Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015319.1 Kokia drynarioides strain JFW-HI SEQ_130365, 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: 446018
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Warning! 477 characters in sequence are not A, C, G, or T
File 2 of 2
Found at i:377423 original size:14 final size:16
Alignment explanation
Indices: 377392--377423 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
377382 CCACTTTATG
377392 TATTAAAAGTACATTA
1 TATTAAAAGTACATTA
377408 TATTAAAA-TA-ATTA
1 TATTAAAAGTACATTA
377422 TA
1 TA
377424 AAATACGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 2 0.12
16 8 0.50
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (16 bp):
TATTAAAAGTACATTA
Found at i:382267 original size:31 final size:30
Alignment explanation
Indices: 382232--382310 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
382222 ATACTATCTT
382232 TTAATATAAACATGCTTTTCTGATAACATAA
1 TTAATATAAACATGCTTTTCT-ATAACATAA
* * * **
382263 TTAATGTAAAAATGTTTTTCTATAATGTAA
1 TTAATATAAACATGCTTTTCTATAACATAA
382293 TTAATATAAACATGCTTT
1 TTAATATAAACATGCTTT
382311 CTTATTATAT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 22 0.55
31 18 0.45
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.43
Consensus pattern (30 bp):
TTAATATAAACATGCTTTTCTATAACATAA
Found at i:382324 original size:30 final size:30
Alignment explanation
Indices: 382232--382326 Score: 102
Period size: 30 Copynumber: 3.1 Consensus size: 30
382222 ATACTATCTT
* *
382232 TTAATATAAACATGCTTTTCTGATAACATAA
1 TTAATATAAACATGC-TTTCTTATAATATAA
* * * *
382263 TTAATGTAAAAATG-TTTTTCTATAATGTAA
1 TTAATATAAACATGCTTTCT-TATAATATAA
*
382293 TTAATATAAACATGCTTTCTTATTATATAA
1 TTAATATAAACATGCTTTCTTATAATATAA
382323 TTAA
1 TTAA
382327 GTTGTTATGT
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
29 4 0.08
30 31 0.61
31 16 0.31
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.44
Consensus pattern (30 bp):
TTAATATAAACATGCTTTCTTATAATATAA
Found at i:392735 original size:3 final size:3
Alignment explanation
Indices: 392729--392766 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
392719 TAATAATAAT
392729 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
392767 TAATAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:397920 original size:101 final size:100
Alignment explanation
Indices: 397814--398218 Score: 394
Period size: 101 Copynumber: 4.1 Consensus size: 100
397804 TCTGAAGTGG
397814 CAGTGGGTCGGATTAAAGCTATAGAAGCAAATCTTTATCTCTCTAAAGTTACAGTGGAGCAAGAT
1 CAGTGGGTCGGATTAAAGCTATAGAAGCAAATC-TTATCTCTCTAAAGTTACAGTGGAGCAAGAT
*
397879 GAAGCTACGACATCAAATCTTATATCCCTAAAGTTA
65 GAAGCTACGACATCAAATCCTATATCCCTAAAGTTA
* * * * * *
397915 CAGTGGGTTGGATTGAAGCTA-CGAAATCAAATCTTTATCTCTCTGAAGTTACAGTAGAGCAAGA
1 CAGTGGGTCGGATTAAAGCTATAG-AAGCAAATC-TTATCTCTCTAAAGTTACAGTGGAGCAAGA
* * * * *
397979 TGAAGCTA-TAAAACTGAATCCTATACCCCTAAAGTTA
64 TGAAGCTACGACATC-AAATCCTATATCCCTAAAGTTA
* * * *
398016 CAGTGGGTCGGATTAAAGCTATAGAAGCAAATCTTATTTCTCTGAAGTTATAGTGAAGCAAGATG
1 CAGTGGGTCGGATTAAAGCTATAGAAGCAAATCTTATCTCTCTAAAGTTACAGTGGAGCAAGATG
* * ** * *
398081 AAGCTAC-A-ACCAAATCTTGCA-CCCTTGATGTTGA
66 AAGCTACGACATCAAATCCTATATCCC-TAAAGTT-A
* ** * * * *
398115 -AATGGG-AAGATTAAAGCTATAAAAGCAAATCTTATTTC-CATAAAGATACAATGGAGCAAGAT
1 CAGTGGGTCGGATTAAAGCTATAGAAGCAAATCTTATCTCTC-TAAAGTTACAGTGGAGCAAGAT
* * * *
398177 GAAGTTACGACATCAAATCCTCTATCCTTGAAGTTA
65 GAAGCTACGACATCAAATCCTATATCCCTAAAGTTA
398213 CAGTGG
1 CAGTGG
398219 ATTAGATTGA
Statistics
Matches: 249, Mismatches: 44, Indels: 24
0.79 0.14 0.08
Matches are distributed among these distances:
96 1 0.00
97 56 0.22
98 18 0.07
99 22 0.09
100 41 0.16
101 110 0.44
102 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (100 bp):
CAGTGGGTCGGATTAAAGCTATAGAAGCAAATCTTATCTCTCTAAAGTTACAGTGGAGCAAGATG
AAGCTACGACATCAAATCCTATATCCCTAAAGTTA
Found at i:398064 original size:50 final size:51
Alignment explanation
Indices: 397770--398070 Score: 194
Period size: 51 Copynumber: 6.0 Consensus size: 51
397760 GTTGCAAGGA
* ** * * * **
397770 TCGGATTAAAACTACGGTAGCAAATCTTTATCCCTCTGAAGTGGCAGTGGG
1 TCGGATTAAAGCTATAGAAGCAAATCTTTATCTCTCTAAAGTTACAGTGGG
397821 TCGGATTAAAGCTATAGAAGCAAATCTTTATCTCTCTAAAGTTACAGTGGAG
1 TCGGATTAAAGCTATAGAAGCAAATCTTTATCTCTCTAAAGTTACAGTGG-G
* * * *
397873 -CAAGA-TGAAGCTA-CGACATCAAATCTTATATC-C-CTAAAGTTACAGTGGG
1 TC-GGATTAAAGCTATAGA-AGCAAATCTT-TATCTCTCTAAAGTTACAGTGGG
* * * * * *
397922 TTGGATTGAAGCTA-CGAAATCAAATCTTTATCTCTCTGAAGTTACAGTAGAG
1 TCGGATTAAAGCTATAG-AAGCAAATCTTTATCTCTCTAAAGTTACAGT-GGG
* * * * * *
397974 -CAAGA-TGAAGCTATA-AAACTGAATC-CTATAC-CCCTAAAGTTACAGTGGG
1 TC-GGATTAAAGCTATAGAAGC-AAATCTTTAT-CTCTCTAAAGTTACAGTGGG
* * *
398023 TCGGATTAAAGCTATAGAAGCAAATC-TTATTTCTCTGAAGTTATAGTG
1 TCGGATTAAAGCTATAGAAGCAAATCTTTATCTCTCTAAAGTTACAGTG
398071 AAGCAAGATG
Statistics
Matches: 198, Mismatches: 34, Indels: 37
0.74 0.13 0.14
Matches are distributed among these distances:
49 11 0.06
50 87 0.44
51 89 0.45
52 11 0.06
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (51 bp):
TCGGATTAAAGCTATAGAAGCAAATCTTTATCTCTCTAAAGTTACAGTGGG
Found at i:398085 original size:50 final size:49
Alignment explanation
Indices: 397829--398086 Score: 182
Period size: 50 Copynumber: 5.1 Consensus size: 49
397819 GGTCGGATTA
*
397829 AAGCTATAGAAGCAAATCTTTATCTCTCTAAAGTTACAGTGGAGCAAGATG
1 AAGCTATAGAAGCAAATC-TTATATCTCTAAAGTTACAGT-GAGCAAGATG
* * * * ***
397880 AAGCTA-CGACATCAAATCTTATATCCCTAAAGTTACAGTGGGTTGGATTG
1 AAGCTATAGA-AGCAAATCTTATATCTCTAAAGTTACAGTGAGCAAGA-TG
* * * *
397930 AAGCTA-CGAAATCAAATCTTTATCTCTCTGAAGTTACAGTAGAGCAAGATG
1 AAGCTATAG-AAGCAAATC-TTATATCTCTAAAGTTACAGT-GAGCAAGATG
* * * * * * * *
397981 AAGCTATA-AAACTGAATCCTATACCCCTAAAGTTACAGTGGGTC-GGATTA
