Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 42 of 89
Found at i:9217137 original size:24 final size:24
Alignment explanation
Indices: 9217070--9217137 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
9217060 CTGAAACATC
* * *
9217070 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
9217094 ATCAAAGTCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
9217118 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
9217138 TAGTACTCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:9217799 original size:17 final size:17
Alignment explanation
Indices: 9217777--9217814 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
9217767 CGGATGGGGA
*
9217777 AGGATGTTGTTGGATAT
1 AGGATGTCGTTGGATAT
9217794 AGGATGTCGTTGGATAT
1 AGGATGTCGTTGGATAT
9217811 AGGA
1 AGGA
9217815 ACGGATGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.03, G:0.37, T:0.34
Consensus pattern (17 bp):
AGGATGTCGTTGGATAT
Found at i:9218107 original size:20 final size:19
Alignment explanation
Indices: 9218084--9218129 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9218074 GGAAACTGAT
* *
9218084 TTGCGATACTGGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
9218104 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
9218123 TTGCGAT
1 TTGCGAT
9218130 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:9218119 original size:19 final size:19
Alignment explanation
Indices: 9218095--9218131 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9218085 TGCGATACTG
*
9218095 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
9218114 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
9218132 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:9223178 original size:3 final size:3
Alignment explanation
Indices: 9223164--9223194 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
9223154 AATATTTAAT
9223164 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9223195 GTTTTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:9223846 original size:26 final size:26
Alignment explanation
Indices: 9223792--9223847 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
9223782 TCTCAAAATC
* *
9223792 AAAAACCCGAGTACCCTAATTGGCTA
1 AAAAACCCGAATACCCTAATGGGCTA
*
9223818 AAAAACCCCGAATTCCCTAATGGGC-A
1 AAAAA-CCCGAATACCCTAATGGGCTA
9223844 AAAA
1 AAAA
9223848 GAAAATTGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.43, C:0.27, G:0.14, T:0.16
Consensus pattern (26 bp):
AAAAACCCGAATACCCTAATGGGCTA
Found at i:9224148 original size:31 final size:31
Alignment explanation
Indices: 9224095--9224178 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 31
9224085 AATTAGACAA
* *
9224095 CCCTCAAACTTCTT-TAAAAAATCAATTGAA-
1 CCCTCAAATTTCTTAAAAAAAATCAATT-AAG
**
9224125 CCCTCGACCTTT-TTAAAAAAAATCAATTAAG
1 CCCTC-AAATTTCTTAAAAAAAATCAATTAAG
9224156 CCCTCAAATTTCTTAAAAAAAAT
1 CCCTCAAATTTCTTAAAAAAAAT
9224179 ATTATCCCTC
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
30 13 0.30
31 31 0.70
ACGTcount: A:0.44, C:0.23, G:0.04, T:0.30
Consensus pattern (31 bp):
CCCTCAAATTTCTTAAAAAAAATCAATTAAG
Found at i:9233596 original size:30 final size:30
Alignment explanation
Indices: 9233537--9233624 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 30
9233527 AAATTTTGGA
* * *
9233537 TAGTGACTAAAGTGTAAGTTTTG-AAAGTT
1 TAGTGGCTAAAGTATAAATTTTGAAAAGTT
9233566 TAGTGGCTAAAGTATAAATTTTGAAAAGTT
1 TAGTGGCTAAAGTATAAATTTTGAAAAGTT
* * *
9233596 TA-TGGATAAA-AATATAATTTTAAAAAGTT
1 TAGTGGCTAAAGTATA-AATTTTGAAAAGTT
9233625 ATATATATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
28 3 0.06
29 40 0.78
30 8 0.16
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (30 bp):
TAGTGGCTAAAGTATAAATTTTGAAAAGTT
Found at i:9233960 original size:14 final size:14
Alignment explanation
Indices: 9233941--9233993 Score: 106
Period size: 14 Copynumber: 3.8 Consensus size: 14
9233931 AATCAAAGCT
9233941 AAGTAGATTCAACC
1 AAGTAGATTCAACC
9233955 AAGTAGATTCAACC
1 AAGTAGATTCAACC
9233969 AAGTAGATTCAACC
1 AAGTAGATTCAACC
9233983 AAGTAGATTCA
1 AAGTAGATTCA
9233994 TATTTGACTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (14 bp):
AAGTAGATTCAACC
Found at i:9234356 original size:3 final size:3
Alignment explanation
Indices: 9234348--9234379 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9234338 TTACCGCTAC
9234348 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9234380 ATTTACTTTA
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:9234897 original size:2 final size:2
Alignment explanation
Indices: 9234890--9234932 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
9234880 AAGCATATGA
9234890 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9234932 A
1 A
9234933 CAAAGCTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9247808 original size:21 final size:19
Alignment explanation
Indices: 9247770--9247815 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
9247760 AATTAATCCT
9247770 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
9247790 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
9247811 A-TAAT
1 ACTAAT
9247816 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:9270344 original size:21 final size:19
Alignment explanation
Indices: 9270306--9270351 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
9270296 AATTAATCCT
9270306 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
9270326 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
