Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001978.1 Hibiscus syriacus cultivar Beakdansim tig00004013_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: 2594977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 10
Found at i:879623 original size:20 final size:20
Alignment explanation
Indices: 879551--879624 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 20
879541 AACTAAAAAT
*
879551 GCATGAACGGATGCATTAAG
1 GCATGAACGGATGAATTAAG
* *
879571 GCATGAAAGGATACCGTAATTGAAAAT
1 GCATGAACGGAT---G-AATT---AAG
879598 GCATGAACGGATGAATTAAG
1 GCATGAACGGATGAATTAAG
879618 GCATGAA
1 GCATGAA
879625 ATGATGCCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
20 20 0.48
23 5 0.12
24 4 0.10
27 13 0.31
ACGTcount: A:0.41, C:0.12, G:0.27, T:0.20
Consensus pattern (20 bp):
GCATGAACGGATGAATTAAG
Found at i:879738 original size:47 final size:47
Alignment explanation
Indices: 879291--879730 Score: 648
Period size: 47 Copynumber: 9.4 Consensus size: 47
879281 CATTATTGGA
* * * *
879291 ATGAAAGAATGCCATAATTGAAAATGCATGGACGGATGCATTAAGGC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGC
* * *
879338 ATGAAATGATGCTATAACTAAAAATGCATGAACGAATGCATTAAGGC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGC
* * *
879385 ATGAAAGGATGCCATAATTGAAAATTCATGAACGGATGCATTAAGGC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGC
** * *
879432 ATGAAAGGATTTCATAATTAAAAATGCATGAATGGATGCATTAAGGC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGC
879479 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGC
879526 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGC
* * * * *
879573 ATGAAAGGATACCGTAATTGAAAATGCATGAACGGATGAATTAAGGC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGC
* **
879620 ATGAAATGATGCCATAACTAAAAATGCATGAACGGATGCATTAATTC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGC
* *
879667 ATGAAAGGATACCATAACTAAAAATGCATGAACGGATGCAATAAGGC
1 ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGC
879714 A-GTAAAGGATGCCATAA
1 ATG-AAAGGATGCCATAA
879731 GTGAAAATTA
Statistics
Matches: 351, Mismatches: 41, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 1 0.00
47 350 1.00
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (47 bp):
ATGAAAGGATGCCATAACTAAAAATGCATGAACGGATGCATTAAGGC
Found at i:880223 original size:29 final size:28
Alignment explanation
Indices: 880190--880277 Score: 124
Period size: 29 Copynumber: 3.0 Consensus size: 28
880180 TAAGCCAATT
*
880190 AGATAAACGGTTAAACAA-TGTTGAGTAAA
1 AGATAAA-GGTCAAA-AACTGTTGAGTAAA
880219 AGATAAAAGGTCAAAAACTGTTGAGTAAA
1 AGAT-AAAGGTCAAAAACTGTTGAGTAAA
880248 AGATGAAAGGTCAAAAACTGTTGAGTAAA
1 AGAT-AAAGGTCAAAAACTGTTGAGTAAA
880277 A
1 A
880278 TAATAATGGA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
28 2 0.04
29 50 0.91
30 3 0.05
ACGTcount: A:0.50, C:0.07, G:0.22, T:0.22
Consensus pattern (28 bp):
AGATAAAGGTCAAAAACTGTTGAGTAAA
Found at i:882298 original size:2 final size:2
Alignment explanation
Indices: 882291--882316 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
882281 TGGAAAGAAT
882291 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
882317 GCTTTTCTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:884826 original size:45 final size:45
Alignment explanation
Indices: 884767--884854 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
884757 ATATGGATGC
* *
884767 ATTATTGGCTTGAAAGGATGCCATAGCTGAAATGCATATGGGTAA
1 ATTATTGGCATGAAAGGATGACATAGCTGAAATGCATATGGGTAA
884812 ATTATTGGCATGAAAGGATGACATAGCTGAAATGCATATGGGT
1 ATTATTGGCATGAAAGGATGACATAGCTGAAATGCATATGGGT
884855 GCATTCTCGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.28
Consensus pattern (45 bp):
ATTATTGGCATGAAAGGATGACATAGCTGAAATGCATATGGGTAA
Found at i:884907 original size:34 final size:34
Alignment explanation
Indices: 884842--884909 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
884832 ACATAGCTGA
* *
884842 AATGCATATGGGTGCATTCTCGATATAAAAGAAT
1 AATGCATATGGGTGCATTATCGACATAAAAGAAT
* * *
884876 AATGCATATGGGTGCATTATTGGCATGAAAGAAT
1 AATGCATATGGGTGCATTATCGACATAAAAGAAT
884910 TCCATAAATG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (34 bp):
AATGCATATGGGTGCATTATCGACATAAAAGAAT
Found at i:885004 original size:20 final size:20
Alignment explanation
Indices: 884981--885052 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 20
884971 TGCATGAATT
884981 GATGCATTAAGGCATGAAAG
1 GATGCATTAAGGCATGAAAG
* *
885001 GATGCCATAATTGAAAATGCATGAACG
1 GATG-C---ATT---AAGGCATGAAAG
885028 GATGCATTAAGGCATGAAAG
1 GATGCATTAAGGCATGAAAG
885048 GATGC
1 GATGC
885053 CATAACTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
20 19 0.46
21 1 0.02
23 3 0.07
24 3 0.07
26 1 0.02
27 14 0.34
ACGTcount: A:0.39, C:0.12, G:0.28, T:0.21
Consensus pattern (20 bp):
GATGCATTAAGGCATGAAAG
Found at i:885259 original size:27 final size:27
Alignment explanation
Indices: 885227--885319 Score: 92
Period size: 27 Copynumber: 3.7 Consensus size: 27
885217 ATACATTAAG
885227 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAACTAAAAAT
* * *
885254 ACATGAACGGATG-CAT---T---AAG
1 GCATGAAAGGATGCCATAACTAAAAAT
885274 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAACTAAAAAT
* *
885301 GCATGAACGGATGCAATAA
1 GCATGAAAGGATGCCATAA
885320 GGTAGGAAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
20 13 0.25
21 3 0.06
23 1 0.02
24 1 0.02
26 3 0.06
27 30 0.59
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (27 bp):
GCATGAAAGGATGCCATAACTAAAAAT
Found at i:885347 original size:47 final size:47
Alignment explanation
Indices: 884888--885339 Score: 602
Period size: 47 Copynumber: 9.6 Consensus size: 47
884878 TGCATATGGG
* * * * * *
884888 TGCATTATTGGCATGAAAGAATTCCATAAATGAAAATGAATGAACGGA
1 TGCATTA-AGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGA
* * **
884936 TTCATTAAGGCATGAAAAGATGCCATAACTAAAAATGCATGAATTGA
1 TGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGA
* *
884983 TGCATTAAGGCATGAAAGGATGCCATAATTGAAAATGCATGAACGGA
1 TGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGA
* * *
885030 TGCATTAAGGCATGAAAGGATGCCATAACTAAAAAT-TATTGAATGGG
1 TGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCA-TGAACGGA
* *
885077 TGCATTAAGGCATGAAAGGATGTCATAACTAAAAATGCATGAATGGA
1 TGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGA
*
885124 T-CTATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGAA
1 TGC-ATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGA
* * * * * *
885171 TGCATTATGGCATGAAAGGATGCCATAATTGAAAATGAAGGAACGTA
1 TGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGA
* *
885218 TACATTAAGGCATGAAAGGATGCCATAACTAAAAATACATGAACGGA
1 TGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGA
885265 TGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGA
1 TGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGA
* * *
885312 TGCAATAAGGTAGGAAAGGATGCCATAA
1 TGCATTAAGGCATGAAAGGATGCCATAA
885340 GTGAAAATTA
Statistics
Matches: 354, Mismatches: 46, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
46 2 0.01
47 344 0.97
48 8 0.02
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.22
Consensus pattern (47 bp):
TGCATTAAGGCATGAAAGGATGCCATAACTAAAAATGCATGAACGGA
Found at i:886827 original size:18 final size:18
Alignment explanation
Indices: 886794--886838 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
886784 AGACCCGGAT
* *
886794 CCCGACTCGGTTACAAGA
1 CCCGACCCGATTACAAGA
*
886812 CCTGACCCGATTACAAGA
1 CCCGACCCGATTACAAGA
886830 CCCGACCCG
1 CCCGACCCG
886839 TTTAGCTACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.40, G:0.20, T:0.13
Consensus pattern (18 bp):
CCCGACCCGATTACAAGA
Found at i:902715 original size:42 final size:41
Alignment explanation
Indices: 902668--902764 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 41
902658 AATTGGTAAG
* * *
902668 TCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAA
1 TCCTTCGGGCCATCAGTAAGCCTTTCGAGCAGGATG-ATAAA
* * * *
902710 TCCTTCGGGTCATCTGTAAGCCTTTTGAGCAGGATGATAAG
1 TCCTTCGGGCCATCAGTAAGCCTTTCGAGCAGGATGATAAA
902751 TCCTTCGGGCCATC
1 TCCTTCGGGCCATC
902765 CATAAGACCT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 16 0.34
42 31 0.66
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (41 bp):
TCCTTCGGGCCATCAGTAAGCCTTTCGAGCAGGATGATAAA
Found at i:902912 original size:227 final size:225
Alignment explanation
Indices: 902517--902987 Score: 592
Period size: 227 Copynumber: 2.1 Consensus size: 225
902507 TATTTCCAAA
* * *
902517 GATGATAAGTCCTCCGGGCCATCCATAAGACCTTTGGGGCAGGATATTTCACATGTCTATCAAAA
1 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTTCGGGCAGGATATTTCACATGTCAATCAAAA
** * *
902582 AATGAGAAAGATTTCTCATTAAAATCTGAAGATTTGAAAAGTAAGAAAGGTTTCTTACCTAGTAA
66 AATGAGAAAGATTTCTCAAGAAAATCTGAAGATTTGAAAAGTAAGAAAGATTTATTACCTAGTAA
* * *
902647 ATTATTTCTAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGTTTAAATC
131 ATTATTTCTAAAATTGATAAGTCCTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATTAAATC
* *
902712 CTTCGGGTCATCTGTAAGCCTTTTGAGCAG
196 CTTCGGGTCATCAGTAAGCCTTTCGAGCAG
* * **
902742 GATGATAAGTCCTTCGGGCCATCCATAAGACC-TTCGGGTAGGATGTTTTCACAT-T-AAGTTGA
1 GATGATAAGTCCTTCGGGCCATCCATAAGACCTTTCGGGCAGGAT-ATTTCACATGTCAA-TCAA
* * **
902804 AAAATGAGAAAGTGATGTT-TTAAGAAAATTTGAA-ATTTTTGAAAAGTAATTAAGATTTATTAC
64 AAAATGAGAAA--GAT-TTCTCAAGAAAATCTGAAGA--TTTGAAAAGTAAGAAAGATTTATTAC
* * * *
902867 TTAGTAATTTATTTCTAAAATTTATAAGTTCTTCGGGACATCAGTAAGTCTTTCGAGCATGATGA
124 CTAGTAAATTATTTCTAAAATTGATAAGTCCTTCGGGACATCAGTAAGTCTTTCGAGCATGATGA
* *
902932 TTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCAT
189 TTAAATCCTTCGGGTCATCAGTAAGCCTTTCGAGCAG
*
902969 GATGATGAAATCCTTCGGG
1 GATGAT-AAGTCCTTCGGG
902988 TAATTTATAA
Statistics
Matches: 211, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
223 1 0.00
224 24 0.11
225 40 0.19
226 14 0.07
227 121 0.57
228 11 0.05
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (225 bp):
GATGATAAGTCCTTCGGGCCATCCATAAGACCTTTCGGGCAGGATATTTCACATGTCAATCAAAA
AATGAGAAAGATTTCTCAAGAAAATCTGAAGATTTGAAAAGTAAGAAAGATTTATTACCTAGTAA
ATTATTTCTAAAATTGATAAGTCCTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATTAAATC
CTTCGGGTCATCAGTAAGCCTTTCGAGCAG
Found at i:902921 original size:20 final size:19
Alignment explanation
Indices: 902898--902968 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 19
902888 TTATAAGTTC
902898 TTCGGGACATCAGTAAGTCT
1 TTCGGG-CATCAGTAAGTCT
* * * *
902918 TTCGAGCATGATGATTAAATCC
1 TTCGGGCATCA-G--TAAGTCT
902940 TTCGGGTCATCAGTAAGTCT
1 TTCGGG-CATCAGTAAGTCT
*
902960 TTCGAGCAT
1 TTCGGGCAT
902969 GATGATGAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
19 7 0.18
20 16 0.42
22 11 0.29
23 4 0.11
