Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001095.1 Hibiscus syriacus cultivar Beakdansim tig00002169_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: 842675
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 3 of 4
Found at i:492903 original size:45 final size:45
Alignment explanation
Indices: 492755--492920 Score: 168
Period size: 45 Copynumber: 3.8 Consensus size: 45
492745 TTAAAATGCA
* * *
492755 TATAT-GTT-CATTATCAACAGAAAAGTATGCTA-GAGTTGAAATG
1 TATATGGTTACATTATCAACATAAAAGTATACTATG-GTTGTAATG
* * *
492798 CATATGGGGTTGCATTATCAACAAAAAAGTATAC--T-GTT-TATATG
1 TATAT--GGTTACATTATCAACATAAAAGTATACTATGGTTGTA-ATG
*
492842 TATATGGGTACATTATCAACATAAAAGTATACTATGGTTGTAATG
1 TATATGGTTACATTATCAACATAAAAGTATACTATGGTTGTAATG
*
492887 TATATGGTTACATTATCAGCAT-AAAGTATACTAT
1 TATATGGTTACATTATCAACATAAAAGTATACTAT
492921 AGCTGAAATG
Statistics
Matches: 103, Mismatches: 10, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 24 0.23
43 5 0.05
44 23 0.22
45 26 0.25
46 5 0.05
47 20 0.19
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (45 bp):
TATATGGTTACATTATCAACATAAAAGTATACTATGGTTGTAATG
Found at i:492945 original size:44 final size:44
Alignment explanation
Indices: 492743--492949 Score: 181
Period size: 44 Copynumber: 4.7 Consensus size: 44
492733 AGGATGCCAG
* ** * *
492743 AGTTAAAATGCATATATGTTCATTATCAACAGAAAAGTATGCTAG
1 AGTTGAAATGCATATGGGTTCATTATCAACA-AAAAGTATACTAT
492788 AGTTGAAATGCATATGGGGTTGCATTATCAACAAAAAAGTATAC--T
1 AGTTGAAATGCATAT-GGGTT-CATTATCAAC-AAAAAGTATACTAT
* * * *
492833 -GTTTATATGTATATGGGTACATTATCAACATAAAAGTATACTAT
1 AGTTGAAATGCATATGGGTTCATTATCAACA-AAAAGTATACTAT
* * * * *
492877 GGTTGTAATGTATAT-GGTTACATTATCAGCATAAAGTATACTAT
1 AGTTGAAATGCATATGGGTT-CATTATCAACAAAAAGTATACTAT
*
492921 AGCTGAAATGCAT-TGGGGTTCATTATCAA
1 AGTTGAAATGCATAT-GGGTTCATTATCAA
492950 AAGAAAAGAT
Statistics
Matches: 132, Mismatches: 20, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 20 0.15
43 5 0.04
44 44 0.33
45 39 0.30
46 3 0.02
47 19 0.14
48 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (44 bp):
AGTTGAAATGCATATGGGTTCATTATCAACAAAAAGTATACTAT
Found at i:499544 original size:20 final size:20
Alignment explanation
Indices: 499503--499544 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
499493 ATTTTATGTA
*
499503 TTTAATATACATATATATTT
1 TTTAATATACATATATAGTT
*
499523 TTTAATAT-TATATAATAGTT
1 TTTAATATACATAT-ATAGTT
499543 TT
1 TT
499545 ACTTGAGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTAATATACATATATAGTT
Found at i:502740 original size:24 final size:24
Alignment explanation
Indices: 502713--502758 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
502703 TATTCAAACG
502713 ATTGAATCGAATATAAACTTGAAA
1 ATTGAATCGAATATAAACTTGAAA
*
502737 ATTGAATCGAATATGAACTTGA
1 ATTGAATCGAATATAAACTTGA
502759 GAACAAACCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.30
Consensus pattern (24 bp):
ATTGAATCGAATATAAACTTGAAA
Found at i:503151 original size:24 final size:24
Alignment explanation
Indices: 503123--503168 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
503113 AAGAGCATGC
*
503123 AAGATCACAAAATATCCAAATTGA
1 AAGATAACAAAATATCCAAATTGA
* *
503147 AAGATAACCAAGTATCCAAATT
1 AAGATAACAAAATATCCAAATT
503169 CCAAAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.17, G:0.09, T:0.22
Consensus pattern (24 bp):
AAGATAACAAAATATCCAAATTGA
Found at i:504706 original size:2 final size:2
Alignment explanation
Indices: 504699--504729 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
504689 AAAGAAAAAT
504699 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
504730 GTAATTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:514953 original size:22 final size:22
Alignment explanation
Indices: 514906--514953 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
514896 CCAACGTCAG
* * *
514906 TTAATTTTCCTTTAATTTCAGG
1 TTAATTTACCTTTAATTTAAGC
514928 TTAATTTAACCTTT-ATTTAAGC
1 TTAATTT-ACCTTTAATTTAAGC
514950 TTAA
1 TTAA
514954 ATGAATGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (22 bp):
TTAATTTACCTTTAATTTAAGC
Found at i:522424 original size:90 final size:90
Alignment explanation
Indices: 522269--522443 Score: 269
Period size: 90 Copynumber: 1.9 Consensus size: 90
522259 AACACACCCT
* * *
522269 TTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTTCTTATTTCAAATTAATGAAATATATATT
1 TTTATAGCCAAGTTACCCTAATAATATTAGGGATTTTATTATTTCAAATTAATGAAATATATATT
*
522334 TAATTAATTGAAATTTAATAATCCC
66 TAATTAATTGAAATTAAATAATCCC
* * * *
522359 TTTATATCCAAGTTACCCTAATAATATTAGGGATTTTATTATTTTAAATTAATTAAATATGTATT
1 TTTATAGCCAAGTTACCCTAATAATATTAGGGATTTTATTATTTCAAATTAATGAAATATATATT
*
522424 TAATTAGTTGAAATTAAATA
66 TAATTAATTGAAATTAAATA
522444 TTCGGGATTA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 76 1.00
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (90 bp):
TTTATAGCCAAGTTACCCTAATAATATTAGGGATTTTATTATTTCAAATTAATGAAATATATATT
TAATTAATTGAAATTAAATAATCCC
Found at i:529210 original size:90 final size:89
Alignment explanation
Indices: 529057--529231 Score: 305
Period size: 90 Copynumber: 2.0 Consensus size: 89
529047 CCTAACACAC
* *
529057 CCTTTTATAGCCAAGTTATCCTAATCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
*
529122 ATTTAATTAATTAGAATTTAATAAT
66 ATTTAATTAATT-GAAATTAATAAT
*
529147 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
529212 ATTTAATTAATTGAAATTAA
66 ATTTAATTAATTGAAATTAA
529232 ATATTCGGTA
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 7 0.09
90 74 0.91
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAATAAT
Found at i:541156 original size:23 final size:23
Alignment explanation
Indices: 541089--541146 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
541079 GTCGCTTGGT
*
541089 TTAATGGTAAATATAAAGTTTCA
1 TTAATGGTAAATATGAAGTTTCA
541112 TTAATGGTAAATATGAAGTTTCA
1 TTAATGGTAAATATGAAGTTTCA
541135 TTAATGGTAAAT
1 TTAATGGTAAAT
541147 TAGTCTTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.40
Consensus pattern (23 bp):
TTAATGGTAAATATGAAGTTTCA
Found at i:551412 original size:6 final size:6
Alignment explanation
Indices: 551397--551433 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
551387 GCAAACCCTA
* *
551397 GAAATG GAAATC GAAATT GAAATC GAAATC GAAATC G
1 GAAATC GAAATC GAAATC GAAATC GAAATC GAAATC G
551434 GCCTAAGATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.19
Consensus pattern (6 bp):
GAAATC
Found at i:554004 original size:79 final size:79
Alignment explanation
Indices: 553869--554267 Score: 615
Period size: 79 Copynumber: 5.1 Consensus size: 79
553859 AAACAAATGA
*
553869 AAAAGAATAATGTATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTT-AAATGTATATGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAG-TTGAAATGTATATGG
553933 GTACATTGTCAGCAT
65 GTACATTGTCAGCAT
*
553948 AAAAGAATAATGCATATAGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGTATATGGG
554013 TACATTGTCAGCAT
66 TACATTGTCAGCAT
*
554027 AAAAGAATAATGCATGTGGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGTATATGGG
*
554092 TACATTGTCAACAT
66 TACATTGTCAGCAT
* * * * *
554106 AAAAGAGTAATTCATATGGCTGCATTATTGACATGAAAGGATGCCATAGCTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGTATATGGG
*
554171 TACGTTGTCAGCAT
66 TACATTGTCAGCAT
* *
554185 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGGCA-ACGCTT-AAATGCATATG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATA-G-TTGAAATGTATATG
* * *
554248 GGTGCGTTATCAGCAT
64 GGTACATTGTCAGCAT
554264 AAAA
1 AAAA
554268 TTATATTTTA
Statistics
Matches: 295, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
78 3 0.01
79 291 0.99
80 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.29
Consensus pattern (79 bp):
AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGTTGAAATGTATATGGG
TACATTGTCAGCAT
Found at i:560870 original size:79 final size:79
Alignment explanation
Indices: 560682--561078 Score: 555
Period size: 79 Copynumber: 5.0 Consensus size: 79
560672 AACGAATGAA
* * * *
560682 AAAATAATAATGCATATGGGTGAATTATTTGCATGAAAGGATGCCATAGCTGAAATGTTTATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGG
*
560747 TACATT-TCAGTAT
66 TACATTATCAGCAT
* *
560760 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTTAGATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGG
*
560825 TACATTGTCAGCAT
66 TACATTATCAGCAT
* * *
560839 AAAAGAATAATGCATGTGGGTGCATTATTGGCATGAAAGGATGCCATAGCT-AAATTATATATTG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAA-TGTATATGG
*
560903 GTACATTGTCAGCAT
65 GTACATTATCAGCAT
* * *
560918 AAAATAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGACATAACTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGG
* *
560983 TATATTATCAACAT
66 TACATTATCAGCAT
* * * * *
560997 AAAAGAATAATGCATATAGGTTCATTATTGGCATGAAAGGATGGCATCGCTGAAATGAATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGG
* *
561062 TGCATTATCAGTAT
66 TACATTATCAGCAT
561076 AAA
1 AAA
561079 GGTATATTTT
Statistics
Matches: 285, Mismatches: 31, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
78 67 0.24
79 215 0.75
80 3 0.01
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (79 bp):
AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGG
TACATTATCAGCAT
Found at i:571678 original size:37 final size:37
Alignment explanation
Indices: 571637--571744 Score: 137
Period size: 37 Copynumber: 2.9 Consensus size: 37
571627 ATCCATTTTC
* *
571637 AGCCTTCACTGAAGAATAGTGAAGCAAATTCATCCTA
1 AGCCTTCACCGAAGAGTAGTGAAGCAAATTCATCCTA
* * ** *
571674 AGCCTTCACCAAAGAGTAGTGAAG-AAAATCTATTTTC
1 AGCCTTCACCGAAGAGTAGTGAAGCAAATTC-ATCCTA
571711 AGCCTTCACCGAAGAGTAGTGAAGCAAATTCATC
1 AGCCTTCACCGAAGAGTAGTGAAGCAAATTCATC
571745 TACAAGCCTT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
36 5 0.08
37 49 0.83
38 5 0.08
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (37 bp):
AGCCTTCACCGAAGAGTAGTGAAGCAAATTCATCCTA
Found at i:572133 original size:216 final size:216
Alignment explanation
Indices: 571752--572164 Score: 614
Period size: 216 Copynumber: 1.9 Consensus size: 216
571742 ATCTACAAGC
* * * *
571752 CTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTGACAT
1 CTTTAGAACAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACAC
* * * *
571817 GAATTTGAAAAACAAGAAAGTGATGTTTTAAGAAGATGAAATCTGTGAAAACTAAGAAGGTGATT
66 GAAGTTGAAAAACAAGAAAGTAATGTTTTAAGAAAATGAAATCTGTGAAAACTAAGAAGGAGATT
* *
571882 TTCAAAATTTCGCACTTAGTAAGTCCTTCGGGCCATCAATAAGTCTTTCAAGCATGATGAGTAAA
131 TCCAAAATTTCGCACTTAGTAAGTCATTCGGGCCATCAATAAGTCTTTCAAGCATGATGAGTAAA
571947 TCATTTAGGTCATCTGTAAGT
196 TCATTTAGGTCATCTGTAAGT
* *
571968 CTTTAGAATAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCATAC
1 CTTTAGAACAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACAC
** * *
572033 GAAGTTGAAAAATGAGAAAGTAATGTTTTAAGAAAATGAAATCTTTGAGAAAC-AAGTAGGAGAT
66 GAAGTTGAAAAACAAGAAAGTAATGTTTTAAGAAAATGAAATCTGTGA-AAACTAAGAAGGAGAT
* * * *
572097 TTCCAATATTTCGCACTATA-TAAGTCATTTGGGCCATCATTAAGTCTTTCAAGCATGATGATTA
130 TTCCAAAATTTCGCACT-TAGTAAGTCATTCGGGCCATCAATAAGTCTTTCAAGCATGATGAGTA
572161 AATC
194 AATC
572165 CTTCGGGTAA
Statistics
Matches: 175, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
216 169 0.97
217 6 0.03
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (216 bp):
CTTTAGAACAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTTCACAC
GAAGTTGAAAAACAAGAAAGTAATGTTTTAAGAAAATGAAATCTGTGAAAACTAAGAAGGAGATT
TCCAAAATTTCGCACTTAGTAAGTCATTCGGGCCATCAATAAGTCTTTCAAGCATGATGAGTAAA
TCATTTAGGTCATCTGTAAGT
Found at i:572260 original size:22 final size:21
Alignment explanation
Indices: 572230--572296 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
572220 GTGCCATTAA
*
572230 TAAGCCTTTCGAGCTTGATGAT
1 TAAGTCTTTCGAGC-TGATGAT
* * * *
572252 TAAGTCTTTCGGGC-CATCAG
1 TAAGTCTTTCGAGCTGATGAT
572272 TAAGTCTTTCGAGCATGATGAT
1 TAAGTCTTTCGAGC-TGATGAT
572294 TAA
1 TAA
572297 ATCATTTGGG
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
20 16 0.47
22 18 0.53
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.34
Consensus pattern (21 bp):
TAAGTCTTTCGAGCTGATGAT
Found at i:572317 original size:42 final size:42
Alignment explanation
Indices: 572230--572321 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
572220 GTGCCATTAA
* * *
572230 TAAGCCTTTCGAGCTTGATGATTAAGTCTTTCGGGCCATCAG
1 TAAGCCTTTCGAGCATGATGATTAAATCTTTCGGGCAATCAG
* * **
572272 TAAGTCTTTCGAGCATGATGATTAAATCATTT-GGGTAATTTG
1 TAAGCCTTTCGAGCATGATGATTAAATC-TTTCGGGCAATCAG
572314 TAAGCCTT
1 TAAGCCTT
572322 CACCAAAGAG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 38 0.93
43 3 0.07
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (42 bp):
TAAGCCTTTCGAGCATGATGATTAAATCTTTCGGGCAATCAG
Found at i:572359 original size:135 final size:135
Alignment explanation
Indices: 572118--572708 Score: 778
Period size: 135 Copynumber: 4.4 Consensus size: 135
572108 CGCACTATAT
* * *
572118 AAGTCATTT-GGGCCATCATTAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTAAGTTGTAA
1 AAGTC-TTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAA
* * * * *
572182 GCCTTCACCGAAGAGTAGTGAAGTAAATACATCAGTAAGTGCCATTAATAAGCCTTTCGAGCTTG
65 GCCTTCACCGAAGAGTAGTGAAGCAAATACATCAGTAAGTGCCATCAGTAAGTCTTTCGAGCATG
*
572247 ATGATT
130 ATGATG
* *
