATTTATTGTGGCATTTTTTAAAAACACCACAAAAG
ACAAGTCAATAGCGACATTTATGGAAAAACACCACTAATGTTACAATTTTGTGGCA
Found at i:410535 original size:10 final size:10
Alignment explanation
Indices: 410520--410544 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
410510 ACTTCTCCTC
410520 TCTTTCTTTT
1 TCTTTCTTTT
410530 TCTTTCTTTT
1 TCTTTCTTTT
410540 TCTTT
1 TCTTT
410545 TTTCGAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TCTTTCTTTT
Found at i:419966 original size:28 final size:28
Alignment explanation
Indices: 419917--419986 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
419907 AAATGACTGA
*
419917 GCACCTCTATGCTTCAGTCTAGAATCTG
1 GCACCTCTGTGCTTCAGTCTAGAATCTG
*
419945 GTACC-CATGTGCTTCAGTCTAGAATCTG
1 GCACCTC-TGTGCTTCAGTCTAGAATCTG
419973 GCACCTCTGTGCTT
1 GCACCTCTGTGCTT
419987 TTAATGATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 35 0.95
29 1 0.03
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.33
Consensus pattern (28 bp):
GCACCTCTGTGCTTCAGTCTAGAATCTG
Found at i:420043 original size:23 final size:25
Alignment explanation
Indices: 420017--420065 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
420007 TGCTTCAATC
420017 TAGGAT-CTGA-CACCTCTGTGCTT
1 TAGGATACTGATCACCTCTGTGCTT
*
420040 TAGGATGATTGATCACCTCTGTGCTT
1 TAGGAT-ACTGATCACCTCTGTGCTT
420066 CAATATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 6 0.27
25 3 0.14
26 13 0.59
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.37
Consensus pattern (25 bp):
TAGGATACTGATCACCTCTGTGCTT
Found at i:420062 original size:26 final size:26
Alignment explanation
Indices: 420027--420145 Score: 123
Period size: 26 Copynumber: 4.5 Consensus size: 26
420017 TAGGATCTGA
*
420027 CACCTCTGTGCTTTAGGATGATTGAT
1 CACCTCTGTGCTTTAGGATGATTGAG
* ** *
420053 CACCTCTGTGCTTCAATATAAAATCTG-G
1 CACCTCTGTGCTTTAGGAT--GAT-TGAG
* *
420081 CACCTCTGTTCTTTTGGATGATTGAG
1 CACCTCTGTGCTTTAGGATGATTGAG
* *
420107 CACCTTTGTGCTTTTGGATGATTGAG
1 CACCTCTGTGCTTTAGGATGATTGAG
420133 CACCTCTGTGCTT
1 CACCTCTGTGCTT
420146 CAATCTAAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
25 2 0.03
26 55 0.73
28 16 0.21
29 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (26 bp):
CACCTCTGTGCTTTAGGATGATTGAG
Found at i:420079 original size:54 final size:54
Alignment explanation
Indices: 419952--420119 Score: 214
Period size: 54 Copynumber: 3.1 Consensus size: 54
419942 CTGGTACCCA
* * *
419952 TGTGCTTCAGTCTAGAATCTGGCACCTCTGTGCTTTTA--ATGATTAAGCATCTC
1 TGTGCTTCAATCTAGAATCTGGCACCTCTGTGC-TTTAGGATGATTGAGCACCTC
* * *
420005 TGTGCTTCAATCTAGGATCTGACACCTCTGTGCTTTAGGATGATTGATCACCTC
1 TGTGCTTCAATCTAGAATCTGGCACCTCTGTGCTTTAGGATGATTGAGCACCTC
* * * * *
420059 TGTGCTTCAATATAAAATCTGGCACCTCTGTTCTTTTGGATGATTGAGCACCTT
1 TGTGCTTCAATCTAGAATCTGGCACCTCTGTGCTTTAGGATGATTGAGCACCTC
420113 TGTGCTT
1 TGTGCTT
420120 TTGGATGATT
Statistics
Matches: 99, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
52 4 0.04
53 30 0.30
54 65 0.66
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (54 bp):
TGTGCTTCAATCTAGAATCTGGCACCTCTGTGCTTTAGGATGATTGAGCACCTC