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (19 bp):
TTCGGGCATCAGTAAGTCT
Found at i:902944 original size:42 final size:42
Alignment explanation
Indices: 902897--903440 Score: 185
Period size: 42 Copynumber: 13.1 Consensus size: 42
902887 TTTATAAGTT
*
902897 CTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATTAAATC
1 CTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAATC
*
902939 CTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGATGAAATC
1 CTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAATC
* * * * *
902981 CTTCGGGTA-ATTTA-TAAG-CCTTC-ACCGAAGA-GTAGTG-AAGC
1 CTTCGGG-ACA-TCAGTAAGTCTTTCGAGC-ATGATG-A-TGAAATC
** * * *
903022 AAATC----CATCAGTAAGTCTTTCGAGCATGATGAGGAAGTT
1 -CTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAATC
* * * *
903061 CTTCGGGCCATCAATAAGTCTTTCGAGAATGATGATTAAATC
1 CTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAATC
** * * *
903103 CTTCGGGTA-ATTTGTAAGTC-TTC-A-C-TGAAGAGTAGTGAAGC
1 CTTCGGG-ACATCAGTAAGTCTTTCGAGCATGATGA-T-G-AAATC
** * *
903144 AAATC----CATCAGTAAATCTTTCGAGCATGATGATGAAGTC
1 -CTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAATC
* *
903183 CTTCGGGACATCAGTAAGTCTTTTGATCATGATGAT----T-
1 CTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAATC
** * ** *
903220 -TT-GGGTA-ATTTGTAAG-CATTAACCGAAG-A-GTAGTGAAACAAATA
1 CTTCGGG-ACATCAGTAAGTC-TT--TCG-AGCATG-A-TG-ATGAAATC
* * * * *
903264 CATCAGTAAATGCCATTAGTAAGTATTTCGAGCATGATGATGAAATC
1 CTTC-G----GGACATCAGTAAGTCTTTCGAGCATGATGATGAAATC
* * *
903311 CTTCGGGCCATCAGTAAGTCTTTTGAGCATGATGATTAAATC
1 CTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAATC
* ** * * *
903353 CTTCGGGTCATTTGTAAGTCTTTCAAGCAAGATGATTAAATC
1 CTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAATC
* * ** * *
903395 ATTCGGGTCATTTGTAAGTCTTTCGAGCAAGATGATTAAATC
1 CTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAATC
903437 CTTC
1 CTTC
903441 AGGAGCAAGA
Statistics
Matches: 369, Mismatches: 79, Indels: 108
0.66 0.14 0.19
Matches are distributed among these distances:
34 1 0.00
35 12 0.03
36 4 0.01
37 5 0.01
38 27 0.07
39 16 0.04
40 9 0.02
41 19 0.05
42 242 0.66
43 3 0.01
45 1 0.00
46 1 0.00
47 9 0.02
48 4 0.01
49 4 0.01
50 1 0.00
51 11 0.03
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (42 bp):
CTTCGGGACATCAGTAAGTCTTTCGAGCATGATGATGAAATC
Found at i:903126 original size:122 final size:122
Alignment explanation
Indices: 902905--903374 Score: 569
Period size: 122 Copynumber: 3.8 Consensus size: 122
902895 TTCTTCGGGA
* *
902905 CATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATG
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
* * *
902970 ATGATGAAATCCTTCGGGTAATTTATAAGCCTTCACCGAAGAGTAGTGAAGCAAATC
66 ATGATTAAATCCTTCGGGTAATTTGTAAGTCTTCACCGAAGAGTAGTGAAGCAAATC
* * * * *
903027 CATCAGTAAGTCTTTCGAGCATGATGAGGAAGTTCTTCGGGCCATCAATAAGTCTTTCGAGAATG
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
*
903092 ATGATTAAATCCTTCGGGTAATTTGTAAGTCTTCACTGAAGAGTAGTGAAGCAAATC
66 ATGATTAAATCCTTCGGGTAATTTGTAAGTCTTCACCGAAGAGTAGTGAAGCAAATC
* * * * *
903149 CATCAGTAAATCTTTCGAGCATGATGATGAAGTCCTTCGGGACATCAGTAAGTCTTTTGATCATG
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
* *
903214 ATGA-T---T--TT-GGGTAATTTGTAAG-CATTAACCGAAGAGTAGTGAAACAAATAC
66 ATGATTAAATCCTTCGGGTAATTTGTAAGTC-TTCACCGAAGAGTAGTGAAGCAAAT-C
*
903265 ATCAGTAAATGCCATTAGTAAGTATTTCGAGCATGATGATGAAATCCTTCGGGCCATCAGTAAGT
1 --C-----AT--C---AGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCATCAGTAAGT
* *
903330 CTTTTGAGCATGATGATTAAATCCTTCGGGTCATTTGTAAGTCTT
54 CTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGTCTT
903375 TCAAGCAAGA
Statistics
Matches: 298, Mismatches: 28, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
114 1 0.00
115 36 0.12
116 3 0.01
118 2 0.01
121 1 0.00
122 172 0.58
123 2 0.01
125 1 0.00
128 60 0.20
129 1 0.00
132 1 0.00
134 2 0.01
135 15 0.05
136 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (122 bp):
CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
ATGATTAAATCCTTCGGGTAATTTGTAAGTCTTCACCGAAGAGTAGTGAAGCAAATC
Found at i:903423 original size:84 final size:84
Alignment explanation
Indices: 903277--903440 Score: 229
Period size: 84 Copynumber: 2.0 Consensus size: 84
903267 CAGTAAATGC
* * * * *
903277 CATTAGTAAGTATTTCGAGCATGATGATGAAATCCTTCGGGCCATCAGTAAGTCTTTTGAGCATG
1 CATTAGTAAGTATTTCAAGCAAGATGATGAAATCATTCGGGCCATCAGTAAGTCTTTCGAGCAAG
903342 ATGATTAAATCCTTCGGGT
66 ATGATTAAATCCTTCGGGT
* * * * **
903361 CATTTGTAAGTCTTTCAAGCAAGATGATTAAATCATTCGGGTCATTTGTAAGTCTTTCGAGCAAG
1 CATTAGTAAGTATTTCAAGCAAGATGATGAAATCATTCGGGCCATCAGTAAGTCTTTCGAGCAAG
903426 ATGATTAAATCCTTC
66 ATGATTAAATCCTTC
903441 AGGAGCAAGA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 69 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (84 bp):
CATTAGTAAGTATTTCAAGCAAGATGATGAAATCATTCGGGCCATCAGTAAGTCTTTCGAGCAAG
ATGATTAAATCCTTCGGGT
Found at i:903484 original size:66 final size:66
Alignment explanation
Indices: 903378--903506 Score: 195
Period size: 66 Copynumber: 2.0 Consensus size: 66
903368 AAGTCTTTCA
** *
903378 AGCAAGATGATTAAATCATTCGGGTCATTTGTAAGTCTTTCGAGCAAGATGATTAAATCCTTCAG
1 AGCAAGATGATTAAATCATTCGGGTCATCAGTAAGTCTTTCAAGCAAGATGATTAAATCCTTCAG
903443 G
66 G
* * * *
903444 AGCAAGATGATTAAATCCTTTGGGTCATCAGTAAGTCTTTCAAGCATGATGATTAAGTCCTTC
1 AGCAAGATGATTAAATCATTCGGGTCATCAGTAAGTCTTTCAAGCAAGATGATTAAATCCTTC
903507 GGGCCATCTT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (66 bp):
AGCAAGATGATTAAATCATTCGGGTCATCAGTAAGTCTTTCAAGCAAGATGATTAAATCCTTCAG
G
Found at i:903560 original size:37 final size:37
Alignment explanation
Indices: 903510--903589 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
903500 GTCCTTCGGG
* *
903510 CCATCTTAAGCCTTCACCGAATAGTATTG-AAGCAAAT
1 CCATCTTAAGCCTTCACCGAAGAGTA-GGAAAGCAAAT
903547 CCATCTTAAGCCTTCACCGAAGAGTAGGAAAGCAAAT
1 CCATCTTAAGCCTTCACCGAAGAGTAGGAAAGCAAAT
*
903584 CAATCT
1 CCATCT
903590 CGAGTCTGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
36 1 0.03
37 38 0.97
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (37 bp):
CCATCTTAAGCCTTCACCGAAGAGTAGGAAAGCAAAT
Found at i:903796 original size:12 final size:12
Alignment explanation
Indices: 903766--903808 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
903756 GCTTAAAAAG
*
903766 TATTATAAATAT
1 TATTATTAATAT
* *
903778 AAATATTAATAT
1 TATTATTAATAT
*
903790 TATTATTATTAT
1 TATTATTAATAT
903802 TATTATT
1 TATTATT
903809 TATTGCAACT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATTATTAATAT
Found at i:903955 original size:18 final size:18
Alignment explanation
Indices: 903927--903971 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
903917 AGACCTGGAT
*
903927 CCCGACTCGGTTACAAGA
1 CCCGACCCGGTTACAAGA
*
903945 CTCGACCCGGTTACAAGA
1 CCCGACCCGGTTACAAGA
903963 CCCGACCCG
1 CCCGACCCG
903972 TTTAGCTACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.40, G:0.22, T:0.13
Consensus pattern (18 bp):
CCCGACCCGGTTACAAGA
Found at i:906878 original size:2 final size:2
Alignment explanation
Indices: 906871--906908 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
906861 TGAAGGGATG
906871 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
906909 GTACCAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:909606 original size:13 final size:13
Alignment explanation
Indices: 909588--909620 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
909578 GAAAATAACT
909588 TTTAAAAGTG-ATG
1 TTTAAAAGTGCA-G
909601 TTTAAAAGTGCAG
1 TTTAAAAGTGCAG
909614 TTTAAAA
1 TTTAAAA
909621 TTTAACTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 18 0.95
14 1 0.05
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.36
Consensus pattern (13 bp):
TTTAAAAGTGCAG
Found at i:909816 original size:15 final size:16
Alignment explanation
Indices: 909798--909835 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
909788 TTAAAATAAC
*
909798 TTATTAATGATAT-TT
1 TTATTAATGAAATGTT
*
909813 TTATAAATGAAATGTT
1 TTATTAATGAAATGTT
909829 TTATTAA
1 TTATTAA
909836 AAAAATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (16 bp):
TTATTAATGAAATGTT
Found at i:912683 original size:3 final size:3
Alignment explanation
Indices: 912677--912717 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
912667 ACAATACTTT
*
912677 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTT TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T
912718 ATATATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:918535 original size:20 final size:20
Alignment explanation
Indices: 918510--918547 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
918500 ATTCATCCTA
918510 GTTCATCCAGTAACGATATT
1 GTTCATCCAGTAACGATATT
*
918530 GTTCATCCAGTATCGATA
1 GTTCATCCAGTAACGATA
918548 CTTGAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (20 bp):
GTTCATCCAGTAACGATATT
Found at i:920268 original size:36 final size:36
Alignment explanation
Indices: 920228--920297 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
920218 ATCATTCAGT
*
920228 GTATAACATTCGACTTAATTTAAAAGATATGTATGA
1 GTATAAAATTCGACTTAATTTAAAAGATATGTATGA
* *
920264 GTATAAAATTCGACTTAATTTAGAGGATATGTAT
1 GTATAAAATTCGACTTAATTTAAAAGATATGTAT
920298 ATTTATAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (36 bp):
GTATAAAATTCGACTTAATTTAAAAGATATGTATGA
Found at i:923460 original size:6 final size:6
Alignment explanation
Indices: 923449--923478 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
923439 AAGCAACTTT
923449 GCATTG GCATTG GCATTG GCATTG GCATTG
1 GCATTG GCATTG GCATTG GCATTG GCATTG
923479 AACCATACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (6 bp):
GCATTG
Found at i:925263 original size:2 final size:2
Alignment explanation
Indices: 925256--925294 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
925246 CATGCATTCA
925256 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
925295 GTAGGTAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:930551 original size:20 final size:20
Alignment explanation
Indices: 930526--930563 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
930516 TTTGGTTCAC
930526 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
930546 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
930564 GGAATAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:932168 original size:20 final size:22
Alignment explanation
Indices: 932130--932169 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
932120 TTTTTGTTGA
932130 AAAACAATCCCCAAACGGCTCT
1 AAAACAATCCCCAAACGGCTCT
932152 AAAAC-ATCCCC-AACGGCT
1 AAAACAATCCCCAAACGGCT
932170 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 6 0.33
22 5 0.28