572253 AAGTCTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTTGGGTAATTTGTAAG
1 AAGTCTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAG
* *
572318 CCTTCACCAAAGAGTAGTGAAGCAAATACATCAGTAAGTGCCATCAGTAAGTCTTTCGAGCGTGA
66 CCTTCACCGAAGAGTAGTGAAGCAAATACATCAGTAAGTGCCATCAGTAAGTCTTTCGAGCATGA
572383 TGATG
131 TGATG
* * * *
572388 AAGTCCTTT-GGGCTATCAGTAAGTCTTTCGAGTATGATGATTAAATCCCTCGGGTAATTTATAA
1 AAGT-CTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAA
* * *
572452 GCCTTCATCGAGGAGTAGTGAAG-AAAAATCTATCAGTAAGTGCCATCAGTAAGTCTTTCGAGCA
65 GCCTTCACCGAAGAGTAGTGAAGCAAATA-C-ATCAGTAAGTGCCATCAGTAAGTCTTTCGAGCA
*
572516 TGATGATA
128 TGATGATG
** * *
572524 AAGT-TATTCGGGTTATCAGTAAGTCTTTCGAGCGTGATGATTAAATCCTTCTGGTAATTTGTAA
1 AAGTCT-TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAA
* * *
572588 GCCTTCACCGAAGAGTTGTAAAGCAAATTCATCAGTAAGTGCCATCAGTAAGTC-TTCTGAGCAT
65 GCCTTCACCGAAGAGTAGTGAAGCAAATACATCAGTAAGTGCCATCAGTAAGTCTTTC-GAGCAT
572652 GATGATG
129 GATGATG
* * * * * * *
572659 AAATCCTTCAGGTCATCATTAAGTCTTTCGAGCATGATGATGAAGTCCTT
1 AAGTCTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTT
572709 TGGGCCATCA
Statistics
Matches: 402, Mismatches: 45, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
134 11 0.03
135 272 0.68
136 116 0.29
137 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (135 bp):
AAGTCTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAG
CCTTCACCGAAGAGTAGTGAAGCAAATACATCAGTAAGTGCCATCAGTAAGTCTTTCGAGCATGA
TGATG
Found at i:572588 original size:42 final size:42
Alignment explanation
Indices: 572496--572581 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
572486 AGTAAGTGCC
* *
572496 ATCAGTAAGTCTTTCGAGCATGATGATAAAGTTATTCGGGTT
1 ATCAGTAAGTCTTTCGAGCATGATGATAAAGTCATTCGGGTA
* * *
572538 ATCAGTAAGTCTTTCGAGCGTGATGATTAAA-TCCTTCTGGTA
1 ATCAGTAAGTCTTTCGAGCATGATGA-TAAAGTCATTCGGGTA
572580 AT
1 AT
572582 TTGTAAGCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
42 34 0.89
43 4 0.11
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (42 bp):
ATCAGTAAGTCTTTCGAGCATGATGATAAAGTCATTCGGGTA
Found at i:572614 original size:271 final size:270
Alignment explanation
Indices: 572118--572699 Score: 823
Period size: 271 Copynumber: 2.2 Consensus size: 270
572108 CGCACTATAT
* * * * *
572118 AAGTCATTTGGGCCATCATTAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTAAGTTGTAAG
1 AAGTCCTTTGGGCTATCATTAAGTCTTTCGAGCATGATGATTAAATCCCTCGGGTAAGTTATAAG
* * *
572183 CCTTCACCGAAGAGTAGTGAAGTAAATACATCAGTAAGTGCCATTAATAAGCCTTTCGAGCTTGA
66 CCTTCACCGAAGAGTAGTGAAGAAAATACATCAGTAAGTGCCATCAATAAGCCTTTCGAGCATGA
*
572248 TGATTAAGTCTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTTGGGTAATTT
131 TGATAAAGTCTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTTGGGTAATTT
*
572313 GTAAGCCTTCACCAAAGAGTAGTGAAGCAAATACATCAGTAAGTGCCATCAGTAAGTCTT-TCGA
196 GTAAGCCTTCACCAAAGAGTAGTAAAGCAAATACATCAGTAAGTGCCATCAGTAAGTCTTCT-GA
*
572377 GCGTGATGATG
260 GCATGATGATG
* * *
572388 AAGTCCTTTGGGCTATCAGTAAGTCTTTCGAGTATGATGATTAAATCCCTCGGGTAATTTATAAG
1 AAGTCCTTTGGGCTATCATTAAGTCTTTCGAGCATGATGATTAAATCCCTCGGGTAAGTTATAAG
* * * *
572453 CCTTCATCGAGGAGTAGTGAAGAAAA-ATCTATCAGTAAGTGCCATCAGTAAGTCTTTCGAGCAT
66 CCTTCACCGAAGAGTAGTGAAGAAAATA-C-ATCAGTAAGTGCCATCAATAAGCCTTTCGAGCAT
** * *
572517 GATGATAAAGT-TATTCGGGTTATCAGTAAGTCTTTCGAGCGTGATGATTAAATCCTTCT-GGTA
129 GATGATAAAGTCT-TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATT-TGGGTA
* * *
572580 ATTTGTAAGCCTTCACCGAAGAGTTGTAAAGCAAATTCATCAGTAAGTGCCATCAGTAAGTCTTC
192 ATTTGTAAGCCTTCACCAAAGAGTAGTAAAGCAAATACATCAGTAAGTGCCATCAGTAAGTCTTC
572645 TGAGCATGATGATG
257 TGAGCATGATGATG
* **
572659 AAATCCTTCAGG-TCATCATTAAGTCTTTCGAGCATGATGAT
1 AAGTCCTTTGGGCT-ATCATTAAGTCTTTCGAGCATGATGAT
572700 GAAGTCCTTT
Statistics
Matches: 276, Mismatches: 30, Indels: 11
0.87 0.09 0.03
Matches are distributed among these distances:
269 1 0.00
270 83 0.30
271 190 0.69
272 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (270 bp):
AAGTCCTTTGGGCTATCATTAAGTCTTTCGAGCATGATGATTAAATCCCTCGGGTAAGTTATAAG
CCTTCACCGAAGAGTAGTGAAGAAAATACATCAGTAAGTGCCATCAATAAGCCTTTCGAGCATGA
TGATAAAGTCTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTTGGGTAATTT
GTAAGCCTTCACCAAAGAGTAGTAAAGCAAATACATCAGTAAGTGCCATCAGTAAGTCTTCTGAG
CATGATGATG
Found at i:572692 original size:42 final size:42
Alignment explanation
Indices: 572630--573103 Score: 264
Period size: 42 Copynumber: 10.9 Consensus size: 42
572620 CAGTAAGTGC
572630 CATCAGTAAGTC-TTCTGAGCATGATGATGAAATCCTTCAGGT
1 CATCAGTAAGTCTTTC-GAGCATGATGATGAAATCCTTCAGGT
* * ** *
572672 CATCATTAAGTCTTTCGAGCATGATGATGAAGTCCTTTGGGC
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCAGGT
* * * *
572714 CATCAGTATGTCTTTCGAGCATGATAATTAAATCCTTCAAGT
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCAGGT
* ** * * ** * *
572756 AATTTGTAAGCCTTCACCGAAGGGT-AGTGAAGCAAATCCATCAGTAAGT
1 CATCAGTAAGTCTT--TCG-AGCATGA-TGATG-AAATCCTTCAG---GT
*
572805 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCTTTC-GAGT
1 --CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCAG-GT
** * ** *
572849 CATTTGTAAGTCTTTCGAGCATGATGATGAAGTCCTTTGGGA
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCAGGT
* * * *
572891 CATCAGTAAGTCTTTCGAGCATGATAATTAAATCTTTCGGGT
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCAGGT
* * * *
572933 AAAT-TGTAAGCCTTTACCGAAG-A-GTAGTGAAGCAAATCCATT-AGTAAGT
1 -CATCAGTAAGTCTTT--CG-AGCATG-A-TGATG-AAATCC-TTCAG---GT
* *
572982 ACCATCAGTAAGTCTTTCGAGCTTGATGATGAAATCCTTC-GAT
1 --CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCAGGT
* * *
573025 ACATCAGTAAGTCTTTCGAGCATGATGATTAAATTCTTCGGGT
1 -CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCAGGT
** * * *
573068 CATTTGTGAGTCTTTCCAGCAAGATGAT-AAATCCTT
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTT
573104 TGGGTAATCC
Statistics
Matches: 325, Mismatches: 77, Indels: 61
0.70 0.17 0.13
Matches are distributed among these distances:
41 7 0.02
42 210 0.65
43 10 0.03
44 10 0.03
45 9 0.03
46 19 0.06
47 15 0.05
48 13 0.04
49 10 0.03
50 3 0.01
51 19 0.06
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (42 bp):
CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCAGGT
Found at i:572721 original size:177 final size:176
Alignment explanation
Indices: 572495--573053 Score: 823
Period size: 177 Copynumber: 3.2 Consensus size: 176
572485 CAGTAAGTGC
* ** * ** *
572495 CATCAGTAAGTCTTTCGAGCATGATGATAAAGTTATTCGGGTTATCAGTAAGTCTTTCGAGCGTG
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTTGGGACATCAGTAAGTCTTTCGAGCATG
* * * * *
572560 ATGATTAAATCCTTCTGGTAATTTGTAAGCCTTCACCGAAGAGTTGTAAAGCAAATTCATCAGTA
66 ATAATTAAATCCTTCAGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTA
572625 AGTGCCATCAGTAAGTC-TTCTGAGCATGATGATGAAATCCTTCAGGT
131 AGTGCCATCAGTAAGTCTTTC-GAGCATGATGATGAAATCCTTC-GGT
* * *
572672 CATCATTAAGTCTTTCGAGCATGATGATGAAGTCCTTTGGGCCATCAGTATGTCTTTCGAGCATG
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTTGGGACATCAGTAAGTCTTTCGAGCATG
* *
572737 ATAATTAAATCCTTCAAGTAATTTGTAAGCCTTCACCGAAGGGTAGTGAAGCAAATCCATCAGTA
66 ATAATTAAATCCTTCAGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTA
*
572802 AGTGCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCTTTCGAGT
131 AGTGCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCG-GT
**
572849 CATTTGTAAGTCTTTCGAGCATGATGATGAAGTCCTTTGGGACATCAGTAAGTCTTTCGAGCATG
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTTGGGACATCAGTAAGTCTTTCGAGCATG
* * * * *
572914 ATAATTAAATCTTTCGGGTAAATTGTAAGCCTTTACCGAAGAGTAGTGAAGCAAATCCATTAGTA
66 ATAATTAAATCCTTCAGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTA
* * *
572979 AGTACCATCAGTAAGTCTTTCGAGCTTGATGATGAAATCCTTCGAT
131 AGTGCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGT
573025 ACATCAGTAAGTCTTTCGAGCATGATGAT
1 -CATCAGTAAGTCTTTCGAGCATGATGAT
573054 TAAATTCTTC
Statistics
Matches: 344, Mismatches: 35, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
176 2 0.01
177 339 0.99
178 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (176 bp):
CATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTTGGGACATCAGTAAGTCTTTCGAGCATG
ATAATTAAATCCTTCAGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTA
AGTGCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGT
Found at i:572811 original size:13 final size:13
Alignment explanation
Indices: 572793--572817 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
572783 TGAAGCAAAT
572793 CCATCAGTAAGTG
1 CCATCAGTAAGTG
572806 CCATCAGTAAGT
1 CCATCAGTAAGT
572818 CTTTCGAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:572845 original size:22 final size:21
Alignment explanation
Indices: 572813--572929 Score: 91
Period size: 22 Copynumber: 5.5 Consensus size: 21
572803 GTGCCATCAG
572813 TAAGTCTTTCGAGCATGATGA
1 TAAGTCTTTCGAGCATGATGA
* *
572834 TGAAATCTTTCGAGTCAT-TTG-
1 T-AAGTCTTTCGAG-CATGATGA
572855 TAAGTCTTTCGAGCATGATGA
1 TAAGTCTTTCGAGCATGATGA
* *
572876 TGAAGTCCTTT-GGGACATCA-G-
1 T-AAGT-CTTTCGAG-CATGATGA
*
572897 TAAGTCTTTCGAGCATGATAA
1 TAAGTCTTTCGAGCATGATGA
*
572918 TTAAATCTTTCG
1 -TAAGTCTTTCG
572930 GGTAAATTGT
Statistics
Matches: 75, Mismatches: 10, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
19 11 0.15
20 19 0.25
21 4 0.05
22 30 0.40
23 11 0.15
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.36
Consensus pattern (21 bp):
TAAGTCTTTCGAGCATGATGA
Found at i:572864 original size:20 final size:20
Alignment explanation
Indices: 572812--572915 Score: 88
Period size: 20 Copynumber: 5.0 Consensus size: 20
572802 AGTGCCATCA
572812 GTAAGTCTTTCGAGCATGAT
1 GTAAGTCTTTCGAGCATGAT
* *
572832 GATGAAATCTTTCGAGTCAT-TT
1 G-T-AAGTCTTTCGAG-CATGAT
572854 GTAAGTCTTTCGAGCATGAT
1 GTAAGTCTTTCGAGCATGAT
* *
572874 GATGAAGTCCTTT-GGGACATCA-
1 G-T-AAGT-CTTTCGAG-CATGAT
572896 GTAAGTCTTTCGAGCATGAT
1 GTAAGTCTTTCGAGCATGAT
572916 AATTAAATCT
Statistics
Matches: 66, Mismatches: 8, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
19 11 0.17
20 20 0.30
21 4 0.06
22 20 0.30
23 11 0.17
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (20 bp):
GTAAGTCTTTCGAGCATGAT
Found at i:577169 original size:15 final size:15
Alignment explanation
Indices: 577151--577182 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
577141 TTACTAATAC
*
577151 TGACAAAATTAATTT
1 TGACAAAATTAAATT
577166 TGACAAAATTAAATT
1 TGACAAAATTAAATT
577181 TG
1 TG
577183 TCACAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (15 bp):
TGACAAAATTAAATT
Found at i:583973 original size:7 final size:7
Alignment explanation
Indices: 583961--584001 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
583951 CCCGTTAACT
583961 TTGACTG
1 TTGACTG
583968 TTGACTG
1 TTGACTG
583975 TTGACTG
1 TTGACTG
*
583982 TTGACCG
1 TTGACTG
583989 TTGACT-
1 TTGACTG
583995 TTGACTG
1 TTGACTG
584002 AAAAAGTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 6 0.19
7 25 0.81
ACGTcount: A:0.15, C:0.17, G:0.27, T:0.41
Consensus pattern (7 bp):
TTGACTG
Found at i:585483 original size:31 final size:31
Alignment explanation
Indices: 585447--585570 Score: 108
Period size: 31 Copynumber: 3.8 Consensus size: 31
585437 ATTAGTGTTG
*
585447 GGAATTACCAGTCGGTGCTAAACCTATACAA
1 GGAATTACCAGTCGGTGCTGAACCTATACAA
* * * *
585478 GGAATTACCAG-CAGTGAGTGAACCTGCCACAGATAA
1 GGAATTACCAGTCGGTG-CTGAACCT-----ATACAA
585514 GGAATTACCAGTCGGTGCTGAACCTATACAA
1 GGAATTACCAGTCGGTGCTGAACCTATACAA
* *
585545 GGAATTACTAGTAGCG-GCTGAACCTA
1 GGAATTACCAGTCG-GTGCTGAACCTA
585571 CCAGAGTCTT
Statistics
Matches: 74, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
30 4 0.05
31 43 0.58
32 1 0.01
36 22 0.30
37 4 0.05
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (31 bp):
GGAATTACCAGTCGGTGCTGAACCTATACAA
Found at i:586827 original size:36 final size:36
Alignment explanation
Indices: 586787--586855 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
586777 TTGGGTAGGC
*
586787 TCTCAAGCCCCAAAGTGCTCCATTAGGTTATGCATT
1 TCTCAAGCCCCAAAGTGATCCATTAGGTTATGCATT
* *
586823 TCTCAGGCCCCAAGGTGATCCATTAGGTTATGC
1 TCTCAAGCCCCAAAGTGATCCATTAGGTTATGC
586856 GGTTTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (36 bp):
TCTCAAGCCCCAAAGTGATCCATTAGGTTATGCATT
Found at i:590440 original size:204 final size:205
Alignment explanation
Indices: 590082--590463 Score: 635
Period size: 204 Copynumber: 1.9 Consensus size: 205
590072 CAATGTTCTA
*
590082 ACCTTACTGTAGATTTTGTTTCGAAAAGAAACAAACATCAGTTATTTACTCTAATTGTAGCCAAA
1 ACCTTACTGTAGATTTTGTTTCGAAAAGAAACAAACA-CAGCTATTTACTCTAATTGTAGCCAAA
* * *
590147 ATCCTTAATATACAATTAAGATTAAATATTTCAAATAGATTATAAATGGAAAATAGATAATTGAA
65 ATCCTTAATATACAATTAAGATTAAAGATTTCAAATAGATTATAAATGGAAAAGAGAGAATTGAA
590212 GGATTAGAACAAGTTTCATTATAGCATTCAAAATAAAATAATAAATTACTCTAATTGTATATTAT
130 GGATTAGAACAAGTTTCATTATAGCATTCAAAATAAAATAATAAATTACTCTAATTGTATATTAT
590277 AATTTACTATG
195 AATTTACTATG
*
590288 ACCTTGCTGTAGATTTTGTTTCGAAAAAGAAACAAACA-A-CTATTTACTCTAATTGTAGCCAAA
1 ACCTTACTGTAGATTTTGTTTCG-AAAAGAAACAAACACAGCTATTTACTCTAATTGTAGCCAAA
* * *
590351 ATCCTTTATATA-AAGTTAAGATTTAAGATTTCAAATAGATTATAAATGGAAAAGATAGAATTGA
65 ATCCTTAATATACAA-TTAAGATTAAAGATTTCAAATAGATTATAAATGGAAAAGAGAGAATTGA
*
590415 AGGATTAGAACAAGTTTCTTTATAGCATTCAAAATAAAATAATAAATTA