1 AAGCTATAGAAGC-AAATCTTATATCTCTAAAGTTACAGTGAG-CAAGA-TG
* * *
398031 AAGCTATAGAAGCAAATCTTATTTCTCTGAAGTTATAGTGAAGCAAGATG
1 AAGCTATAGAAGCAAATCTTATATCTCTAAAGTTACAGTG-AGCAAGATG
398081 AAGCTA
1 AAGCTA
398087 CAACCAAATC
Statistics
Matches: 158, Mismatches: 37, Indels: 25
0.72 0.17 0.11
Matches are distributed among these distances:
49 8 0.05
50 96 0.61
51 50 0.32
52 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (49 bp):
AAGCTATAGAAGCAAATCTTATATCTCTAAAGTTACAGTGAGCAAGATG
Found at i:406698 original size:44 final size:46
Alignment explanation
Indices: 406645--406732 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 46
406635 CGTGAAAAAA
* *
406645 AAGAAATCGATATGAAAACCCGCAAAAGGAGTC-C-AAAAAAAAGG
1 AAGAAATCGAGACGAAAACCCGCAAAAGGAGTCTCGAAAAAAAAGG
* * *
406689 AAGAAATCGAGACGAAAACTCGCAAAGGGCGTCTCGAAAAAAAA
1 AAGAAATCGAGACGAAAACCCGCAAAAGGAGTCTCGAAAAAAAA
406733 AGATCAAGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 28 0.76
45 1 0.03
46 8 0.22
ACGTcount: A:0.52, C:0.17, G:0.22, T:0.09
Consensus pattern (46 bp):
AAGAAATCGAGACGAAAACCCGCAAAAGGAGTCTCGAAAAAAAAGG
Found at i:408001 original size:85 final size:85
Alignment explanation
Indices: 407854--408012 Score: 219
Period size: 85 Copynumber: 1.9 Consensus size: 85
407844 CCCATCTTCC
* * *
407854 TGAGATATAGAGAAGTGGGTCAAAGCAATAAAGCGATCATCTTCCTGATAAGATACAAAGAAGTG
1 TGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGATCATCTTCCTGATAAGATACAAAGAAGTA
*
407919 GACCAAATCTGCCTTCTTGA
66 AACCAAATCTGCCTTCTTGA
* * * * * * *
407939 TGAGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATATAGAGAAGTA
1 TGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGATCATCTTCCTGATAAGATACAAAGAAGTA
408004 AACCAAATC
66 AACCAAATC
408013 AATGTAACGA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (85 bp):
TGAGATACAGAGAAGTGGATCAAAGCAATAAAGCGATCATCTTCCTGATAAGATACAAAGAAGTA
AACCAAATCTGCCTTCTTGA
Found at i:408140 original size:208 final size:205
Alignment explanation
Indices: 407752--408262 Score: 687
Period size: 208 Copynumber: 2.5 Consensus size: 205
407742 AGAGTGAAAC
* *
407752 ATTAAATCAATG-AGACAGTCATCTTCCTGATGTGATACAGAGAAGTAAACCAAATCAATG-AAG
1 ATTAAATCAATGAAG-CGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGTAA-
* * * * * * * *
407815 CAAAGCTCAATGTGAGTGAA-ACCTCAGACCCCATCTTCCTGAGATATAGAGAAGTGGGTCAAAG
64 CGAAGCTCAATATGAAT-AAGACTTCAAACCCCATCTTCCTGAGATACAAAAAAGTGGGTCAAAG
407879 CAATAAAGCGATCATCTTCCTGATAAGATACAAAGAAGTGGACCAAATCTGCCTTCTTGATGAGA
128 CAATAAAGCGATCATCTTCCTGATAAGATACAAAGAAGTGGACCAAATCTGCCTTCTTGATGAGA
407944 TACAGAGAAGTGG
193 TACAGAGAAGTGG
*
407957 ATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATATAGAGAAGTAAACCAAATCAATGTAACG
1 ATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGTAACG
* *
408022 AAGCTTAATACGAATAAGACTTCAAACCCCATCTTCCTGATTGGATACAAAAAAGTGGGTCAAAG
66 AAGCTCAATATGAATAAGACTTCAAACCCCATCTTCCTGA---GATACAAAAAAGTGGGTCAAAG
* *
408087 CAATAAAGCGGTCATCTTCCTGATGAGATACAAAGAAGTGGACCAAATCTGCCTTCTTGATGAGA
128 CAATAAAGCGATCATCTTCCTGATAAGATACAAAGAAGTGGACCAAATCTGCCTTCTTGATGAGA
408152 TACAGAGAAGTGG
193 TACAGAGAAGTGG
* ** * * * * *
408165 ATTAAATCAATAAAGCGACCGTCTTCTTGATGAGATACAAAGAAGTAGACC-AATGAA-GT---G
1 ATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGTAACG
* *
408225 AAGCTCAATATAAATGAGACTTCAAACCCCATCTTCCT
66 AAGCTCAATATGAATAAGACTTCAAACCCCATCTTCCT
408263 TATGAGATAC
Statistics
Matches: 272, Mismatches: 28, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
203 35 0.13
204 2 0.01
205 86 0.32
206 6 0.02
207 5 0.02
208 138 0.51
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.23
Consensus pattern (205 bp):
ATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAAACCAAATCAATGTAACG
AAGCTCAATATGAATAAGACTTCAAACCCCATCTTCCTGAGATACAAAAAAGTGGGTCAAAGCAA
TAAAGCGATCATCTTCCTGATAAGATACAAAGAAGTGGACCAAATCTGCCTTCTTGATGAGATAC
AGAGAAGTGG
Found at i:408375 original size:107 final size:107
Alignment explanation
Indices: 408187--408507 Score: 313
Period size: 107 Copynumber: 2.9 Consensus size: 107
408177 AAGCGACCGT
* *
408187 CTTCTTGATGAGATACAAAGAAGTAGACCAATGAAGTGAAGCTCAATATAAATGAGACTTCAAAC
1 CTTCTTGATGAGATACAAAGAAGTAGACCAATAAAGTGAAGCTCAATATAAATGAAACTTCAAAC
408252 CCCATCTTCCTTATGAGATACAGAGAAGTGGACCAATTCCGC
66 CCCATCTTCCTTATGAGATACAGAGAAGTGGACCAATTCCGC
* * * *
408294 CTTCTTGATGAGATACAGAGAAGTAGACCAATAAAGTGAAGCTCAATGTGAGTGAAACTTCAAAC
1 CTTCTTGATGAGATACAAAGAAGTAGACCAATAAAGTGAAGCTCAATATAAATGAAACTTCAAAC
* * * * * *
408359 CTCATCTT-TTTGATGAGATATAGAGAAGTGGATTAAATCAATGAAGCGGTCGT
66 CCCATCTTCCTT-ATGAGATACAGAGAAGTGG-----ACCAAT---TC---CGC
* * * * ** *
408412 CTTCCTGATGAGATACAAAGAAGTAGATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAAC
1 CTTCTTGATGAGATACAAAGAAGTAGACCAATAAAGTGAAGCTCAATATAAATGAAACTTCAAAC
* * *
408477 CCTATCTTCC-TAGTGAGATATAAAGAAGTGG
66 CCCATCTTCCTTA-TGAGATACAGAGAAGTGG
408508 GTTAAAGCAA
Statistics
Matches: 175, Mismatches: 25, Indels: 17
0.81 0.12 0.08
Matches are distributed among these distances:
106 2 0.01
107 84 0.48
112 5 0.03
115 1 0.01
117 1 0.01
118 82 0.47
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (107 bp):
CTTCTTGATGAGATACAAAGAAGTAGACCAATAAAGTGAAGCTCAATATAAATGAAACTTCAAAC
CCCATCTTCCTTATGAGATACAGAGAAGTGGACCAATTCCGC
Found at i:408507 original size:118 final size:118
Alignment explanation
Indices: 408294--408560 Score: 340
Period size: 118 Copynumber: 2.3 Consensus size: 118
408284 CCAATTCCGC
* * * ** *
408294 CTTCTTGATGAGATACAGAGAAGTAGACCAATAAAGTGAAGCTCAATGTGAGTGAAACTTCAAAC
1 CTTCCTGATGAGATACAAAGAAGTAGACCAATAAAGCGAAGCTCAATACGAATGAAACTTCAAAC
* * * * * *
408359 CTCATCTTTTTGATGAGATATAGAGAAGTGGATTAAATCAATGAAGCGGTCGT
66 CTCATCTTCTAGATGAGATATAAAGAAGTGGATTAAAGCAATAAAGCGGTCAT
* * *
408412 CTTCCTGATGAGATACAAAGAAGTAGATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAAC
1 CTTCCTGATGAGATACAAAGAAGTAGACCAATAAAGCGAAGCTCAATACGAATGAAACTTCAAAC
*
408477 C-CTATCTTCCTAG-TGAGATATAAAGAAGTGGGTTAAAGCAATAAAGCGGTCAT
66 CTC-ATCTT-CTAGATGAGATATAAAGAAGTGGATTAAAGCAATAAAGCGGTCAT
* *
408530 CTTCCTGATGAGATACACAGAAGTGGACCAA
1 CTTCCTGATGAGATACAAAGAAGTAGACCAA
408561 ATCCGCCTTT
Statistics
Matches: 128, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
117 1 0.01
118 125 0.98
119 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.24
Consensus pattern (118 bp):
CTTCCTGATGAGATACAAAGAAGTAGACCAATAAAGCGAAGCTCAATACGAATGAAACTTCAAAC
CTCATCTTCTAGATGAGATATAAAGAAGTGGATTAAAGCAATAAAGCGGTCAT
Found at i:408637 original size:85 final size:85
Alignment explanation
Indices: 408490--408645 Score: 222
Period size: 85 Copynumber: 1.8 Consensus size: 85
408480 ATCTTCCTAG
* ** ** * *
408490 TGAGATATAAAGAAGTGGGTTAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACACAGAAGTG
1 TGAGATACAAAGAAGTGCATTAAAGCAATAAAGCAATCATCTTCCTGATAAGATACACAGAAGTA
408555 GACCAAATCCGCCTTTCTGA
66 GACCAAATCCGCCTTTCTGA
* * *
408575 TGAGATACAGAGAAGTGCATTAAATCAATAAAGCAATCATCTTCCTGATAAGATACAGAGAAGTA
1 TGAGATACAAAGAAGTGCATTAAAGCAATAAAGCAATCATCTTCCTGATAAGATACACAGAAGTA
408640 GACCAA
66 GACCAA
408646 TGAAGCGAAG
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 61 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (85 bp):
TGAGATACAAAGAAGTGCATTAAAGCAATAAAGCAATCATCTTCCTGATAAGATACACAGAAGTA
GACCAAATCCGCCTTTCTGA
Found at i:408792 original size:37 final size:37
Alignment explanation
Indices: 408732--408802 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
408722 AAAGTGGTCA
*
408732 TCTTCCTGACAAGATGCAAAGAAGT-GAACCAAATCCG
1 TCTTCCTGACAAGATACAAAGAAGTAG-ACCAAATCCG
** *
408769 TCTTCCTGATGAGATACAGAGAAGTAGACCAAAT
1 TCTTCCTGACAAGATACAAAGAAGTAGACCAAAT
408803 TAATCTAGCG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 28 0.97
38 1 0.03
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (37 bp):
TCTTCCTGACAAGATACAAAGAAGTAGACCAAATCCG
Found at i:408901 original size:48 final size:48
Alignment explanation
Indices: 408841--408934 Score: 134
Period size: 48 Copynumber: 2.0 Consensus size: 48
408831 ACTTCAAACC
* * **
408841 CATCTTCCTGATGAAATATAGAGAAGTGGATTAAATCAATGAAGCAGT
1 CATCTTCCTGATGAAATACAGAGAAGTAGACCAAATCAATGAAGCAGT
* *
408889 CATCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCA
1 CATCTTCCTGATGAAATACAGAGAAGTAGACCAAATCAATGAAGCA
408935 AAGCTCAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.24
Consensus pattern (48 bp):
CATCTTCCTGATGAAATACAGAGAAGTAGACCAAATCAATGAAGCAGT
Found at i:408922 original size:159 final size:155
Alignment explanation
Indices: 408614--408925 Score: 340
Period size: 159 Copynumber: 2.0 Consensus size: 155
408604 AAAGCAATCA
* *** * *
408614 TCTTCCTGATAAGATACAGAGAAGTAGACCAATGAAGCGAAGCTCAATGTGAGTGAAACTTTAAA
1 TCTTCCTGATAAGATACAGAGAAGTAGACCAATAAAGCGAAGCTCAATACAAATGAAACTTCAAA
* * * * * **
408679 CCCTATCTTCTTGATTAGATACAGAAAAGTGGGTCGAAGCAATAAAGTGGTCATCTTCCTGACAA
66 CCCTATCTTCCTGATGAAATACAGAAAAGTGGATCAAAGCAATAAAGCAGTCATCTTCCTGACAA
*
408744 GATGCAAAGAAGTGAACCAAATCCG
131 GATACAAAGAAGTGAACCAAATCCG
*
408769 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATTAATCTAGCGAAGCTCAATACAAATGAAACT
1 TCTTCCTGATAAGATACAGAGAAGTAGACC-AA-TAA---AGCGAAGCTCAATACAAATGAAACT
* * * * * *
408834 TCAAACCC-ATCTTCCTGATGAAATATAGAGAAGTGGATTAAATCAATGAAGCAGTCATCTTCTT
61 TCAAACCCTATCTTCCTGATGAAATACAGAAAAGTGGATCAAAGCAATAAAGCAGTCATCTTCCT
** *
408898 GATGAGATACAGAGAAGT-AGACCAAATC
126 GACAAGATACAAAGAAGTGA-ACCAAATC
408926 AATGAAGCAA
Statistics
Matches: 127, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
155 29 0.23
156 2 0.02
157 2 0.02
158 1 0.01
159 65 0.51
160 28 0.22
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.24
Consensus pattern (155 bp):
TCTTCCTGATAAGATACAGAGAAGTAGACCAATAAAGCGAAGCTCAATACAAATGAAACTTCAAA
CCCTATCTTCCTGATGAAATACAGAAAAGTGGATCAAAGCAATAAAGCAGTCATCTTCCTGACAA
GATACAAAGAAGTGAACCAAATCCG
Found at i:409046 original size:123 final size:122
Alignment explanation
Indices: 408769--409171 Score: 504
Period size: 123 Copynumber: 3.3 Consensus size: 122
408759 ACCAAATCCG
* ** * *
408769 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATTAATCTAGCGAAGCTCAATACAAATGA-AAC
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGCAAATGAGAA-
** * * * * *
408833 TTCAAACCCATCTTCCTGATGAAATATAGAGAAGTGGATTAAATCAATGAAGCAGTCA
65 TTCAAACCCATCTTCCTGATGAGGTATAGAGAAGTGGGTCAAAGCAATAAAGCAGCCA
*
408891 TCTTCTTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGCAAATGAGAAT
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGCAAATGAGAAT
* * *
408956 TCAAACACCATCTTTCTGATGAGGTATAAAAAAGTGGGTCAAAGCAATAAAGCAGCCA
66 TCAAAC-CCATCTTCCTGATGAGGTATAGAGAAGTGGGTCAAAGCAATAAAGCAGCCA
* * ** *
409014 TCCTCCTAATGAGATGTAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGCGAATGAGAAT
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGCAAATGAGAAT
* * * * *
409079 TCGAACCCCATCTTCCTGATAAGAG-ACAGAGAAGTGAGTCAAAGCAATAAGGCAGCCA
66 TC-AAACCCATCTTCCTGATGAG-GTATAGAGAAGTGGGTCAAAGCAATAAAGCAGCCA
* *
409137 TCTTCCTGATGAGATACAGAGAAATGGACCAAATC
1 TCTTCCTGATGAGATACAGAGAAGTAGACCAAATC
409172 CGCCTTCTTG
Statistics
Matches: 241, Mismatches: 36, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
122 62 0.26
123 175 0.73
124 4 0.02
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.21
Consensus pattern (122 bp):
TCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAGCTCAATGCAAATGAGAAT
TCAAACCCATCTTCCTGATGAGGTATAGAGAAGTGGGTCAAAGCAATAAAGCAGCCA
Found at i:409272 original size:208 final size:208
Alignment explanation
Indices: 408369--409586 Score: 786
Period size: 208 Copynumber: 6.0 Consensus size: 208
408359 CTCATCTTTT