9270347 A-TAAT
1 ACTAAT
9270352 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:9274323 original size:134 final size:134
Alignment explanation
Indices: 9274078--9274889 Score: 852
Period size: 134 Copynumber: 6.1 Consensus size: 134
9274068 GTTTAATTTG
* * *
9274078 TAGATCTGATATTCCCTTCAGAAGAAGCAGAACATATCCCTCTTTTCTAAGATTTGATATTCCCT
1 TAGATCTGATATTCCCTTCAGAAGAAGCAAAATAGATCCCTCTTTTC-AAGATTTGATATTCCCT
* * ** *
9274143 GAGTAACAGCGGAACAAGTCTGCCCTGATTCAATCTTCCCTGAGTGACAACCGAATAGATCAAC-
65 GAGTGACAGCAGAACAAGTCTGCCCCAATTCAATCTTCCCTGAGTGACAACGGAATAGATCAACA
9274207 TCCCC
130 TCCCC
9274212 TAGATCTGATATTCCCTTCAGAAGAAGCAAAATAGATCCCTCTCTTTCAAGATTTGATATTCCCT
1 TAGATCTGATATTCCCTTCAGAAGAAGCAAAATAGATCCCTCT-TTTCAAGATTTGATATTCCCT
* * * * * * ** * *
9274277 AAGTGATAACAGAACAAGTCTACCCCGATTCAATCTTCCCTAAGTGACAACAAAATGGATAAAC-
65 GAGTGACAGCAGAACAAGTCTGCCCCAATTCAATCTTCCCTGAGTGACAACGGAATAGATCAACA
9274341 TCCCC
130 TCCCC
* * * * * *
9274346 CATATCTGATATTCCCTTCAGAATAAGTGGAACAT-G-TCCATCTTTTCCAAGATTTGATATTCC
1 TAGATCTGATATTCCCTTCAGAAGAA--GCAAAATAGATCCCTCTTTT-CAAGATTTGATATTCC
* * * * ** *
9274409 CTGAGTGACAGCGGAACAAGTCTGCCCCGATTCAATCTTCCCTAAGTTACAGTGGAATGGATCAA
63 CTGAGTGACAGCAGAACAAGTCTGCCCCAATTCAATCTTCCCTGAGTGACAACGGAATAGATCAA
*
9274474 C-TCCTC
128 CATCCCC
* * * * * *
9274480 GAGATCTGATATTTCCTTTCA-AAGAAGCGAAATAGGTCCATATTTTCTAAGATTTGATATTCCC
1 TAGATCTGATA-TTCCCTTCAGAAGAAGCAAAATAGATCCCTCTTTTC-AAGATTTGATATTCCC
* * * *
9274544 TGAGTGACAGCAGAACAAGTCTGCCCTAATTCAATCTTCCCTGGGTGAAAACGGAATTGATCAAC
64 TGAGTGACAGCAGAACAAGTCTGCCCCAATTCAATCTTCCCTGAGTGACAACGGAATAGATCAAC
9274609 AT-CCC
129 ATCCCC
* * * * * *
9274614 TAGATATGATATTCCCTTCAGAAGAAGCGAAACAAATCCCTATTTTCCAAGATTTAATATTCCCT
1 TAGATCTGATATTCCCTTCAGAAGAAGCAAAATAGATCCCTCTTTT-CAAGATTTGATATTCCCT
* * * ** *
9274679 GAGTGACAACAGAACAAGTCTGCCCTAATTCAATCTTCCCTGGGTGACAACATAATTGATCAACA
65 GAGTGACAGCAGAACAAGTCTGCCCCAATTCAATCTTCCCTGAGTGACAACGGAATAGATCAACA
9274744 TCCCC
130 TCCCC
9274749 -AGATCTGATATTCCCTTC---AGAAG----A-AG--CCCTCTCTTTCAAGATTTGATATTCCCT
1 TAGATCTGATATTCCCTTCAGAAGAAGCAAAATAGATCCCTCT-TTTCAAGATTTGATATTCCCT
** * * *
9274803 GAGTGACAGTGGAACAAATCTGCCCCAATTCAATATTCCCTGAGTGACAGCGGAATAGATCAACA
65 GAGTGACAGCAGAACAAGTCTGCCCCAATTCAATCTTCCCTGAGTGACAACGGAATAGATCAACA
9274868 TCCCC
130 TCCCC
* *
9274873 -CGTATCTTATATTCCCT
1 TAG-ATCTGATATTCCCT
9274890 GAGTGACAAC
Statistics
Matches: 583, Mismatches: 81, Indels: 37
0.83 0.12 0.05
Matches are distributed among these distances:
124 82 0.14
125 16 0.03
126 1 0.00
127 1 0.00
131 5 0.01
132 4 0.01
133 13 0.02
134 438 0.75
135 18 0.03
136 5 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (134 bp):
TAGATCTGATATTCCCTTCAGAAGAAGCAAAATAGATCCCTCTTTTCAAGATTTGATATTCCCTG
AGTGACAGCAGAACAAGTCTGCCCCAATTCAATCTTCCCTGAGTGACAACGGAATAGATCAACAT
CCCC
Found at i:9276456 original size:2 final size:2
Alignment explanation
Indices: 9276449--9276480 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9276439 ATGTGTTATA
9276449 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9276481 ATATATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9276542 original size:2 final size:2
Alignment explanation
Indices: 9276480--9276523 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
9276470 TCTCTCTCTC
9276480 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9276521 TA T
1 TA T
9276524 GTCCCTCCCG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9286503 original size:20 final size:20
Alignment explanation
Indices: 9286477--9286528 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
9286467 TAAGTTGTTG
9286477 GTATCAATACTCTAAAGGGA
1 GTATCAATACTCTAAAGGGA
*
9286497 TTATCAATACTCTAAAGGGA
1 GTATCAATACTCTAAAGGGA
*
9286517 GTATCGATACTC
1 GTATCAATACTC
9286529 CTGGGTCAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (20 bp):
GTATCAATACTCTAAAGGGA
Found at i:9289097 original size:20 final size:20
Alignment explanation
Indices: 9289068--9289231 Score: 123
Period size: 20 Copynumber: 7.6 Consensus size: 20
9289058 TTCATTTATG
9289068 GCATCCTTTCATAT-CTTAAT
1 GCATCCTTTCAT-TCCTTAAT
*
9289088 GCATCATTTCATTCCTTAAT
1 GCATCCTTTCATTCCTTAAT
9289108 GCATCCTTTCATTCCTTAAT
1 GCATCCTTTCATTCCTTAAT
* * *
9289128 ACATCCTTTCATGCATTTCATTTAT
1 GCATCC-TT--T-CA-TTCCTTAAT
9289153 GGCATCCTTTCATTCCTTAAT
1 -GCATCCTTTCATTCCTTAAT
* * *
9289174 GCATTCTTTCATGCATTTCATTTAT
1 GCA-TCCTT--T-CA-TTCCTTAAT
* *
9289199 GGAATCCTTTCATACCTTAAT
1 -GCATCCTTTCATTCCTTAAT
9289220 GCATCCTTTCAT
1 GCATCCTTTCAT
9289232 GCATTTCATT
Statistics
Matches: 114, Mismatches: 17, Indels: 26
0.73 0.11 0.17
Matches are distributed among these distances:
19 1 0.01
20 55 0.48
21 19 0.17
22 4 0.04
23 4 0.04
24 4 0.04
25 20 0.18
26 7 0.06
ACGTcount: A:0.23, C:0.26, G:0.07, T:0.45
Consensus pattern (20 bp):
GCATCCTTTCATTCCTTAAT
Found at i:9289167 original size:46 final size:46
Alignment explanation
Indices: 9289056--9289255 Score: 261
Period size: 46 Copynumber: 4.5 Consensus size: 46
9289046 TTATTCATTA
*
9289056 ATTTCATTTATGGCATCCTTTCATAT-CTTAATGCAT-CATT--T-C
1 ATTTCATTTATGGCATCCTTTCAT-TCCTTAATGCATCCTTTCATGC
* * *
9289098 A-TTCCTTAAT-GCATCCTTTCATTCCTTAATACATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATTCCTTAATGCATCCTTTCATGC
*
9289142 ATTTCATTTATGGCATCCTTTCATTCCTTAATGCATTCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATTCCTTAATGCATCCTTTCATGC
* *