129 AGGATTAGAACAAGTTTCATTATAGCATTCAAAATAAAATAATAAATTA
590464 TTCTTTTTAG
Statistics
Matches: 165, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
203 2 0.01
204 126 0.76
205 1 0.01
206 22 0.13
207 14 0.08
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.34
Consensus pattern (205 bp):
ACCTTACTGTAGATTTTGTTTCGAAAAGAAACAAACACAGCTATTTACTCTAATTGTAGCCAAAA
TCCTTAATATACAATTAAGATTAAAGATTTCAAATAGATTATAAATGGAAAAGAGAGAATTGAAG
GATTAGAACAAGTTTCATTATAGCATTCAAAATAAAATAATAAATTACTCTAATTGTATATTATA
ATTTACTATG
Found at i:596040 original size:28 final size:28
Alignment explanation
Indices: 596000--596060 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
595990 TTTTTACTAT
*
596000 GTTGAAGCATGTATTTGACTGTACGTTG
1 GTTGAAGCATGTATTTGACTGTACATTG
* *
596028 GTTGAAGCATGTATTTGATTGTATATTG
1 GTTGAAGCATGTATTTGACTGTACATTG
596056 GTTGA
1 GTTGA
596061 TAAATGCATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.43
Consensus pattern (28 bp):
GTTGAAGCATGTATTTGACTGTACATTG
Found at i:596317 original size:76 final size:77
Alignment explanation
Indices: 596079--596428 Score: 429
Period size: 77 Copynumber: 4.6 Consensus size: 77
596069 TGTTTTTAGT
* * * * *
596079 AATTAAGTGTTAATTTAGCTGGTGTAAGTCTATATAAAGTTTCACCGATGTAATTCTATGTTATA
1 AATTAAGTGTTGATTTAACTGGTGTAAGTCTATGTAAAGTTTCACCGGTGTAAGTCTATGTTATA
**
596144 TATTATTGT-T-G
66 TACCATT-TCTAG
* * * * *
596155 AAATTAATTGTTTATTTAATTGGTGTAAGTCTATGTAAAGTTTCATCGGTGTAAGTATATGTTAT
1 -AATTAAGTGTTGATTTAACTGGTGTAAGTCTATGTAAAGTTTCACCGGTGTAAGTCTATGTTAT
* * *
596220 ATATCATTGCTGG
65 ATACCATTTCTAG
* *
596233 AATTAAGTGTTGGTTTAACTAGTGTAAGTCTATGTAAAGTTTCA-CGGTGTAAGTCTATGTTATA
1 AATTAAGTGTTGATTTAACTGGTGTAAGTCTATGTAAAGTTTCACCGGTGTAAGTCTATGTTATA
596297 TACCATTTCTAG
66 TACCATTTCTAG
* * * *
596309 ATTTAAGTGTTGATTTAACTGGTGTAAGTCTATGTTAATTTTCACTGGTGTAAGTCTATGTTAT-
1 AATTAAGTGTTGATTTAACTGGTGTAAGTCTATGTAAAGTTTCACCGGTGTAAGTCTATGTTATA
*
596373 TACCATTTCTAT
66 TACCATTTCTAG
* * *
596385 AATTAAGTGTTGATTTAATTGGTATAAGTCTATGTTAAGTTTCA
1 AATTAAGTGTTGATTTAACTGGTGTAAGTCTATGTAAAGTTTCA
596429 TCTATGTTAA
Statistics
Matches: 239, Mismatches: 31, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
76 118 0.49
77 120 0.50
78 1 0.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (77 bp):
AATTAAGTGTTGATTTAACTGGTGTAAGTCTATGTAAAGTTTCACCGGTGTAAGTCTATGTTATA
TACCATTTCTAG
Found at i:596359 original size:153 final size:153
Alignment explanation
Indices: 596079--596428 Score: 429
Period size: 153 Copynumber: 2.3 Consensus size: 153
596069 TGTTTTTAGT
* * * *
596079 AATTAAGTGTTAATTTAGCTGGTGTAAGTCTATATAAAGTTTCACCGATGTAATTCTATGTTATA
1 AATTAAGTGTTGATTTAACTGGTGTAAGTCTATGTAAAGTTTCACCGATGTAAGTCTATGTTATA
** * * *
596144 TATTATTGTTGAAATTAATTGTTTATTTAATTGGTGTAAGTCTATGTAAAGTTTCATCGGTGTAA
66 TACCATTGTTGAAATTAAGTGTTGATTTAACTGGTGTAAGTCTATGTAAAGTTTCATCGGTGTAA
* *
596209 GTATATGTTATATATCATTGCTGG
131 GTATATGTTAT-TACCATTGCTAG
* * *
596233 AATTAAGTGTTGGTTTAACTAGTGTAAGTCTATGTAAAGTTTCA-CGGTGTAAGTCTATGTTATA
1 AATTAAGTGTTGATTTAACTGGTGTAAGTCTATGTAAAGTTTCACCGATGTAAGTCTATGTTATA
* * *
596297 TACCATT-TCT-AGATTTAAGTGTTGATTTAACTGGTGTAAGTCTATGTTAATTTTCA-CTGGTG
66 TACCATTGT-TGA-AATTAAGTGTTGATTTAACTGGTGTAAGTCTATGTAAAGTTTCATC-GGTG
* * *
596359 TAAGTCTATGTTATTACCATTTCTAT
128 TAAGTATATGTTATTACCATTGCTAG
* * *
596385 AATTAAGTGTTGATTTAATTGGTATAAGTCTATGTTAAGTTTCA
1 AATTAAGTGTTGATTTAACTGGTGTAAGTCTATGTAAAGTTTCA
596429 TCTATGTTAA
Statistics
Matches: 168, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
152 50 0.30
153 79 0.47
154 39 0.23
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (153 bp):
AATTAAGTGTTGATTTAACTGGTGTAAGTCTATGTAAAGTTTCACCGATGTAAGTCTATGTTATA
TACCATTGTTGAAATTAAGTGTTGATTTAACTGGTGTAAGTCTATGTAAAGTTTCATCGGTGTAA
GTATATGTTATTACCATTGCTAG
Found at i:596534 original size:19 final size:19
Alignment explanation
Indices: 596481--596536 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
596471 CATATTTTAG
596481 GTTGCAACCTAATTTTTCAC
1 GTTGCAACCT-ATTTTTCAC
* * *
596501 ATAGAAACCATATTTTTCA-
1 GTTGCAACC-TATTTTTCAC
596520 GTTGCAACCTGATTTTT
1 GTTGCAACCT-ATTTTT
596537 GTATTGGAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
18 1 0.04
19 12 0.43
20 14 0.50
21 1 0.04
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.41
Consensus pattern (19 bp):
GTTGCAACCTATTTTTCAC
Found at i:610141 original size:28 final size:28
Alignment explanation
Indices: 610109--610165 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
610099 TATTATGTTT
* *
610109 AAGCATGTATTTGGTTGTACGTTAGTTG
1 AAGCATGTATATGATTGTACGTTAGTTG
*
610137 AAGCATGTATATGATTGTATGTTAGTTG
1 AAGCATGTATATGATTGTACGTTAGTTG
610165 A
1 A
610166 TAAATGTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.42
Consensus pattern (28 bp):
AAGCATGTATATGATTGTACGTTAGTTG
Found at i:610172 original size:28 final size:28
Alignment explanation
Indices: 610113--610174 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
610103 ATGTTTAAGC
* * *
610113 ATGTATTTGGTTGTACGTTAGTTGAAGC
1 ATGTATATGATTGTACGTTAGTTGAAGA
*
610141 ATGTATATGATTGTATGTTAGTTGATA-A
1 ATGTATATGATTGTACGTTAGTTGA-AGA
610169 ATGTAT
1 ATGTAT
610175 GTTTTTAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.45
Consensus pattern (28 bp):
ATGTATATGATTGTACGTTAGTTGAAGA
Found at i:614056 original size:24 final size:24
Alignment explanation
Indices: 614029--614085 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
614019 GGGTTGCCAG
*
614029 TGGTGGCACATCGGTGGGCACTTC
1 TGGTGGAACATCGGTGGGCACTTC
614053 TGGTGGAACATCGGTGGGCACTTC
1 TGGTGGAACATCGGTGGGCACTTC
614077 TGGTGGAAC
1 TGGTGGAAC
614086 GTCTGGAGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.16, C:0.21, G:0.39, T:0.25
Consensus pattern (24 bp):
TGGTGGAACATCGGTGGGCACTTC
Found at i:626096 original size:20 final size:20
Alignment explanation
Indices: 626071--626108 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
626061 TAACTTTGTG
*
626071 GGTCAAAGTCAATGGTCATT
1 GGTCAAAGTCAACGGTCATT
626091 GGTCAAAGTCAACGGTCA
1 GGTCAAAGTCAACGGTCA
626109 AAGTCAACGG
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:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (20 bp):
GGTCAAAGTCAACGGTCATT
Found at i:626101 original size:13 final size:13
Alignment explanation
Indices: 626091--626118 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
626081 AATGGTCATT
626091 GGTCAAAGTCAAC
1 GGTCAAAGTCAAC
626104 GGTCAAAGTCAAC
1 GGTCAAAGTCAAC
626117 GG
1 GG
626119 GTTGACTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.21, G:0.29, T:0.14
Consensus pattern (13 bp):
GGTCAAAGTCAAC
Found at i:628207 original size:69 final size:69
Alignment explanation
Indices: 628096--628234 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
628086 CTCCTTTACC
628096 GATGTCGATAGCTACTCTGGTTTTATTCTTTTAACCTGAAATGGTGAGTAAAAGAGTGAGCTTTG
1 GATGTCGATAGCTACTCTGGTTTTATTCTTTTAACCTGAAATGGTGAGTAAAAGAGTGAGCTTTG
628161 GGAA
66 GGAA
628165 GATGTCGATAGCTACTCTGGTTTTATTCTTTTAACCTGAAATGGTGAGTAAAAGAGTGAGCTTTG
1 GATGTCGATAGCTACTCTGGTTTTATTCTTTTAACCTGAAATGGTGAGTAAAAGAGTGAGCTTTG
628230 GGAA
66 GGAA
628234 G
1 G
628235 CTCAGTAATA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (69 bp):
GATGTCGATAGCTACTCTGGTTTTATTCTTTTAACCTGAAATGGTGAGTAAAAGAGTGAGCTTTG
GGAA
Found at i:629375 original size:18 final size:18
Alignment explanation
Indices: 629345--629379 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
629335 GGGGAACACG
629345 AAATTTCCATAAACTGATT
1 AAATTTCCATAAA-TGATT
629364 AAATTT-CATAAATGAT
1 AAATTTCCATAAATGAT
629380 ACCCCTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (18 bp):
AAATTTCCATAAATGATT
Found at i:631018 original size:13 final size:14
Alignment explanation
Indices: 630996--631035 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
630986 GACTTTTTGG
630996 GTCAAAGTCAACGA
1 GTCAAAGTCAACGA
*
631010 -TCAACGTCAACGA
1 GTCAAAGTCAACGA
631023 GTCAAAGTCAACG
1 GTCAAAGTCAACG
631036 GGCTGACTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (14 bp):
GTCAAAGTCAACGA
Found at i:631974 original size:77 final size:78
Alignment explanation
Indices: 631840--631987 Score: 192
Period size: 77 Copynumber: 1.9 Consensus size: 78
631830 GGGTGTTACA
* * * **
631840 GTAAGTCTGTGTTATATATCACTGTTAGAAATTAAGTGTTGGTTTAACTGGTGTAAGTATATACA
1 GTAAGTCTATGTTATATAACACTGTTAGAAATTAAGTGTTGATTTAACTGGCATAAGTATATACA
631905 AAGTTTCACCAGT
66 AAGTTTCACCAGT
* * **
631918 GTAAGTCTATGTTATATAACATTGTT-GGAATTAAGAT-TTGATTTAACTGGCATAAGTATATGT
1 GTAAGTCTATGTTATATAACACTGTTAGAAATTAAG-TGTTGATTTAACTGGCATAAGTATATAC
631981 AAAGTTT
65 AAAGTTT
631988 TTTGGTGCAC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
77 36 0.60
78 24 0.40
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (78 bp):
GTAAGTCTATGTTATATAACACTGTTAGAAATTAAGTGTTGATTTAACTGGCATAAGTATATACA
AAGTTTCACCAGT
Found at i:633322 original size:19 final size:19
Alignment explanation
Indices: 633298--633339 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
633288 ATCGTATTAC
633298 ATTTTAATTATAATAAATA
1 ATTTTAATTATAATAAATA
*
633317 ATTTTATTTATAATAAATA
1 ATTTTAATTATAATAAATA
633336 ATTT
1 ATTT
633340 ATAAAATCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTAATTATAATAAATA
Found at i:636889 original size:877 final size:875
Alignment explanation
Indices: 633336--637199 Score: 5086
Period size: 877 Copynumber: 4.4 Consensus size: 875
633326 ATAATAAATA
*
633336 ATTTATAA-A-ATCACATATTATCTTTATTCTTCATTTACTTTATTT-TTTTACAACATATTACA
1 ATTTATAATATATCACATATTATCTTTATTCTTTATTTACTTTATTTATTTTACAACATATTACA
* *
633398 TTTTATTTATAATAAATAATTTCAATACAAATCAAACATTA-AAATTCATTTTAAAAACCAAAAT
66 TTTTATTTATAATAAATAATTTCAATACAAATCAAACATTATAAATTTATTTTAAAATCCAAAAT
* * * *
633462 TATAAAAATCTTAAATTAATTAACAAAACACCCCTAAAAATTAAAGGAATATATGAAAGATCATA
131 TATAAAAATCTTAAATTAATTAACCAAACACCCCTAAAATTTAAAGGAAGACATGAAAGATCATA
* * *
633527 AAAAAAAAATGTCTTCGATATGATCTCAATTGTCAACTCTATGTCGTACGACAATCTTATTTAAG
196 CAAAGAAAATGTCTTCGATCTGATCTCAATTGTCAACTCTATGTCGTACGACAATCTTATTTAAG
** * * * * ** * *
633592 TCTAAGGAATAAGAAACAATAGGCGCAATTGAAAATTTTAT-AAAAATATAGTATTCTCTCTAGG
261 GATAAGGAATGACAAAGAATAGGCGTAACCGAAAATGTTATAAAAAATATAATA-T-TCTCTAGG
* * * *
633656 GTACAACC--------TAA------TAATTTTTTCTAAGATTTTAGGTTGTTCCCTTGAGATAAT
324 GTACAACCTAAAATGTTAATTTTTCTAATTTTTTCTAACATTTTAGGTTGTACCCTAGAGAGAAT
* * * * * * *
633707 ATTATAGTTTTTATAACATTTTCAGTTTCCATTAGAGAGTATTATTAAAATGACCACCTTGTCCA
389 ATTATATTTTTTATAAAATTTT-TGGTTGCGTAAGAGAGTATTATTAAAATGACCACCTTGTCCA
*
633772 CATCCTTAACTTTGACCATGACTATGACCACGTCCATTACAACAACTACGATTGCAAAAGTGAAT
453 CATCCTTAACTTTGACCATGACTATGACCACGTCCATTACAACAACTACGATTGCAAAAGTGATT
* * *
633837 TATTTTTATATTATAAGATTTCACACTCACTTCAAGAAATGAAGCAGAAACAATATAATGAAACT
518 TATTTTTATATTATAAGATGTCACACTCACTTCAAGAAATGAAGTAGAAACAATAGAATGAAACT
*
633902 CGTGATTTTTAATAGTTTATTATTTTGTTCCGTCACAAAAAGATAAAAGAATACTCAAAATACTT
583 CGTGATTTTTAATAGTTTATTATTTTGTTCCGTCACAAAAAGACAAAAGAATACTCAAAATACTT
* *
633967 ACATTGGAAGAATAATAAAAAATTATATCTTTTGTCTTACATCCTATCCTTGTTCTTTTTTATTA
648 ACATTGGAAGAATAATAAAAAA-TATCTCTTTTGTCGTACATCCTATCCTTGTTCTTTTTTATTA
* * *
634032 ATATAGGGTAATTAAAAGCGGTAGTATATGTTCTAAAGACTCTCAACTATTTAGCAATGAATACT
712 ATATAGGGTAATTAAAAGTGGTAGTATATGTTCTAAAGACTCTCAACTATTTAACAATGAATAAT
* * * *
634097 CAAATACCCTACAATCGCTGGTGCTCGAACACGTAGTCTCTTAAGATAACATTCATCCCTTTAAC
777 CAAATACCCTACAATCGATGGTGCTCGAACATGTAGTCTTTTAAGATAACAATCATCCCTTTAAC
* *
634162 CATTGGATATTGAGGTCACTTAATTTGTGCTATT
842 CACTGGACATTGAGGTCACTTAATTTGTGCTATT
** ** *
634196 AAGTATAATATATCGTATATTATCTTTATTCTTTATTTATTTTATTTATTTTACAACATATTACA
1 ATTTATAATATATCACATATTATCTTTATTCTTTATTTACTTTATTTATTTTACAACATATTACA
* *
634261 TTTTATTTATAATAAATAATTTCAATAAAAATCCAACATTATAAATTTATTTTAAAATCCAAAAT
66 TTTTATTTATAATAAATAATTTCAATACAAATCAAACATTATAAATTTATTTTAAAATCCAAAAT
*
634326 TATAAAAATCTTAAATTAATTAACCTAACACCCCTAAAATTTAAAGGAAGACATGAAAGATCATA
131 TATAAAAATCTTAAATTAATTAACCAAACACCCCTAAAATTTAAAGGAAGACATGAAAGATCATA
* * * * * * *
634391 CAAAGAAAATATCTTCGATCTGACCTCAATTGTCAACTATATGTTGTATGACAATCTTACTTGA-
196 CAAAGAAAATGTCTTCGATCTGATCTCAATTGTCAACTCTATGTCGTACGACAATCTTATTTAAG
** * *
634455 GACTAAGGAATGACAAAGAATAGGAATAAACGAAAATGATATAAAAAATATAATATTCTCACTAG
261 GA-TAAGGAATGACAAAGAATAGGCGTAACCGAAAATGTTATAAAAAATATAATATTCT--CTAG
*
634520 GGTACAACCTAAAATGTTAAATTTTTACTACTTTTTTCTAACATTTTAGGTTGTACCCTAGAGAG
323 GGTACAACCTAAAATGTT-AATTTTT-CTAATTTTTTCTAACATTTTAGGTTGTACCCTAGAGAG
* * * * *
634585 AATATTATATTTTTTATAAAATTTTCGGTTGTGCCAAGAGATTATTATTAAAATGATCACCTTGT
386 AATATTATATTTTTTATAAAATTTTTGGTTGCG-TAAGAGAGTATTATTAAAATGACCACCTTGT
* * *
634650 CCACATCCTTAACTGTGACCATGACTATGACCACGTCCATTACAACGACTACGATTGCAAAAATG
450 CCACATCCTTAACTTTGACCATGACTATGACCACGTCCATTACAACAACTACGATTGCAAAAGTG
* *
634715 ATTTATTTTTATATTATAAGATGTCACACTCACTTCAATAAATTAAGTAGAAACAATAGAATGAA
515 ATTTATTTTTATATTATAAGATGTCACACTCACTTCAAGAAATGAAGTAGAAACAATAGAATGAA
* * *
634780 AATCATGATTTTTAATAGTTTATTATTTTGTTCCGT--CAAAAAGACAAAATAATACTCAAAATA
580 ACTCGTGATTTTTAATAGTTTATTATTTTGTTCCGTCACAAAAAGACAAAAGAATACTCAAAATA
* * * * * * ** * *
634843 CTTCCATCGGAAGAATAATACAAAATCCTCTCTTTTTTCGTACATCATATATTTCTTCTTTTTTC
645 CTTACATTGGAAGAATAATAAAAAAT-ATCTCTTTTGTCGTACATCCTATCCTTGTTCTTTTTTA
* * * * * * ** *