Found at i:420175 original size:80 final size:80
Alignment explanation
Indices: 420027--420175 Score: 217
Period size: 80 Copynumber: 1.9 Consensus size: 80
420017 TAGGATCTGA
* * * *
420027 CACCTCTGTGCTTTAGGATGATTGATCACCTCTGTGCTTCAATATAAAATCTGGCACCTCTGTTC
1 CACCTCTGTGCTTTAGGATGATTGAGCACCTCTGTGCTTCAATATAAAATCTAGCACCTCTATGC
420092 TTTTGGATGATTGAG
66 TTTTGGATGATTGAG
* * * * *
420107 CACCTTTGTGCTTTTGGATGATTGAGCACCTCTGTGCTTCAATCTAAAATTTAGTACCTCTATGC
1 CACCTCTGTGCTTTAGGATGATTGAGCACCTCTGTGCTTCAATATAAAATCTAGCACCTCTATGC
420172 TTTT
66 TTTT
420176 ACAAACGATT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 60 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (80 bp):
CACCTCTGTGCTTTAGGATGATTGAGCACCTCTGTGCTTCAATATAAAATCTAGCACCTCTATGC
TTTTGGATGATTGAG
Found at i:422135 original size:15 final size:15
Alignment explanation
Indices: 422115--422160 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
422105 TATTTATTTC
422115 TTCTTCTTTTTCTCT
1 TTCTTCTTTTTCTCT
*
422130 TTCTTCTTTTTAT-T
1 TTCTTCTTTTTCTCT
* *
422144 TTTTTCATTTTCTCT
1 TTCTTCTTTTTCTCT
422159 TT
1 TT
422161 TTATCATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTTCTTTTTCTCT
Found at i:422159 original size:22 final size:23
Alignment explanation
Indices: 422121--422164 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
422111 TTTCTTCTTC
422121 TTTTTCTCTTTCTTCTTTTTATT
1 TTTTTCTCTTTCTTCTTTTTATT
422144 TTTTTCAT-TTTC-TCTTTTTAT
1 TTTTTC-TCTTTCTTCTTTTTAT
422165 CATTTTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 9 0.45
23 10 0.50
24 1 0.05
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTCTCTTTCTTCTTTTTATT
Found at i:422167 original size:16 final size:16
Alignment explanation
Indices: 422136--422183 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
422126 CTCTTTCTTC
*
422136 TTTT-TATTTTTTTCA
1 TTTTCTATTTTTATCA
*
422151 TTTTCTCTTTTTATCA
1 TTTTCTATTTTTATCA
422167 TTTTCTTATTTTTATCA
1 TTTTC-TATTTTTATCA
422184 ATTAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 4 0.14
16 14 0.50
17 10 0.36
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTCTATTTTTATCA
Found at i:422170 original size:22 final size:23
Alignment explanation
Indices: 422129--422171 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
422119 TCTTTTTCTC
**
422129 TTTCTTCTTTTTATTTTTTTCAT
1 TTTCTTCTTTTTATCATTTTCAT
422152 TTTC-TCTTTTTATCATTTTC
1 TTTCTTCTTTTTATCATTTTC
422172 TTATTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTCTTCTTTTTATCATTTTCAT
Found at i:422170 original size:23 final size:23
Alignment explanation
Indices: 422121--422170 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
422111 TTTCTTCTTC
*
422121 TTTTTCTCTTTCTTCTTTTTATT
1 TTTTTCTCTTTCTTCTTTTTATA
422144 TTTTTCAT-TTTC-TCTTTTTATCA
1 TTTTTC-TCTTTCTTCTTTTTAT-A
422167 TTTT
1 TTTT
422171 CTTATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 9 0.38
23 14 0.58
24 1 0.04
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTCTCTTTCTTCTTTTTATA
Found at i:422507 original size:44 final size:44
Alignment explanation
Indices: 422395--422514 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 44