9289188 ATTTCATTTATGGAATCCTTTCATACCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATTCCTTAATGCATCCTTTCATGC
* *
9289234 ATTTCATTTATAGCATCATTTC
1 ATTTCATTTATGGCATCCTTTC
9289256 CATACATATA
Statistics
Matches: 137, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 21 0.15
41 10 0.07
42 1 0.01
43 1 0.01
44 2 0.01
45 7 0.05
46 94 0.69
ACGTcount: A:0.23, C:0.24, G:0.07, T:0.46
Consensus pattern (46 bp):
ATTTCATTTATGGCATCCTTTCATTCCTTAATGCATCCTTTCATGC
Found at i:9294940 original size:16 final size:16
Alignment explanation
Indices: 9294919--9294949 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9294909 CTTCTCCCCA
9294919 AAACTCTATAGCTCTC
1 AAACTCTATAGCTCTC
*
9294935 AAACTCTTTAGCTCT
1 AAACTCTATAGCTCT
9294950 TTTGGGATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (16 bp):
AAACTCTATAGCTCTC
Found at i:9296008 original size:46 final size:46
Alignment explanation
Indices: 9295941--9296100 Score: 232
Period size: 46 Copynumber: 3.5 Consensus size: 46
9295931 TTATTCATTA
* * *
9295941 ATTTCATTTATGACATCCTTTCATGTCTTAATGCATTCTTTCGTGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATTCTTTCATGC
* *
9295987 ATTTCATTTATGGCATCCTTTCATGCCTTAATTCA-TCATTTTATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATTC-TTTCATGC
* *
9296033 ATTTCATTTATGGCATCCTTTTATGCCTTAATGCATTTTTTCATGC
1 ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATTCTTTCATGC
*
9296079 ATTTTATTTATGGCATCCTTTC
1 ATTTCATTTATGGCATCCTTTC
9296101 CACACATATA
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
45 2 0.02
46 98 0.97
47 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.49
Consensus pattern (46 bp):
ATTTCATTTATGGCATCCTTTCATGCCTTAATGCATTCTTTCATGC
Found at i:9301597 original size:16 final size:16
Alignment explanation
Indices: 9301576--9301628 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
9301566 TATGTCAAAA
9301576 GTTGAACATAAAATGC
1 GTTGAACATAAAATGC
9301592 GTTGAACATAAAATGC
1 GTTGAACATAAAATGC
9301608 GTTGAACATAAAATGC
1 GTTGAACATAAAATGC
*
9301624 ATTGA
1 GTTGA
9301629 TCACTAGTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.26
Consensus pattern (16 bp):
GTTGAACATAAAATGC
Found at i:9304138 original size:65 final size:69
Alignment explanation
Indices: 9304054--9304220 Score: 177
Period size: 65 Copynumber: 2.5 Consensus size: 69
9304044 AAAAGGTATT
* *
9304054 TATTATCTATTTAACTTTGAATATTAAAGATAAT-TATATA-CTTTTGAATACTTTC-AATT-AA
1 TATTATATATTTAAATTTGAATATTAAAGAT-ATGTATATATCTTTTGAATA-TTTCAAATTAAA
9304115 A-ATAA
64 AGATAA
* * * *
9304120 TA-TATATATTTAAGTTTGAATAGTAAA-ATGTGTTTATATCTTTTGAATATTTCAAATTAAAAG
1 TATTATATATTTAAATTTGAATATTAAAGATATGTATATATCTTTTGAATATTTCAAATTAAAAG
*
9304183 ATAT
66 ATAA
* *
9304187 TATTATCTGTTTAAATTTGAATATTAAAGGATAT
1 TATTATATATTTAAATTTGAATATTAAA-GATAT
9304221 TGGAGTAAAT
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
63 1 0.01
64 11 0.13
65 36 0.44
66 5 0.06
67 5 0.06
68 21 0.26
70 3 0.04
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (69 bp):
TATTATATATTTAAATTTGAATATTAAAGATATGTATATATCTTTTGAATATTTCAAATTAAAAG
ATAA
Found at i:9316777 original size:35 final size:35
Alignment explanation
Indices: 9316737--9316806 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
9316727 TGTTTTAATT
*
9316737 TCGGAAAAATTCAATGAAAATTTTTCTAGTGGGTG
1 TCGGAAAAATTCAACGAAAATTTTTCTAGTGGGTG
*
9316772 TCGGAAAAATTCAACGAAAATTTTTCTTGTGGGTG
1 TCGGAAAAATTCAACGAAAATTTTTCTAGTGGGTG
9316807 AGGATCCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (35 bp):
TCGGAAAAATTCAACGAAAATTTTTCTAGTGGGTG
Found at i:9317850 original size:8 final size:8
Alignment explanation
Indices: 9317839--9317869 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
9317829 CAAAACATGT
9317839 AAAAAATAA
1 AAAAAAT-A
9317848 AAAAAATA
1 AAAAAATA
9317856 AAAAAATA
1 AAAAAATA
9317864 AAAAAA
1 AAAAAA
9317870 ATGAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.68
9 7 0.32
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAATA
Found at i:9317851 original size:9 final size:9
Alignment explanation
Indices: 9317839--9317871 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
9317829 CAAAACATGT
9317839 AAAAAATAA
1 AAAAAATAA
9317848 AAAAAAT-A
1 AAAAAATAA
9317856 AAAAAATAA
1 AAAAAATAA
9317865 AAAAAAT
1 AAAAAAT
9317872 GAATAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAATAA
Found at i:9317858 original size:25 final size:25
Alignment explanation
Indices: 9317801--9317868 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
9317791 TGAGAATAAT
*
9317801 AAATAAAACAAGAAAAAATGGAAAA
1 AAATAAAACAAGAAAAAATGAAAAA
* * *
9317826 TAACAAAACATGTAAAAAAT-AAAAA
1 AAATAAAACAAG-AAAAAATGAAAAA
* *
9317851 AAATAAAAAAATAAAAAA
1 AAATAAAACAAGAAAAAA
9317869 AATGAATAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
24 6 0.18
25 20 0.61
26 7 0.21
ACGTcount: A:0.78, C:0.04, G:0.06, T:0.12
Consensus pattern (25 bp):
AAATAAAACAAGAAAAAATGAAAAA
Found at i:9317859 original size:17 final size:17
Alignment explanation
Indices: 9317839--9317871 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9317829 CAAAACATGT
9317839 AAAAAATAAAAAAAATA
1 AAAAAATAAAAAAAATA
9317856 AAAAAATAAAAAAAAT
1 AAAAAATAAAAAAAAT
9317872 GAATAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAAAATAAAAAAAATA
Found at i:9317944 original size:18 final size:18
Alignment explanation
Indices: 9317923--9317970 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
9317913 TATTAATGGA
9317923 GTAAAAAAAATAAAAAAT