634908 TTAAAATAGGATAATTATAAGT-ATTGATATATGCTCTAAACTCTCTCAACTATTTAACATTGAA
709 TTAATATAGGGTAATTAAAAGTGGTAG-TATATGTTCTAAAGACTCTCAACTATTTAACAATGAA
* * * * * * * * *
634972 TATTTAAATACCCTACAATCAATCGTGTTCGAACATGCAGTCTTTTAAGAAAACAATCATCACAT
773 TAATCAAATACCCTACAATCGATGGTGCTCGAACATGTAGTCTTTTAAGATAACAATCATCCCTT
* * *
635037 TAACCATTGGACATTAAGGTCACTT-ATTTGTGCTTTT
838 TAACCACTGGACATTGAGGTCACTTAATTTGTGCTATT
635074 ATTTATAATATATCAC--A-TA---TT-TTCTTTATTTACTTTATTTATTTTACAACATATTACA
1 ATTTATAATATATCACATATTATCTTTATTCTTTATTTACTTTATTTATTTTACAACATATTACA
635132 TTTTATTTATAATAAATAATTTCAATACAAATCAAACATTATAAATTTATTTTAAAATCCAAAAT
66 TTTTATTTATAATAAATAATTTCAATACAAATCAAACATTATAAATTTATTTTAAAATCCAAAAT
* ** *
635197 TATAAAAATATTAAATTAATTAACCAGTCACCCCTAAAATTTAATGGAAGACATGAAAGATCATA
131 TATAAAAATCTTAAATTAATTAACCAAACACCCCTAAAATTTAAAGGAAGACATGAAAGATCATA
* * * * * *
635262 AAAAGAAAATGTCATCGATATTG-TCTTAATTGTCAACACTATGTCGTACGACAATCTTATTCAA
196 CAAAGAAAATGTCTTCGAT-CTGATCTCAATTGTCAACTCTATGTCGTACGACAATCTTATTTAA
* * * * * *
635326 AGCTAAGAAATGACAAAGAATAGGCGCAACCGAAAATTTTAT-AAAAATATAATATTCTCTCTAC
260 GGATAAGGAATGACAAAGAATAGGCGTAACCGAAAATGTTATAAAAAATATAATA-T-TCTCTAG
* * * *
635390 GATACAACTTTAAATGTTAATTTTTTTCTAATTTTTTCTAACATTTCAGGTTGTACCCTAGAGAG
323 GGTACAACCTAAAATGTTAA--TTTTTCTAATTTTTTCTAACATTTTAGGTTGTACCCTAGAGAG
* * * * * * * *
635455 AATATTATA-TTTTTATTACATTTTTTGTTGCCCTTAGAGTGTATTGTTAAAATGACCACCTTAT
386 AATATTATATTTTTTATAAAATTTTTGGTTG-CGTAAGAGAGTATTATTAAAATGACCACCTTGT
* * * *
635519 CCACATCCTTAACTTTGACCATGACTGTGACCAAGTTCATTACAACAACTACGATTGCAAAACTG
450 CCACATCCTTAACTTTGACCATGACTATGACCACGTCCATTACAACAACTACGATTGCAAAAGTG
* * * *
635584 ATTTATTTTTTATATTATAAGATGTCACACTCACTTCAAAAAATGAAATATAAACAAAAATATAA
515 ATTTA-TTTTTATATTATAAGATGTCACACTCACTTCAAGAAATGAAGTAGAAAC---AATAGAA
* *
635649 TGAAACTCGTGATTTTTAATAGTTTATTATTTTTTTCCGTCACAAAAAGACAAAATAATACTCAA
576 TGAAACTCGTGATTTTTAATAGTTTATTATTTTGTTCCGTCACAAAAAGACAAAAGAATACTCAA
* * ** *
635714 AATACTTACATTGGAAGAATAATTAAAAATTATCTCTTTTGCCGTGTATCCTATCCTTGTGTTTT
641 AATACTTACATTGGAAGAATAA-TAAAAAATATCTCTTTTGTCGTACATCCTATCC-T-TGTTCT
* * * *
635779 TTTTTATTAATCTAGTGTAATTAAAAGTGGTAGTATATGTTCTAAAGATTCTCAACTATTTAATA
703 TTTTTATTAATATAGGGTAATTAAAAGTGGTAGTATATGTTCTAAAGACTCTCAACTATTTAACA
* * * *
635844 ATGAATAATCAAATATCCTACAATCGCTGGTGCTCGAGCATGTAGTCTATTAAGATAACAATCAT
768 ATGAATAATCAAATACCCTACAATCGATGGTGCTCGAACATGTAGTCTTTTAAGATAACAATCAT
* *
635909 CCCTTTAACCACTGGACATTGAGGTCACTTAATTTGTGTTGTT
833 CCCTTTAACCACTGGACATTGAGGTCACTTAATTTGTGCTATT
* * *
635952 ATTTATAATATAT-AGTATATTGTCTTTATTCTTTATTTACTTTATTTATTTTATAACATATTAC
1 ATTTATAATATATCA-CATATTATCTTTATTCTTTATTTACTTTATTTATTTTACAACATATTAC
* *
636016 ATTTTATTTGTAATAAATAATTTCAATACAAATCTAACATTATAAATTTATTTTAAAATCCAAAA
65 ATTTTATTTATAATAAATAATTTCAATACAAATCAAACATTATAAATTTATTTTAAAATCCAAAA
* * *
636081 TTATAAAAATGTTAAATTAATTAACCAAACACCCTTAAAATTTAAAGGAATACATGAAAGATCAT
130 TTATAAAAATCTTAAATTAATTAACCAAACACCCCTAAAATTTAAAGGAAGACATGAAAGATCAT
* * * *
636146 ACAAAGAAAATATCTTCGATCTGATCTCAATTTTCAACTCTATGTCATACGACATTCTTATTTAA
195 ACAAAGAAAATGTCTTCGATCTGATCTCAATTGTCAACTCTATGTCGTACGACAATCTTATTTAA
* * *
636211 GGATAAGGAATGAGAAATAATAGGCGTAACCAAAAATGTTATAAAAAATATAATATTCTCTAGGG
260 GGATAAGGAATGACAAAGAATAGGCGTAACCGAAAATGTTATAAAAAATATAATATTCTCTAGGG
** * * *
636276 TACAAATTAAAATTTTAATTTTTCTAATTTTTTCTAAAATTTTAGGTTGTACCCTAAAGAGAATA
325 TACAACCTAAAATGTTAATTTTTCTAATTTTTTCTAACATTTTAGGTTGTACCCTAGAGAGAATA
*
636341 TTATATTTTTTATAAAATTTTTGGTTGCGTGAAGAGGGTATTATTAAAATGACCACCTTGTCCAC
390 TTATATTTTTTATAAAATTTTTGGTTGCGT-AAGAGAGTATTATTAAAATGACCACCTTGTCCAC
* * * *
636406 ATCCTTAACTTTGACCATGACTATGACCACGTCCATTACTACGAGTACGACTGCAAAAGTGATTT
454 ATCCTTAACTTTGACCATGACTATGACCACGTCCATTACAACAACTACGATTGCAAAAGTGATTT
*
636471 ATTTTTTATATTATAAGATTTCACACTCACTTCAAGAAATGAAGTAGAAACAATAGAATGAAACT
519 A-TTTTTATATTATAAGATGTCACACTCACTTCAAGAAATGAAGTAGAAACAATAGAATGAAACT
* * * *
636536 CGTGATTTTTAATATTTTATTATTTTCTTCTGTTACAAAAA-ACAAAAGAATACTCAAAATACTT
583 CGTGATTTTTAATAGTTTATTATTTTGTTCCGTCACAAAAAGACAAAAGAATACTCAAAATACTT
* * * * *
636600 -CGATTAGAAGAATAATACAAAAATCTCTCTTTTTTCGTACATCTTATCCTTGTTATTTTTTATT
648 AC-ATTGGAAGAATAATA-AAAAATATCTCTTTTGTCGTACATCCTATCCTTGTTCTTTTTTATT
* ** * *
636664 AATCTAGGGTAATTTCAAGTTGTAGTATATGTTCTAAATACTCTCAACTATTTAACAATGAATAA
711 AATATAGGGTAATTAAAAGTGGTAGTATATGTTCTAAAGACTCTCAACTATTTAACAATGAATAA
* * * * *
636729 TCAATTACCCTACATTCGATGGTGCTCGAACATGTAATCTTTTAAGATAACAATAATCTCTTTAA
776 TCAAATACCCTACAATCGATGGTGCTCGAACATGTAGTCTTTTAAGATAACAATCATCCCTTTAA
* *
636794 CCACTGGACATTGAGGTCACTTAATTTTTGCTCTT
841 CCACTGGACATTGAGGTCACTTAATTTGTGCTATT
* *
636829 GTTTATAATATATCACATATTATCTTTATTCTTTATTTACTTTATTTATTTTATAACATATTACA
1 ATTTATAATATATCACATATTATCTTTATTCTTTATTTACTTTATTTATTTTACAACATATTACA
* *
636894 TTTTATTTATAATAAATAATTTCAATGCAAATCAAACATTATAAATTTATTTTAAAATCCACAAT
66 TTTTATTTATAATAAATAATTTCAATACAAATCAAACATTATAAATTTATTTTAAAATCCAAAAT
* * *
636959 TATAAAAAATCTTAAATTAATTAACCAAAGACCTCTAAAATTTAAAGGAAGACATGAAATATCAT
131 TAT-AAAAATCTTAAATTAATTAACCAAACACCCCTAAAATTTAAAGGAAGACATGAAAGATCAT
* * *
637024 ACAAAGAAAATGTCTTTGATCTGATCTCAATTATCAACTCTATGTCGTACGTCAATCTTATTT-A
195 ACAAAGAAAATGTCTTCGATCTGATCTCAATTGTCAACTCTATGTCGTACGACAATCTTATTTAA
* * * ** *
637088 TGACTAAGGAATAACAAAGAATAGGTGTAACAAAAAATGTTTTAAAAAATATAATATTCTCTATA
260 GGA-TAAGGAATGACAAAGAATAGGCGTAACCGAAAATGTTATAAAAAATATAATATTCTC--TA
* *
637153 GGGTACAACCTAAAATGGTAATTTTTTCTAAATTTTTCTAACATTTT
322 GGGTACAACCTAAAATGTTAA-TTTTTCTAATTTTTTCTAACATTTT
637200 CTGTTGAATC
Statistics
Matches: 2599, Mismatches: 340, Indels: 109
0.85 0.11 0.04
Matches are distributed among these distances:
860 6 0.00
861 1 0.00
862 32 0.01
863 59 0.02
864 165 0.06
865 24 0.01
869 107 0.04
870 120 0.05
871 245 0.09
872 8 0.00
873 44 0.02
874 2 0.00
875 62 0.02
876 8 0.00
877 419 0.16
878 219 0.08
879 259 0.10
880 73 0.03
881 261 0.10
882 51 0.02
883 152 0.06
884 26 0.01
885 244 0.09
886 12 0.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (875 bp):
ATTTATAATATATCACATATTATCTTTATTCTTTATTTACTTTATTTATTTTACAACATATTACA
TTTTATTTATAATAAATAATTTCAATACAAATCAAACATTATAAATTTATTTTAAAATCCAAAAT
TATAAAAATCTTAAATTAATTAACCAAACACCCCTAAAATTTAAAGGAAGACATGAAAGATCATA
CAAAGAAAATGTCTTCGATCTGATCTCAATTGTCAACTCTATGTCGTACGACAATCTTATTTAAG
GATAAGGAATGACAAAGAATAGGCGTAACCGAAAATGTTATAAAAAATATAATATTCTCTAGGGT
ACAACCTAAAATGTTAATTTTTCTAATTTTTTCTAACATTTTAGGTTGTACCCTAGAGAGAATAT
TATATTTTTTATAAAATTTTTGGTTGCGTAAGAGAGTATTATTAAAATGACCACCTTGTCCACAT
CCTTAACTTTGACCATGACTATGACCACGTCCATTACAACAACTACGATTGCAAAAGTGATTTAT
TTTTATATTATAAGATGTCACACTCACTTCAAGAAATGAAGTAGAAACAATAGAATGAAACTCGT
GATTTTTAATAGTTTATTATTTTGTTCCGTCACAAAAAGACAAAAGAATACTCAAAATACTTACA
TTGGAAGAATAATAAAAAATATCTCTTTTGTCGTACATCCTATCCTTGTTCTTTTTTATTAATAT
AGGGTAATTAAAAGTGGTAGTATATGTTCTAAAGACTCTCAACTATTTAACAATGAATAATCAAA
TACCCTACAATCGATGGTGCTCGAACATGTAGTCTTTTAAGATAACAATCATCCCTTTAACCACT
GGACATTGAGGTCACTTAATTTGTGCTATT
Found at i:640022 original size:32 final size:31
Alignment explanation
Indices: 639986--640070 Score: 116
Period size: 32 Copynumber: 2.7 Consensus size: 31
639976 AAGAGATTAT
* *
639986 CTTGGGGCCTGAGAGCCTATCCAAGGAAGTAC
1 CTTGGGGCCTCAGAGCCTA-CCAAGGAAATAC
*
640018 CTTGGGGCCTTAGAGCCTACTCAAGGAAATAC
1 CTTGGGGCCTCAGAGCCTAC-CAAGGAAATAC
*
640050 CTTAGGGCCTCAGAGCCTACC
1 CTTGGGGCCTCAGAGCCTACC
640071 CAAGATCACC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
31 2 0.04
32 46 0.96
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.20
Consensus pattern (31 bp):
CTTGGGGCCTCAGAGCCTACCAAGGAAATAC
Found at i:641128 original size:26 final size:28
Alignment explanation
Indices: 641068--641128 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
641058 ATGGCTTGGG
*
641068 GGTATTTTAGGTCATTTCACACTTTAGA
1 GGTATTTTAGGTCATTTCACACTTCAGA
* *
641096 GGTATTTT-GGTCATTTTACAGTTCA-A
1 GGTATTTTAGGTCATTTCACACTTCAGA
641122 GGTATTT
1 GGTATTT
641129 CAATAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 8 0.27
27 14 0.47
28 8 0.27
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (28 bp):
GGTATTTTAGGTCATTTCACACTTCAGA
Found at i:641555 original size:26 final size:25
Alignment explanation
Indices: 641519--641573 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
641509 TTGGGGGTAG
* * *
641519 ATTTATTCATTTCAGAGCTTATGGGT
1 ATTTAGTCATTCCAGAGCTT-GGGGT
*
641545 ATTTAGTCATTCCAGGGCTTGGGGT
1 ATTTAGTCATTCCAGAGCTTGGGGT
641570 ATTT
1 ATTT
641574 TAGGTTATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.20, C:0.13, G:0.24, T:0.44
Consensus pattern (25 bp):
ATTTAGTCATTCCAGAGCTTGGGGT
Found at i:650382 original size:113 final size:113
Alignment explanation
Indices: 650257--651032 Score: 1274
Period size: 113 Copynumber: 6.9 Consensus size: 113
650247 AAAGGTCGAG
*
650257 CAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTA
1 CAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
* * * * ** *
650322 TTTGGAAAAGTTGATCCATCGAGTGATGAATTAAAACAAAAAGTTGAA
66 TCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAA
** *
650370 CAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
1 CAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
*
650435 TCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAA
66 TCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAA
*
650483 CAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
1 CAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
*
650548 TCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG-TAAAAGATTGAA
66 TCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAG-TTGAA
*
650596 CAAGCTATTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
1 CAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
*
650661 TATGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAATA-TTGAA
66 TCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAA-AGTTGAA
650709 CAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
1 CAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
* *
650774 TCTGGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAA
66 TCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAA
650822 CAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
1 CAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
* *
650887 TCTGGAAAAGCTGATCCATCATGTGATGGATTTGAGCAAAAGGTTGAA
66 TCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAA
650935 CAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTT
1 CAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TT
* * * *
651000 -TCCGGAAATGTTGATCCAT--TGTGATGGATTTGA
65 CTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
651033 ATCTTTTCTA
Statistics
Matches: 629, Mismatches: 29, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
111 14 0.02
112 4 0.01
113 605 0.96
114 5 0.01
115 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (113 bp):
CAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
TCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAA
Found at i:652199 original size:18 final size:19
Alignment explanation
Indices: 652171--652248 Score: 79
Period size: 19 Copynumber: 3.9 Consensus size: 19
652161 TTTACAAAAT
652171 AAAAGAATAAATTGAATTTC
1 AAAA-AATAAATTGAATTTC
* *
652191 -GAAAATAAATTGAATCTC
1 AAAAAATAAATTGAATTTC
652209 AAAAAATAAATTGAATTT-
1 AAAAAATAAATTGAATTTC
652227 AGAGAAAATAAACTTAGAATTT
1 A-A-AAAATAAA-TT-GAATTT
652249 ATTAATAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
18 15 0.31
19 18 0.37
20 8 0.16
21 2 0.04
22 6 0.12
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.29
Consensus pattern (19 bp):
AAAAAATAAATTGAATTTC
Found at i:652601 original size:12 final size:11
Alignment explanation
Indices: 652577--652615 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
652567 ATCTTGACCC
652577 TCTTTTTTATTT
1 TCTTTTTT-TTT
652589 TCTTCTTTTTTT
1 TCTT-TTTTTTT
652601 TC-TTTTTTTT
1 TCTTTTTTTTT
652611 TCTTT
1 TCTTT
652616 ATTTCATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.36
11 3 0.12
12 9 0.36
13 4 0.16
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:656171 original size:9 final size:9
Alignment explanation
Indices: 656159--656190 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
656149 AAATATAATT
656159 AATGTAAAG
1 AATGTAAAG
656168 AATGTAAAG
1 AATGTAAAG
656177 AATGTAAAG
1 AATGTAAAG
656186 AATGT
1 AATGT
656191 TTGCCATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.25
Consensus pattern (9 bp):
AATGTAAAG
Found at i:656375 original size:17 final size:17
Alignment explanation
Indices: 656353--656386 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
656343 ACAGGGAGGT
656353 CTTCAGCAGTCCAATTG
1 CTTCAGCAGTCCAATTG
656370 CTTCAGCAGTCCAATTG
1 CTTCAGCAGTCCAATTG
656387 TTGAGTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (17 bp):
CTTCAGCAGTCCAATTG
Found at i:660008 original size:15 final size:15
Alignment explanation
Indices: 659985--660016 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
659975 TGCAATGAAT
659985 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
660000 AATGCATGTATGCAA
1 AATGAATGTATGCAA
660015 AA
1 AA
660017 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:664191 original size:3 final size:3
Alignment explanation