* * * * *
408369 TGATGAGATATAGAGAAGTGGATTAAATCAATGAAGCGGTCGTCTTCCTGATGAGATACAAAGAA
1 TGATGAGATACAGAGAAATGGATTAAATCAATGAAACAGTCATCTTCCTGATGAGATACAAAGAA
* * *
408434 GTAG-----ATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAACCCTATCTTCCT-AGTGA
66 GTAGACCAAATCAATGAAGCGAAGCTCAATACAAATGAGACTTCAAACCCCATCTTCCTGA-TAA
* * * * * *
408493 GATATAAAGAAGTGGGTTAAAGCAATAAAGCGGTCATCTTCCTGATGAGATACACAGAAGTGGAC
130 GATACAGAGAAGTGAGTCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATACAGAGAAGTGGAC
* *
408558 CAAATCCGCCTTTC
195 CAAATCCACCTTCC
* * * * *
408572 TGATGAGATACAGAGAAGTGCATTAAATCAAT-AAAGCAATCATCTTCCTGATAAGATACAGAGA
1 TGATGAGATACAGAGAAATGGATTAAATCAATGAAA-CAGTCATCTTCCTGATGAGATACAAAGA
*** * * * * * *
408636 AGTAGA-C----CAATGAAGCGAAGCTCAATGTGAGTGAAACTTTAAACCCTATCTTCTTGATTA
65 AGTAGACCAAATCAATGAAGCGAAGCTCAATACAAATGAGACTTCAAACCCCATCTTCCTGATAA
* * * ** ** * * *
408696 GATACAGAAAAGTGGGTCGAAGCAATAAAGTGGTCATCTTCCTGACAAGATGCAAAGAAGTGAAC
130 GATACAGAGAAGTGAGTCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATACAGAGAAGTGGAC
**
408761 CAAATCCGTCTTCC
195 CAAATCCACCTTCC
* * ** * ** * * * ** * *
408775 TGATGAGATACAGAGAAGTAGACCAAATTAATCTAGCGAAG-C-TCAATACAAATGAAACTTCAA
1 TGATGAGATACAGAGAAATGGATTAAATCAATGAAAC--AGTCATC-TTCCTGATGAGA-TACAA
** *** ** * * ** * * * * **
408838 ACCCA-TCTTCCTGATGAAAT-ATAGAGAAG-TGGAT-TAAATCA-A--TGAAGCAGTCATCTTC
62 A-GAAGTAGACCAAAT-CAATGA-AGCGAAGCTCAATACAAATGAGACTTCAAAC-CCCATCTTC
* * * * * * * * *
408896 TTGATGAGATACAGAGAAGT-AGACCAAATCAATGAAGCA--AAGC-T-C-AATGCA-A-A-TGA
123 CTGATAAGATACAGAGAAGTGAG-TCAAAGCAATAAAGCAGTCATCTTCCTGATG-AGATACAGA
* * * *
408952 GAA-T---TCAAACACCATCTTTC
186 GAAGTGGACCAAA-TCCACCTTCC
* * * * * * * * * ** *
408972 TGATGAGGTATA-AAAAAGTGGGTCAAAGCAAT-AAAGCAGCCATCCTCCTAATGAGATGTAGAG
1 TGATGAGATACAGAGAAA-TGGATTAAATCAATGAAA-CAGTCATCTTCCTGATGAGATACAAAG
* * * * *
409035 AAGTAGACCAAATCAATGAAGCAAAGCTCAATGCGAATGAGAATTCGAACCCCATCTTCCTGATA
64 AAGTAGACCAAATCAATGAAGCGAAGCTCAATACAAATGAGACTTCAAACCCCATCTTCCTGATA
* * * *
409100 AGAGACAGAGAAGTGAGTCAAAGCAATAAGGCAGCCATCTTCCTGATGAGATACAGAGAAATGGA
129 AGATACAGAGAAGTGAGTCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATACAGAGAAGTGGA
* *
409165 CCAAATCCGCCTTCT
194 CCAAATCCACCTTCC
* *
409180 TGATGAGATACAGAGAAGTGGATTAAATCAATGAAACAGTCATCTTTCTGATGAGATACAAAGAA
1 TGATGAGATACAGAGAAATGGATTAAATCAATGAAACAGTCATCTTCCTGATGAGATACAAAGAA
* * * *
409245 GTAGACTAAATCAATGAAGCGAAGCTCAATACAAATGAGACTTCAAACCCCATCTTTCTAATGAG
66 GTAGACCAAATCAATGAAGCGAAGCTCAATACAAATGAGACTTCAAACCCCATCTTCCTGATAAG
* * *
409310 ATACAGAGAAGTGGGTCAAAGCAATAAAG-AGGTCATCTTTCTGATGAGATACAGAGAAGTAGAC
131 ATACAGAGAAGTGAGTCAAAGCAATAAAGCA-GTCATCTTCCTGATGAGATACAGAGAAGTGGAC
* *
409374 TAAATCCATCTTCC
195 CAAATCCACCTTCC
* * * *
409388 TGATGAGATACAGGGAAATGGATTAAATCAATGAAGCAGTTATCTTCCTGATGAGATACAGAGAA
1 TGATGAGATACAGAGAAATGGATTAAATCAATGAAACAGTCATCTTCCTGATGAGATACAAAGAA
* * * * *
409453 GTAGACCAAATCGATGAAGTGAGGCTTAATACTAATGAGACTTCAAACCCCTATCTTCCTGATAA
66 GTAGACCAAATCAATGAAGCGAAGCTCAATACAAATGAGACTTCAAACCCC-ATCTTCCTGATAA
* * * * *
409518 GATACAAAGAAGT-AGGTCAAAGTAAAAAAGC-GATCATCTTCCTGGTGAGATACAGAGACGTGG
130 GATACAGAGAAGTGA-GTCAAAGCAATAAAGCAG-TCATCTTCCTGATGAGATACAGAGAAGTGG
409581 ACCAAA
193 ACCAAA
409587 AGATAAAGTT
Statistics
Matches: 768, Mismatches: 195, Indels: 98
0.72 0.18 0.09
Matches are distributed among these distances:
194 9 0.01
195 14 0.02
196 21 0.03
197 30 0.04
198 36 0.05
199 6 0.01
200 6 0.01
201 1 0.00
202 6 0.01
203 204 0.27
204 11 0.01
205 13 0.02
206 8 0.01
207 35 0.05
208 275 0.36
209 80 0.10
210 4 0.01
211 9 0.01
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (208 bp):
TGATGAGATACAGAGAAATGGATTAAATCAATGAAACAGTCATCTTCCTGATGAGATACAAAGAA
GTAGACCAAATCAATGAAGCGAAGCTCAATACAAATGAGACTTCAAACCCCATCTTCCTGATAAG
ATACAGAGAAGTGAGTCAAAGCAATAAAGCAGTCATCTTCCTGATGAGATACAGAGAAGTGGACC
AAATCCACCTTCC
Found at i:409398 original size:85 final size:85
Alignment explanation
Indices: 409294--409464 Score: 227
Period size: 85 Copynumber: 2.0 Consensus size: 85
409284 ACTTCAAACC
* * * *
409294 CCATCTTTCTAATGAGATACAGAGAAGTGGGTCAAAGCAATAAAG-AGGTCATCTTTCTGATGAG
1 CCATCTTCCTAATGAGATACAGAGAAATGGATCAAAGCAATAAAGCA-GTCATCTTCCTGATGAG
*
409358 ATACAGAGAAGTAGACTAAAT
65 ATACAGAGAAGTAGACCAAAT
* * * * * *
409379 CCATCTTCCTGATGAGATACAGGGAAATGGATTAAATCAATGAAGCAGTTATCTTCCTGATGAGA
1 CCATCTTCCTAATGAGATACAGAGAAATGGATCAAAGCAATAAAGCAGTCATCTTCCTGATGAGA
409444 TACAGAGAAGTAGACCAAAT
66 TACAGAGAAGTAGACCAAAT
409464 C
1 C
409465 GATGAAGTGA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
85 73 0.99
86 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (85 bp):
CCATCTTCCTAATGAGATACAGAGAAATGGATCAAAGCAATAAAGCAGTCATCTTCCTGATGAGA
TACAGAGAAGTAGACCAAAT
Found at i:409415 original size:37 final size:37
Alignment explanation
Indices: 409343--409416 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
409333 ATAAAGAGGT
* *
409343 CATCTTTCTGATGAGATACAGAGAAGTAGACTAAATC
1 CATCTTCCTGATGAGATACAGAGAAATAGACTAAATC
* * *
409380 CATCTTCCTGATGAGATACAGGGAAATGGATTAAATC
1 CATCTTCCTGATGAGATACAGAGAAATAGACTAAATC
409417 AATGAAGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (37 bp):
CATCTTCCTGATGAGATACAGAGAAATAGACTAAATC
Found at i:410398 original size:4 final size:4
Alignment explanation
Indices: 410391--410421 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
410381 CATATAAATA
*
410391 TATT TATT TATT TATT TATT TATT TTTT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
410422 CATAACTGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TATT
Found at i:411370 original size:30 final size:30
Alignment explanation
Indices: 411335--411391 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
411325 TATTTTATTT
*
411335 AAAAATACATTTTGACCCCCAAACTTTCCA