1 GTAAAAAAAATAAAAAAT
* *
9317941 GTAAAAGAAAT-TAAAAT
1 GTAAAAAAAATAAAAAAT
* *
9317958 GGAATAAAAATAA
1 GTAAAAAAAATAA
9317971 TGTGTACATA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (18 bp):
GTAAAAAAAATAAAAAAT
Found at i:9318091 original size:41 final size:40
Alignment explanation
Indices: 9318038--9318115 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 40
9318028 ATTAAGAAAA
*
9318038 AAATAGAAAAAAATAAA-ATAAAGTAAAAATATAATATATAT
1 AAATAGAAAAAAA-AAATATAAAGAAAAAATAT-ATATATAT
*
9318079 AAATA-AATAAAAAAAATATTAAGAAAAAATATATATA
1 AAATAGAA-AAAAAAAATATAAAGAAAAAATATATATA
9318116 AAAACGTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
40 10 0.30
41 23 0.70
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (40 bp):
AAATAGAAAAAAAAAATATAAAGAAAAAATATATATATAT
Found at i:9318093 original size:55 final size:62
Alignment explanation
Indices: 9317996--9318136 Score: 142
Period size: 58 Copynumber: 2.4 Consensus size: 62
9317986 TAGTATTTAC
* * *
9317996 TAAAATAAA-TAAAAA-ATAA-AGATATACATGATATTAAGAAAAAA-A-T-AGAAAAAA-A
1 TAAAATAAAGTAAAAATATAATATATATAAATGATAATAAGAAAAAATATTAAGAAAAAATA
9318051 TAAAATAAAGTAAAAATATAATATATATAAAT-A-AATAA-AAAAAATATTAAGAAAAAATA
1 TAAAATAAAGTAAAAATATAATATATATAAATGATAATAAGAAAAAATATTAAGAAAAAATA
9318110 TATATAA-AAACGTATAAAATATAATAT
1 TA-A-AATAAA-GTA-AAAATATAATAT
9318137 TAAGAATATA
Statistics
Matches: 72, Mismatches: 3, Indels: 15
0.80 0.03 0.17
Matches are distributed among these distances:
55 15 0.21
56 11 0.15
57 6 0.08
58 16 0.22
59 3 0.04
60 4 0.06
61 5 0.07
62 12 0.17
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.25
Consensus pattern (62 bp):
TAAAATAAAGTAAAAATATAATATATATAAATGATAATAAGAAAAAATATTAAGAAAAAATA
Found at i:9318150 original size:39 final size:36
Alignment explanation
Indices: 9318065--9318154 Score: 101
Period size: 39 Copynumber: 2.4 Consensus size: 36
9318055 ATAAAGTAAA
9318065 AATATAATATATATAAATAAATAAAAAAAATATTAAG
1 AATAT-ATATATATAAATAAATAAAAAAAATATTAAG
* * *
9318102 AAAAAATATATATAAA-AACGTATAAAATATAATATTAAG
1 AATATATATATATAAATAA---ATAAAA-AAAATATTAAG
9318141 AATATATATATATA
1 AATATATATATATA
9318155 TATACATAGT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
35 2 0.05
36 11 0.25
37 3 0.07
38 6 0.14
39 22 0.50
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (36 bp):
AATATATATATATAAATAAATAAAAAAAATATTAAG
Found at i:9318208 original size:2 final size:2
Alignment explanation
Indices: 9318201--9318280 Score: 128
Period size: 2 Copynumber: 40.5 Consensus size: 2
9318191 ACATACATAC
9318201 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
9318243 AT AT AT AT AT AT AT AT A- AT GAT AT A- AG AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT A
9318281 AAAAATATAA
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
1 2 0.03
2 70 0.95
3 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:9318303 original size:20 final size:20
Alignment explanation
Indices: 9318270--9318338 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
9318260 ATGATATAAG
* *
9318270 ATATATATATAAAAAATATA
1 ATATAAATAAAAAAAATATA
9318290 ATATAAATAAAAAAGGAATATA
1 ATATAAATAAAAAA--AATATA
*
9318312 GTAAATAAAT-AAAAAAATATA
1 --ATATAAATAAAAAAAATATA
9318333 AT-TAAA
1 ATATAAA
9318339 AATATATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 4 0.10
19 1 0.02
20 12 0.29
21 6 0.15
22 6 0.15
23 5 0.12
24 7 0.17
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
ATATAAATAAAAAAAATATA
Found at i:9319997 original size:106 final size:106
Alignment explanation
Indices: 9319674--9320047 Score: 522
Period size: 106 Copynumber: 3.5 Consensus size: 106
9319664 AGTATTTTTC
* *
9319674 TGAGTCCAATAT-CCTC-CGTCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGA
1 TGAGTCCAATATCCCTCGC-T-GTGAAGTTGAAATTGGCTCTGAAACTGGGAAAATGTTTGTTGA
*
9319737 CAGCCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCT
64 CAGCCAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCT
* * ** *
9319780 TGAGTTCAATATCCTTCGCTGTGAAGTTGAAATTAACTCTGAATGAAACT--GAAAAGTTATTTG
1 TGAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTC----TGAAACTGGGAAAA--TGTTTG
** * *
9319843 TTGACAATCAGTCGCCCCTTCATTGTGAAGTTGAGCTTGTGTTATCT
60 TTGACAGCCAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCT
*
9319890 TGAGTCCAATATCCCTCACTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAAATGTTTGTTGACA
1 TGAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAAATGTTTGTTGACA
*
9319955 GCCAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCT
66 GCCAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCT
9319996 TGAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAA
1 TGAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAA
9320048 CCCCTTCGTC
Statistics
Matches: 234, Mismatches: 24, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
106 133 0.57
107 4 0.02
108 10 0.04
110 87 0.37
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (106 bp):
TGAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAAATGTTTGTTGACA
GCCAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCT
Found at i:9320873 original size:67 final size:67
Alignment explanation
Indices: 9320742--9320890 Score: 194
Period size: 67 Copynumber: 2.2 Consensus size: 67
9320732 GGAAACGATC
* *
9320742 TCAAAGATATATGTTGTTTCATGAAAACGGTCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAAT
1 TCAAAGAT-TTTG-TGTTTCAAGAAAACGGTCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAAT
9320807 AAAT
64 AAAT
** * *
9320811 TTGAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTT-AGGAGAAAT
1 TCAAAGATTTTGTGTTTCAAGA-AAACGGTCTCAAGGGAAACAAAATTTTGTTTTAAGG-GAAAT
9320874 AAAT
64 AAAT
9320878 TCAAAGATTTTGT
1 TCAAAGATTTTGT
9320891 TTCTAGGAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
66 3 0.04
67 37 0.53
68 24 0.34
69 6 0.09
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (67 bp):
TCAAAGATTTTGTGTTTCAAGAAAACGGTCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAA
AT
Found at i:9321248 original size:106 final size:106
Alignment explanation
Indices: 9321071--9321373 Score: 435
Period size: 106 Copynumber: 2.9 Consensus size: 106
9321061 ATCCTCCGTC
* * ** * * * * * *
9321071 GTGAAGTTAAAATTGGCTCTGGAACTAAGATATTATTTGTTGACAGCCAGCTGCCCCTTCGCTGT
1 GTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGT
* * * *
9321136 GAAGTTGAGCTTGTGCTGTCTCGAGTCCAATATCCTTTACT
66 GGAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCACT
* *
9321177 GTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGT
1 GTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGT
*
9321242 GGAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCT
66 GGAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCACT
*
9321283 GTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCTTTGT
1 GTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGT
*
9321348 GGAGTTGAACTTGTGTTGTCTTGAGT
66 GGAGTTGAACTTGTGTTGTCTCGAGT
9321374 GGCACGATAT
Statistics
Matches: 176, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
106 176 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.36
Consensus pattern (106 bp):
GTGAAGTTAAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGT
GGAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCACT
Found at i:9322035 original size:32 final size:31
Alignment explanation
Indices: 9321964--9322036 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
9321954 TTGAATTCCT
* *
9321964 AAAGATGCCCCAATATTCGACGTTGAATCTC
1 AAAGATGCCCCAACATTCGACATTGAATCTC
* * *
9321995 AAAAATGCCCCAACATTTGATATTGAATCTTC
1 AAAGATGCCCCAACATTCGACATTGAATC-TC
9322027 AAAGATGCCC
1 AAAGATGCCC
9322037 TCATTGTTCC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
31 24 0.69
32 11 0.31
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.26
Consensus pattern (31 bp):
AAAGATGCCCCAACATTCGACATTGAATCTC
Found at i:9323047 original size:69 final size:69
Alignment explanation
Indices: 9322936--9323073 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
9322926 TGTCTCTATC
9322936 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTCGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTCGATCAATC
9323001 TCAT
66 TCAT
* *
9323005 TTGATGCTCTATGATCTTCTAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTCGATCAATC
9323070 TCAT
66 TCAT
9323074 AGTTTGAATC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTCGATCAATC
TCAT
Found at i:9323183 original size:19 final size:19
Alignment explanation
Indices: 9323131--9323183 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
9323121 TCATCTTGTC
* *
9323131 TTTTTTTCAATTTTCCTTTA
1 TTTTTTTC-TTTTTGCTTTA
*
9323151 TTTTTTTCTCTTTGCTTT-
1 TTTTTTTCTTTTTGCTTTA
9323169 TTTTTTCTCTTTTTG
1 TTTTTT-TCTTTTTG
9323184 TTCTGATTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 6 0.21
19 14 0.50
20 8 0.29
ACGTcount: A:0.06, C:0.15, G:0.04, T:0.75
Consensus pattern (19 bp):
TTTTTTTCTTTTTGCTTTA
Found at i:9327644 original size:26 final size:27
Alignment explanation
Indices: 9327581--9327647 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
9327571 TGCAAACGTG
*
9327581 AGAATAATAAATAAAACAAGAAAAAAT
1 AGAATAATAAACAAAACAAGAAAAAAT
*
9327608 AGAA-AAT-AACAAAACATGTAAAAAA-
1 AGAATAATAAACAAAACAAG-AAAAAAT
9327633 A-AATAATAAACAAAA
1 AGAATAATAAACAAAA
9327648 TGAATAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
24 2 0.06
25 13 0.37
26 16 0.46
27 4 0.11
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.13
Consensus pattern (27 bp):
AGAATAATAAACAAAACAAGAAAAAAT
Found at i:9327970 original size:18 final size:18
Alignment explanation
Indices: 9327907--9327972 Score: 69
Period size: 18 Copynumber: 3.5 Consensus size: 18
9327897 AATAAAAAAC
*
9327907 AAAAATAGAATATTAAGA
1 AAAAATATAATATTAAGA
* *
9327925 AAATATATATATATAAACGTA
1 AAAAATATA-ATATTAA-G-A
*
9327946 TAAAATATAATATTAAGA
1 AAAAATATAATATTAAGA
9327964 AAAAATATA
1 AAAAATATA
9327973 TATACATACT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
18 16 0.42
19 7 0.18
20 7 0.18
21 8 0.21
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.29
Consensus pattern (18 bp):
AAAAATATAATATTAAGA
Found at i:9328012 original size:8 final size:8
Alignment explanation
Indices: 9327999--9328049 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
9327989 AGAAAAATTA
*
9327999 ATACATCT
1 ATACATAT
9328007 ATACATAT
1 ATACATAT
*
9328015 ATATATAT
1 ATACATAT
*
9328023 ATATATAT
1 ATACATAT
*
9328031 ATATATAT
1 ATACATAT
*
9328039 ATATATAT
1 ATACATAT
9328047 ATA
1 ATA
9328050 ATGATATAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 41 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (8 bp):
ATACATAT
Found at i:9328018 original size:2 final size:2
Alignment explanation
Indices: 9328006--9328068 Score: 85
Period size: 2 Copynumber: 32.0 Consensus size: 2
9327996 TTAATACATC
*
9328006 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