Indices: 664185--664216 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
664175 TATATATTTG
664185 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
664217 TATTACAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:664724 original size:20 final size:20
Alignment explanation
Indices: 664699--664736 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
664689 AACGACGTCG
*
664699 TTTTCTTTTTATGAATTATT
1 TTTTCTTTTTATAAATTATT
664719 TTTTCTTTTTATAAATTA
1 TTTTCTTTTTATAAATTA
664737 AATAATTATT
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:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTCTTTTTATAAATTATT
Found at i:668906 original size:41 final size:41
Alignment explanation
Indices: 668849--669172 Score: 287
Period size: 41 Copynumber: 8.2 Consensus size: 41
668839 TAAAGCACGA
* * *
668849 GCGTTCGTATAAAAATGCCACTAAAGTACAAGTCTATAGGG
1 GCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTATAGCG
* * * *
668890 GCGTTCGTATAAAAATGCCACTAAAGTAGGAGTTTTTAGCG
1 GCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTATAGCG
*
668931 GTGTTTGTAT-AAAATCGCCACT--A--A--AG--TAT---G
1 GCGTTTGTATAAAAAT-GCCACTAAAGTACGAGTCTATAGCG
**** * *
668961 GCGTTTGTATAAAAGCAACACTACAGTACGAGTCTATAGTG
1 GCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTATAGCG
* * * *
669002 GCATTTGTATAAAAACGCCACTAAAGTATGAGTCTTTAGCG
1 GCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTATAGCG
* ** *
669043 GAGTTTGTATAAAAACCCCGCTAAAGTACGAGTCTATAGCG
1 GCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTATAGCG
* *
669084 GCGTTTGTATAAAAATGCCACTAAAGTAC-AGTCTTTAGCA
1 GCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTATAGCG
* * * * *
669124 GCGTTTATATAAAAATGCCACTAAAGTACAAGTATTTAGCA
1 GCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTATAGCG
669165 GCGTTTGT
1 GCGTTTGT
669173 TCAAAAAACA
Statistics
Matches: 233, Mismatches: 36, Indels: 28
0.78 0.12 0.09
Matches are distributed among these distances:
30 14 0.06
31 3 0.01
32 1 0.00
33 2 0.01
34 1 0.00
35 2 0.01
36 2 0.01
37 1 0.00
38 3 0.01
39 1 0.00
40 42 0.18
41 161 0.69
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (41 bp):
GCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTATAGCG
Found at i:668974 original size:71 final size:70
Alignment explanation
Indices: 668889--669031 Score: 171
Period size: 71 Copynumber: 2.0 Consensus size: 70
668879 AGTCTATAGG
* * * ** *
668889 GGCGTTCGTATAAAAATGC-CACTAAAGTAGGAGTTTTTAGCGGTGTTTGTATAAAATCGCCACT
1 GGCGTTCGTAT-AAAA-GCACACTAAAGTACGAGTCTATAGCGGCATTTGTATAAAAACGCCACT
668953 AAAGTAT
64 AAAGTAT
* * *
668960 GGCGTTTGTATAAAAGCAACACTACAGTACGAGTCTATAGTGGCATTTGTATAAAAACGCCACTA
1 GGCGTTCGTATAAAAGC-ACACTAAAGTACGAGTCTATAGCGGCATTTGTATAAAAACGCCACTA
669025 AAGTAT
65 AAGTAT
669031 G
1 G
669032 AGTCTTTAGC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
69 2 0.03
70 4 0.07
71 55 0.90
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (70 bp):
GGCGTTCGTATAAAAGCACACTAAAGTACGAGTCTATAGCGGCATTTGTATAAAAACGCCACTAA
AGTAT
Found at i:669012 original size:112 final size:113
Alignment explanation
Indices: 668789--669074 Score: 344
Period size: 112 Copynumber: 2.5 Consensus size: 113
668779 TTGTAAAGAT
* * * * *
668789 AAACGCCACTAAAATACAAGTCTTTAGCGGCGTTTGTAGAAAAACACCACTAAAGCACGAGCGTT
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGAGTTTGTATAAAAACACCACTAAAGTACGAGCGTT
*
668854 CGTATAAAAATGCCACTAAAGTACAAGTCTATAGGGGCGTTCGTATAA
66 CGTATAAAAATGCCACTAAAGTACAAGTCTATAGGGGCATTCGTATAA
* * * * * * *
668902 AAATGCCACTAAAGTAGGAGTTTTTAGCGGTGTTTGTATAAAATCGCCACTAAAGTATG-GCGTT
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGAGTTTGTATAAAAACACCACTAAAGTACGAGCGTT
* * * * *
668966 TGTAT-AAAA-GCAACACTACAGTACGAGTCTATAGTGGCATTTGTATAA
66 CGTATAAAAATGC--CACTAAAGTACAAGTCTATAGGGGCATTCGTATAA
* * *
669014 AAACGCCACTAAAGTATGAGTCTTTAGCGGAGTTTGTATAAAAACCCCGCTAAAGTACGAG
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGAGTTTGTATAAAAACACCACTAAAGTACGAG
669075 TCTATAGCGG
Statistics
Matches: 145, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
110 2 0.01
111 4 0.03
112 90 0.62
113 49 0.34
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (113 bp):
AAACGCCACTAAAGTACGAGTCTTTAGCGGAGTTTGTATAAAAACACCACTAAAGTACGAGCGTT
CGTATAAAAATGCCACTAAAGTACAAGTCTATAGGGGCATTCGTATAA
Found at i:669104 original size:82 final size:81
Alignment explanation
Indices: 668979--669172 Score: 244
Period size: 81 Copynumber: 2.4 Consensus size: 81
668969 ATAAAAGCAA
* * * * *
668979 CACTACAGTACGAGTCTATAGTGGCATTTGTATAAAAACGCCACTAAAGTATGAGTCTTTAGCGG
1 CACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTA-CAGTCTTTAGCAG
*
669044 AGTTTGTATAAAAACCC
65 AGTTTATATAAAAACCC
* * *
669061 CGCTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAATGCCACTAAAGTACAGTCTTTAGCAGC
1 CACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAGTCTTTAGCAGA
**
669126 GTTTATATAAAAATGC
66 GTTTATATAAAAACCC
* * * *
669142 CACTAAAGTACAAGTATTTAGCAGCGTTTGT
1 CACTAAAGTACGAGTCTATAGCGGCGTTTGT
669173 TCAAAAAACA
Statistics
Matches: 96, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
81 50 0.52
82 46 0.48
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (81 bp):
CACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACAGTCTTTAGCAGA
GTTTATATAAAAACCC
Found at i:671425 original size:32 final size:32
Alignment explanation
Indices: 671389--671492 Score: 145
Period size: 32 Copynumber: 3.2 Consensus size: 32
671379 ATATATTTCT
* * * *
671389 TGAATGCAGGACTAACTCTGATATACATTATC
1 TGAATGCAAGATTAACTCTGGTATGCATTATC
* *
671421 TGAATGCAATATTAAATCTGGTATGCATTATC
1 TGAATGCAAGATTAACTCTGGTATGCATTATC
*
671453 TGAATGCAAGATTAACTATGGTATGCATTATC
1 TGAATGCAAGATTAACTCTGGTATGCATTATC
671485 TGAATGCA
1 TGAATGCA
671493 TCATTAGTTC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (32 bp):
TGAATGCAAGATTAACTCTGGTATGCATTATC
Found at i:671510 original size:64 final size:64
Alignment explanation
Indices: 671389--671511 Score: 149
Period size: 64 Copynumber: 1.9 Consensus size: 64
671379 ATATATTTCT
* * **
671389 TGAATGCAGGACTAACTCTGATATACATTATCTGAATGCAATATTAAATCTGGTATGCATTATC
1 TGAATGCAAGACTAACTATGATATACATTATCTGAATGCAATATTAAATCTACTATGCATTATC
* * * **
671453 TGAATGCAAGATTAACTATGGTATGCATTATCTGAATGC-ATCATTAGTTCTACTATGCA
1 TGAATGCAAGACTAACTATGATATACATTATCTGAATGCAAT-ATTAAATCTACTATGCA
671512 GATAATAATA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
63 2 0.04
64 47 0.96
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (64 bp):
TGAATGCAAGACTAACTATGATATACATTATCTGAATGCAATATTAAATCTACTATGCATTATC
Found at i:671893 original size:18 final size:18
Alignment explanation
Indices: 671870--671907 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
671860 TACTGTTTTA
671870 TTTGTTGCTATTACTGAT
1 TTTGTTGCTATTACTGAT
* *
671888 TTTGTTTCTATTATTGAT
1 TTTGTTGCTATTACTGAT
671906 TT
1 TT
671908 ATTACTAATT
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:0.16, C:0.08, G:0.13, T:0.63
Consensus pattern (18 bp):
TTTGTTGCTATTACTGAT
Found at i:675318 original size:57 final size:57
Alignment explanation
Indices: 675240--675350 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 57
675230 AGTGTGCAGA
* * *
675240 AAAAAGTTGAGAAATTTATAATTTGTTTCTGAATTTCCGTATGGGCACTATGTGTGC
1 AAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGCACTATGTGTGC
*
675297 AAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGCACTTTGTG
1 AAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGCACTATGTG
675351 ATATGATATC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (57 bp):
AAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGCACTATGTGTGC
Found at i:676609 original size:17 final size:17
Alignment explanation
Indices: 676587--676620 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
676577 TAAGAGTTAA
676587 TTTAATAAATGAACTAG
1 TTTAATAAATGAACTAG
*
676604 TTTAATGAATGAACTAG
1 TTTAATAAATGAACTAG
676621 ATGATTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (17 bp):
TTTAATAAATGAACTAG
Found at i:679251 original size:40 final size:40
Alignment explanation
Indices: 679191--679299 Score: 173
Period size: 40 Copynumber: 2.7 Consensus size: 40
679181 TACATATTGC
* * *
679191 TGTATACGGTGGGCATGACCTTATGTGTAATGCACTTCAG
1 TGTATATGGTGGGCACGACCTTATGTGTAATACACTTCAG
**
679231 TGTATATGGTGGGCACGACCTTATGTGTAATACACTTTGG
1 TGTATATGGTGGGCACGACCTTATGTGTAATACACTTCAG
679271 TGTATATGGTGGGCACGACCTTATGTGTA
1 TGTATATGGTGGGCACGACCTTATGTGTA
679300 GCACTATGGT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (40 bp):
TGTATATGGTGGGCACGACCTTATGTGTAATACACTTCAG
Found at i:679386 original size:13 final size:13
Alignment explanation
Indices: 679364--679398 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
679354 GGCTATTGTA
*
679364 TATGGTATATGTT
1 TATGGAATATGTT
679377 TATGGAATATGTT
1 TATGGAATATGTT
679390 TATGGAATA
1 TATGGAATA
679399 ATGGCAAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TATGGAATATGTT
Found at i:679483 original size:24 final size:24
Alignment explanation
Indices: 679416--679488 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
679406 GTGTATTGGT
679416 AAAATAAGCTTACGAGCTTATGGA
1 AAAATAAGCTTACGAGCTTATGGA
* *
679440 TAAAT--G-GTA--AG-TATATTGGA
1 AAAATAAGCTTACGAGCT-TA-TGGA
679460 AAAATAAGCTTACGAGCTTATGGA
1 AAAATAAGCTTACGAGCTTATGGA
*
679484 TAAAT
1 AAAAT
679489 GGTAAGTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 16
0.63 0.09 0.28
Matches are distributed among these distances:
18 1 0.03
19 4 0.11
20 8 0.22
21 2 0.06
22 2 0.06
23 2 0.06
24 12 0.33
25 4 0.11
26 1 0.03
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAATAAGCTTACGAGCTTATGGA
Found at i:679551 original size:46 final size:44
Alignment explanation
Indices: 679389--679638 Score: 367
Period size: 44 Copynumber: 5.6 Consensus size: 44
679379 TGGAATATGT
* *
679389 TTATGGA-ATAATGGCAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGATA-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
679433 TTATGGATAAATGGTAAGTATATTGGAAAAATAAGCTTACGAGC
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
679477 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACAAGC
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
679521 TTATGGTATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGG-A-TAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
679567 TTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGCTTATGAGA
1 TTATGG-A-TAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
679613 TTATGTGATAAATGGAAATTATATTG
1 TTATG-GATAAATGGTAAGTATATTG
679639 ATAAGAAATT
Statistics
Matches: 191, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
44 87 0.46
45 18 0.09
46 85 0.45
47 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (44 bp):
TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:682522 original size:19 final size:19
Alignment explanation
Indices: 682493--682550 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
682483 ATAAGAGCTA
* *
682493 AAAAAAT-AAAATATAAGG
1 AAAAAATGAAAATAGAAAG
682511 AAAAAATGAAAA-AGAAAG
1 AAAAAATGAAAATAGAAAG
682529 AAGAAAATGAAAAT-GAAA-
1 AA-AAAATGAAAATAGAAAG
682547 AAAA
1 AAAA
682551 GGAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 2 0.06
18 15 0.43
19 18 0.51
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (19 bp):
AAAAAATGAAAATAGAAAG
Found at i:682541 original size:25 final size:24
Alignment explanation
Indices: 682513--682565 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
682503 ATATAAGGAA
* *
682513 AAAATGAAAAAGAAAGAAGAAAATG
1 AAAATGAAAAA-AAAGAAAAAAAAG
*
682538 AAAATGAAAAAAAGGAAAAAAAAG
1 AAAATGAAAAAAAAGAAAAAAAAG
682562 AAAA
1 AAAA
682566 AGATAACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (24 bp):
AAAATGAAAAAAAAGAAAAAAAAG
Found at i:682566 original size:25 final size:26
Alignment explanation
Indices: 682512--682594 Score: 73
Period size: 25 Copynumber: 3.2 Consensus size: 26
682502 AATATAAGGA
* *
682512 AAAAATGAAAAAGAAAGAAGAAAATG
1 AAAAATGAAAAAGAAAGAAAAAAAAG
*
682538 -AAAATGAAAAA-AAGGAAAAAAAAG
1 AAAAATGAAAAAGAAAGAAAAAAAAG
* *
682562 AAAAA-GATAACGAAGGAGAAAAAAATAG
1 AAAAATGAAAAAGAA--AGAAAAAAA-AG
682590 AAAAA
1 AAAAA
682595 AATTATGAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
24 14 0.30
25 17 0.37
27 8 0.17
28 7 0.15
ACGTcount: A:0.75, C:0.01, G:0.18, T:0.06
Consensus pattern (26 bp):
AAAAATGAAAAAGAAAGAAAAAAAAG
Found at i:686535 original size:40 final size:40
Alignment explanation
Indices: 686479--686600 Score: 217
Period size: 40 Copynumber: 3.0 Consensus size: 40
686469 TGCAGGTTTA
686479 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
686519 TAATACACTTCCGTGTATATGGTGGGCATGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
686559 TAATACACTTCGGTGTATATAGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
686599 TA
1 TA
686601 GCTCTATGGG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:686745 original size:44 final size:44
Alignment explanation
Indices: 686677--686882 Score: 315
Period size: 46 Copynumber: 4.6 Consensus size: 44
686667 TGGTATATGG
* *
686677 TTATGGA-ATAATGGCAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGATA-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
686721 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