1 AAAAATAAATTTTGACCCCCAAACTTTCCA
* *
411365 AAAAATAAATTTTGATCCCTAAACTTT
1 AAAAATAAATTTTGACCCCCAAACTTT
411392 TTCAAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.23, G:0.04, T:0.32
Consensus pattern (30 bp):
AAAAATAAATTTTGACCCCCAAACTTTCCA
Found at i:411418 original size:29 final size:30
Alignment explanation
Indices: 411373--411450 Score: 106
Period size: 29 Copynumber: 2.6 Consensus size: 30
411363 CAAAAAATAA
411373 ATTTTGATCCCTA-AACTTTTTCAAAATCAC
1 ATTTTGA-CCCTAGAACTTTTTCAAAATCAC
* *
411403 ATTTTGA-CCTAGAACTCTTTCAAAATTAC
1 ATTTTGACCCTAGAACTTTTTCAAAATCAC
*
411432 ATTTTGACCCTTGAACTTT
1 ATTTTGACCCTAGAACTTT
411451 CCTAAATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 4 0.10
29 22 0.52
30 16 0.38
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (30 bp):
ATTTTGACCCTAGAACTTTTTCAAAATCAC
Found at i:411462 original size:30 final size:29
Alignment explanation
Indices: 411394--411529 Score: 100
Period size: 29 Copynumber: 4.7 Consensus size: 29
411384 TAAACTTTTT
* *
411394 CAAAATCACATTTTGACCTAGAACTCTTT
1 CAAAATTACATTTTGACCTAGAACTCTTC
*
411423 CAAAATTACATTTTGACCCTTGAACT-TTC
1 CAAAATTACATTTTGA-CCTAGAACTCTTC
* * ** * *
411452 CTAAATTTACATTTTAACCTCTAAATTTCTC
1 C-AAAATTACATTTTGACCTAGAACTCT-TC
**
411483 CAATGTTACA-TTTGATCCTA-AACT-TTC
1 CAAAATTACATTTTGA-CCTAGAACTCTTC
411510 CAAAAATTACATTTTGACCT
1 C-AAAATTACATTTTGACCT
411530 CGAAATTATC
Statistics
Matches: 85, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
27 3 0.04
28 11 0.13
29 36 0.42
30 32 0.38
31 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (29 bp):
CAAAATTACATTTTGACCTAGAACTCTTC
Found at i:413282 original size:15 final size:15
Alignment explanation
Indices: 413262--413292 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
413252 CATTCATTTT
413262 TGTATAACATTCAAA
1 TGTATAACATTCAAA
413277 TGTATAACATTCAAA
1 TGTATAACATTCAAA
413292 T
1 T
413293 AAATAAATCA
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:0.45, C:0.13, G:0.06, T:0.35
Consensus pattern (15 bp):
TGTATAACATTCAAA
Found at i:413298 original size:15 final size:15
Alignment explanation
Indices: 413265--413298 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
413255 TCATTTTTGT
**
413265 ATAACATTCAAATGT
1 ATAACATTCAAATAA
413280 ATAACATTCAAATAA
1 ATAACATTCAAATAA
413295 ATAA
1 ATAA
413299 ATCATATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (15 bp):
ATAACATTCAAATAA
Found at i:414757 original size:435 final size:435
Alignment explanation
Indices: 413945--414815 Score: 1679
Period size: 435 Copynumber: 2.0 Consensus size: 435
413935 ATGAAAGTCA
413945 ATTCTCACGAGACAAATATTTCTTACATGTTGACTTAATGCAAATAAAATTACATGCTTATTGTA
1 ATTCTCACGAGACAAATATTTCTTACATGTTGACTTAATGCAAATAAAATTACATGCTTATTGTA
414010 TAGTTATTCTTATATTAATGGTTGAGCAATTAAATGGATGCATAGTTTTGCTAACATTAAGTATA
66 TAGTTATTCTTATATTAATGGTTGAGCAATTAAATGGATGCATAGTTTTGCTAACATTAAGTATA
414075 ACATATATAGGCATAGGCAACTTAATATTATCTCAGCTAAAACTATGAAAATCAAGCTTGAGATA
131 ACATATATAGGCATAGGCAACTTAATATTATCTCAGCTAAAACTATGAAAATCAAGCTTGAGATA
*
414140 CAATGCACCCTCGTTGTTAGCACAAATTGCATACTATAGAGATTGTGCACAATCAAATTATTTCA
196 CAATGCACCCTCGTTGTTAGCACAAATTGCATACTATAAAGATTGTGCACAATCAAATTATTTCA
414205 AGAAATAATATCGCAAACTTCAGGCTGCACACATGTGATAGATGAGCTTATCTATTATTTGGTTA
261 AGAAATAATATCGCAAACTTCAGGCTGCACACATGTGATAGATGAGCTTATCTATTATTTGGTTA
*
414270 TCATCTAAAAATGCAACCGACCTCTAACTTTAGCTGGTGTTAGTTTAATATGTTGTCCAAATAAC
326 TCATCTAAAAATGCAACCGACCTCTAACTTTAGCTGGTGTTAGTTCAATATGTTGTCCAAATAAC
414335 TAGTATTGATGACAATTATTAAAATATAACTTCTAATTCTTCAAT
391 TAGTATTGATGACAATTATTAAAATATAACTTCTAATTCTTCAAT
*
414380 ATTCTCACGAGACAAATATTTCTTACATGTTGACTTGATGCAAATAAAATTACATGCTTATTGTA
1 ATTCTCACGAGACAAATATTTCTTACATGTTGACTTAATGCAAATAAAATTACATGCTTATTGTA
414445 TAGTTATTCTTATATTAATGGTTGAGCAATTAAATGGATGCATAGTTTTGCTAACATTAAGTATA
66 TAGTTATTCTTATATTAATGGTTGAGCAATTAAATGGATGCATAGTTTTGCTAACATTAAGTATA
414510 ACATATATAGGCATAGGCAACTTAATATTATCTCAGCTAAAACTATGAAAATCAAGCTTGAGATA
131 ACATATATAGGCATAGGCAACTTAATATTATCTCAGCTAAAACTATGAAAATCAAGCTTGAGATA
*
414575 CAATGCACCCTCGTTGTTAGCACAAATTGCATACTATAAATATTGTGCACAATCAAATTATTTCA
196 CAATGCACCCTCGTTGTTAGCACAAATTGCATACTATAAAGATTGTGCACAATCAAATTATTTCA
*
414640 AGAAATAATTTCGCAAACTTCAGGCTGCACACATGTGATAGATGAGCTTATCTATTATTTGGTTA
261 AGAAATAATATCGCAAACTTCAGGCTGCACACATGTGATAGATGAGCTTATCTATTATTTGGTTA
*
414705 TCATCTAAAAATGCAATCGACCTCTAACTTTAGCTGGTGTTAGTTCAATATGTTGTCCAAATAAC
326 TCATCTAAAAATGCAACCGACCTCTAACTTTAGCTGGTGTTAGTTCAATATGTTGTCCAAATAAC
*
414770 TAGTATTGATGGCAATTATTAAAATATAACTTCTAATTCTTCAAT
391 TAGTATTGATGACAATTATTAAAATATAACTTCTAATTCTTCAAT
414815 A
1 A
414816 AAATCATATA
Statistics
Matches: 429, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
435 429 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (435 bp):
ATTCTCACGAGACAAATATTTCTTACATGTTGACTTAATGCAAATAAAATTACATGCTTATTGTA
TAGTTATTCTTATATTAATGGTTGAGCAATTAAATGGATGCATAGTTTTGCTAACATTAAGTATA
ACATATATAGGCATAGGCAACTTAATATTATCTCAGCTAAAACTATGAAAATCAAGCTTGAGATA
CAATGCACCCTCGTTGTTAGCACAAATTGCATACTATAAAGATTGTGCACAATCAAATTATTTCA
AGAAATAATATCGCAAACTTCAGGCTGCACACATGTGATAGATGAGCTTATCTATTATTTGGTTA
TCATCTAAAAATGCAACCGACCTCTAACTTTAGCTGGTGTTAGTTCAATATGTTGTCCAAATAAC
TAGTATTGATGACAATTATTAAAATATAACTTCTAATTCTTCAAT
Found at i:420178 original size:26 final size:26
Alignment explanation
Indices: 420142--420192 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
420132 TTTTTTTTTA
420142 TTTTAAATTCTAATGTTAATTTCTTT
1 TTTTAAATTCTAATGTTAATTTCTTT
* * *
420168 TTTTATATTCTGATGTTACTTTCTT
1 TTTTAAATTCTAATGTTAATTTCTT
420193 ATGTCCCATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.22, C:0.10, G:0.06, T:0.63
Consensus pattern (26 bp):
TTTTAAATTCTAATGTTAATTTCTTT
Found at i:427815 original size:19 final size:19