9328048 TA -A TGA TA TA -A GA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA
9328069 ATAAAAATAA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
1 2 0.04
2 51 0.93
3 2 0.04
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (2 bp):
TA
Found at i:9328081 original size:25 final size:27
Alignment explanation
Indices: 9328011--9328083 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 27
9328001 ACATCTATAC
* *
9328011 ATATATATATAT-ATAT-ATAT-ATAT
1 ATATATATATATAAAATAATATAAGAT
* *
9328035 ATATATATATATATAATGATATAAGAT
1 ATATATATATATAAAATAATATAAGAT
9328062 ATATATA-ATA-AAAATAATATAA
1 ATATATATATATAAAATAATATAA
9328084 TATAAATAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 12 0.29
25 12 0.29
26 7 0.17
27 10 0.24
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (27 bp):
ATATATATATATAAAATAATATAAGAT
Found at i:9328091 original size:20 final size:20
Alignment explanation
Indices: 9328062--9328130 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
9328052 GATATAAGAT
9328062 ATATATAATAAAAATAATATA
1 ATATA-AATAAAAATAATATA
9328083 ATATAAATAAAAAATGAATATA
1 ATATAAAT-AAAAAT-AATATA
*
9328105 GTAAATAAAT-AAAA-AATATA
1 --ATATAAATAAAAATAATATA
9328125 AT-TAAA
1 ATATAAA
9328131 AATATATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
17 4 0.10
18 1 0.02
20 9 0.21
21 11 0.26
22 10 0.24
24 7 0.17
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (20 bp):
ATATAAATAAAAATAATATA
Found at i:9328140 original size:36 final size:35
Alignment explanation
Indices: 9328060--9328140 Score: 85
Period size: 38 Copynumber: 2.3 Consensus size: 35
9328050 ATGATATAAG
*
9328060 ATATATATAATAAAAATAATATAATATAAATAAAAA
1 ATATATATAATAAAAATAATAAAATATAAAT-AAAA
* *
9328096 ATGAATATAGTAA-ATAAATAA-AAAATATAATTAAAA
1 AT--ATATA-TAATAAAAATAATAAAATATAAATAAAA
9328132 ATATATATA
1 ATATATATA
9328141 TAGATGACGA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
33 2 0.05
34 5 0.13
36 8 0.21
37 9 0.23
38 12 0.31
39 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (35 bp):
ATATATATAATAAAAATAATAAAATATAAATAAAA
Found at i:9328886 original size:22 final size:22
Alignment explanation
Indices: 9328843--9328886 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9328833 GGTCTTAAAA
*
9328843 AAATATTATTATTATTATTATT
1 AAATATTATTATTATTAATATT
*
9328865 AAATATTTTTACTTA-TAATATT
1 AAATATTATTA-TTATTAATATT
9328887 TTGTACATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
AAATATTATTATTATTAATATT
Found at i:9332111 original size:3 final size:3
Alignment explanation
Indices: 9332098--9332135 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
9332088 AAACAATATC
9332098 ATT ATT AATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
9332136 ATTAACTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:9333622 original size:30 final size:30
Alignment explanation
Indices: 9333588--9333665 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
9333578 TGTTTTTCTA
*
9333588 TTTTATTTTTTCCATTTTAGTCATTCAAAT
1 TTTTATTTTTGCCATTTTAGTCATTCAAAT
* * * *
9333618 TTTTATTTTTGCTATTTTAGTCCTTTAAGT
1 TTTTATTTTTGCCATTTTAGTCATTCAAAT
* *
9333648 TTCTATTTTTGCTATTTT
1 TTTTATTTTTGCCATTTT
9333666 GATATTTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (30 bp):
TTTTATTTTTGCCATTTTAGTCATTCAAAT
Found at i:9338681 original size:37 final size:36
Alignment explanation
Indices: 9338624--9338753 Score: 154
Period size: 37 Copynumber: 3.6 Consensus size: 36
9338614 CAAAGTGTCA
* *
9338624 TCTCGCTAGAGACAGTTTTCTTAAAAAACAAATTTTG
1 TCTCGCTTGAGACAATTTTCTT-AAAAACAAATTTTG
*
9338661 TCTTGCTTGAGACAATTTTCTCTAAAAACAAATTTTG
1 TCTCGCTTGAGACAATTTTCT-TAAAAACAAATTTTG
* * * *
9338698 TCTCACTTGAGAAAATTTATC-TCAAAACAAATTTCG
1 TCTCGCTTGAGACAATTT-TCTTAAAAACAAATTTTG
*
9338734 TCTCGCTTGAGACATTTTTC
1 TCTCGCTTGAGACAATTTTC
9338754 CTTTGAGAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
35 2 0.03
36 28 0.35
37 47 0.59
38 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (36 bp):
TCTCGCTTGAGACAATTTTCTTAAAAACAAATTTTG
Found at i:9339224 original size:131 final size:131
Alignment explanation
Indices: 9339008--9339366 Score: 423
Period size: 134 Copynumber: 2.7 Consensus size: 131
9338998 GCTTGCCGTT
* * * * ** * *
9339008 CTCATCTCGTAGAAACCGTGTCATCCCCCGACTATATCTCCTCATCATATATGAGTTGTGTCACC
1 CTCATCGCGTAGAAATCGTGTCATCCACCGACCATATCTCCTCATCACGTAGGAGTCGTGTCACC
* * * * *
9339073 CTTAGATAATCAATCGTCCTCATCGCGTAGGAACTGTGTCATCA-TCCCTAAAGATGGTCTATCG
66 CTTAGATAACCAAAC-TCCTCATCACGTAGGAACTATGTCATCACTCCCTAAAGATGGTATATCG
9339137 TC
130 TC
* * *
9339139 CTCATCGCGTAGAAATCGTGTCATCCACCGACCATACCTCCTCATCACGTAGGAGCCGTATCACC
1 CTCATCGCGTAGAAATCGTGTCATCCACCGACCATATCTCCTCATCACGTAGGAGTCGTGTCACC
* * * *
9339204 CTTAGATAACCAAACTTCCTCATCCCGTAGTAACTATGTTATCACCCTCCCTAAAGATGGTATGT
66 CTTAGATAACCAAAC-TCCTCATCACGTAGGAACTATGTCATCA--CTCCCTAAAGATGGTATAT
9339269 CGTC
128 CGTC
* * * * *
9339273 CTCATCGCTTAGGAATTGTGTCATCCACCGACCAGATCTCCCCATCACGTAGGAGTCGTGTCACC
1 CTCATCGCGTAGAAATCGTGTCATCCACCGACCATATCTCCTCATCACGTAGGAGTCGTGTCACC
**
9339338 CTTAGACGACCAGAACTCCTCATCACGTA
66 CTTAGATAACCA-AACTCCTCATCACGTA
9339367 TGAGCCGTGT
Statistics
Matches: 193, Mismatches: 31, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
131 91 0.47
134 99 0.51
135 3 0.02
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (131 bp):
CTCATCGCGTAGAAATCGTGTCATCCACCGACCATATCTCCTCATCACGTAGGAGTCGTGTCACC