686765 TTATGGTATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGG-A-TAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
686811 TTATGGAATTAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGG-A-TAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
686857 TTATGTGATAAATGGAAATTATATTG
1 TTATG-GATAAATGGTAAGTATATTG
686883 ATAAGAAATT
Statistics
Matches: 153, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
44 46 0.30
45 18 0.12
46 88 0.58
47 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.33
Consensus pattern (44 bp):
TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:688851 original size:18 final size:17
Alignment explanation
Indices: 688830--688870 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
688820 ATTAATTTAG
688830 AAAAAATGCGAAGAAATT
1 AAAAAA-GCGAAGAAATT
*
688848 AAAAAAGCGGAGAAATT
1 AAAAAAGCGAAGAAATT
688865 AAAAAA
1 AAAAAA
688871 AATGATTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.66, C:0.05, G:0.17, T:0.12
Consensus pattern (17 bp):
AAAAAAGCGAAGAAATT
Found at i:689815 original size:14 final size:12
Alignment explanation
Indices: 689760--689826 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 12
689750 AATATAAGGA
689760 AAAAAAGAAAAAG
1 AAAAAA-AAAAAG
*
689773 AAAGAATAAAAAG
1 AAA-AAAAAAAAG
689786 AAAACAAAAAATAG
1 AAAA-AAAAAA-AG
689800 AAAAAAAGGAAAAG
1 AAAAAAA--AAAAG
689814 AATAAAAAGAAAA
1 AA-AAAAA-AAAA
689827 ATATAACAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
12 1 0.02
13 20 0.43
14 17 0.37
15 8 0.17
ACGTcount: A:0.81, C:0.01, G:0.13, T:0.04
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:689821 original size:50 final size:50
Alignment explanation
Indices: 689741--689856 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 50
689731 ATAAGAGCTA
* * *
689741 AAAAAATATAATATAAGGAAAAAAAGAAAAAGAAAGAATA-AA-AAGAAAAC
1 AAAAAATAGAAAAAAAGGAAAAAAAGAAAAAGAAA-AATATAACAA-AAAAC
* * ** *
689791 AAAAAATAGAAAAAAAGGAAAAGAATAAAAAGAAAAATATAACAAAGGAG
1 AAAAAATAGAAAAAAAGGAAAAAAAGAAAAAGAAAAATATAACAAAAAAC
689841 AAAAAATAGAAAAAAA
1 AAAAAATAGAAAAAAA
689857 TTATGAGAGA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 4 0.07
50 50 0.89
51 2 0.04
ACGTcount: A:0.77, C:0.02, G:0.13, T:0.09
Consensus pattern (50 bp):
AAAAAATAGAAAAAAAGGAAAAAAAGAAAAAGAAAAATATAACAAAAAAC
Found at i:689824 original size:23 final size:21
Alignment explanation
Indices: 689762--689827 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 21
689752 TATAAGGAAA
689762 AAAAGAAAAAGAAAGAATAAAAAG
1 AAAAG-AAAA-AAAGAA-AAAAAG
*
689786 AAAACAAAAAATAGAAAAAAAGG
1 AAAAGAAAAAA-AGAAAAAAA-G
689809 AAAAGAATAAAAAGAAAAA
1 AAAAGAA-AAAAAGAAAAA
689828 TATAACAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
22 7 0.19
23 22 0.59
24 8 0.22
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.05
Consensus pattern (21 bp):
AAAAGAAAAAAAGAAAAAAAG
Found at i:691418 original size:21 final size:20
Alignment explanation
Indices: 691382--691424 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
691372 TACACTTTAC
*
691382 TTACATTGTATTGATAC-TT
1 TTACATTGTATCGATACATT
691401 TTACTATTGGTATCGATACATT
1 TTAC-ATT-GTATCGATACATT
691423 TT
1 TT
691425 CAACTTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 3 0.15
21 9 0.45
22 4 0.20
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.51
Consensus pattern (20 bp):
TTACATTGTATCGATACATT
Found at i:691488 original size:14 final size:14
Alignment explanation
Indices: 691469--691499 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
691459 AGACACTAGT
691469 TTTTTATCATTTTA
1 TTTTTATCATTTTA
*
691483 TTTTTATTATTTTA
1 TTTTTATCATTTTA
691497 TTT
1 TTT
691500 GTTTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTATCATTTTA
Found at i:691504 original size:22 final size:22
Alignment explanation
Indices: 691470--691547 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
691460 GACACTAGTT
*
691470 TTTTATCATTTTATTTTTATTA
1 TTTTATTATTTTATTTTTATTA
*
691492 TTTTATT-TGTTTATTATTATTA
1 TTTTATTAT-TTTATTTTTATTA
*
691514 TTTTATTATATTATTTATTATTA
1 TTTTATTATTTTATTT-TTATTA
*
691537 TTATTAATATT
1 TT-TTATTATT
691548 ATTAATACTA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.02
22 30 0.65
23 9 0.20
24 6 0.13
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (22 bp):
TTTTATTATTTTATTTTTATTA
Found at i:691508 original size:3 final size:3
Alignment explanation
Indices: 691480--691551 Score: 73
Period size: 3 Copynumber: 25.0 Consensus size: 3
691470 TTTTATCATT
*
691480 TTA TTT TTA TTA TT- TTA TT- TGT- TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
*
691522 -TA TTA TTTA TTA TTA TTA TTA ATA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
691552 ATACTATTAC
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 8 0.14
3 48 0.81
4 3 0.05
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:691518 original size:30 final size:29
Alignment explanation
Indices: 691468--691551 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 29
691458 AAGACACTAG
* *
691468 TTTTTTATCATT-TTATTTTTATTATTTTA
1 TTTTTTATTATTATTA-TTTTATTATATTA
691497 TTTGTTTATTATTATTATTTTATTATATTA
1 TTT-TTTATTATTATTATTTTATTATATTA
* *
691527 TTTATTATTATTATTAATATTATTA
1 TTTTTTATTATTATT-ATTTTATTA
691552 ATACTATTAC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
29 14 0.29
30 31 0.65
31 3 0.06
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (29 bp):
TTTTTTATTATTATTATTTTATTATATTA
Found at i:691547 original size:9 final size:9
Alignment explanation
Indices: 691503--691560 Score: 52
Period size: 9 Copynumber: 6.9 Consensus size: 9
691493 TTTATTTGTT
*
691503 TATTATTAT
1 TATTATTAA
*
691512 TATT-TTAT
1 TATTATTAA
691520 TA-TATT-A
1 TATTATTAA
*
691527 T-TTATTAT
1 TATTATTAA
691535 TATTATTAA
1 TATTATTAA
691544 TATTATTAA
1 TATTATTAA
*
691553 TACTATTA
1 TATTATTA
691561 CAGGCCCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
7 6 0.15
8 9 0.22
9 26 0.63
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TATTATTAA
Found at i:691792 original size:15 final size:15
Alignment explanation
Indices: 691772--691801 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
691762 GGGACATACG
691772 GTCGTCGCCTCTGTT
1 GTCGTCGCCTCTGTT
691787 GTCGTCGCCTCTGTT
1 GTCGTCGCCTCTGTT
691802 ACCGTCGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.33, G:0.27, T:0.40
Consensus pattern (15 bp):
GTCGTCGCCTCTGTT
Found at i:691807 original size:15 final size:15
Alignment explanation
Indices: 691774--691809 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
691764 GACATACGGT
**
691774 CGTCGCCTCTGTTGT
1 CGTCGCCTCTGTTAC
691789 CGTCGCCTCTGTTAC
1 CGTCGCCTCTGTTAC
691804 CGTCGC
1 CGTCGC
691810 TCTACTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.03, C:0.39, G:0.25, T:0.33
Consensus pattern (15 bp):
CGTCGCCTCTGTTAC
Found at i:692775 original size:20 final size:22
Alignment explanation
Indices: 692750--692799 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
692740 AAATACTTTC
692750 ATTTTAATACAAT-TTTA-TT-T
1 ATTTTAAT-CAATATTTAGTTAT
*
692770 ATTTTAATCACTATTTAGTTAT
1 ATTTTAATCAATATTTAGTTAT
692792 ATTTTAAT
1 ATTTTAAT
692800 TTTATATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 12 0.46
21 2 0.08
22 9 0.35
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTAATCAATATTTAGTTAT
Found at i:692806 original size:13 final size:14
Alignment explanation
Indices: 692788--692837 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
692778 CACTATTTAG
692788 TTATAT-TTTAATT
1 TTATATATTTAATT
*
692801 TTATATGTTT-ATT
1 TTATATATTTAATT
692814 TTAATATATTTAATT
1 TT-ATATATTTAATT
692829 ATTAT-TATT
1 -TTATATATT
692838 ATTATTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 11 0.34
14 14 0.44
15 5 0.16
16 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (14 bp):
TTATATATTTAATT
Found at i:692820 original size:14 final size:13
Alignment explanation
Indices: 692765--692862 Score: 50
Period size: 12 Copynumber: 7.6 Consensus size: 13
692755 AATACAATTT
692765 TATTTATTTTAATCA
1 TATTTATTTT-AT-A
*
692780 CTATTTA-GTTATA
1 -TATTTATTTTATA
692793 T-TTTAATTTTATA
1 TATTT-ATTTTATA
*
692806 TGTTTATTTTAATA
1 TATTTATTTT-ATA
*
692820 TATTTA-ATTAT-
1 TATTTATTTTATA
692831 TA-TTATTATTAT-
1 TATTTATT-TTATA
692843 TA-TTATTATTAT-
1 TATTTATT-TTATA
692855 TATTTATT
1 TATTTATT
692863 CATATAAATA
Statistics
Matches: 70, Mismatches: 5, Indels: 17
0.76 0.05 0.18
Matches are distributed among these distances:
10 3 0.04
11 5 0.07
12 22 0.31
13 19 0.27
14 13 0.19
15 2 0.03
16 6 0.09
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (13 bp):
TATTTATTTTATA
Found at i:692834 original size:3 final size:3
Alignment explanation
Indices: 692826--692858 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
692816 AATATATTTA
692826 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
692859 TATTCATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:693276 original size:156 final size:153
Alignment explanation
Indices: 692991--693276 Score: 412
Period size: 156 Copynumber: 1.8 Consensus size: 153
692981 TAATCATATT
* *
692991 TTAATATTTTTTATTTTTTAATATTAAGAAAATGACTGTCTTAAAGCATCTAGAAGTCATTTTCT
1 TTAATATTTTTTATTTTTTAATATTAAGAAAATGACTGTCTTAAAGCAACAAGAAGTCATTTTCT
* * * * * * **
693056 GGTATTTTTAAATAACTAAATATCTTACTTTTATAAATTATATGTATATTAATTTAATTTATTTT
66 GATATTTCTAAATAAATAAATATCTTAC-TTTATAAATTATATATATATAAAGTTAATACATTTT
693121 AATTATTTTTAGAGAAATGTTTTA
130 AATTATTTTTAGAGAAATGTTTTA
*
693145 TTAATATTTATTTATTTTTTTAATATTAAGAAAATGACTGTCTTAAAGCAACAAGAATTCATTTT
1 TTAATATTT-TTTA-TTTTTTAATATTAAGAAAATGACTGTCTTAAAGCAACAAGAAGTCATTTT
*
693210 CTGATATTTCTAAGTAAATAAATATCTTA-TTTATAAATATATATATATATAAAAGTTAATACAT
64 CTGATATTTCTAAATAAATAAATATCTTACTTTATAAAT-TATATATATAT-AAAGTTAATACAT
693274 TTT
127 TTT
693277 TCTTAAAATT
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
154 18 0.16
155 14 0.12
156 84 0.72
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.48
Consensus pattern (153 bp):
TTAATATTTTTTATTTTTTAATATTAAGAAAATGACTGTCTTAAAGCAACAAGAAGTCATTTTCT
GATATTTCTAAATAAATAAATATCTTACTTTATAAATTATATATATATAAAGTTAATACATTTTA
ATTATTTTTAGAGAAATGTTTTA
Found at i:696387 original size:16 final size:16
Alignment explanation
Indices: 696368--696400 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
696358 GATCAATACC
696368 TTTTACATACATTCAT
1 TTTTACATACATTCAT
*
696384 TTTTGCATACATTCAT
1 TTTTACATACATTCAT
696400 T
1 T
696401 GCATTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.18, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTACATACATTCAT
Found at i:701517 original size:202 final size:202
Alignment explanation
Indices: 701171--701559 Score: 446
Period size: 202 Copynumber: 1.9 Consensus size: 202
701161 GTGTAAGTTT
** *
701171 TATGTGTGGAACATGTTTCATTATGGAAATGTAAGACAAAACAAGGTTATATTTATAACAATATC
1 TATGTGTCAAACATGTTTCATGATGGAAATGTAAGACAAAACAAGGTTATATTTATAACAATATC
* * * ** * **
701236 GGTAGCGACTTCTTATAGTGTCCATTGTTTACTTGATATGTTTGAAACCTTTATTATTAAGAAAC
66 GATAACGACTTCTTATAGTGTCAACAGTTTACGTGATATGTTAAAAACCTTTATTATTAAGAAAC
* * * *
701301 TATGAGAGAAAACATGTTTAAATTTATAACAATACAGGTAG--TGCTTTTTTATATTGTTAACTA
131 TATAAGAAAAAACATGCTTAAATTTATAACAATACAAGTAGCAT-C-TTTTTATATTGTTAACTA
701364 TTTATATTA
194 TTTATATTA
* ** * *
701373 TATGTGTCAAACATTTTTCATGATGGTTATGTAATACAAAACATGGTTATATTTATAACAATA-C
1 TATGTGTCAAACATGTTTCATGATGGAAATGTAAGACAAAACAAGGTTATATTTATAACAATATC
* * * * * *
701437 ATATAATGCCTTTTTATAGTGTTAACAGTTTACGTGATGTGTTAAAAACCTATT-TTATTAATG-
66 -GATAACGACTTCTTATAGTGTCAACAGTTTACGTGATATGTTAAAAACCT-TTATTATTAA-GA
* *
701500 CACTATAAGAAAAAACATGCTTAAATTTATAACATTACAAGTAGCATCTTTTTATATTGT
128 AACTATAAGAAAAAACATGCTTAAATTTATAACAATACAAGTAGCATCTTTTTATATTGT
701560 CAATCGTTTA
Statistics
Matches: 154, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
201 1 0.01
202 148 0.96
203 4 0.03
204 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.40
Consensus pattern (202 bp):
TATGTGTCAAACATGTTTCATGATGGAAATGTAAGACAAAACAAGGTTATATTTATAACAATATC
GATAACGACTTCTTATAGTGTCAACAGTTTACGTGATATGTTAAAAACCTTTATTATTAAGAAAC
TATAAGAAAAAACATGCTTAAATTTATAACAATACAAGTAGCATCTTTTTATATTGTTAACTATT
TATATTA
Found at i:701734 original size:173 final size:174
Alignment explanation
Indices: 701411--701756 Score: 405
Period size: 175 Copynumber: 2.0 Consensus size: 174
701401 ATGTAATACA
* * ** * *
701411 AAACATGGTTATATTTATAACAATACATATAATGCCTTTTTATAGTGTTAACAGTTTACGTGATG
1 AAACATGGTTATATTTATAACAATACAGATAATGCCTTTTTATACTGCCAACAGTTTACCTGATA
* * *
701476 TGTTAAAAACCTATTTTATTAATGCACTATAAGAAAAAACATGCTTAAATTTATAACATTACAAG
66 AGTTAAAAACCTATTTTATTAATGAACTATAAGAAAAAACATGC-TAAATTTATAACATAACAAG
* * * *
701541 TAGCATCTTTTTATATTGTCAATCGTTTAAGTTATATGTGTGACT
130 TAGCACCTTTTTATATTGTCAACCATTTAAATTATATGTGTGACT
* * * *
701586 AAACATGGTTATATTTATAACAATACAGGTAGTGCCTTTTTTTACTGCCAA-TGATTTACCTGAT
1 AAACATGGTTATATTTATAACAATACAGATAATGCCTTTTTATACTGCCAACAG-TTTACCTGAT
** * * *
701650 AAGTTTGAAACCT-TTTTGATTAA-GAAACTGTAAGAGAAAACGTG-TAAATTTATAACA-AAGC
65 AAGTTAAAAACCTATTTT-ATTAATG-AACTATAAGAAAAAACATGCTAAATTTATAACATAA-C
*
701711 AAGTAGCGCCTTTTTATATTGTCAACCATTTAAATTATATGTGTGA
127 AAGTAGCACCTTTTTATATTGTCAACCATTTAAATTATATGTGTGA
701757 AGCATTTTTC
Statistics