ACGTcount: A:0.40, C:0.38, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAACAATCCCCAAACGGCTCT
Found at i:933136 original size:22 final size:23
Alignment explanation
Indices: 933101--933143 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
933091 TCAAGCGCTT
933101 ATTTTTTCTCTCTTTTTTTTTTG
1 ATTTTTTCTCTCTTTTTTTTTTG
933124 ATTTTTTCT-TCTTTTTTTTT
1 ATTTTTTCTCTCTTTTTTTTT
933144 AAATTTCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (23 bp):
ATTTTTTCTCTCTTTTTTTTTTG
Found at i:933149 original size:22 final size:23
Alignment explanation
Indices: 933101--933149 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
933091 TCAAGCGCTT
**
933101 ATTTTTTCTCTCTTTTTTTTTTG
1 ATTTTTTCTCTCTTTTTTTTTAA
933124 ATTTTTTCT-TCTTTTTTTTTAA
1 ATTTTTTCTCTCTTTTTTTTTAA
933146 ATTT
1 ATTT
933150 CTTCCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (23 bp):
ATTTTTTCTCTCTTTTTTTTTAA
Found at i:933790 original size:14 final size:14
Alignment explanation
Indices: 933745--933781 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
933735 ACCTGTGTAT
933745 AAAAAAAT--ATAA
1 AAAAAAATAAATAA
*
933757 AGAAAAATAAATAA
1 AAAAAAATAAATAA
933771 AAAAAAATAAA
1 AAAAAAATAAA
933782 ATAATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 7 0.33
14 14 0.67
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (14 bp):
AAAAAAATAAATAA
Found at i:936205 original size:59 final size:58
Alignment explanation
Indices: 936116--936278 Score: 211
Period size: 59 Copynumber: 2.8 Consensus size: 58
936106 AAATGGCACT
* * *
936116 TTGTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGACA-C
1 TTGTGTGCTAAAGGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGACACC
** *** * *
936173 TTCGTGTGCTAACATTATAAGAAATTCATACTAAGTGTATGAATTTTTGTATTGGGCACC
1 TT-GTGTGCTAA-AGGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGACACC
936233 TTGTGTGCTAAAGGATAAGAAATTCATACTAAGTGTATGAATTTCC
1 TTGTGTGCTAAAGGATAAGAAATTCATACTAAGTGTATGAATTTCC
936279 TTATGGGAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
57 2 0.02
58 39 0.43
59 47 0.52
60 3 0.03
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (58 bp):
TTGTGTGCTAAAGGATAAGAAATTCATACTAAGTGTATGAATTTCCATATAGGACACC
Found at i:936910 original size:32 final size:32
Alignment explanation
Indices: 936806--936910 Score: 81
Period size: 32 Copynumber: 3.2 Consensus size: 32
936796 TGATAGAAAG
*
936806 GTGTCATTTATGCCAGTTAGATGAAAGACTAA
1 GTGTCATTTATGCCAGTTAGATGAAATACTAA
* ** *
936838 GTGTC-TTTGAGGCCTAACT-G-TGCATATGACATAAA
1 GTGTCATTT-ATGCC-AGTTAGATG-AAAT-AC-T-AA
936873 GGTGTCATTTATGCCAGTTAGATGAAATACTAA
1 -GTGTCATTTATGCCAGTTAGATGAAATACTAA
936906 GTGTC
1 GTGTC
936911 TTTGAGGCCT
Statistics
Matches: 54, Mismatches: 9, Indels: 20
0.65 0.11 0.24
Matches are distributed among these distances:
31 5 0.09
32 17 0.31
33 6 0.11
34 2 0.04
35 6 0.11
36 13 0.24
37 5 0.09
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (32 bp):
GTGTCATTTATGCCAGTTAGATGAAATACTAA
Found at i:936984 original size:68 final size:68
Alignment explanation
Indices: 936642--936966 Score: 535
Period size: 68 Copynumber: 4.8 Consensus size: 68
936632 AAAAGATTAA
*
936642 GAGGCCTAACTGTGCATATGACAGAAAGGTGTTATTTATGCCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
936707 TTT
66 TTT
* * * *
936710 GAGGCCTAACTATGCATATGACAGAAAGTTGTCATTTATGCCAGTTAGATAAAAGACTAGGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
936775 TTT
66 TTT
*
936778 GAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
936843 TTT
66 TTT
* *
936846 GAGGCCTAACTGTGCATATGACATAAAGGTGTCATTTATGCCAGTTAGATGAAATACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
936911 TTT
66 TTT
* * *
936914 GAGGCCTAACTGTGCA-ATTGGCAGAAAGGTGTCAATTATACCAGTTAGATGAA
1 GAGGCCTAACTGTGCATA-TGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
936967 TGGTTAAGTA
Statistics
Matches: 239, Mismatches: 17, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
67 1 0.00
68 238 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (68 bp):
GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
TTT
Found at i:937053 original size:81 final size:81
Alignment explanation
Indices: 936917--937095 Score: 261
Period size: 81 Copynumber: 2.2 Consensus size: 81
936907 TGTCTTTGAG
* *
936917 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATACCAGTTAGATGAATGGTTAAGTACCGTT
1 GCCTAACTGTGCAATTGGCAGAAAAGTGTCAATTATACCAGTTAGATGAACGGTTAAGTACCGTT
936982 GAGTAAAAGAATAATA
66 GAGTAAAAGAATAATA
* * * *
936998 GCCTAACTGTGCATTTGGCATAAAAGTGTCAATTTTGA-CAGTTAGATGAACGGTTAAGTACTGT
1 GCCTAACTGTGCAATTGGCAGAAAAGTGTCAATTAT-ACCAGTTAGATGAACGGTTAAGTACCGT
*
937062 TGAGTAAAAGAATAATG
65 TGAGTAAAAGAATAATA
* *
937079 GCCTAACTATGAAATTG
1 GCCTAACTGTGCAATTG
937096 ATAGAAAGGT
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 86 0.99
82 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (81 bp):
GCCTAACTGTGCAATTGGCAGAAAAGTGTCAATTATACCAGTTAGATGAACGGTTAAGTACCGTT
GAGTAAAAGAATAATA
Found at i:937112 original size:81 final size:81
Alignment explanation
Indices: 936917--937125 Score: 246
Period size: 81 Copynumber: 2.6 Consensus size: 81
936907 TGTCTTTGAG
* * * * *
936917 GCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTAT-ACCAGTTAGATGAATGGTTAAGTACCGT
1 GCCTAACTATGAAATTGGCATAAAAGTGTCAATTATGA-CAGTTAGATGAACGGTTAAGTACCGT
936981 TGAGTAAAAGAATAATA
65 TGAGTAAAAGAATAATA
* * * * *
936998 GCCTAACTGTGCATTTGGCATAAAAGTGTCAATTTTGACAGTTAGATGAACGGTTAAGTACTGTT
1 GCCTAACTATGAAATTGGCATAAAAGTGTCAATTATGACAGTTAGATGAACGGTTAAGTACCGTT
*
937063 GAGTAAAAGAATAATG
66 GAGTAAAAGAATAATA
*
937079 GCCTAACTATGAAATT-G-ATAGAAAG-GTACCAATTATGTCAGTTAGAT
1 GCCTAACTATGAAATTGGCATA-AAAGTGT--CAATTATGACAGTTAGAT
937126 ACCGTTGAGT
Statistics
Matches: 112, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
79 5 0.04
80 5 0.04
81 101 0.90
82 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (81 bp):
GCCTAACTATGAAATTGGCATAAAAGTGTCAATTATGACAGTTAGATGAACGGTTAAGTACCGTT
GAGTAAAAGAATAATA
Found at i:940550 original size:59 final size:58
Alignment explanation
Indices: 940468--940629 Score: 213
Period size: 59 Copynumber: 2.8 Consensus size: 58
940458 AAATGACACT
* *
940468 TTGTGTGC-AAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCA-C
1 TTGTGTGCTAAAGGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACC
* * * *
940524 TTCGTGTTCTAACATGATAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACC
1 TT-GTGTGCTAA-AGGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACC
*
940584 TTGTGTGCTAAAGGATAAGAAATTCATACTATA-TTTATGAATTTCC
1 TTGTGTGCTAAAGGATAAGAAATTCATACTA-AGTGTATGAATTTCC
940630 TTATGGGAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
56 2 0.02
57 5 0.05
58 32 0.34
59 51 0.55
60 3 0.03
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (58 bp):
TTGTGTGCTAAAGGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACC
Found at i:949831 original size:24 final size:24
Alignment explanation
Indices: 949799--949861 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
949789 CAGTCGAAAC
*
949799 TGCCGCATAGAATTTACACCAAAG
1 TGCCACATAGAATTTACACCAAAG
* * *
949823 TGCCACATAGAATATGCACCGAAG
1 TGCCACATAGAATTTACACCAAAG
949847 TGCCACATAG-ATTTA
1 TGCCACATAGAATTTA
949862 TCCCGAAGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 3 0.09
24 30 0.91
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (24 bp):
TGCCACATAGAATTTACACCAAAG
Found at i:949907 original size:23 final size:23
Alignment explanation
Indices: 949825--949914 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 23
949815 CACCAAAGTG
**
949825 CCACATAGAATATG-CACCGAAGTG
1 CCACATAGAAT-TGTC-CCGAAGAA
* * *
949849 CCACATAGATTTATCCCGAAGGA
1 CCACATAGAATTGTCCCGAAGAA
*
949872 CCTCATAGAATTGTCCCGAAGAA
1 CCACATAGAATTGTCCCGAAGAA
*
949895 CCACATAGAATTGCCCCGAA
1 CCACATAGAATTGTCCCGAA
949915 CGACCGCGTA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
23 44 0.80
24 11 0.20
ACGTcount: A:0.36, C:0.28, G:0.18, T:0.19
Consensus pattern (23 bp):
CCACATAGAATTGTCCCGAAGAA
Found at i:956474 original size:24 final size:24
Alignment explanation
Indices: 956446--956529 Score: 102
Period size: 24 Copynumber: 3.5 Consensus size: 24
956436 CATTCGAAAC
*
956446 TGCCACGTAGAATTTGCACCAAAG
1 TGCCACGTAGAATTTGCACCGAAG
*
956470 TGCCACGTAGAATATGCACCGAAG
1 TGCCACGTAGAATTTGCACCGAAG
*
956494 TGCCACATA-AATTTGTC-CCGAAG
1 TGCCACGTAGAATTTG-CACCGAAG
956517 -GACCACGTAGAAT
1 TG-CCACGTAGAAT
956530 CCTCGACTCT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
22 1 0.02
23 17 0.33
24 34 0.65
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.20
Consensus pattern (24 bp):
TGCCACGTAGAATTTGCACCGAAG
Found at i:961863 original size:39 final size:39
Alignment explanation
Indices: 961804--961904 Score: 141
Period size: 39 Copynumber: 2.6 Consensus size: 39
961794 AAGGTTAAAC
* * *
961804 AAGTTCTTTTCATTATGAACTTCTT-ATTCCTCTTCAGAT
1 AAGTTCTTCTAATTACGAACTT-TTCATTCCTCTTCAGAT
*
961843 AAGTTCTTCTAATTACGAACTTTTCCTTCCTCTTCAGAT
1 AAGTTCTTCTAATTACGAACTTTTCATTCCTCTTCAGAT
*
961882 AAGTTCTTCTTATTACGAACTTT
1 AAGTTCTTCTAATTACGAACTTT
961905 CTCTGGAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 2 0.04
39 54 0.96
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.47
Consensus pattern (39 bp):
AAGTTCTTCTAATTACGAACTTTTCATTCCTCTTCAGAT
Found at i:961990 original size:112 final size:112
Alignment explanation
Indices: 961843--962394 Score: 678
Period size: 112 Copynumber: 4.8 Consensus size: 112
961833 CTCTTCAGAT
* * *
961843 AAGTTCTTCTAATTACGAACTT-TTCCTTCCTCTTCAGATAAGTTCTTCTTATTACGAACTTTCT
1 AAGTTCTTCTCATTATGAACTTCTT-CTTCCTCTTCAGATAAGTTCTTCTCATTACGAACTTTCT
*
961907 CTGGAAAAGTTGATCCATCGAGTAATGAATTCAAACAAAAGGTTAAAC
65 CTGGAAAAGTTGATCCATCGAGTAATGAATTCAAACAAAAGGTTGAAC
* *
961955 AAGTTCTTTTCATTATGAACTTCGTCTTCCTCTTCAGATAAGTTCTTCTCATTACGAACTTTCTC
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTACGAACTTTCTC
* * **
962020 TGGAAAAGTTGATTCATC-ACTAGATGAATTTGAACAAAAGGTTGAAC
66 TGGAAAAGTTGATCCATCGAGTA-ATGAATTCAAACAAAAGGTTGAAC
*
962067 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTACGAACTTTCT
1 AAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTACGAACTTTCT
* ** * * **
962132 CTGGAAAAGTTGGTGTTGATCTATCTCCTTCTGTGAT-AGAGTCATGCAAAAGGTTGAAC
65 CTGGAAAA------GTTGATCCA--T-C--GAGTAATGA-ATTCAAACAAAAGGTTGAAC
*
962191 AAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTACGAACTTTCTC
1 AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTACGAACTTTCTC
* * * * **
962256 TAGAAAAGTTGATTCATCTAGTGATGAATTTGAACAAAAGGTTGAAC
66 TGGAAAAGTTGATCCATCGAGTAATGAATTCAAACAAAAGGTTGAAC
* *
962303 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTGCGAACTTTCT
1 AAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTACGAACTTTCT
* *