Alignment explanation
Indices: 427793--427837 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
427783 TTATATTAGG
427793 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
427812 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
427831 ATTTAAT
1 ATTTAAT
427838 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:428621 original size:15 final size:16
Alignment explanation
Indices: 428601--428630 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
428591 CTTCCCTATT
428601 TTCTA-TTTCTTTTAA
1 TTCTATTTTCTTTTAA
428616 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
428631 TTTTTAATTC
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:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTATTTTCTTTTAA
Found at i:428623 original size:22 final size:22
Alignment explanation
Indices: 428596--428656 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
428586 TTCGACTTCC
428596 CTATTTTCTATTT-CTTTTAATT
1 CTATTTTCT-TTTACTTTTAATT
*
428618 CTATTTTCTTTTATTTTTAATT
1 CTATTTTCTTTTACTTTTAATT
* *
428640 CT-GTTTCTTTTATTTTT
1 CTATTTTCTTTTACTTTT
428657 CCTTAGATCG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 17 0.47
22 19 0.53
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.72
Consensus pattern (22 bp):
CTATTTTCTTTTACTTTTAATT
Found at i:428646 original size:21 final size:22
Alignment explanation
Indices: 428610--428656 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
428600 TTTCTATTTC
*
428610 TTTTAATTCTATTTTCTTTTAT
1 TTTTAATTCTAGTTTCTTTTAT
428632 TTTTAATTCT-GTTTCTTTTAT
1 TTTTAATTCTAGTTTCTTTTAT
428653 TTTT
1 TTTT
428657 CCTTAGATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTAATTCTAGTTTCTTTTAT
Found at i:429987 original size:21 final size:21
Alignment explanation
Indices: 429963--430013 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
429953 GAATTTCAGC
*
429963 AGCAATCTATGGATTTTCAAA
1 AGCAAACTATGGATTTTCAAA
429984 AGCAAACTATGGATTTTCAAA
1 AGCAAACTATGGATTTTCAAA
*
430005 AGAAAACTA
1 AGCAAACTA
430014 AGGCATCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (21 bp):
AGCAAACTATGGATTTTCAAA
Found at i:431204 original size:8 final size:8
Alignment explanation
Indices: 431191--431230 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
431181 CTAATTATTA
431191 TTTTTTAT
1 TTTTTTAT
431199 TTTTTTAT
1 TTTTTTAT
*
431207 TTTTTCAT
1 TTTTTTAT
431215 ATTTTTTAT
1 -TTTTTTAT
431224 TTATTTT
1 TT-TTTT
431231 TGCCCAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 17 0.61
9 11 0.39
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTTTAT
Found at i:431596 original size:21 final size:20
Alignment explanation
Indices: 431558--431596 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
431548 ATAATTCTTG
*
431558 TTTGCTAAGTTAATTTTGAT
1 TTTGCTAAGTTAAATTTGAT
*
431578 TTTGCTATGATTAAATTTG
1 TTTGCTAAG-TTAAATTTG
431597 TCTCCACTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (20 bp):
TTTGCTAAGTTAAATTTGAT
Found at i:432058 original size:130 final size:130
Alignment explanation
Indices: 431809--432045 Score: 311
Period size: 130 Copynumber: 1.8 Consensus size: 130
431799 AGTTCTTTGT
* *
431809 CGAATAAAAAAAAGAAAAAAATAAATAAATTCGGAATGTGTTAGACTGAGTAACCGGGGTAGGGT
1 CGAATAAAAAAAAGAAAAAAATAAATAAATTCGGAATGTGTTAGACTAAGTAACCGGGATAGGGT
*** * *
431874 GCTTGGGTTGTCATCCTACTTCGCGTAAAAAGGTTGTGTGACGTGTTAAGAAAAATTCCGCTAAC
66 GCTTGGGTTGTCATCCTACTTCGCGTAAAAAGG-TGTAACACATGTTAAAAAAAATTCCGCTAAC
431939 C
130 C
* *
431940 CGAAT-AAAAAAAGAAATAAATAAATAAATTCGGAATGTGTTAGACTAAGTAATCGGGAT-GGAG
1 CGAATAAAAAAAAGAAAAAAATAAATAAATTCGGAATGTGTTAGACTAAGTAACCGGGATAGG-G
** *
432003 TGCTT-GGTTGTCATTTTACTTCGCGTCAAAAGG-GCTAACACAT
65 TGCTTGGGTTGTCATCCTACTTCGCGTAAAAAGGTG-TAACACAT
432046 TCTACAAAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
127 1 0.01
128 4 0.04
129 27 0.29
130 56 0.60
131 5 0.05
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (130 bp):
CGAATAAAAAAAAGAAAAAAATAAATAAATTCGGAATGTGTTAGACTAAGTAACCGGGATAGGGT
GCTTGGGTTGTCATCCTACTTCGCGTAAAAAGGTGTAACACATGTTAAAAAAAATTCCGCTAACC
Found at i:432754 original size:19 final size:19
Alignment explanation
Indices: 432732--432776 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
432722 TTATATTAGG
*
432732 ATTTAATATTTAAGTTAT-T
1 ATTTAATATTTAAATT-TGT
*
432751 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATTTGT
432770 ATTTAAT
1 ATTTAAT
432777 TTATGATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 1 0.05
19 21 0.95
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
ATTTAATATTTAAATTTGT
Found at i:434157 original size:21 final size:21
Alignment explanation
Indices: 434131--434176 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
434121 TTTCTATTTC
*
434131 TTTTAATTCTATTTTTTTTAT
1 TTTTAATTCTATTTATTTTAT
*
434152 TTTTAATTCTGTTTATTTTAT
1 TTTTAATTCTATTTATTTTAT
434173 TTTT
1 TTTT
434177 TCTTAGATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTAATTCTATTTATTTTAT
Found at i:434175 original size:30 final size:31
Alignment explanation
Indices: 434118--434177 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
434108 TCGACTTCTC
*
434118 TATTTTCTATTTCTTTTAATTCTATTTTTTT
1 TATTTTCTAATTCTTTTAATTCTATTTTTTT
*
434149 TATTTT-TAATTCTGTTT-ATTTTATTTTTT
1 TATTTTCTAATTCT-TTTAATTCTATTTTTT
434178 CTTAGATCGC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.75
Consensus pattern (31 bp):
TATTTTCTAATTCTTTTAATTCTATTTTTTT
Found at i:438156 original size:8 final size:8
Alignment explanation
Indices: 438143--438173 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
438133 ATTTTAGTTC
438143 TTTTATAA
1 TTTTATAA
438151 TTTTATAA
1 TTTTATAA
438159 TTTTATAA
1 TTTTATAA
*
438167 TTATATA
1 TTTTATA
438174 TTATATATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTTTATAA
Found at i:438484 original size:109 final size:110
Alignment explanation
Indices: 438305--438517 Score: 295
Period size: 109 Copynumber: 1.9 Consensus size: 110
438295 AAATCGAGGC
* * * * *
438305 AATGTTATTTTATTTTAGGGAATTCGAGAAATTGTATCCTAATGTGTTGGGTATGGTTTTTCTTT
1 AATGTTATTTTATTTTAGGGAATTCGAGAAATTGTAGCCTAACGTATTCGGTATGATTTTTCTTT
* **
438370 TAATCTAAATAATTGAGTATCCTATTTAAAAATCGATAAATATTT
66 GAATCTAAATAATTGAACATCCTATTTAAAAATCGATAAATATTT
*
438415 AATGTTCTTTTATTTTAGGGAATTCGA-AAATTGT-GCGCTAACGTATTCGGTATGATTTTTCTT
1 AATGTTATTTTATTTTAGGGAATTCGAGAAATTGTAGC-CTAACGTATTCGGTATGATTTTTCTT
* * *
438478 TGAATCTAAGTAATTGAACATCCTATTTTAAAATTGATAA
65 TGAATCTAAATAATTGAACATCCTATTTAAAAATCGATAA
438518 GTGTTCTTTA
Statistics
Matches: 90, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 1 0.01
109 63 0.70
110 26 0.29
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.44
Consensus pattern (110 bp):
AATGTTATTTTATTTTAGGGAATTCGAGAAATTGTAGCCTAACGTATTCGGTATGATTTTTCTTT
GAATCTAAATAATTGAACATCCTATTTAAAAATCGATAAATATTT
Found at i:442432 original size:14 final size:14
Alignment explanation
Indices: 442412--442468 Score: 64
Period size: 15 Copynumber: 4.0 Consensus size: 14
442402 ATTTCACCAA
*
442412 AAAAAAACAGAAAAG
1 AAAAAAAGA-AAAAG
442427 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
442441 -AAAAAAGAAAAA-
1 AAAAAAAGAAAAAG
442453 AAGAAGAAAGAAAAAG
1 AA-AA-AAAGAAAAAG
442469 GAGAGGTTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
13 13 0.35
14 7 0.19
15 17 0.46
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:442446 original size:21 final size:22
Alignment explanation
Indices: 442422--442467 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
442412 AAAAAAACAG
442422 AAAAGAAAAAAAGAA-AAAGAA
1 AAAAGAAAAAAAGAAGAAAGAA
442443 AAAAGAAAAAAAGAAGAAAGAA
1 AAAAGAAAAAAAGAAGAAAGAA
442465 AAA
1 AAA
442468 GGAGAGGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (22 bp):
AAAAGAAAAAAAGAAGAAAGAA
Found at i:442453 original size:15 final size:15
Alignment explanation
Indices: 442422--442467 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
442412 AAAAAAACAG
*
442422 AAAAGAAAAAA-AGA
1 AAAAGAAAAAAGAAA
442436 AAAAGAAAAAAGAAA
1 AAAAGAAAAAAGAAA
*
442451 AAAAGAAGAAAGAAA
1 AAAAGAAAAAAGAAA
442466 AA
1 AA
442468 GGAGAGGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAGAAA
Found at i:443599 original size:42 final size:42
Alignment explanation
Indices: 443552--444381 Score: 917
Period size: 42 Copynumber: 20.4 Consensus size: 42
443542 TTAAAACTAC
* *
443552 CATCCAATCTCTTAACCCGATCATGGGGCAGATTGACGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* **
443594 CATCCAATCTCTTACCCCGACCATGGGATAGATTGAAG---T
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
443633 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *
443675 CATCCAATCTCTTACCCCGACCATGGGGTAGATTGAAG---T
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * *
443714 CATCCAATCTCTTA-CCCGATCATAGGGCGGATTAAAGATAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * *
443755 CATACAATCTCTTACCTCGACCATGGGGCAGATTGAAG-C--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * *
443794 CATCCAATCTCTTACCCCGATCATGGGACAGATTAAAGATAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * *
443836 CATCGAATCTCTTACACCGACCAT-GAGCAGATTGAAG-C--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* ** * **
443874 CATCTAATCTCTTACGTCGATTATGGGAAAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * *
443916 CATCCAATCTCTTACCCCGATCATGGGACAGATTAAAAACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* ***
443958 CATCCAATCTCTTACCCCGACCATTAAGCAGATTG-A-A-AT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
**
443997 CATCCAATCTCTTACCCCGATCATGGGATAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
444039 CATCCAATCTCTTACCCCCGATCATGAGGCAGATTGAAGACAT
1 CATCCAATCTCTTA-CCCCGATCATGGGGCAGATTGAAGACAT
* * *
444082 CATCCAATCTCTTACCTCGACCATGGGGTAGATTGAAG-C-T
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * * * * *
444122 -ATCCAATCTTTTACCTCAATCATAGGGCAAATTAAAGGCAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
444163 CATCCAATCTCTTACCTCGATCATGGGGCAGATTGAAG-C--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
444202 CATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * *
444244 CATCCAATCTCTTACCCCGACCATGAGGTAAATTTGAAG-C--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGA-TTGAAGACAT
444284 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * *
444326 CATCCAATCTCTTACCCTGACCATGGGGAAAATTGAAG---T
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
444365 CATCCAATCTCTTACCC
1 CATCCAATCTCTTACCC
444382 TAACCAGAGG
Statistics
Matches: 664, Mismatches: 96, Indels: 59
0.81 0.12 0.07
Matches are distributed among these distances:
38 37 0.06
39 214 0.32
40 35 0.05
41 29 0.04
42 304 0.46
43 45 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (42 bp):
CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
Found at i:443687 original size:81 final size:80
Alignment explanation
Indices: 443552--444381 Score: 983
Period size: 81 Copynumber: 10.2 Consensus size: 80
443542 TTAAAACTAC
* *
443552 CATCCAATCTCTTAACCCGATCATGGGGCAGATTGACGACATCATCCAATCTCTTACCCCGACCA
1 CATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
443617 TGGGATAGATTGAAGT
65 TGGGATAGATTGAAGT
443633 CATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
1 CATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
*
443698 TGGGGTAGATTGAAGT
65 TGGGATAGATTGAAGT
* * * * *
443714 CATCCAATCTCTTA-CCCGATCATAGGGCGGATTAAAGATATCATACAATCTCTTACCTCGACCA
1 CATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
** *
443778 TGGGGCAGATTGAAGC
65 TGGGATAGATTGAAGT
* * * *
443794 CATCCAATCTCTTACCCCGATCATGGGACAGATTAAAGATATCATCGAATCTCTTACACCGACCA