Matches: 144, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
172 1 0.01
173 55 0.38
174 6 0.04
175 82 0.57
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (174 bp):
AAACATGGTTATATTTATAACAATACAGATAATGCCTTTTTATACTGCCAACAGTTTACCTGATA
AGTTAAAAACCTATTTTATTAATGAACTATAAGAAAAAACATGCTAAATTTATAACATAACAAGT
AGCACCTTTTTATATTGTCAACCATTTAAATTATATGTGTGACT
Found at i:703022 original size:99 final size:99
Alignment explanation
Indices: 702847--703034 Score: 243
Period size: 99 Copynumber: 1.9 Consensus size: 99
702837 GGTTGTCATT
* * * * * *
702847 GTGTATATTATGAAAACCTTACACAAAACTAGTTTGTTGGATAACATTATAGGTTGTGCCTTGTT
1 GTGTATATTATAAAAACATAAAACAAAACTAATTTGTTGGATAACATTATAGGTTGTGCCTTCTT
*
702912 CTTTTAATAACTGGTTAACTTATATGCAAAAACC
66 CTTATAATAACTGGTTAACTTATATGCAAAAACC
* *
702946 GTGTATATTATAAAAACATAAAACAAACCTAATTT-TCTGGATAACATTATAGGTTGTGCTTTCT
1 GTGTATATTATAAAAACATAAAACAAAACTAATTTGT-TGGATAACATTATAGGTTGTGCCTTCT
* ** *
703010 TGTTATGTTAACTGGTTAAGTTATA
65 TCTTATAATAACTGGTTAACTTATA
703035 GCCTGAAACT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
98 1 0.01
99 74 0.99
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (99 bp):
GTGTATATTATAAAAACATAAAACAAAACTAATTTGTTGGATAACATTATAGGTTGTGCCTTCTT
CTTATAATAACTGGTTAACTTATATGCAAAAACC
Found at i:704622 original size:20 final size:21
Alignment explanation
Indices: 704581--704624 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
704571 TTGAAAGAGG
*
704581 GTATCGATACCATAGTTAGAA
1 GTATCGATACCATAGGTAGAA
*
704602 GTATCGATACCA-GGGTAGAA
1 GTATCGATACCATAGGTAGAA
704622 GTA
1 GTA
704625 CTGAGACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (21 bp):
GTATCGATACCATAGGTAGAA
Found at i:705100 original size:20 final size:20
Alignment explanation
Indices: 705072--705196 Score: 54
Period size: 20 Copynumber: 5.5 Consensus size: 20
705062 TAAAAATGCG
*
705072 TGAAGGGATGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
*
705092 TGAAAGGATGCCATAAATAAAAATGCA
1 TGAAAGGATG-CAT---T---AAGGCA
*
705119 TGAACGGATGCATTAAGG-A
1 TGAAAGGATGCATTAAGGCA
*
705138 GTGAAAGGATGCCATAACTAAAAATGCA
1 -TGAAAGGATG-CAT---T---AAGGCA
* *
705166 TGAACGGAAGCATTAAGGCA
1 TGAAAGGATGCATTAAGGCA
705186 TGAAAGGATGC
1 TGAAAGGATGC
705197 CATAACAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 32
0.64 0.09 0.26
Matches are distributed among these distances:
19 1 0.01
20 35 0.45
21 6 0.08
23 2 0.03
24 2 0.03
26 6 0.08
27 25 0.32
28 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.18
Consensus pattern (20 bp):
TGAAAGGATGCATTAAGGCA
Found at i:705128 original size:47 final size:47
Alignment explanation
Indices: 705014--705505 Score: 638
Period size: 47 Copynumber: 10.6 Consensus size: 47
705004 AAACCGAATT
* *
705014 CATAAATAAAAATGCATGAACGAATGCATTAAGGCATG-AA--A--C
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* *
705056 CATAACTAAAAATGCGTGAAGGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
*
705103 CATAAATAAAAATGCATGAACGGATGCATTAAGG-AGTGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCA-TGAAAGGATGC
*
705150 CATAACTAAAAATGCATGAACGGAAGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* ** * *
705197 CATAACAAAAAATGCATGAATAGATGCATTAATGCATGAAAGGATTC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * * * *
705244 CATAACTAAAAATGAATTAACTGATGCATTAAGGCATGCAAGGATGT
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
705291 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * *
705338 CATAAATAAAAATGCATGAACGGATGCATTAAGGAATGAAAGGATGA
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * * * *
705385 CATAAATAAAAATGGAAT-AATGGATGCATTAAGTCATGAAAGGATGA
1 CATAACTAAAAAT-GCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * * ** *
705432 CTTAACTGAAAACGCATGAACATATGCATTAAGGCATGAAAGGATGT
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
*
705479 CATAACTAAAAATGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGC
705506 TATGATAATA
Statistics
Matches: 389, Mismatches: 52, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
42 34 0.09
43 2 0.01
45 1 0.00
46 4 0.01
47 344 0.88
48 4 0.01
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (47 bp):
CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
Found at i:705329 original size:20 final size:20
Alignment explanation
Indices: 705304--705383 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 20
705294 AACTAAAAAT
*
705304 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
705324 GCATGAAAGGATGCCATAAATAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
*
705351 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
705371 GAATGAAAGGATG
1 GCATGAAAGGATG
705384 ACATAAATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
20 25 0.53
21 3 0.06
23 1 0.02
24 1 0.02
26 3 0.06
27 14 0.30
ACGTcount: A:0.42, C:0.11, G:0.28, T:0.19
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:706541 original size:17 final size:18
Alignment explanation
Indices: 706516--706553 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
706506 GCAACACAGA
*
706516 ATATAGAAA-TGGTATCG
1 ATATAGAAAGGGGTATCG
*
706533 ATATTGAAAGGGGTATCG
1 ATATAGAAAGGGGTATCG
706551 ATA
1 ATA
706554 CTATAGTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.39, C:0.05, G:0.26, T:0.29
Consensus pattern (18 bp):
ATATAGAAAGGGGTATCG
Found at i:706590 original size:94 final size:95
Alignment explanation
Indices: 706396--706596 Score: 230
Period size: 94 Copynumber: 2.1 Consensus size: 95
706386 ATGGGGTAGG
* * * * * *
706396 GAAGTATCGATACCATGGATCTAGAATGTCAAAATGGTATTGATACTGAAAGGGAGTATCGGTAC
1 GAAGTATCGATACCATGCAACCAGAATATCAAAATGGTATCGATACTGAAAGGGAGTATCGATAC
** * *
706461 CATAGTATAGTAGTATCGATACTAAGAGAA
66 CATAGTATAAAAATATCGATACCAAGAGAA
*
706491 G-AGTATCGATACCATGCAACACAGAATAT-AGAAATGGTATCGATATTGAAAGGG-GTATCGAT
1 GAAGTATCGATACCATGCAAC-CAGAATATCA-AAATGGTATCGATACTGAAAGGGAGTATCGAT
* * *
706553 ACTATAGTATAAAAATATCGATACCATG-GTA
64 ACCATAGTATAAAAATATCGATACCAAGAGAA
706584 GAAGTATCGATAC
1 GAAGTATCGATAC
706597 TAATGAGCTT
Statistics
Matches: 89, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
93 3 0.03
94 58 0.65
95 28 0.31
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.26
Consensus pattern (95 bp):
GAAGTATCGATACCATGCAACCAGAATATCAAAATGGTATCGATACTGAAAGGGAGTATCGATAC
CATAGTATAAAAATATCGATACCAAGAGAA
Found at i:707022 original size:20 final size:20
Alignment explanation
Indices: 706997--707453 Score: 86
Period size: 20 Copynumber: 19.7 Consensus size: 20
706987 AAATAAAAAT
*
706997 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
707017 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
*
707044 GCATGAAGGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
707064 GCATGAAAGGATGCCATAAATAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
* *
707091 GCATGAACGGATGCATTACG
1 GCATGAAAGGATGCATTAAG
* * *
707111 GCCTAAAAGGATGCCATAACTGAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
* * *
707138 GAATGAACGAATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
707158 GCATGAAAGGATGACATAACTAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
* *
707185 GCATGAATGGATGAATTAAG
1 GCATGAAAGGATGCATTAAG
* *
707205 GAATGAAAGGATGTCATAACTAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
*
707232 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
707252 GCATGAAAGGATGTCATAACTAAAAAA
1 GCATGAAAGGATG-CAT---T---AAG
*
707279 GCATGAATGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
707299 GCATGAAAGGATGCCATAAATAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
* *
707326 GCTTCAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
707346 GCATGAAACGATGTCATAAATAAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
*
707373 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
707393 GCATGAAAAGATGTCATAACTGAAAAT
1 GCATGAAAGGATG-CAT---T---AAG
*
707420 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
707440 GCATGAAAGGATGC
1 GCATGAAAGGATGC
707454 CATAACTAAA
Statistics
Matches: 317, Mismatches: 57, Indels: 126
0.63 0.11 0.25
Matches are distributed among these distances:
20 130 0.41
21 26 0.08
23 9 0.03
24 9 0.03
26 26 0.08
27 117 0.37
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:707055 original size:27 final size:26
Alignment explanation
Indices: 707017--707104 Score: 89
Period size: 27 Copynumber: 3.5 Consensus size: 26
707007 ATGCATTAAG
707017 GCATGAAAGGATGCCATAACTAAAAAT
1 GCATGAAAGGATGCCATAA-TAAAAAT
* *
707044 GCATGAAGGGATG-CAT--T---AAG
1 GCATGAAAGGATGCCATAATAAAAAT
707064 GCATGAAAGGATGCCATAAATAAAAAT
1 GCATGAAAGGATGCCAT-AATAAAAAT
*
707091 GCATGAACGGATGC
1 GCATGAAAGGATGC
707105 ATTACGGCCT
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
20 14 0.29
21 3 0.06
23 1 0.02
24 1 0.02
26 3 0.06
27 27 0.55
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.18
Consensus pattern (26 bp):
GCATGAAAGGATGCCATAATAAAAAT
Found at i:707056 original size:47 final size:47
Alignment explanation
Indices: 706984--707480 Score: 742
Period size: 47 Copynumber: 10.6 Consensus size: 47
706974 AAACCGGATT
*
706984 CATAAATAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
*
707031 CATAACTAAAAATGCATGAAGGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * * *
707078 CATAAATAAAAATGCATGAACGGATGCATTACGGCCTAAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * * *
707125 CATAACTGAAAATGAATGAACGAATGCATTAAGGCATGAAAGGATGA
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * * *
707172 CATAACTAAAAATGCATGAATGGATGAATTAAGGAATGAAAGGATGT
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
*
707219 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGT
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* *
707266 CATAACTAAAAAAGCATGAATGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * * * * *
707313 CATAAATAAAAATGCTTCAAAGGATGCATTAAGGCATGAAACGATGT
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
* * *
707360 CATAAATAAAAATGCATGAACGGATGCATTAAGGCATGAAAAGATGT
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
*
707407 CATAACTGAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
*
707454 CATAACTAAAAATGCATGAAAGGATGC
1 CATAACTAAAAATGCATGAACGGATGC
707481 TATGATAATA
Statistics
Matches: 405, Mismatches: 45, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 405 1.00
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.20
Consensus pattern (47 bp):
CATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGC
Found at i:708092 original size:126 final size:126
Alignment explanation
Indices: 707867--708119 Score: 490
Period size: 126 Copynumber: 2.0 Consensus size: 126
707857 TGTTTTCAGA
707867 AATCGAAGAAATTGTTTTATGGGTTTTCAAATGAGGAACTATTTTAAAAGTGATGTGACATATGT
1 AATCGAAGAAATTGTTTTATGGGTTTTCAAATGAGGAACTATTTTAAAAGTGATGTGACATATGT
707932 ATCTCGTGTTCGGAAAGATATACGGGAGATGGGTGTTTAAATTTTTA-TTTTGAACTATGAC
66 ATCTCGTGTTCGGAAAGATATACGGGAGATGGGTG-TTAAATTTTTATTTTTGAACTATGAC
707993 AATCGAAGAAATTGTTTTATGGGTTTTCAAATGAGGAACTATTTTAAAAGTGATGTGACATATGT
1 AATCGAAGAAATTGTTTTATGGGTTTTCAAATGAGGAACTATTTTAAAAGTGATGTGACATATGT
708058 ATCTCGTGTTCGGAAAGATATACGGGAGATGGGTGTTAAATTTTTATTTTTGAACTATGAC
66 ATCTCGTGTTCGGAAAGATATACGGGAGATGGGTGTTAAATTTTTATTTTTGAACTATGAC
708119 A
1 A
708120 TTATTGGTTG
Statistics
Matches: 126, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
125 11 0.09
126 115 0.91
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (126 bp):
AATCGAAGAAATTGTTTTATGGGTTTTCAAATGAGGAACTATTTTAAAAGTGATGTGACATATGT
ATCTCGTGTTCGGAAAGATATACGGGAGATGGGTGTTAAATTTTTATTTTTGAACTATGAC
Found at i:708804 original size:369 final size:368
Alignment explanation
Indices: 708136--709138 Score: 1145
Period size: 369 Copynumber: 2.7 Consensus size: 368
708126 GTTGCAATTG
* * * * *
708136 TATTTCTTATATATTTTCATAACATTTTCGGTTTTAAACTTATTTTCTTATACTGGATAATCCAA
1 TATTTCTCATATATGTTCATAACATTTTCAGTTTGAAACTTATTTTCTTATA-TTGATAAT-CAA
* * * * * * * *
708201 GGCTCCACCAGCTTAAACTCTGATAACATTTTCTGTGCTACCTATTTTATAATTAAAAATATCAA
64 GGCTTCATCAACTTAAACTCTGATAACATTTTC-GGGCAACCTATTTTATTATTAAAAGTATTAA
* * * * *
708266 TATTTCATATTACAACCTCTTTTATTACTGAACCATGAAATTAATGTGCAAAACCATATTTCTTA
128 AATTCCATATTAGAACCTCTTTTATTATTGAACCATGAAATTATTGTGC--AACCATATTTCTTA
* * * * *
708331 TATGTGCTCATAACATTTTCAGTTTTAAACTTATTTTCTTATACCGGGATAATCCAAGGTTCCAT
191 TATATGTTCATAACATTTTTAGTTTTAAACTTATTTTCTTATACCGGGATAATCCAAAGCTCCAT
* * *
708396 CAGCTTTAACACTGCTAACATTTTCTGCGCAACCTATTTTATTGAACAAAATATTAACATTCCAG
256 CAGCTTAAACACTGATAACATTTTCAGCGCAACCTATTTTATTGAACAAAATATTAACATTCCAG
* * ** *
708461 ATTACAATCT-TTTTATTATTGAATCATGGTATTATTGGACGCAACCA
321 ATTACAACCTCTTTTATTATTAAATCATGACATTATTGGACACAACCA
* * * * * * * *
708508 TATTTTTTATATATGTTCATAACATTTTTAGTTTGGAATTTATTTTCTTATGTT-ATGAT-AA-T
1 TATTTCTCATATATGTTCATAACATTTTCAGTTTGAAACTTATTTTCTTATATTGATAATCAAGG
*
708570 CTTCCATCAACTTAAACTCTCATAACATTTTCGGGACAACCTATTTTATTATTAAAAGTATTAAA
66 CTT-CATCAACTTAAACTCTGATAACATTTTCGGG-CAACCTATTTTATTATTAAAAGTATT-AA
* * * *
708635 AATTCCATATTAGAACCTCTTTTATTATTAAATCATGATATTATTGGTTGCAACCGTATTTCTTA
128 AATTCCATATTAGAACCTCTTTTATTATTGAACCATGAAATTATT-G-TGCAACCATATTTCTTA
* *
708700 TATATGTTCATAACATTTTTAATTTTAAACTTATTTTCTTATACTCGGG-TAATCTAAAGCTCCA
191 TATATGTTCATAACATTTTTAGTTTTAAACTTATTTTCTTATAC-CGGGATAATCCAAAGCTCCA