962368 CTGAAAAAGTTGATCCATTGAGTAATG
65 CTGGAAAAGTTGATCCATCGAGTAATG
962395 GACTCAAATC
Statistics
Matches: 378, Mismatches: 44, Indels: 35
0.83 0.10 0.08
Matches are distributed among these distances:
111 3 0.01
112 173 0.46
113 96 0.25
114 1 0.00
115 1 0.00
117 7 0.02
119 7 0.02
121 1 0.00
122 1 0.00
123 41 0.11
124 46 0.12
125 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (112 bp):
AAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTACGAACTTTCTC
TGGAAAAGTTGATCCATCGAGTAATGAATTCAAACAAAAGGTTGAAC
Found at i:962284 original size:236 final size:236
Alignment explanation
Indices: 961942--962379 Score: 788
Period size: 236 Copynumber: 1.9 Consensus size: 236
961932 TGAATTCAAA
* *
961942 CAAAAGGTTAAACAAGTTCTTTTCATTATGAACTTCGTCTTCCTCTTCAGATAAGTTCTTCTCAT
1 CAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTCGTCTTCCTCTTCAGATAAGTTCTTCTCAT
*
962007 TACGAACTTTCTCTGGAAAAGTTGATTCATCACTAGATGAATTTGAACAAAAGGTTGAACAAGTT
66 TACGAACTTTCTCTAGAAAAGTTGATTCATCACTAGATGAATTTGAACAAAAGGTTGAACAAGTT
*
962072 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTACGAACTTTCTCTGGA
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTACGAACTTTCTCTGAA
962137 AAAGTTGGTGTTGATCTATCTCCTTCTGTGATAGAGTCATG
196 AAAGTTGGTGTTGATCTATCTCCTTCTGTGATAGAGTCATG
* *
962178 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCAT
1 CAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTCGTCTTCCTCTTCAGATAAGTTCTTCTCAT
*
962243 TACGAACTTTCTCTAGAAAAGTTGATTCATCTAGT-GATGAATTTGAACAAAAGGTTGAACAAGT
66 TACGAACTTTCTCTAGAAAAGTTGATTCATC-ACTAGATGAATTTGAACAAAAGGTTGAACAAGT
*
962307 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTGCGAACTTTCTCTGA
130 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTACGAACTTTCTCTGA
962372 AAAAGTTG
195 AAAAGTTG
962380 ATCCATTGAG
Statistics
Matches: 193, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
236 191 0.99
237 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (236 bp):
CAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTCGTCTTCCTCTTCAGATAAGTTCTTCTCAT
TACGAACTTTCTCTAGAAAAGTTGATTCATCACTAGATGAATTTGAACAAAAGGTTGAACAAGTT
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTACGAACTTTCTCTGAA
AAAGTTGGTGTTGATCTATCTCCTTCTGTGATAGAGTCATG
Found at i:963968 original size:10 final size:10
Alignment explanation
Indices: 963955--963987 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
963945 TTTTTTATCA
963955 TTTTCATTTT
1 TTTTCATTTT
963965 TTTTC-TTTT
1 TTTTCATTTT
963974 CTTTTCATTTT
1 -TTTTCATTTT
963985 TTT
1 TTT
963988 CTTTCTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 4 0.19
10 13 0.62
11 4 0.19
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTCATTTT
Found at i:966816 original size:17 final size:19
Alignment explanation
Indices: 966784--966821 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
966774 GATTATACCC
966784 TGAAAAGCCATCCATG-AA
1 TGAAAAGCCATCCATGTAA
*
966802 TGAAAA-CCATGCATGTAA
1 TGAAAAGCCATCCATGTAA
966820 TG
1 TG
966822 CAGTATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.21
Consensus pattern (19 bp):
TGAAAAGCCATCCATGTAA
Found at i:971243 original size:14 final size:16
Alignment explanation
Indices: 971226--971257 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
971216 TTATTTTTTT
971226 TGAAT-TTTAT-TTAA
1 TGAATGTTTATCTTAA
971240 TGAATGTTTATCTTAA
1 TGAATGTTTATCTTAA
971256 TG
1 TG
971258 TAAAATGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 5 0.31
16 6 0.38
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.53
Consensus pattern (16 bp):
TGAATGTTTATCTTAA
Found at i:976573 original size:22 final size:22
Alignment explanation
Indices: 976548--976606 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
976538 GGTAACCCTA
*
976548 GGTGAGTCACCATAGCTATGGT
1 GGTGACTCACCATAGCTATGGT
976570 GGTGACTCACCATAGCTATGGT
1 GGTGACTCACCATAGCTATGGT
976592 GGTGACTCACCATAG
1 GGTGACTCACCATAG
976607 AGCTCGACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (22 bp):
GGTGACTCACCATAGCTATGGT
Found at i:976810 original size:3 final size:3
Alignment explanation
Indices: 976802--976872 Score: 110
Period size: 3 Copynumber: 24.0 Consensus size: 3
976792 TAGTATTTTT
*
976802 TAA TAA TAA TAA TAA TAA TAA -AA TAA TAA TAG TAA TAAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
976846 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
976873 CAAATGGATG
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
2 4 0.06
3 56 0.89
4 3 0.05
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:981543 original size:23 final size:23
Alignment explanation
Indices: 981499--981554 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
981489 CACTGAAATG
**
981499 CCACATAGAAATATCCTGAAGGA
1 CCACATAGAAATATCCCAAAGGA
*
981522 CCACATAGAATTATCCCAAAGGA
1 CCACATAGAAATATCCCAAAGGA
**
981545 CTGCATAGAA
1 CCACATAGAA
981555 CCCTCGACTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (23 bp):
CCACATAGAAATATCCCAAAGGA
Found at i:982782 original size:13 final size:13
Alignment explanation
Indices: 982764--982790 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
982754 TAATCACTCA
982764 TAACTTATTCATC
1 TAACTTATTCATC
982777 TAACTTATTCATC
1 TAACTTATTCATC
982790 T
1 T
982791 TTTAGTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (13 bp):
TAACTTATTCATC
Found at i:986398 original size:21 final size:21
Alignment explanation
Indices: 986373--986418 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
986363 AAAATTTTAC
986373 ATTTGTTCTACATATAAAATA
1 ATTTGTTCTACATATAAAATA
986394 ATTTGTTCTACATATAAAATA
1 ATTTGTTCTACATATAAAATA
986415 ATTT
1 ATTT
986419 CGTTAACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (21 bp):
ATTTGTTCTACATATAAAATA
Found at i:986732 original size:46 final size:46
Alignment explanation
Indices: 986660--986778 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 46
986650 ATTATGTTTG
* *** *
986660 TTTCATGAAAATTATATTTCGAAAAATAAATTTTGTAAAGTAAATTACA
1 TTTCATGAAAA-TATATTT-TAAAAAT-AATTCCATAAACTAAATTACA
986709 TTTCATGAAAATAT-TTTTAAAAATAATTCCATAAACTAAATTACA
1 TTTCATGAAAATATATTTTAAAAATAATTCCATAAACTAAATTACA
** * *
986754 TTTCATGGGAATATGTTTTGAAAAT
1 TTTCATGAAAATATATTTTAAAAAT
986779 CATTTTACAA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
45 29 0.48
46 15 0.25
47 3 0.05
48 3 0.05
49 11 0.18
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (46 bp):
TTTCATGAAAATATATTTTAAAAATAATTCCATAAACTAAATTACA
Found at i:987088 original size:34 final size:34
Alignment explanation
Indices: 987004--987087 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 34
986994 TCATTAAAAT
* * *
987004 AAAAT-TATTATAAATT-ATATTAATTATTTATTA
1 AAAATATATTAT-TATTAATATCAATTACTTATTA
987037 AAAATATATTATTATTAATATCAATTACTTATTA
1 AAAATATATTATTATTAATATCAATTACTTATTA
987071 AATTAATAATATTATTA
1 AA--AAT-ATATTATTA
987088 AAATATTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
33 8 0.19
34 23 0.53
36 3 0.07
37 9 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (34 bp):
AAAATATATTATTATTAATATCAATTACTTATTA
Found at i:987543 original size:41 final size:41
Alignment explanation
Indices: 987486--987567 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
987476 AAACAAACCC
987486 TAATTGTTCAATCCCATTCTGAATTGGTTAAGTTGAAATGA
1 TAATTGTTCAATCCCATTCTGAATTGGTTAAGTTGAAATGA
987527 TAATTGTTCAATCCCATTCTGAATTGGTTAAGTTGAAATGA
1 TAATTGTTCAATCCCATTCTGAATTGGTTAAGTTGAAATGA
987568 ATACTAGGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (41 bp):
TAATTGTTCAATCCCATTCTGAATTGGTTAAGTTGAAATGA
Found at i:999424 original size:20 final size:20
Alignment explanation
Indices: 999315--999447 Score: 92
Period size: 20 Copynumber: 6.7 Consensus size: 20
999305 GTTTCCAGAT
999315 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
* ** **
999335 TTGCATTGCGATTTTCCAACTA
1 TCGCAACGCGA--TTCTGACTA
* * *
999357 TCGCAATGCGAAT-TGTA-AA
1 TCGCAACGCGATTCTG-ACTA
* * *
999376 TCGCAATGCGAGTATGACTA
1 TCGCAACGCGATTCTGACTA
999396 TC-CAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
* *
999415 TCGTAACGCGATGCTGACTA
1 TCGCAACGCGATTCTGACTA
*
999435 TCGCAATGCGATT
1 TCGCAACGCGATT
999448 TTCAAAGCGC
Statistics
Matches: 86, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
19 30 0.35
20 40 0.47
22 16 0.19
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTA
Found at i:999646 original size:22 final size:23
Alignment explanation
Indices: 999619--999663 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
999609 CGACATCCGT
999619 CCCCATCTCCGACGAAAT-AGTC
1 CCCCATCTCCGACGAAATCAGTC
*
999641 CCCCATCTCCGGCGAAATCAGTC
1 CCCCATCTCCGACGAAATCAGTC
999664 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.24, C:0.42, G:0.16, T:0.18
Consensus pattern (23 bp):
CCCCATCTCCGACGAAATCAGTC
Found at i:1000100 original size:20 final size:19
Alignment explanation
Indices: 1000059--1000108 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
1000049 TTAGTTTCGC
** *
1000059 GTTGCGATAGTCATTTCGT
1 GTTGCGATTTTCATTTCAT
1000078 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCA-TTTCAT
1000098 GTTGCGATTTT
1 GTTGCGATTTT
1000109 AAGTTTCAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.14, C:0.14, G:0.22, T:0.50
Consensus pattern (19 bp):
GTTGCGATTTTCATTTCAT
Found at i:1000115 original size:20 final size:20
Alignment explanation
Indices: 1000042--1000116 Score: 73
Period size: 19 Copynumber: 3.9 Consensus size: 20
1000032 AAAATCGCAA
**
1000042 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCAGTTTCATGT
** *
1000061 TGCGATAGTCA-TTTCGTGT
1 TGCGATTTTCAGTTTCATGT
*
1000080 TGCGATTTTCATTTTCATGT
1 TGCGATTTTCAGTTTCATGT
*
1000100 TGCGATTTTAAGTTTCA
1 TGCGATTTTCAGTTTCA
1000117 GAAACTATTC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
19 23 0.50
20 23 0.50
ACGTcount: A:0.16, C:0.15, G:0.21, T:0.48
Consensus pattern (20 bp):
TGCGATTTTCAGTTTCATGT
Found at i:1001776 original size:18 final size:15
Alignment explanation
Indices: 1001735--1001784 Score: 73
Period size: 15 Copynumber: 3.1 Consensus size: 15
1001725 GATGATAAAT
1001735 TTAATTTCACTTAGA
1 TTAATTTCACTTAGA
1001750 TTAATTTCACTTAGA
1 TTAATTTCACTTAGA
1001765 TTAACCATTTCACTTAGA
1 TT-A--ATTTCACTTAGA
1001783 TT
1 TT
1001785 GCTTAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 17 0.53
16 1 0.03
18 14 0.44
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.46
Consensus pattern (15 bp):
TTAATTTCACTTAGA
Found at i:1001925 original size:20 final size:20
Alignment explanation
Indices: 1001900--1001956 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
1001890 GTTTCAATTT
*
1001900 ACGTTGTGATAGTCATTTTC
1 ACGTTGCGATAGTCATTTTC
1001920 ACGTTGCGATAGTCATTTTC
1 ACGTTGCGATAGTCATTTTC
*
1001940 AAGTTGCGATAGTCATT
1 ACGTTGCGATAGTCATT