1 CATCCAATCTCTTACCCCGATCATGGG-CAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
* * *
443859 TGAG-CAGATTGAAGC
65 TGGGATAGATTGAAGT
* ** * * *
443874 CATCTAATCTCTTACGTCGATTATGGGAAAGATTGAAGACATCATCCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCCCGATCATGGG-CAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
* * *
443939 TGGGACAGATTAAAAACAT
65 TGGGATAGATT--GAA-GT
* ** *
443958 CATCCAATCTCTTACCCCGACCATTAAGCAGATTG-A-A-ATCATCCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCCCGATCA-TGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
444020 TGGGATAGATTGAAGACAT
65 TGGGATAGATTGAAG---T
*
444039 CATCCAATCTCTTACCCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCTCGACC
1 CATCCAATCTCTTA-CCCCGATCATG-GGCAGATTGAAGACATCATCCAATCTCTTACCCCGACC
*
444104 ATGGGGTAGATTGAAG-
64 ATGGGATAGATTGAAGT
* * * * * * * *
444120 CTATCCAATCTTTTACCTCAATCATAGGGCAAATTAAAGGCATCATCCAATCTCTTACCTCGATC
1 C-ATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACC
** *
444185 ATGGGGCAGATTGAAGC
64 ATGGGATAGATTGAAGT
444202 CATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
1 CATCCAATCTCTTACCCCGATCATG-GGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
* *
444267 TGAGG-TAAATTTGAAGC
65 TG-GGATAGA-TTGAAGT
*
444284 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTACCCTGACCA
1 CATCCAATCTCTTACCCCGATCAT-GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCA
*
444349 TGGGGA-AAATTGAAGT
65 T-GGGATAGATTGAAGT
444365 CATCCAATCTCTTACCC
1 CATCCAATCTCTTACCC
444382 TAACCAGAGG
Statistics
Matches: 657, Mismatches: 68, Indels: 48
0.85 0.09 0.06
Matches are distributed among these distances:
79 2 0.00
80 146 0.22
81 331 0.50
82 108 0.16
83 6 0.01
84 25 0.04
85 39 0.06
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (80 bp):
CATCCAATCTCTTACCCCGATCATGGGCAGATTGAAGACATCATCCAATCTCTTACCCCGACCAT
GGGATAGATTGAAGT
Found at i:444455 original size:46 final size:45
Alignment explanation
Indices: 443997--444709 Score: 409
Period size: 45 Copynumber: 16.7 Consensus size: 45
443987 AGATTGAAAT
* * * * * *
443997 CATCCAATCTCTTACCCC-GATC-A-TGGGATAGATTGAAGACAT
1 CATCCAATCTTTTACCCCTAATCAAGAGGGACAGATTGAAGCCAC
* ** * * *
444039 CATCCAATCTCTTACCCCCGATCATGA-GG-CAGATTGAAGACAT
1 CATCCAATCTTTTACCCCTAATCAAGAGGGACAGATTGAAGCCAC
* * * * * *
444082 CATCCAATCTCTTACCTC-GACCATG-GGG-TAGATTGAAG---C
1 CATCCAATCTTTTACCCCTAATCAAGAGGGACAGATTGAAGCCAC
* * * * * * *
444121 TATCCAATCTTTTACCTC-AATC-ATAGGG-CAAATTAAAGGCAT
1 CATCCAATCTTTTACCCCTAATCAAGAGGGACAGATTGAAGCCAC
* * * *
444163 CATCCAATCTCTTACCTC-GATCATG-GGG-CAGATTGAAG---C
1 CATCCAATCTTTTACCCCTAATCAAGAGGGACAGATTGAAGCCAC
* * * * *
444202 CATCCAATCTCTTACCCC-GATCATGA-GG-CAGATTGAAGACAT
1 CATCCAATCTTTTACCCCTAATCAAGAGGGACAGATTGAAGCCAC
* * * * *
444244 CATCCAATCTCTTACCCC-GACCATGAGGTA-A-ATTTGAAG---C
1 CATCCAATCTTTTACCCCTAATCAAGAGGGACAGA-TTGAAGCCAC
* * * * *
444284 CATCCAATCTCTTACCCC-GATCATG-GGG-CAGATTGAAGACAT
1 CATCCAATCTTTTACCCCTAATCAAGAGGGACAGATTGAAGCCAC
* * * * * *
444326 CATCCAATCTCTTA-CCCTGACCATG-GGGA-AAATTGAAG---T
1 CATCCAATCTTTTACCCCTAATCAAGAGGGACAGATTGAAGCCAC
* * * *
444365 CATCCAATCTCTTA-CCCTAA-CCAGA-GGACAGATTGAATCTAC
1 CATCCAATCTTTTACCCCTAATCAAGAGGGACAGATTGAAGCCAC
444407 CATCCAATCTTTTACCCCTAAGTCAAGAGGGACAGATTGAAGCCAC
1 CATCCAATCTTTTACCCCTAA-TCAAGAGGGACAGATTGAAGCCAC
* * *
444453 CATCCAATCTTTTACCACTAATTAAGAGGGGA-AGATTGAAGTCAC
1 CATCCAATCTTTTACCCCTAATCAAGA-GGGACAGATTGAAGCCAC
* * *
444498 CATCCAGT-TTGTTACCCCTAATCAACAGAGG-CAGAATGAAGCCAC
1 CATCCAATCTT-TTACCCCTAATCAAGAG-GGACAGATTGAAGCCAC
*
444543 CATCCAATCTTTTACCCTTAATCAAGAAGGG-CAGATTGAAGCCAC
1 CATCCAATCTTTTACCCCTAATCAAG-AGGGACAGATTGAAGCCAC
* * *
444588 TATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTAAAGCCAC
1 CATCCAATCTTTTACCCCTAATCAAGAGGGACAGATTGAAGCCAC
* * * *
444633 CATCCAATCTTTTACCCCTAAGTCAAAAGGGGCATATTAAAGCCAC
1 CATCCAATCTTTTACCCCTAA-TCAAGAGGGACAGATTGAAGCCAC
* *
444679 CATCTAATCTTTTACCCTTAAATCAAGAGGG
1 CATCCAATCTTTTACCCCT-AATCAAGAGGG
444710 GCAAGTTAAA
Statistics
Matches: 563, Mismatches: 67, Indels: 78
0.80 0.09 0.11
Matches are distributed among these distances:
38 5 0.01
39 100 0.18
40 25 0.04
41 3 0.01
42 135 0.24
43 48 0.09
44 9 0.02
45 146 0.26
46 90 0.16
47 2 0.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (45 bp):
CATCCAATCTTTTACCCCTAATCAAGAGGGACAGATTGAAGCCAC
Found at i:444727 original size:46 final size:45
Alignment explanation
Indices: 444365--444712 Score: 425
Period size: 45 Copynumber: 7.7 Consensus size: 45
444355 AAATTGAAGT
* * * * *
444365 CATCCAATCTCTTA-CCCTAA-CCAGA-GGACAGATTGAATCTAC
1 CATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCAC
*
444407 CATCCAATCTTTTACCCCTAAGTCAAGAGGGACAGATTGAAGCCAC
1 CATCCAATCTTTTACCCCTAA-TCAAGAGGGGCAGATTGAAGCCAC
* * * *
444453 CATCCAATCTTTTACCACTAATTAAGAGGGGAAGATTGAAGTCAC
1 CATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCAC
* * * *
444498 CATCCAGT-TTGTTACCCCTAATCAACAGAGGCAGAATGAAGCCAC
1 CATCCAATCTT-TTACCCCTAATCAAGAGGGGCAGATTGAAGCCAC
* *
444543 CATCCAATCTTTTACCCTTAATCAAGAAGGGCAGATTGAAGCCAC
1 CATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCAC
* *
444588 TATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTAAAGCCAC
1 CATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCAC
* * *
444633 CATCCAATCTTTTACCCCTAAGTCAAAAGGGGCATATTAAAGCCAC
1 CATCCAATCTTTTACCCCTAA-TCAAGAGGGGCAGATTGAAGCCAC
* *
444679 CATCTAATCTTTTACCCTTAAATCAAGAGGGGCA
1 CATCCAATCTTTTACCCCT-AATCAAGAGGGGCA
444713 AGTTAAAGCT
Statistics
Matches: 265, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
42 13 0.05
43 6 0.02
44 2 0.01
45 155 0.58
46 87 0.33
47 2 0.01
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.24
Consensus pattern (45 bp):
CATCCAATCTTTTACCCCTAATCAAGAGGGGCAGATTGAAGCCAC
Done.