CTTAGATAACCAAACTCCTCATCACGTAGGAACTATGTCATCACTCCCTAAAGATGGTATATCGT
C
Found at i:9341324 original size:19 final size:19
Alignment explanation
Indices: 9341300--9341347 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
9341290 CGACTCCATT
9341300 CAATTTAATTTAAAATCAC
1 CAATTTAATTTAAAATCAC
*
9341319 CAATTTAATGTAAAATCAC
1 CAATTTAATTTAAAATCAC
*
9341338 CGATTTAATT
1 CAATTTAATT
9341348 ATTTTATCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.38
Consensus pattern (19 bp):
CAATTTAATTTAAAATCAC
Found at i:9351121 original size:18 final size:18
Alignment explanation
Indices: 9351098--9351142 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
9351088 TTGAAAAAAT
9351098 ATAATTTTTAAATTTTAA
1 ATAATTTTTAAATTTTAA
9351116 ATAATTTTTAAATTTTAA
1 ATAATTTTTAAATTTTAA
9351134 ATAATTTTT
1 ATAATTTTT
9351143 TAAAATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATAATTTTTAAATTTTAA
Found at i:9352446 original size:19 final size:18
Alignment explanation
Indices: 9352418--9352456 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
9352408 CTTTATTGCA
9352418 TTTATGTAAAATATTAAGT
1 TTTATGT-AAATATTAAGT
* *
9352437 TTTATTTAAATTTTAAGT
1 TTTATGTAAATATTAAGT
9352455 TT
1 TT
9352457 GAATCTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (18 bp):
TTTATGTAAATATTAAGT
Found at i:9353952 original size:22 final size:22
Alignment explanation
Indices: 9353927--9353968 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9353917 TTTCTTTTTC
* *
9353927 TTTTTCTTTTTAAAAAATAATA
1 TTTTTATTATTAAAAAATAATA
9353949 TTTTTATTATTAAAAAATAA
1 TTTTTATTATTAAAAAATAA
9353969 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTTATTATTAAAAAATAATA
Found at i:9354498 original size:10 final size:10
Alignment explanation
Indices: 9354460--9354498 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
9354450 TCATCACACT
9354460 AAATTCTCTC
1 AAATTCTCTC
*
9354470 AATTTCTCTC
1 AAATTCTCTC
*
9354480 AACTTCTCTC
1 AAATTCTCTC
*
9354490 AAATACTCT
1 AAATTCTCT
9354499 TATAATCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (10 bp):
AAATTCTCTC
Found at i:9354553 original size:21 final size:22
Alignment explanation
Indices: 9354515--9354583 Score: 61
Period size: 26 Copynumber: 3.0 Consensus size: 22
9354505 CTCTTCTAAG
*
9354515 GTATATTTTA-TTATATTTTTAA
1 GTATTTTTTATTTA-ATTTTTAA
9354537 -TATTTTTTATTTAATTTATTTAA
1 GTATTTTTTATTTAA-TT-TTTAA
9354560 GTATTTAATTTATTTAATATTTTA
1 GTATTT--TTTATTTAAT-TTTTA
9354584 CTTATTTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
21 9 0.23
22 5 0.13
23 5 0.13
24 5 0.13
25 5 0.13
26 10 0.26
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (22 bp):
GTATTTTTTATTTAATTTTTAA
Found at i:9354554 original size:9 final size:9
Alignment explanation
Indices: 9354542--9354595 Score: 60
Period size: 9 Copynumber: 6.3 Consensus size: 9
9354532 TTTAATATTT
9354542 TTTATTTAA
1 TTTATTTAA
9354551 TTTATTTAA
1 TTTATTTAA
*
9354560 -GTATTTAA
1 TTTATTTAA
9354568 TTTATTTAA
1 TTTATTTAA
*
9354577 --TATTTTA
1 TTTATTTAA
*
9354584 CTTATTTAA
1 TTTATTTAA
9354593 TTT
1 TTT
9354596 TTTGCAGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
7 6 0.16
8 7 0.19
9 24 0.65
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTATTTAA
Found at i:9354566 original size:17 final size:16
Alignment explanation
Indices: 9354544--9354593 Score: 73
Period size: 17 Copynumber: 3.1 Consensus size: 16
9354534 TAATATTTTT
9354544 TATTTAATTTATTTAA
1 TATTTAATTTATTTAA
9354560 GTATTTAATTTATTTAA
1 -TATTTAATTTATTTAA
* *
9354577 TATTTTACTTATTTAA
1 TATTTAATTTATTTAA
9354593 T
1 T
9354594 TTTTTGCAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 15 0.48
17 16 0.52
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (16 bp):
TATTTAATTTATTTAA
Found at i:9354588 original size:16 final size:16
Alignment explanation
Indices: 9354552--9354597 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
9354542 TTTATTTAAT
* *
9354552 TTATTTAAGTATTTAAT
1 TTATTTAA-TATTTTAC
9354569 TTATTTAATATTTTAC
1 TTATTTAATATTTTAC
9354585 TTATTTAAT-TTTT
1 TTATTTAATATTTT
9354598 TGCAGATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 4 0.15
16 15 0.56
17 8 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (16 bp):
TTATTTAATATTTTAC
Found at i:9360400 original size:21 final size:21
Alignment explanation
Indices: 9360374--9360437 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
9360364 TTTTGGTGCA
*
9360374 GAGGGAATCGATCCCCCCCAT
1 GAGGGAACCGATCCCCCCCAT
* **
9360395 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATCCCCCCCAT
*
9360416 GAAGGGGAACCGATTCCCCCCA
1 G-A-GGGAACCGATCCCCCCCA
9360438 CAGGGGAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 18 0.51
22 1 0.03
23 16 0.46
ACGTcount: A:0.23, C:0.36, G:0.25, T:0.16
Consensus pattern (21 bp):
GAGGGAACCGATCCCCCCCAT
Found at i:9360444 original size:21 final size:21
Alignment explanation
Indices: 9360376--9360457 Score: 62
Period size: 21 Copynumber: 3.8 Consensus size: 21
9360366 TTGGTGCAGA
*
9360376 GGGAATCGA-TCCCCCC-CATG
1 GGGAACCGATTCCCCCCACA-G
*
9360396 AGGGAACCGATTCCCCCTTTGA-AG
1 -GGGAACCGATTCCCCC---CACAG
9360420 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATTCCCCCCACAG
* *
9360441 GGGAATCGATACCCCCC
1 GGGAACCGATTCCCCCC
9360458 TAGGGTTCTG
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
20 1 0.02
21 25 0.50
22 6 0.12
23 16 0.32
24 1 0.02
25 1 0.02
ACGTcount: A:0.23, C:0.38, G:0.24, T:0.15
Consensus pattern (21 bp):