** * *
708764 TCAGCTTAAACTTTGATAATATTTTCAGCGCAAGCTATTTTATTGAACAAAATATTAACATTCCA
255 TCAGCTTAAACACTGATAACATTTTCAGCGCAACCTATTTTATTGAACAAAATATTAACATTCCA
* * * *
708829 GATTTCAACCTCTTTTATTTTTAAATCATGACATTATTGGGCACAACCG
320 GATTACAACCTCTTTTATTATTAAATCATGACATTATTGGACACAACCA
*
708878 TATTTCTCATATATGTTCATAACATTTTCAGTTTTAAACTTATTTTCTTATATTGGGATAATCCA
1 TATTTCTCATATATGTTCATAACATTTTCAGTTTGAAACTTATTTTCTTATATT--GATAAT-CA
** * * *
708943 AGGCTTTGTCAACTTAAACTCTGATAATATGTTCGGTGCAACCTATTTTATTCTTAAAAGTATTA
63 AGGCTTCATCAACTTAAACTCTGATAACATTTTCGG-GCAACCTATTTTATTATTAAAAGTATTA
* * *** ** ** *
709008 ACATTCCAAATTAGAACCTCTTTTATTATTGAACCATGGCGTTACTCTGCACAACTTTATTTATT
127 AAATTCCATATTAGAACCTCTTTTATTATTGAACCATGAAATTA-T-TGTGCAACCATATTTCTT
***
709073 ATATATGTTCATAACATTTTTAGTTTTAAACTTATTTTCTTATATTAGGATAATCCAACA-CTCC
190 ATATATGTTCATAACATTTTTAGTTTTAAACTTATTTTCTTATACCGGGATAATCCAA-AGCTCC
709137 AT
254 AT
709139 TAGCCAACTA
Statistics
Matches: 529, Mismatches: 84, Indels: 34
0.82 0.13 0.05
Matches are distributed among these distances:
367 4 0.01
368 49 0.09
369 171 0.32
370 86 0.16
371 4 0.01
372 44 0.08
373 6 0.01
374 105 0.20
375 55 0.10
376 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (368 bp):
TATTTCTCATATATGTTCATAACATTTTCAGTTTGAAACTTATTTTCTTATATTGATAATCAAGG
CTTCATCAACTTAAACTCTGATAACATTTTCGGGCAACCTATTTTATTATTAAAAGTATTAAAAT
TCCATATTAGAACCTCTTTTATTATTGAACCATGAAATTATTGTGCAACCATATTTCTTATATAT
GTTCATAACATTTTTAGTTTTAAACTTATTTTCTTATACCGGGATAATCCAAAGCTCCATCAGCT
TAAACACTGATAACATTTTCAGCGCAACCTATTTTATTGAACAAAATATTAACATTCCAGATTAC
AACCTCTTTTATTATTAAATCATGACATTATTGGACACAACCA
Found at i:708878 original size:187 final size:186
Alignment explanation
Indices: 708099--709130 Score: 990
Period size: 187 Copynumber: 5.6 Consensus size: 186
708089 GGTGTTAAAT
* *** ** *
708099 TTTTATTTTTGAA-CTATGACATTATTGGTTGCAATTGTATTTCTTATATATTTTCATAACATTT
1 TTTTATTATTGAATC-ATGACATTATTGGGCACAACCGTATTTCTTATATATGTTCATAACATTT
* * *
708163 TCGGTTTTAAACTTATTTTCTTATACT-GGATAATCCAAGGCTCCACCAGCTTAAACTCTGATAA
65 TCAGTTTTAAACTTATTTTCTTATACTCGGGTAATCCAAGGCTCCATCAGCTTAAACTCTGATAA
* * * * * * *
708227 CATTTTCTGTGCTACCTATTTTA-TAATTAAAAATATCAATATTTCATATTACAACCTC
130 CATTTTCTGCGCAACCTATTTTATTAA--CAAAATATTAACATTCCAGATTACAACCTC
* * * * * * * * *
708285 TTTTATTACTGAACCATGAAATTAATGTGCAAAACCATATTTCTTATATGTGCTCATAACATTTT
1 TTTTATTATTGAATCATGACATTATTGGGCACAACCGTATTTCTTATATATGTTCATAACATTTT
* * * *
708350 CAGTTTTAAACTTATTTTCTTATAC-CGGGATAATCCAAGGTTCCATCAGCTTTAACACTGCTAA
66 CAGTTTTAAACTTATTTTCTTATACTCGGG-TAATCCAAGGCTCCATCAGCTTAAACTCTGATAA
*
708414 CATTTTCTGCGCAACCTATTTTATTGAACAAAATATTAACATTCCAGATTACAATCT-
130 CATTTTCTGCGCAACCTATTTTATT-AACAAAATATTAACATTCCAGATTACAACCTC
** * * * *
708471 TTTTATTATTGAATCATGGTATTATTGGACGCAACCATATTTTTTATATATGTTCATAACATTTT
1 TTTTATTATTGAATCATGACATTATTGGGCACAACCGTATTTCTTATATATGTTCATAACATTTT
* ** * ** ** * * * *
708536 TAGTTTGGAATTTATTTTCTTATGTTATGATAAT-C----TTCCATCAACTTAAACTCTCATAAC
66 CAGTTTTAAACTTATTTTCTTATACTCGGGTAATCCAAGGCTCCATCAGCTTAAACTCTGATAAC
* ** * * *
708596 ATTTTC-GGGACAACCTATTTTATTATTAAAAGTATTAAAAATTCCATATTAGAACCTC
131 ATTTTCTGCG-CAACCTATTTTATTAACAAAA-TATT-AACATTCCAGATTACAACCTC
* * ***
708654 TTTTATTATTAAATCATGATATTATTGGTTGCAACCGTATTTCTTATATATGTTCATAACATTTT
1 TTTTATTATTGAATCATGACATTATTGGGCACAACCGTATTTCTTATATATGTTCATAACATTTT
* * * * * *
708719 TAATTTTAAACTTATTTTCTTATACTCGGGTAATCTAAAGCTCCATCAGCTTAAACTTTGATAAT
66 CAGTTTTAAACTTATTTTCTTATACTCGGGTAATCCAAGGCTCCATCAGCTTAAACTCTGATAAC
* * *
708784 ATTTTCAGCGCAAGCTATTTTATTGAACAAAATATTAACATTCCAGATTTCAACCTC
131 ATTTTCTGCGCAACCTATTTTATT-AACAAAATATTAACATTCCAGATTACAACCTC
* * *
708841 TTTTATTTTTAAATCATGACATTATTGGGCACAACCGTATTTCTCATATATGTTCATAACATTTT
1 TTTTATTATTGAATCATGACATTATTGGGCACAACCGTATTTCTTATATATGTTCATAACATTTT
* *** *
708906 CAGTTTTAAACTTATTTTCTTATA-TTGGGATAATCCAAGGCTTTGTCAACTTAAACTCTGATAA
66 CAGTTTTAAACTTATTTTCTTATACTCGGG-TAATCCAAGGCTCCATCAGCTTAAACTCTGATAA
* * * * *** * *
708970 TATGTTCGGTGCAACCTATTTTATTCTTAAAAGTATTAACATTCCAAATTAGAACCTC
130 CATTTTCTGCGCAACCTATTTTATTAACAAAA-TATTAACATTCCAGATTACAACCTC
* * * * ** ** *
709028 TTTTATTATTGAACCATGGCGTTACTCTGCACAACTTTATTTATTATATATGTTCATAACATTTT
1 TTTTATTATTGAATCATGACATTATTGGGCACAACCGTATTTCTTATATATGTTCATAACATTTT
* * * *
709093 TAGTTTTAAACTTATTTTCTTATATTAGGATAATCCAA
66 CAGTTTTAAACTTATTTTCTTATACTCGGGTAATCCAA
709131 CACTCCATTA
Statistics
Matches: 693, Mismatches: 133, Indels: 39
0.80 0.15 0.05
Matches are distributed among these distances:
180 7 0.01
181 44 0.06
182 16 0.02
183 84 0.12
185 1 0.00
186 158 0.23
187 327 0.47
188 47 0.07
189 9 0.01
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.43
Consensus pattern (186 bp):
TTTTATTATTGAATCATGACATTATTGGGCACAACCGTATTTCTTATATATGTTCATAACATTTT
CAGTTTTAAACTTATTTTCTTATACTCGGGTAATCCAAGGCTCCATCAGCTTAAACTCTGATAAC
ATTTTCTGCGCAACCTATTTTATTAACAAAATATTAACATTCCAGATTACAACCTC
Found at i:709472 original size:47 final size:47
Alignment explanation
Indices: 709401--709515 Score: 185
Period size: 47 Copynumber: 2.4 Consensus size: 47
709391 TGGCCTTAAA
*
709401 TAAAAATGCATGAACGGATGCATTAAGGCATGAAAAGATGTCATAAC
1 TAAAAATGCATGAACGGATGCATTAAGGCATGAAAAGATGCCATAAC
* * *
709448 TGAAAATGCATGAACGGATGCATTAAGGCATTAAAGGATGCCATAAC
1 TAAAAATGCATGAACGGATGCATTAAGGCATGAAAAGATGCCATAAC
*
709495 TAAAAATGCATGAAAGGATGC
1 TAAAAATGCATGAACGGATGC
709516 TATGATAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (47 bp):
TAAAAATGCATGAACGGATGCATTAAGGCATGAAAAGATGCCATAAC
Found at i:710385 original size:187 final size:184
Alignment explanation
Indices: 710054--710645 Score: 598
Period size: 186 Copynumber: 3.2 Consensus size: 184
710044 GTTGCAACTG
* *
710054 TATTTCTTATATATTTTCATGACATTTTC-GTTTTTAAACTTATTTTCTTATACTGGATAATCCA
1 TATTTCTTATATATGTTCATAACATTTTCAG-TTTTAAACTTATTTTCTTATACTGGATAATCCA
* * * * * * *
710118 AGGCTCCATCAGCTTAAACTCTGATAACATTTTCTGTGCTACCTATTTTA-TAATTAAAAATATC
65 AGGTTCCATCAGCTTTAACACTGCTAACATTTTCTGCGCAACCTATTTTATTAA--AAAAATATT
* * * * * *
710182 AAGATTTCATATTACAACCTCTTTTATTACTGAACCATGAAATTAATGTGCAAAACCA
128 AAAATTCCATATTACAACCTCTTTTATTATTGAATCATGATATTATTGTGC-AAACCA
* *
710240 TATTTCTTATATGTGCTCATAACATTTTCAGTTTTAAACTTATTTTCTTATACTGGGATAATCCA
1 TATTTCTTATATATGTTCATAACATTTTCAGTTTTAAACTTATTTTCTTATACT-GGATAATCCA
*
710305 AGGTTCCATCAGCTTTAACACTGCTAACATTTTCTGCGCAACCTATTTTATTGAACAAAATATTA
65 AGGTTCCATCAGCTTTAACACTGCTAACATTTTCTGCGCAACCTATTTTATT-AAAAAAATATTA
* * *
710370 ACATTCCAGATTACAATCT-TTTTATTATTGAATCATGATATTATTG-GACACAACCA
129 AAATTCCATATTACAACCTCTTTTATTATTGAATCATGATATTATTGTG-CA-AACCA
* * ** * ** *
710426 TATTTTTTATATATGTTCATAACATTTTTAGTTTGGAATTTATTTTCTTATGTTATGATAAT-C-
1 TATTTCTTATATATGTTCATAACATTTTCAGTTTTAAACTTATTTTCTTATACT-GGATAATCCA
* * * * *
710489 ---TTCCATCAAC-TT-ACACTCTCATAACATTTTC-GGGACAACCTATTTTATTATTAAAAGTA
65 AGGTTCCATCAGCTTTAACACT-GC-TAACATTTTCTGCG-CAACCTATTTTATTA-AAAAAATA
* * *
710548 TTAAAAATTCCATATTAGAACCTCTTTTATTATTAAATCATGATATTATTGGTTGC-AACCG
126 TT-AAAATTCCATATTACAACCTCTTTTATTATTGAATCATGATATTATT-G-TGCAAACCA
* *
710609 TATTTCTTATATATGTTCATAACATTTTTAATTTTAA
1 TATTTCTTATATATGTTCATAACATTTTCAGTTTTAA
710646 TGTTCATAAC
Statistics
Matches: 344, Mismatches: 47, Indels: 33
0.81 0.11 0.08
Matches are distributed among these distances:
179 5 0.01
180 6 0.02
181 40 0.12
182 16 0.05
183 62 0.18
184 1 0.00
185 4 0.01
186 129 0.38
187 78 0.23
188 1 0.00
189 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.43
Consensus pattern (184 bp):
TATTTCTTATATATGTTCATAACATTTTCAGTTTTAAACTTATTTTCTTATACTGGATAATCCAA
GGTTCCATCAGCTTTAACACTGCTAACATTTTCTGCGCAACCTATTTTATTAAAAAAATATTAAA
ATTCCATATTACAACCTCTTTTATTATTGAATCATGATATTATTGTGCAAACCA
Found at i:710648 original size:24 final size:24
Alignment explanation
Indices: 710621--710669 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
710611 TTTCTTATAT
*
710621 ATGTTCATAACATTTTTAATTTTA
1 ATGTTCATAACATTTTCAATTTTA
*
710645 ATGTTCATAACATTTTCAGTTTTA
1 ATGTTCATAACATTTTCAATTTTA
710669 A
1 A
710670 ACTTATTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (24 bp):
ATGTTCATAACATTTTCAATTTTA
Found at i:713119 original size:37 final size:37
Alignment explanation
Indices: 713069--713145 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
713059 TTTCAGAAGT
713069 AACTGTAGTCATCACCATCATCATTCATTCGAATATA
1 AACTGTAGTCATCACCATCATCATTCATTCGAATATA
713106 AACTGTAGTCATCACCATCATCATTCATTCGAATATA
1 AACTGTAGTCATCACCATCATCATTCATTCGAATATA
713143 AAC
1 AAC
713146 CAGAATGGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.31
Consensus pattern (37 bp):
AACTGTAGTCATCACCATCATCATTCATTCGAATATA
Found at i:714815 original size:12 final size:12
Alignment explanation
Indices: 714798--714822 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
714788 CCTACCTCCC
714798 CTCACCCCATTA
1 CTCACCCCATTA
714810 CTCACCCCATTA
1 CTCACCCCATTA
714822 C
1 C
714823 ATATGGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.52, G:0.00, T:0.24
Consensus pattern (12 bp):
CTCACCCCATTA
Found at i:717315 original size:17 final size:17
Alignment explanation
Indices: 717293--717327 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
717283 CATTTTTTGC
*
717293 TCAAAGGGTTGATATCA
1 TCAAAGGATTGATATCA
*
717310 TCAAAGGATTGATCTCA
1 TCAAAGGATTGATATCA
717327 T
1 T
717328 ATGTAACACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (17 bp):
TCAAAGGATTGATATCA
Found at i:718139 original size:20 final size:20
Alignment explanation
Indices: 718116--718155 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
718106 CTCTTAGCAT
718116 GCCAACTATACCCCTAGCTC
1 GCCAACTATACCCCTAGCTC
*
718136 GCCAATTATACCCCTAGCTC
1 GCCAACTATACCCCTAGCTC
718156 TCATATCACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.42, G:0.10, T:0.23
Consensus pattern (20 bp):
GCCAACTATACCCCTAGCTC
Found at i:718910 original size:35 final size:35
Alignment explanation
Indices: 718864--718933 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
718854 CATCACAAGA
*
718864 ATGGTACCAATACT-TCCACATT-GGTATCGATACCC
1 ATGGTACCAATACTAT-CAC-TTCAGTATCGATACCC
718899 ATGGTACCAATACTATCACTTCAGTATCGATACCC
1 ATGGTACCAATACTATCACTTCAGTATCGATACCC
718934 CATGAAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 2 0.06
35 29 0.91
36 1 0.03
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.29
Consensus pattern (35 bp):
ATGGTACCAATACTATCACTTCAGTATCGATACCC
Found at i:722300 original size:23 final size:23
Alignment explanation
Indices: 722246--722301 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
722236 TAAATTTCCA
*
722246 CTGAGTGA-CACATAAAATTATC
1 CTGAGTGACCACATAAAAATATC
*
722268 CTGAGGGACCACATAAAAATATC
1 CTGAGTGACCACATAAAAATATC
*
722291 CTGAATGACCA
1 CTGAGTGACCA
722302 TATATATGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 7 0.24
23 22 0.76
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.21
Consensus pattern (23 bp):
CTGAGTGACCACATAAAAATATC
Found at i:723089 original size:35 final size:35
Alignment explanation
Indices: 723043--723112 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
723033 TATCCCAAGA
723043 ATGGTACCGATACT-TCCACATT-AGTATCAATACCC
1 ATGGTACCGATACTAT-CAC-TTCAGTATCAATACCC
*
723078 ATGGTACCGATACTATCACTTCAGTATCGATACCC
1 ATGGTACCGATACTATCACTTCAGTATCAATACCC
723113 CATGAAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 2 0.06
35 29 0.91
36 1 0.03
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.29
Consensus pattern (35 bp):
ATGGTACCGATACTATCACTTCAGTATCAATACCC
Found at i:724095 original size:21 final size:21
Alignment explanation
Indices: 724050--724095 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
724040 CGATAAAAAT
*
724050 GATCGATCCCTTTCCTTAAAG
1 GATCGATCCCTTTCCTTAAAC
*
724071 GATCGATCTCTTT-CTTGAAAC
1 GATCGATCCCTTTCCTT-AAAC
724092 GATC
1 GATC
724096 AAATTATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (21 bp):
GATCGATCCCTTTCCTTAAAC
Found at i:730246 original size:17 final size:18
Alignment explanation
Indices: 730210--730249 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
730200 GGTTTTGACC
730210 TGACCCGACCCGACCCGT
1 TGACCCGACCCGACCCGT
*
730228 TGACCCGACCGGA-CCGT
1 TGACCCGACCCGACCCGT
730245 TGACC
1 TGACC
730250 GTTGATCGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.17, C:0.45, G:0.25, T:0.12
Consensus pattern (18 bp):
TGACCCGACCCGACCCGT
Found at i:730339 original size:30 final size:30
Alignment explanation
Indices: 730264--730441 Score: 215
Period size: 29 Copynumber: 6.1 Consensus size: 30
730254 ATCGAGTGAC
*
730264 ATTTTGGGAA-TTAATTCGAAATGGGTGCT
1 ATTTTGGGAATTTAATTCGAAAAGGGTGCT
*
730293 ATTTTGGGAA-TTAATTCGAAAAGGGTGAT
1 ATTTTGGGAATTTAATTCGAAAAGGGTGCT
* *
730322 ATTTTAGGAATTTAATTCGAAAAAGGTGCT
1 ATTTTGGGAATTTAATTCGAAAAGGGTGCT
730352 ATTTTGGGAATTTAATTCG-AAA-GGTGCT
1 ATTTTGGGAATTTAATTCGAAAAGGGTGCT
* * *
730380 ATTTTAGGAATTTAATTTGAAAA-GGTTCT
1 ATTTTGGGAATTTAATTCGAAAAGGGTGCT
* * **
730409 ATTTTGGTAA-TTATTTTAAAAAGGGTGCT
1 ATTTTGGGAATTTAATTCGAAAAGGGTGCT
730438 ATTT
1 ATTT
730442 CTGTAAAATA
Statistics
Matches: 132, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
28 33 0.25
29 64 0.48
30 35 0.27
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.40
Consensus pattern (30 bp):
ATTTTGGGAATTTAATTCGAAAAGGGTGCT
Done.