422385 ATCTAGCAAG
* * * * *
422395 AATGATAATGTTGATCCACCTCCTTTTGTGATGGAATCAAAAAA
1 AATGATGATGCTGATACAACTCCTTTTGTGATAGAATCAAAAAA
* ** ** *
422439 AATGTTGATGCTGATTTATTTCCTTTTGTGATAGAATCAAACAA
1 AATGATGATGCTGATACAACTCCTTTTGTGATAGAATCAAAAAA
** *
422483 CTTGATGATGCTGATACAACTCCTTATGTGAT
1 AATGATGATGCTGATACAACTCCTTTTGTGAT
422515 GGATTCGAGA
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (44 bp):
AATGATGATGCTGATACAACTCCTTTTGTGATAGAATCAAAAAA
Found at i:423138 original size:103 final size:101
Alignment explanation
Indices: 422903--423263 Score: 382
Period size: 104 Copynumber: 3.5 Consensus size: 101
422893 TATATCCGAA
* * * *
422903 GAGATAAATTTTTTTTTTCGAGTGAAACAATTTCAAAATTTGTG-TTCTAATGGG-AAACTATCT
1 GAGATAAATTTTTGTTTT--AGTGAAAAAATTTCAAAATTTTTGTTTC-AA-GGGAAAACTGTCT
*
422966 CAAGCG----AAATTGATTTTAAGGAAAAACA-ATTTCAAGT
62 CAAGCGAACAAAATTGATTTTAA-GAAAAA-ATATCTCAAGT
* * * ** * *
423003 GAAACAAAATTTTCATTTAGTTAAAAATTTTCAAAATTTTTGTTTCAAGGGAAAACTGTCTCAAG
1 GAGATAAATTTTTGTTTTAGTGAAAAAATTTCAAAATTTTTGTTTCAAGGGAAAACTGTCTCAAG
423068 CGAAACAAAATTGATTTTAAGAAAAAATATCTCAAGT
66 CG-AACAAAATTGATTTTAAGAAAAAATATCTCAAGT
* *
423105 GAGATAAATCTTTGTTTTGAGTGAAAAAATTTCAAAATTTTTTGTTTCGAGGGAAAACTGTCTCA
1 GAGATAAATTTTTGTTTT-AGTGAAAAAATTTCAAAA-TTTTTGTTTCAAGGGAAAACTGTCTCA
* *
423170 AGTGAGACAAAATTGATTTTAAG-AAAAATCATCTTAAGT
64 AGCGA-ACAAAATTGATTTTAAGAAAAAAT-ATCTCAAGT
*
423209 GAGATAAATTTTTTGTTTCTAGTGAAACAATTTCAAAA-TTTTGTTTCAA-GGAAAA
1 GAGATAAA-TTTTTGTTT-TAGTGAAAAAATTTCAAAATTTTTGTTTCAAGGGAAAA
423264 TCATCTCAAG
Statistics
Matches: 222, Mismatches: 25, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
97 3 0.01
98 36 0.16
99 3 0.01
100 13 0.06
101 1 0.00
102 32 0.14
103 46 0.21
104 62 0.28
105 25 0.11
106 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (101 bp):
GAGATAAATTTTTGTTTTAGTGAAAAAATTTCAAAATTTTTGTTTCAAGGGAAAACTGTCTCAAG
CGAACAAAATTGATTTTAAGAAAAAATATCTCAAGT
Found at i:452995 original size:44 final size:44
Alignment explanation
Indices: 452941--453030 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 44
452931 AATATTTTTC
*
452941 TAGACTTAATATTATGGTTTGAGTCTT-AAGATTTGACACTTTAA
1 TAGACTTAATATTATGGTTTGAATCTTGAA-ATTTGACACTTTAA
* * *
452985 TAGAGTTAATATTGTGGTTTGAATCTTGAAATTTGACATTTTAA
1 TAGACTTAATATTATGGTTTGAATCTTGAAATTTGACACTTTAA
453029 TA
1 TA
453031 TTGTGATTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 39 0.95
45 2 0.05
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (44 bp):
TAGACTTAATATTATGGTTTGAATCTTGAAATTTGACACTTTAA
Found at i:455782 original size:28 final size:28
Alignment explanation
Indices: 455742--455809 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
455732 CTCATTCTCT
* *
455742 CTTTACTGCTTTACTGCTTTCTATGAAA
1 CTTTATTGCTTTACTGCTTTCCATGAAA
* ** *
455770 CTTTATTGCTTTATTTTTTTCCATGAGA
1 CTTTATTGCTTTACTGCTTTCCATGAAA
455798 CTTTATTGCTTT
1 CTTTATTGCTTT
455810 GTTGTATTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.18, C:0.18, G:0.10, T:0.54
Consensus pattern (28 bp):
CTTTATTGCTTTACTGCTTTCCATGAAA
Done.