1001957 CGTGTTGCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (20 bp):
ACGTTGCGATAGTCATTTTC
Found at i:1002540 original size:42 final size:42
Alignment explanation
Indices: 1002440--1002550 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
1002430 CCCGACTCAC
* * * *
1002440 CTGTCATCGTTCAAGAGTCCTCC-CCTATCGTTCAATAGACCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGACCA
* ** *
1002482 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGACCA
*
1002524 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
1002551 ACATTCTAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.93
43 2 0.04
ACGTcount: A:0.22, C:0.38, G:0.16, T:0.24
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGACCA
Found at i:1004157 original size:20 final size:20
Alignment explanation
Indices: 1004120--1004158 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1004110 ATGCTAAACT
* *
1004120 CAAAATCGCAATGTGAAAGA
1 CAAAATCGCAACGCGAAAGA
1004140 CAAAATCGCAACGCGAAAG
1 CAAAATCGCAACGCGAAAG
1004159 TCAATTCGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.21, G:0.21, T:0.10
Consensus pattern (20 bp):
CAAAATCGCAACGCGAAAGA
Found at i:1004210 original size:34 final size:34
Alignment explanation
Indices: 1004167--1004303 Score: 148
Period size: 34 Copynumber: 3.9 Consensus size: 34
1004157 AGTCAATTCG
* *
1004167 CGTTGCGATAGTCTAATACGCTTTGCGATTTTCT
1 CGTTGCGATAGTCAAATACGCGTTGCGATTTTCT
* *
1004201 CGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATACGCGTTGCGAT--T----TTCT
* *
1004241 CGTTGCGATAGTCAAATTCGCGTTGCAATTTTCT
1 CGTTGCGATAGTCAAATACGCGTTGCGATTTTCT
* *
1004275 CGTTGCGATAGACAAATTCGCGTTGCGAT
1 CGTTGCGATAGTCAAATACGCGTTGCGAT
1004304 AGTCATATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
34 56 0.64
36 1 0.01
38 1 0.01
40 29 0.33
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATACGCGTTGCGATTTTCT
Found at i:1004226 original size:20 final size:20
Alignment explanation
Indices: 1004201--1004391 Score: 205
Period size: 20 Copynumber: 9.8 Consensus size: 20
1004191 GCGATTTTCT
* *
1004201 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
*
1004221 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
1004241 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
1004261 CGTTGC-A-A-T---TTTCT
1 CGTTGCGATAGTCAAATTCG
*
1004275 CGTTGCGATAGACAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
1004295 CGTTGCGATAGTCATATTCA
1 CGTTGCGATAGTCAAATTCG
* *
1004315 AGTTGTGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
1004335 CGTTACGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
1004355 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* * *
1004375 CATTGTGATATTCAAAT
1 CGTTGCGATAGTCAAAT
1004392 GAATGTGTAA
Statistics
Matches: 140, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
14 9 0.06
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 1 0.01
20 126 0.90
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:1004279 original size:54 final size:56
Alignment explanation
Indices: 1004157--1004375 Score: 191
Period size: 54 Copynumber: 3.9 Consensus size: 56
1004147 GCAACGCGAA
* * * * ** ***
1004157 AGTC-AATTCGCGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCGTT-GCG-AT
1 AGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTAT
* *
1004210 AGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGT-T
1 AGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTAT
* * * *
1004265 -G-CAATTTTCTCGTTGCGATAGA-CAAATTCGCGTTGCGATAGTCATATTCAAGTTGTGAT
1 AGTCAA-ATTCGCGTTGCGATA-ATCAAATTCGCGTTGCGATAGTCAAATTC--G-CGT-AT
*
1004324 AGTCAAATTCGCGTTACGATAATCAAATTCGCGTTGCGATAGTCAAATTCGC
1 AGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGC
1004376 ATTGTGATAT
Statistics
Matches: 132, Mismatches: 21, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
53 7 0.05
54 72 0.55
55 5 0.04
56 1 0.01
57 2 0.02
58 1 0.01
59 2 0.02
60 39 0.30
61 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (56 bp):
AGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTAT
Found at i:1004282 original size:74 final size:74
Alignment explanation
Indices: 1004161--1004338 Score: 248
Period size: 74 Copynumber: 2.4 Consensus size: 74
1004151 CGCGAAAGTC
* * * * *
1004161 AATTCGCGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCAATTTTCTCGTTGCGATAGACAAATACCCGTTG
1004226 CGATAATCA
66 CGATAATCA
* *
1004235 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCAATTTTCTCGTTGCGATAGACAAATTCGCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCAATTTTCTCGTTGCGATAGACAAATACCCGTTG
*
1004300 CGATAGTCA
66 CGATAATCA
* ** *
1004309 TATTCAAGTTGTGATAGTCAAATTCGCGTT
1 AATTCGCGTTGCGATAGTCAAATTCGCGTT
1004339 ACGATAATCA
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 92 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (74 bp):
AATTCGCGTTGCGATAGTCAAATTCGCGTTGCAATTTTCTCGTTGCGATAGACAAATACCCGTTG
CGATAATCA
Found at i:1004372 original size:40 final size:40
Alignment explanation
Indices: 1004161--1004391 Score: 216
Period size: 40 Copynumber: 6.1 Consensus size: 40
1004151 CGCGAAAGTC
* * *
1004161 AATTCGCGTTGCGATAGTCTAATACGCTTTGCGAT--T--
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAATCA
* * *
1004197 --TTCTCGTTGCGATAGTCAAATACCCGTTGCGATAATCA
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAATCA
1004235 AATTCGCGTTGCGATAGTCAAATTCGCGTTGC---AAT--
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAATCA
* * * *
1004270 -TTTCTCGTTGCGATAGACAAATTCGCGTTGCGATAGTCA
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAATCA
* ** * *
1004309 TATTCAAGTTGTGATAGTCAAATTCGCGTTACGATAATCA
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAATCA
* * *
1004349 AATTCGCGTTGCGATAGTCAAATTCGCATTGTGATATTCA
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAATCA
1004389 AAT
1 AAT
1004392 GAATGTGTAA
Statistics
Matches: 157, Mismatches: 26, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
34 57 0.36
36 1 0.01
37 5 0.03
40 94 0.60
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (40 bp):
AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAATCA
Found at i:1004614 original size:140 final size:140
Alignment explanation
Indices: 1004362--1004631 Score: 504
Period size: 140 Copynumber: 1.9 Consensus size: 140
1004352 TCGCGTTGCG
* *
1004362 ATAGTCAAATTCGCATTGTGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCATTGCGATATTCAAATGAATATGTAATAAGTGATAACAACTGAACATATCA
*
1004427 TAGCAATGTTTAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
1004492 AATACACATA
131 AATACACATA
1004502 ATAGTCAAATTCGCATTGCGATATTCAAATGAATATGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCATTGCGATATTCAAATGAATATGTAATAAGTGATAACAACTGAACATATCA
*
1004567 TAGCAATGTTCAAACTCAAGTTACTAATACGTGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
1004632 TACAACGTTT
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 126 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.30
Consensus pattern (140 bp):
ATAGTCAAATTCGCATTGCGATATTCAAATGAATATGTAATAAGTGATAACAACTGAACATATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:1006769 original size:14 final size:14
Alignment explanation
Indices: 1006750--1006786 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1006740 TCCCGTGGCA
1006750 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
1006764 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
1006778 TTCTTCTTC
1 TT-TTCTTC
1006787 TTATTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:1007878 original size:20 final size:20
Alignment explanation
Indices: 1007853--1007915 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
1007843 AAATTCAGTG
*
1007853 TTGCGACAGTCAGAATCGCA
1 TTGCGATAGTCAGAATCGCA
1007873 TTGCGATAGTCAGAATCGCA
1 TTGCGATAGTCAGAATCGCA
* *
1007893 TTGTGATAGTCATAATCGCA
1 TTGCGATAGTCAGAATCGCA
1007913 TTG
1 TTG
1007916 TGATTTACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCA
Found at i:1007916 original size:20 final size:20
Alignment explanation
Indices: 1007860--1007919 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
1007850 GTGTTGCGAC
*
1007860 AGTCAGAATCGCATTGCGAT
1 AGTCAGAATCGCATTGTGAT
1007880 AGTCAGAATCGCATTGTGAT
1 AGTCAGAATCGCATTGTGAT
*
1007900 AGTCATAATCGCATTGTGAT
1 AGTCAGAATCGCATTGTGAT
1007920 TTACATATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (20 bp):
AGTCAGAATCGCATTGTGAT
Found at i:1007926 original size:20 final size:20
Alignment explanation
Indices: 1007888--1007995 Score: 137
Period size: 20 Copynumber: 5.4 Consensus size: 20
1007878 ATAGTCAGAA
* *
1007888 TCGCATTGTGATAGT-CATAA
1 TCGCATTGTGAT-TTACATAT
1007908 TCGCATTGTGATTTACATAT
1 TCGCATTGTGATTTACATAT
* * *
1007928 TCACATTGCGATTTATATAT
1 TCGCATTGTGATTTACATAT
*
1007948 TCGCATTATGATTTACATAT
1 TCGCATTGTGATTTACATAT
*
1007968 TCGCATTGCGATTTACATAT
1 TCGCATTGTGATTTACATAT
1007988 TCGCATTG
1 TCGCATTG
1007996 CAATAGTCGT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
19 1 0.01
20 75 0.99
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.42
Consensus pattern (20 bp):
TCGCATTGTGATTTACATAT
Found at i:1009055 original size:15 final size:16
Alignment explanation
Indices: 1009009--1009057 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
1008999 CCTAAAAACT
* *
1009009 ACTTAAATAGAAATTTA
1 ACTTTAATA-AAATATA
1009026 ACTTTAATAAAATATA
1 ACTTTAATAAAATATA
*
1009042 ACTTT-ATCAAATATA
1 ACTTTAATAAAATATA
1009057 A
1 A
1009058 ATTAAATCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 10 0.34
16 11 0.38
17 8 0.28
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (16 bp):
ACTTTAATAAAATATA
Found at i:1017301 original size:19 final size:20
Alignment explanation
Indices: 1017277--1017327 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
1017267 AATGTTTTTG
* *
1017277 TGAATAGTA-CTGTACTGTA
1 TGAATAGTATCGGTAATGTA
1017296 TGAATAGTATCGGTAATGTA
1 TGAATAGTATCGGTAATGTA
*
1017316 TAAATAGTATCG
1 TGAATAGTATCG
1017328 ATACTGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 9 0.32
20 19 0.68
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (20 bp):
TGAATAGTATCGGTAATGTA
Found at i:1017418 original size:21 final size:21
Alignment explanation
Indices: 1017394--1017444 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
1017384 GTGTATCGAT
1017394 ACTGCTACAGTATATCAGTAC
1 ACTGCTACAGTATATCAGTAC
*
1017415 ACTGCTACAGTGTATCAGTAC
1 ACTGCTACAGTATATCAGTAC
1017436 ACTGCTACA
1 ACTGCTACA
1017445 ATAATTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (21 bp):
ACTGCTACAGTATATCAGTAC
Found at i:1019685 original size:299 final size:299
Alignment explanation
Indices: 1019147--1019748 Score: 1177
Period size: 299 Copynumber: 2.0 Consensus size: 299
1019137 TCGATACTCT
* *
1019147 AACTAAGAGTATCGATTCACCTATTCCCCTCATATTCCAATAGCCATTTAGTATATGTACTAAGG
1 AACTAAGAGTATCGATTCACCTATTCCCCTCAGACTCCAATAGCCATTTAGTATATGTACTAAGG
1019212 GTGAGTATCGATACTCAATGACCACTACCGATATTAAAGAGCACAGTATCGATACCATTGCACAG
66 GTGAGTATCGATACTCAATGACCACTACCGATATTAAAGAGCACAGTATCGATACCATTGCACAG
1019277 TTTTGGGCAAGAAACCCAAATGATTAAAGTGTTAGACTCAAGGGGCATAATACCATCAAAACGTT
131 TTTTGGGCAAGAAACCCAAATGATTAAAGTGTTAGACTCAAGGGGCATAATACCATCAAAACGTT
1019342 ACTGAAATAAGACAACAAATGAGAACAATAATAAATGCAGTTACAACTAGAAACAATATTAGCTA
196 ACTGAAATAAGACAACAAATGAGAACAATAATAAATGCAGTTACAACTAGAAACAATATTAGCTA
1019407 TGACCACATAAAACTAGCCTTGATTGTTGCTCGAGAAAC
261 TGACCACATAAAACTAGCCTTGATTGTTGCTCGAGAAAC
1019446 AACTAAGAGTATCGATTCACCTATTCCCCTCAGACTCCAATAGCCATTTAGTATATGTACTAAGG
1 AACTAAGAGTATCGATTCACCTATTCCCCTCAGACTCCAATAGCCATTTAGTATATGTACTAAGG
*
1019511 GTGAGTATCGATACTCAATGACCACTACCGATATTAAAGAGCACAGTATCGGTACCATTGCACAG
66 GTGAGTATCGATACTCAATGACCACTACCGATATTAAAGAGCACAGTATCGATACCATTGCACAG
1019576 TTTTGGGCAAGAAACCCAAATGATTAAAGTGTTAGACTCAAGGGGCATAATACCATCAAAACGTT
131 TTTTGGGCAAGAAACCCAAATGATTAAAGTGTTAGACTCAAGGGGCATAATACCATCAAAACGTT
1019641 ACTGAAATAAGACAACAAATGAGAACAATAATAAATGCAGTTACAACTAGAAACAATATTAGCTA
196 ACTGAAATAAGACAACAAATGAGAACAATAATAAATGCAGTTACAACTAGAAACAATATTAGCTA
1019706 TGACCACATAAAACTAGCCTTGATTGTTGCTCGAGAAAC
261 TGACCACATAAAACTAGCCTTGATTGTTGCTCGAGAAAC
1019745 AACT
1 AACT
1019749 TGGACACTCG
Statistics
Matches: 300, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
299 300 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (299 bp):
AACTAAGAGTATCGATTCACCTATTCCCCTCAGACTCCAATAGCCATTTAGTATATGTACTAAGG
GTGAGTATCGATACTCAATGACCACTACCGATATTAAAGAGCACAGTATCGATACCATTGCACAG
TTTTGGGCAAGAAACCCAAATGATTAAAGTGTTAGACTCAAGGGGCATAATACCATCAAAACGTT
ACTGAAATAAGACAACAAATGAGAACAATAATAAATGCAGTTACAACTAGAAACAATATTAGCTA
TGACCACATAAAACTAGCCTTGATTGTTGCTCGAGAAAC
Found at i:1022490 original size:45 final size:48
Alignment explanation
Indices: 1022386--1022518 Score: 130
Period size: 45 Copynumber: 2.8 Consensus size: 48
1022376 TAAAATGTTT
*** * *
1022386 TTTGTGACTAAATAAATTTATTGCAATTCTTTTATTGTGAAATAAATTA
1 TTTGTGACTAAATAAATTTATCAAAATT-TCTTATTTTGAAATAAATTA
* * * *
1022435 TTTATGACTAAATAAATTTATCATAATTTGTTATTTTGAGA-AAA-TA
1 TTTGTGACTAAATAAATTTATCAAAATTTCTTATTTTGAAATAAATTA
*
1022481 -TTGTGACTAAATATATTTGA-CAAAATTTCTTATTTTGA
1 TTTGTGACTAAATAAATTT-ATCAAAATTTCTTATTTTGA
1022519 CTTCATTTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
45 32 0.44
46 3 0.04
47 3 0.04
48 10 0.14
49 24 0.33
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.47
Consensus pattern (48 bp):
TTTGTGACTAAATAAATTTATCAAAATTTCTTATTTTGAAATAAATTA
Found at i:1022630 original size:34 final size:33
Alignment explanation
Indices: 1022546--1022635 Score: 87
Period size: 33 Copynumber: 2.8 Consensus size: 33
1022536 TTGTTACTAT
* *
1022546 ATAA-ATTTGTTACAATTTTTTATTGTGAAAGA
1 ATAATATTTGTCATAATTTTTTATTGTGAAAGA
*
1022578 ATATTATTTGTCATAATTTTTTATAT-TGAAA-A
1 ATAATATTTGTCATAATTTTTTAT-TGTGAAAGA
* * *
1022610 ATTAATATTTTTCATAAATTTCTATT
1 A-TAATATTTGTCATAATTTTTTATT
1022636 ATCACCAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
32 6 0.12
33 41 0.85
34 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (33 bp):
ATAATATTTGTCATAATTTTTTATTGTGAAAGA
Found at i:1022717 original size:18 final size:18
Alignment explanation
Indices: 1022690--1022727 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1022680 CTAAATAAAA
*
1022690 TTGACAAAATTTCTTATT
1 TTGACAAAATTTATTATT
*
1022708 TTGACTAAATTTATTATT
1 TTGACAAAATTTATTATT
1022726 TT
1 TT
1022728 ATTGTGACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.55
Consensus pattern (18 bp):
TTGACAAAATTTATTATT
Found at i:1022777 original size:55 final size:55
Alignment explanation
Indices: 1022672--1022777 Score: 144
Period size: 55 Copynumber: 1.9 Consensus size: 55
1022662 TTTCAGAAAA
* * *
1022672 TATTGTGACTAAATAAAATTGACAAAATTTCTTATTTTGACTAAATTTATTATTT
1 TATTGTGACTAAATAAAATTGACAAAATTTATTATTGTGACAAAATTTATTATTT
*
1022727 TATTGTGACTAAATAAAATTG-CTACAATTTATTATTGTGA-AAAATATTATT
1 TATTGTGACTAAATAAAATTGAC-AAAATTTATTATTGTGACAAAAT-TTATT
1022778 TTTCATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
54 5 0.11
55 40 0.89
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (55 bp):
TATTGTGACTAAATAAAATTGACAAAATTTATTATTGTGACAAAATTTATTATTT
Found at i:1023033 original size:199 final size:197
Alignment explanation
Indices: 1022443--1023139 Score: 522
Period size: 199 Copynumber: 3.5 Consensus size: 197
1022433 TATTTATGAC
* * * *
1022443 TAAATAAATTTATCATAATTT-GTTATTTTGAGAAAATATTGTGACTAAATATATTTGACAAAAT
1 TAAATAAATTTGTCATAATTTAG-TATTCTGAGAAAATATTATGACTAAATAAATTTGACAAAAT
*** * ** * * * * * **
1022507 TTCTTATTTTGACTTCATTTAATAGGTTATTGTTACTATATAAATTTGTTACAATTTTTTATTGT
65 TTCTTATTTTGACAAAATTCAATATTTTATTGTGACTAAATAAAATTGCTACAATTTATTATCAT
* * * ** * *
1022572 GAAAGAATATTATTTGTCATAATTTTTTATATTGAA-AAATTAATATTT-T-TCA-TAAATTTCT
130 -AAAAAATATCACTTGTCATAAAGTTTTATATT-AAGAAATT--TATTTGTATTAGAAAATTT-T
1022633 AT--T-AT
190 ATCATAAT
* * * ** * * * *
1022638 CACCA-AAA--TATCA-AATTTTTTTATTTTCAGAAAATATTGTGACTAAATAAAATTGACAAAA
1 TA-AATAAATTTGTCATAA-TTTAGTATTCTGAGAAAATATTATGACTAAATAAATTTGACAAAA
* * * **
1022699 TTTCTTATTTTGACTAAATTTATTATTTTATTGTGACTAAATAAAATTGCTACAATTTATTATTG
64 TTTCTTATTTTGACAAAATTCAATATTTTATTGTGACTAAATAAAATTGCTACAATTTATTATCA
* * * * ** * * *
1022764 TGAAAAATATTATTTTTCATAATTTTTTATATTAAGAAATTTATTTGTTTTATAAAATTTTATTA
129 TAAAAAATATCACTTGTCATAAAGTTTTATATTAAGAAATTTATTTGTATTAGAAAATTTTATCA
1022829 TAAT
194 TAAT
* * * ***
1022833 TAAATAAATTTGTCATAATTTGGTATTCTGAGAAACTATTATGACTAAATTAATTTGACACGTTT
1 TAAATAAATTTGTCATAATTTAGTATTCTGAGAAAATATTATGACTAAATAAATTTGACAAAATT
* * ** ** *
1022898 TTTTATTTTGACAAAATTCAATATTTTTATTGTGATTAAATAATTTTTTTATAATTTATTATCAT
66 TCTTATTTTGACAAAATTCAATA-TTTTATTGTGACTAAATAAAATTGCTACAATTTATTATCAT
*
1022963 AAAAAAATATCACTTGTCATAAAGTTTTATATTGAGAAATTTATATT-TATT-GAAAATTATTAT
130 -AAAAAATATCACTTGTCATAAAGTTTTATATTAAGAAATTTAT-TTGTATTAGAAAATT-TTAT
1023026 CATAAT
192 CATAAT
* * * * *
1023032 TAAATAAATTTGTCATAATTTATTATTTTGAGAAAATATTATGAATAAATAAATTTGGCATAATT
1 TAAATAAATTTGTCATAATTTAGTATTCTGAGAAAATATTATGACTAAATAAATTTGACAAAATT
* ** * * * * *
1023097 TTTTATTTTTTCTAAATTTAATATGTTATTGGGAATAAATAAA
66 TCTTATTTTGACAAAATTCAATATTTTATTGTGACTAAATAAA
1023140 TCAATATTAA
Statistics
Matches: 409, Mismatches: 75, Indels: 33
0.79 0.15 0.06
Matches are distributed among these distances:
190 5 0.01
191 3 0.01
192 41 0.10
193 107 0.26
194 2 0.00
195 10 0.02
196 1 0.00
197 59 0.14
198 57 0.14
199 122 0.30
200 2 0.00
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.48
Consensus pattern (197 bp):
TAAATAAATTTGTCATAATTTAGTATTCTGAGAAAATATTATGACTAAATAAATTTGACAAAATT
TCTTATTTTGACAAAATTCAATATTTTATTGTGACTAAATAAAATTGCTACAATTTATTATCATA
AAAAATATCACTTGTCATAAAGTTTTATATTAAGAAATTTATTTGTATTAGAAAATTTTATCATA
AT
Found at i:1023185 original size:20 final size:20
Alignment explanation
Indices: 1023160--1023202 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1023150 ATATCATTAA
**
1023160 AATAAACACAAAATGTTTAG
1 AATAAACACAAAAACTTTAG
*
1023180 AATAAACATAAAAACTTTAG
1 AATAAACACAAAAACTTTAG
1023200 AAT
1 AAT
1023203 GAAATTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.26
Consensus pattern (20 bp):
AATAAACACAAAAACTTTAG
Found at i:1026277 original size:2 final size:2
Alignment explanation
Indices: 1026270--1026355 Score: 172
Period size: 2 Copynumber: 43.0 Consensus size: 2
1026260 AGATTATGAA
1026270 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
1026312 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
1026354 AT
1 AT
1026356 CAGTCATAAT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1028183 original size:25 final size:23
Alignment explanation
Indices: 1028155--1028210 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
1028145 TACAAAATTT
* *
1028155 ACAAATTACAATAATTATTAATTAG
1 ACAAATTAC-ATAATT-TAAATTAC
*
1028180 ACAAATATTCATAATTTAAATTAC
1 ACAAAT-TACATAATTTAAATTAC
1028204 ACAAATT
1 ACAAATT
1028211 TAATATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 12 0.44
25 12 0.44
26 2 0.07
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.36
Consensus pattern (23 bp):
ACAAATTACATAATTTAAATTAC
Found at i:1028790 original size:105 final size:105
Alignment explanation
Indices: 1028664--1028870 Score: 292
Period size: 105 Copynumber: 2.0 Consensus size: 105
1028654 ATTAAAAAGG
* * * * *
1028664 TGAAGAAATGATAATGTAAAAGCTAAAAATAAATAATATTTTAATCATTATAAGCTTCTCATTCA
1 TGAAGAAATGATAATGCAAAAGCTAAAAATAAATAATATTTTAATCAATACAAACTTCTCATGCA
* *
1028729 -CGTTAAACAACATAACACTC-AAAAAATGATTGTGCAGCAT
66 TC-TTAAACAACACAACA-TCAAAAAAATGAGTGTGCAGCAT
* * *
1028769 TGAAGAAATGATGATGCAAAAGTTAAAAGTAAATAATATTTTAATCAATACAAACTTCTCATGCA
1 TGAAGAAATGATAATGCAAAAGCTAAAAATAAATAATATTTTAATCAATACAAACTTCTCATGCA
1028834 TCTTAAACAACACAACATCAAAAAAATGAGTGTGCAG
66 TCTTAAACAACACAACATCAAAAAAATGAGTGTGCAG
1028871 AATTTTCTTT
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
104 2 0.02
105 87 0.97
106 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.28
Consensus pattern (105 bp):
TGAAGAAATGATAATGCAAAAGCTAAAAATAAATAATATTTTAATCAATACAAACTTCTCATGCA
TCTTAAACAACACAACATCAAAAAAATGAGTGTGCAGCAT
Found at i:1034454 original size:5 final size:5
Alignment explanation
Indices: 1034440--1034472 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
1034430 ATAAATGAAT
1034440 AAAT- AAATA AAATA AAATA AAATA AAATA AAAT
1 AAATA AAATA AAATA AAATA AAATA AAATA AAAT
1034473 GATATAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:1036209 original size:17 final size:17
Alignment explanation
Indices: 1036173--1036211 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1036163 ATAAAACAAA
*
1036173 TAAAAATATTTTTTTCC
1 TAAAAATATTTTTCTCC
1036190 TAAAAATCATTTTTCT-C
1 TAAAAAT-ATTTTTCTCC
1036207 TAAAA
1 TAAAA
1036212 TAAATAGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAAAATATTTTTCTCC
Found at i:1036372 original size:3 final size:3
Alignment explanation
Indices: 1036357--1036390 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1036347 AATCAAAGAA
*
1036357 AAT AAT CAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1036391 GAAACAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1041426 original size:19 final size:19
Alignment explanation
Indices: 1041402--1041445 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
1041392 ATTTAACGTT
1041402 AAGTTTTGAAAAAGATTGA
1 AAGTTTTGAAAAAGATTGA
1041421 AAGTTTTGAAAAAGATTGA
1 AAGTTTTGAAAAAGATTGA
1041440 AAGTTT
1 AAGTTT
1041446 AGGTACTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.34
Consensus pattern (19 bp):
AAGTTTTGAAAAAGATTGA
Found at i:1044469 original size:21 final size:21
Alignment explanation
Indices: 1044445--1044487 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1044435 TCCACAAAAG
1044445 AAAGAATGCAAAATCCCTTCA
1 AAAGAATGCAAAATCCCTTCA
1044466 AAAGAATGCAAAATCCCTTCA
1 AAAGAATGCAAAATCCCTTCA
1044487 A
1 A
1044488 TTTGAATCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.23, G:0.09, T:0.19
Consensus pattern (21 bp):
AAAGAATGCAAAATCCCTTCA
Found at i:1047462 original size:13 final size:13
Alignment explanation
Indices: 1047440--1047506 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 13
1047430 CATACACACT
*
1047440 TAAAATAAATAAA
1 TAAAATAAAAAAA
1047453 T-AAATAAAATGAACA
1 TAAAATAAAA--AA-A
1047468 TCAAGAATAAAAAAA
1 T-AA-AATAAAAAAA
*
1047483 TGAAATAAAAAAA
1 TAAAATAAAAAAA
*
1047496 TAAAGTAAAAA
1 TAAAATAAAAA
1047507 GTAAAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
12 7 0.16
13 20 0.45
14 3 0.07
15 4 0.09
16 2 0.05
17 1 0.02
18 7 0.16
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (13 bp):
TAAAATAAAAAAA
Found at i:1047721 original size:19 final size:20
Alignment explanation
Indices: 1047678--1047721 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
1047668 AAAAATGATG
*
1047678 AAAAAGTAATAATAATGAAT
1 AAAAAGTAATAATAATGAAA
1047698 AAAAAG-AATAA-AATGAAA
1 AAAAAGTAATAATAATGAAA
1047716 ATAAAA
1 A-AAAA
1047722 CATACATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 9 0.41
20 6 0.27
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (20 bp):
AAAAAGTAATAATAATGAAA
Found at i:1047721 original size:20 final size:20
Alignment explanation
Indices: 1047678--1047714 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
1047668 AAAAATGATG
1047678 AAAAAGTAATAATAATGAAT
1 AAAAAGTAATAATAATGAAT
1047698 AAAAAG-AATAA-AATGAA
1 AAAAAGTAATAATAATGAA
1047715 AATAAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (20 bp):
AAAAAGTAATAATAATGAAT
Found at i:1048877 original size:12 final size:12
Alignment explanation
Indices: 1048860--1048918 Score: 65
Period size: 12 Copynumber: 5.2 Consensus size: 12
1048850 TAAATAAACT
1048860 ATATATAA-ATGA
1 ATATATAATAT-A
1048872 ATATATAATATA
1 ATATATAATATA
*
1048884 ATTTATAATATA
1 ATATATAATATA
1048896 A-ATAT-ATAT-
1 ATATATAATATA
1048905 -TATATAATATA
1 ATATATAATATA
1048916 ATA
1 ATA
1048919 ACGTTTGAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 4 0.10
10 8 0.20
11 3 0.08
12 23 0.57
13 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (12 bp):
ATATATAATATA
Found at i:1048883 original size:7 final size:7
Alignment explanation
Indices: 1048871--1048915 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
1048861 TATATAAATG
1048871 AATATAT
1 AATATAT
1048878 -A-ATAT
1 AATATAT
*
1048883 AATTTAT
1 AATATAT
1048890 AATATA-
1 AATATAT
1048896 AATATAT
1 AATATAT
*
1048903 ATTATAT
1 AATATAT
1048910 AATATA
1 AATATA
1048916 ATAACGTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
5 4 0.13
6 8 0.26
7 19 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATATAT
Found at i:1048915 original size:25 final size:27
Alignment explanation
Indices: 1048862--1048918 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
1048852 AATAAACTAT
1048862 ATATAAATGAATATATAATATAATTTATA
1 ATATAAAT-AATATATAATATAA-TTATA
*
1048891 ATATAAAT-ATATATTATATAA-TATA
1 ATATAAATAATATATAATATAATTATA
1048916 ATA
1 ATA
1048919 ACGTTTGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 7 0.26
27 12 0.44
29 8 0.30
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (27 bp):
ATATAAATAATATATAATATAATTATA
Found at i:1049420 original size:29 final size:29
Alignment explanation
Indices: 1049365--1049420 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
1049355 ACTCAAATAT
* * * *
1049365 TTTATGTTTCAAGGGAAGCATTTTCAAAG
1 TTTATGTTTCAAGAGAAACAGTCTCAAAG
1049394 TTTATGTTTCAAGAGAAACAGTCTCAA
1 TTTATGTTTCAAGAGAAACAGTCTCAA
1049421 GGGAGACAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (29 bp):
TTTATGTTTCAAGAGAAACAGTCTCAAAG
Found at i:1049447 original size:21 final size:21
Alignment explanation
Indices: 1049417--1049462 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1049407 AGAAACAGTC
* *
1049417 TCAAGGGAGACAAAATTCGTT
1 TCAAGAGAGACAAAATTCATT
1049438 TCAAGAGAGACAAAATTCATT
1 TCAAGAGAGACAAAATTCATT
1049459 TCAA
1 TCAA
1049463 AGAAAATGTT
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:0.43, C:0.15, G:0.17, T:0.24
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTCATT
Found at i:1049540 original size:37 final size:37
Alignment explanation
Indices: 1049484--1049934 Score: 245
Period size: 37 Copynumber: 13.0 Consensus size: 37
1049474 TCAATGTTTA
* *
1049484 TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
* *
1049521 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATTCA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT-T
* * *
1049559 T-TTT-AAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGAGAGACAAAATTT
* * * *
1049585 ATGTTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
*
1049623 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
** * *
1049659 CATTTCAAGGGAAA-TATTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTA-TCTCAAGAGAGACAAAATTT
* * * * *
1049687 ATGTTTCAAGAGAAATTGTCTCTAGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
1049725 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
** * * *
1049761 CATTTCAAGAGAAACTGTCTTTAAG-GAGACAAAATTT
1 TGTTTCAAGGGAAACTATC-TCAAGAGAGACAAAATTT
1049798 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
** * ** * *
1049834 CATTTAAAGGGAATGT-TTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
* * * * *
1049861 ATATTTTAAGAGAAACTATCTCAGGGGAGACAAAATTT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
1049899 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1049935 CATTTAAAGG
Statistics
Matches: 306, Mismatches: 65, Indels: 86
0.67 0.14 0.19
Matches are distributed among these distances:
27 5 0.02
28 16 0.05
29 27 0.09
30 4 0.01
32 4 0.01
33 3 0.01
34 3 0.01
35 8 0.03
36 71 0.23
37 155 0.51
38 10 0.03
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTT
Found at i:1049546 original size:102 final size:102
Alignment explanation
Indices: 1049438--1049774 Score: 566
Period size: 102 Copynumber: 3.3 Consensus size: 102
1049428 AAAATTCGTT
*
1049438 TCAAGAGAGACAAAATTCATTTCAAAGAAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATC
1 TCAAGAGAGACAAAATTCATTTCAAAGAAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
1049503 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATC
66 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATC
* * *
1049540 TCAAGAGAGACAAAATTCATTTTAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
1 TCAAGAGAGACAAAATTCATTTCAAAGAAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
*
1049605 TCAAGGGAGATAAAATTTTGTTTCAAGGGAAATTATC
66 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATC
* * * *
1049642 TCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTTCAATGTTTATGTTTCAAGAGAAATTGTC
1 TCAAGAGAGACAAAATTCATTTCAAAGAAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
* *
1049707 TCTAGGGAGACAAAATTTTGTTTCAAGGGAAACTATC
66 TCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATC
1049744 TCAAGAGAGACAAAATTCATTTCAAGAGAAA
1 TCAAGAGAGACAAAATTCATTTCAA-AGAAA
1049775 CTGTCTTTAA
Statistics
Matches: 221, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
102 218 0.99
103 3 0.01
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.31
Consensus pattern (102 bp):
TCAAGAGAGACAAAATTCATTTCAAAGAAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTC
TCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATC
Found at i:1049555 original size:86 final size:84
Alignment explanation
Indices: 1049385--1049543 Score: 220
Period size: 86 Copynumber: 1.9 Consensus size: 84
1049375 AAGGGAAGCA
1049385 TTTTCAAAGTTTATGTTTCAAGAGAAACAGTCTCAAGGGAGACAAAATTCGTTTCAAGAGAGACA
1 TTTTCAAAGTTTATGTTTCAAGAGAAACAGTCTCAAGGGAGACAAAATTCGTTTCAAGAGAG--A
*
1049450 AAATTCATTTCAAAGAAAATG
64 AAATTCATCTCAAAGAAAATG
* *
1049471 TTTTCAATGTTTATGTTTCAAGAGAAACTA-TCTCAAGGGAGACAAAATTTTGTTTCAAG-G-G-
1 TTTTCAAAGTTTATGTTTCAAGAGAAAC-AGTCTCAAGGGAGACAAAA-TTCGTTTCAAGAGAGA
1049532 AAATT-ATCTCAA
64 AAATTCATCTCAA
1049544 GAGAGACAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
81 6 0.09
82 5 0.07
85 1 0.01
86 45 0.66
87 11 0.16
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (84 bp):
TTTTCAAAGTTTATGTTTCAAGAGAAACAGTCTCAAGGGAGACAAAATTCGTTTCAAGAGAGAAA
ATTCATCTCAAAGAAAATG
Found at i:1049809 original size:73 final size:73
Alignment explanation
Indices: 1049690--1049838 Score: 271
Period size: 73 Copynumber: 2.0 Consensus size: 73
1049680 AATGTTTATG
* *
1049690 TTTCAAGAGAAATTGTCTCTAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCTAAGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1049755 AAAATTCA
66 AAAATTCA
*
1049763 TTTCAAGAGAAACTGTCTTTAAGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCTAAGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1049828 AAAATTCA
66 AAAATTCA
1049836 TTT
1 TTT
1049839 AAAGGGAATG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (73 bp):
TTTCAAGAGAAACTGTCTCTAAGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
AAAATTCA
Found at i:1049934 original size:174 final size:175
Alignment explanation
Indices: 1049588--1049948 Score: 584
Period size: 174 Copynumber: 2.1 Consensus size: 175
1049578 AATGTTTATG
* *
1049588 TTTCAAGAGAAACTGTCTCAAGGGAGATAAAATTTTGTTTCAAGGGAAATTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
* * * *
1049653 AAAATTCATTTCAAGGGAAATATTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCTAGGGAGAC
66 AAAATTCATTTAAAGGGAAATATTTTCAATGTTTATATTTCAAGAGAAACTATCTCTAGGGAGAC
1049718 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
131 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
*
1049763 TTTCAAGAGAAACTGTCTTTAA-GGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
1 TTTCAAGAGAAACTGTC-TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
* *
1049827 CAAAATTCATTTAAAGGG-AATGTTTTCAATGTTTATATTTTAAGAGAAACTATCTC-AGGGGAG
65 CAAAATTCATTTAAAGGGAAATATTTTCAATGTTTATATTTCAAGAGAAACTATCTCTA-GGGAG
1049890 ACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
129 ACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* *
1049937 TTTAAAGGGAAA
1 TTTCAAGAGAAA
1049949 TGTTTTCAAT
Statistics
Matches: 173, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
173 1 0.01
174 95 0.55
175 74 0.43
176 3 0.02
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (175 bp):
TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
AAAATTCATTTAAAGGGAAATATTTTCAATGTTTATATTTCAAGAGAAACTATCTCTAGGGAGAC
AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
Found at i:1049942 original size:101 final size:102
Alignment explanation
Indices: 1049762--1050005 Score: 377
Period size: 101 Copynumber: 2.4 Consensus size: 102
1049752 GACAAAATTC
* * *
1049762 ATTTCAAGAGAAACTGTCTTTAA-GGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 ATTTCAAGAGAAACTAT-ATCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1049826 ACAAAATTCATTTAAAGGG-AATGTTTTCAATGTTTAT
65 ACAAAATTCATTTAAAGGGAAATGTTTTCAATGTTTAT
* * *
1049863 ATTTTAAGAGAAACTATCTCAGGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
1 ATTTCAAGAGAAACTATATCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
1049928 CAAAATTCATTTAAAGGGAAATGTTTTCAATGTTTAT
66 CAAAATTCATTTAAAGGGAAATGTTTTCAATGTTTAT
* * *
1049965 GTTTCAAGAGAAACTGTATCAAGGGAAACAAAA-TTTGTTTC
1 ATTTCAAGAGAAACTATATCAAGGGAGACAAAATTTTGTTTC
1050006 GAGAGAGAAA
Statistics
Matches: 130, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
100 2 0.02
101 83 0.64
102 45 0.35
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (102 bp):
ATTTCAAGAGAAACTATATCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
CAAAATTCATTTAAAGGGAAATGTTTTCAATGTTTAT
Found at i:1049998 original size:276 final size:276
Alignment explanation
Indices: 1049486--1050005 Score: 864
Period size: 276 Copynumber: 1.9 Consensus size: 276
1049476 AATGTTTATG
*
1049486 TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAATTATCTCAAGAGAGAC
1 TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
* * * *
1049551 AAAATTCATTTTAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAT
66 AAAATTCATTTAAAGGGAAATGTTTTCAATGTTTATATTTCAAGAGAAACTATCTCAAGGGAGAC
* *
1049616 AAAATTTTGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATATTTTCA
131 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTAAAGGGAAATATTTTCA
* * * *
1049681 ATGTTTATGTTTCAAGAGAAATTGTCTCTAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTC
196 ATGTTTATGTTTCAAGAGAAACTGTATCAAGGGAAACAAAA-TTTGTTTCAAGGGAAACTATCTC
1049746 AAGAGAGACAAAATTCA
260 AAGAGAGACAAAATTCA
* *
1049763 TTTCAAGAGAAACTGTCTTTAA-GGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
1 TTTCAAGAGAAACTATC-TCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGA
* *
1049827 CAAAATTCATTTAAAGGG-AATGTTTTCAATGTTTATATTTTAAGAGAAACTATCTCAGGGGAGA
65 CAAAATTCATTTAAAGGGAAATGTTTTCAATGTTTATATTTCAAGAGAAACTATCTCAAGGGAGA
*
1049891 CAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTAAAGGGAAATGTTTTC
130 CAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTAAAGGGAAATATTTTC
1049956 AATGTTTATGTTTCAAGAGAAACTGTATCAAGGGAAACAAAATTTGTTTC
195 AATGTTTATGTTTCAAGAGAAACTGTATCAAGGGAAACAAAATTTGTTTC
1050006 GAGAGAGAAA
Statistics
Matches: 226, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
275 8 0.04
276 141 0.62
277 74 0.33
278 3 0.01
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (276 bp):
TTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
AAAATTCATTTAAAGGGAAATGTTTTCAATGTTTATATTTCAAGAGAAACTATCTCAAGGGAGAC
AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTAAAGGGAAATATTTTCA
ATGTTTATGTTTCAAGAGAAACTGTATCAAGGGAAACAAAATTTGTTTCAAGGGAAACTATCTCA
AGAGAGACAAAATTCA
Found at i:1050126 original size:32 final size:32
Alignment explanation
Indices: 1050085--1050145 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
1050075 ATTCAAAGGT
*
1050085 TTTGTTTCAA-GGAATACTGTCTCATGAGACAA
1 TTTGTTTCAAGGGAA-ACTGTCTCAAGAGACAA
*
1050117 TTTGTTTCAAGGGGAACTGTCTCAAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGA
1050146 GACACAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 23 0.88
33 3 0.12
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (32 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGACAA
Found at i:1051566 original size:95 final size:95
Alignment explanation
Indices: 1051400--1051577 Score: 302
Period size: 95 Copynumber: 1.9 Consensus size: 95
1051390 ATGTAAATAT
* * *
1051400 CTTTATCAGGTTAGCTGAATCTTATCCATAAAGTCGGGGCGTTTAACCAATTGCCTTAGAGGGAC
1 CTTTATCAGGTTAGCTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGCCTTAGAGGGAC
*
1051465 AGCTCAAGCTTTATTGTATAGTATAATCAC
66 AACTCAAGCTTTATTGTATAGTATAATCAC
* *
1051495 CTTTATCAGGTTAGCTGAATATTATCCATAAAGCCATGGCGTTTAACCAATTGCTTTAGAGGGAC
1 CTTTATCAGGTTAGCTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGCCTTAGAGGGAC
1051560 AACTCAAGCTTTATTGTA
66 AACTCAAGCTTTATTGTA
1051578 CATAAATAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 77 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (95 bp):
CTTTATCAGGTTAGCTGAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGCCTTAGAGGGAC
AACTCAAGCTTTATTGTATAGTATAATCAC
Found at i:1055477 original size:12 final size:13
Alignment explanation
Indices: 1055432--1055478 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
1055422 AATACAAAAC
1055432 ACAAATAAAATTA
1 ACAAATAAAATTA
*
1055445 A-AATTAAAATTA
1 ACAAATAAAATTA
*
1055457 AAAACATAAAA-TA
1 ACAA-ATAAAATTA
1055470 ACAAATAAA
1 ACAAATAAA
1055479 GTAGTAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 16 0.55
13 8 0.28
14 5 0.17
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.21
Consensus pattern (13 bp):
ACAAATAAAATTA
Found at i:1055523 original size:13 final size:13
Alignment explanation
Indices: 1055500--1055567 Score: 57
Period size: 13 Copynumber: 4.9 Consensus size: 13
1055490 CGATACACAC
*
1055500 ATAAAATAAATAA
1 ATAAAATAAAAAA
1055513 AT-AAATAAAATGAA
1 ATAAAATAAAA--AA
1055527 CATCAAGAATAAAAAA
1 -AT-AA-AATAAAAAA
*
1055543 ATGAAATAAAAAA
1 ATAAAATAAAAAA
*
1055556 ATAAAGTAAAAA
1 ATAAAATAAAAA
1055568 GTAAAAGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
12 7 0.16
13 21 0.47
14 3 0.07
15 4 0.09
16 2 0.04
17 1 0.02
18 7 0.16
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (13 bp):
ATAAAATAAAAAA
Found at i:1055785 original size:19 final size:20
Alignment explanation
Indices: 1055742--1055785 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
1055732 AAAAATGATG
*
1055742 AAAAAGTAATAATAATGAAT
1 AAAAAGTAATAATAATGAAA
1055762 AAAAAG-AATAA-AATGAAA
1 AAAAAGTAATAATAATGAAA
1055780 ATAAAA
1 A-AAAA
1055786 CATACTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 9 0.41
20 6 0.27
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (20 bp):
AAAAAGTAATAATAATGAAA
Found at i:1055785 original size:20 final size:20
Alignment explanation
Indices: 1055742--1055778 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
1055732 AAAAATGATG
1055742 AAAAAGTAATAATAATGAAT
1 AAAAAGTAATAATAATGAAT
1055762 AAAAAG-AATAA-AATGAA
1 AAAAAGTAATAATAATGAA
1055779 AATAAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (20 bp):
AAAAAGTAATAATAATGAAT
Found at i:1056940 original size:12 final size:12
Alignment explanation
Indices: 1056923--1056976 Score: 65
Period size: 12 Copynumber: 4.4 Consensus size: 12
1056913 TAAATAAACT
1056923 ATATATAA-ATGA
1 ATATATAATAT-A
1056935 ATATATAATATA
1 ATATATAATATA
*
1056947 ATTTATAATATAA
1 ATATATAATAT-A
*
1056960 ATATATTATATA
1 ATATATAATATA
1056972 ATATA
1 ATATA
1056977 ATAACGTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
12 25 0.68
13 12 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (12 bp):
ATATATAATATA
Found at i:1056970 original size:25 final size:24
Alignment explanation
Indices: 1056926--1056973 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
1056916 ATAAACTATA
*
1056926 TATAAATGAATATATAATATAATT
1 TATAAATAAATATATAATATAATT
*
1056950 TATAATATAAATATATTATATAAT
1 TATAA-ATAAATATATAATATAAT
1056974 ATAATAACGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
TATAAATAAATATATAATATAATT
Found at i:1056976 original size:23 final size:23
Alignment explanation
Indices: 1056925--1056979 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
1056915 AATAAACTAT
*
1056925 ATATAA-ATGAATATATAATATA
1 ATATAATATAAATATATAATATA
*
1056947 ATTTATAATATAAATATATTATATA
1 A--TATAATATAAATATATAATATA
1056972 ATATAATA
1 ATATAATA
1056980 ACGTTTGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 1 0.04
23 7 0.25
24 5 0.18
25 15 0.54
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
ATATAATATAAATATATAATATA
Found at i:1057986 original size:59 final size:59
Alignment explanation
Indices: 1057917--1058063 Score: 138
Period size: 60 Copynumber: 2.5 Consensus size: 59
1057907 ATTATATACC
* * *
1057917 CATAACTTATGACTCTTATTTTAAAATTAGT-CTTTAAACTTTTAAATA-TCTAATACATT
1 CATAAATTATGACTCTCATTTT-AAATTAGTAC-TTAAAATTTTAAATATTCTAATACATT
* * * *
1057976 CATAAATTATGATTGTCATTTTAAATTGGTACTTAAAATTTTAAATATTCTAAATTA-ATC
1 CATAAATTATGACTCTCATTTTAAATTAGTACTTAAAATTTTAAATATTCT-AA-TACATT
** * *
1058036 CCCAAAATATGACCCTCATTTTAAATTA
1 CATAAATTATGACTCTCATTTTAAATTA
1058064 ATCCCCAAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
58 21 0.30
59 22 0.31
60 25 0.36
61 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.43
Consensus pattern (59 bp):
CATAAATTATGACTCTCATTTTAAATTAGTACTTAAAATTTTAAATATTCTAATACATT
Found at i:1058569 original size:18 final size:18
Alignment explanation
Indices: 1058542--1058585 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
1058532 AAACTAATCT
*
1058542 CAAAATCCCACTTTTACA
1 CAAAACCCCACTTTTACA
1058560 CAAAACCCCACTTTTACA
1 CAAAACCCCACTTTTACA
*
1058578 TAAAACCC
1 CAAAACCC
1058586 AACACCGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.23
Consensus pattern (18 bp):
CAAAACCCCACTTTTACA
Found at i:1064039 original size:9 final size:9
Alignment explanation
Indices: 1064022--1064110 Score: 51
Period size: 9 Copynumber: 9.7 Consensus size: 9
1064012 AAATAAAAGG
*
1064022 ATAATATAA
1 ATAAAATAA
1064031 ATAAAATAA
1 ATAAAATAA
*
1064040 GACAAAATAA
1 -ATAAAATAA
1064050 A-ACTAAATAAA
1 ATA--AAAT-AA
1064061 ACTAAAA-AA
1 A-TAAAATAA
*
1064070 CTAAAA-AA
1 ATAAAATAA
1064078 ATAAAAT-A
1 ATAAAATAA
* *
1064086 ATGGAATTAA
1 AT-AAAATAA
1064096 ATAAAATAA
1 ATAAAATAA
1064105 ATAAAA
1 ATAAAA
1064111 AATGGAAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
8 16 0.25
9 25 0.40
10 15 0.24
11 6 0.10
13 1 0.02
ACGTcount: A:0.72, C:0.04, G:0.03, T:0.20
Consensus pattern (9 bp):
ATAAAATAA
Found at i:1070803 original size:16 final size:16
Alignment explanation
Indices: 1070782--1070829 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 16
1070772 TGACTTATGT
1070782 AAATTGAATTATCTGA
1 AAATTGAATTATCTGA
* *
1070798 AAATTGATTTA-CTTA
1 AAATTGAATTATCTGA
1070813 AAA-TGAATTAT-TGA
1 AAATTGAATTATCTGA
1070827 AAA
1 AAA
1070830 ACAATTTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 11 0.41
15 6 0.22
16 10 0.37
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (16 bp):
AAATTGAATTATCTGA
Done.