GGGAACCGATTCCCCCCACAG
Found at i:9362721 original size:16 final size:16
Alignment explanation
Indices: 9362700--9362732 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9362690 GTATGTGTTT
9362700 TAAGTGTGTTTTAAAA
1 TAAGTGTGTTTTAAAA
9362716 TAAGTGTGTTTTAAAA
1 TAAGTGTGTTTTAAAA
9362732 T
1 T
9362733 GATAAATGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (16 bp):
TAAGTGTGTTTTAAAA
Found at i:9367994 original size:15 final size:15
Alignment explanation
Indices: 9367974--9368006 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
9367964 TTAGTTGGGT
9367974 AATTAAAATGGAATC
1 AATTAAAATGGAATC
9367989 AATTAAAATGGAATC
1 AATTAAAATGGAATC
9368004 AAT
1 AAT
9368007 ACGTAACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (15 bp):
AATTAAAATGGAATC
Found at i:9370799 original size:16 final size:16
Alignment explanation
Indices: 9370778--9370817 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
9370768 AAGGTAAATT
9370778 ATCTATTTAACCACTC
1 ATCTATTTAACCACTC
9370794 ATCTATTTAACCACTC
1 ATCTATTTAACCACTC
9370810 ATCTATTT
1 ATCTATTT
9370818 TTATGTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.30, C:0.28, G:0.00, T:0.42
Consensus pattern (16 bp):
ATCTATTTAACCACTC
Found at i:9375053 original size:17 final size:17
Alignment explanation
Indices: 9375031--9375066 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9375021 TGTTTCTCTC
9375031 TTGATTCTTGATTCTTG
1 TTGATTCTTGATTCTTG
* *
9375048 TTGATTGTTGTTTCTTG
1 TTGATTCTTGATTCTTG
9375065 TT
1 TT
9375067 ATTGATCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.08, C:0.08, G:0.19, T:0.64
Consensus pattern (17 bp):
TTGATTCTTGATTCTTG
Found at i:9375382 original size:64 final size:65
Alignment explanation
Indices: 9375288--9375424 Score: 176
Period size: 64 Copynumber: 2.1 Consensus size: 65
9375278 TACATTGAGG
* *
9375288 GTGCATCGATGCATAAAACACATTCGATGTTTTAA-AATA-GTCGAGGTGCATCGATGCATAGCT
1 GTGCATCGATGCATAAAACACATTCAATGTTTTAATAATACATCGA-GTGCATCGATGCATAG-T
9375351 -T
64 AT
*
9375352 GTGCATC-AGTGCATAAAATCA-ATTCAATGTTTTAATAATACATGGAGTGCATCGATGCATAGT
1 GTGCATCGA-TGCATAAAA-CACATTCAATGTTTTAATAATACATCGAGTGCATCGATGCATAGT
9375415 AT
64 AT
9375417 GTGCATCG
1 GTGCATCG
9375425 GTACACAAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
63 1 0.02
64 30 0.47
65 30 0.47
66 3 0.05
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAACACATTCAATGTTTTAATAATACATCGAGTGCATCGATGCATAGTAT
Found at i:9375447 original size:65 final size:64
Alignment explanation
Indices: 9375308--9375447 Score: 167
Period size: 65 Copynumber: 2.2 Consensus size: 64
9375298 GCATAAAACA
* * * *
9375308 CATTCGATGTTTTAAAATAGTCGAGGTGCATCGATGCATAGCTTGTGCATCAGTGCATAAAATC
1 CATTCGATGTTTTAAAATAATCGAGGTGCATCGATGCATAGCTTGTGCATCAGTACACAAAAGC
* * * *
9375372 AATTCAATGTTTTAATAATACATGGA-GTGCATCGATGCATAG-TATGTGCATCGGTACACAAAA
1 CATTCGATGTTTTAA-AATA-ATCGAGGTGCATCGATGCATAGCT-TGTGCATCAGTACACAAAA
9375435 GC
63 GC
9375437 CATTCGATGTT
1 CATTCGATGTT
9375448 CAATTAAAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
64 14 0.22
65 46 0.73
66 3 0.05
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (64 bp):
CATTCGATGTTTTAAAATAATCGAGGTGCATCGATGCATAGCTTGTGCATCAGTACACAAAAGC
Found at i:9378160 original size:24 final size:23
Alignment explanation
Indices: 9378086--9378210 Score: 145
Period size: 24 Copynumber: 5.5 Consensus size: 23
9378076 CATGGCTCTG
9378086 TGCATCGATGCACATTCA-AGGA
1 TGCATCGATGCACATTCATAGGA
9378108 GTGCATCGATGCATC-TTCAT--GA
1 -TGCATCGATGCA-CATTCATAGGA
*
9378130 TGTATCGATGCACATTCATAGGGA
1 TGCATCGATGCACATTCATA-GGA
*
9378154 TGCATCGATGCACATTCTTATGGA
1 TGCATCGATGCACATTCATA-GGA
*
9378178 TGCATCGATGCACTTTCATA-G-
1 TGCATCGATGCACATTCATAGGA
9378199 TGCATCGATGCA
1 TGCATCGATGCA
9378211 TAATGCACAA
Statistics
Matches: 90, Mismatches: 6, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
20 1 0.01
21 28 0.31
22 3 0.03
23 16 0.18
24 42 0.47
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (23 bp):
TGCATCGATGCACATTCATAGGA
Found at i:9384139 original size:65 final size:64
Alignment explanation
Indices: 9384009--9384164 Score: 187
Period size: 65 Copynumber: 2.4 Consensus size: 64
9383999 TTGAGGGTGT
*
9384009 ATCGATGCATAAAA-CACATTCGATGTTTTAAAATAGCCGAGGTGCATCGATGCATAGCTTGTGC
1 ATCGGTGCATAAAATCA-ATTCGATGTTTTAAAATAGCCGAGGTGCATCGATGCATAGCTTGTGC
*
9384073 ATCGGTGCATAAAATCAATTCGATGTTTTAATAATA-CATG-GAGTGCATCGATGCATAG-TATG
1 ATCGGTGCATAAAATCAATTCGATGTTTTAA-AATAGC-CGAG-GTGCATCGATGCATAGCT-TG
9384135 TGC
62 TGC
* *
9384138 ATCGGTACACAAAAGTC-ATTCGATGTT
1 ATCGGTGCATAAAA-TCAATTCGATGTT
9384165 CAATTAAAAC
Statistics
Matches: 82, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
64 30 0.37
65 50 0.61
66 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (64 bp):
ATCGGTGCATAAAATCAATTCGATGTTTTAAAATAGCCGAGGTGCATCGATGCATAGCTTGTGC
Found at i:9384204 original size:65 final size:63
Alignment explanation
Indices: 9384048--9384212 Score: 181
Period size: 65 Copynumber: 2.5 Consensus size: 63
9384038 AAAATAGCCG
* * * * *
9384048 AGGTGCATCGATGCATAGCTTGTGCATCGGTGCATAAAATCAATTCGATGTTTTAATAATACAT
1 AGGTGCATCGATGCATAG-TTGTGCATCGGTACACAAAATCAATTCGATGTTTCAATAAAACAA
*
9384112 GGAGTGCATCGATGCATAGTATGTGCATCGGTACACAAAAGTC-ATTCGATG-TTCAATTAAAAC
1 AG-GTGCATCGATGCATAGT-TGTGCATCGGTACACAAAA-TCAATTCGATGTTTCAA-TAAAAC
9384175 AA
62 AA
* *
9384177 AGGTGCATCGATGCATTGATTCATGCATCGGTACAC
1 AGGTGCATCGATGCATAG-TT-GTGCATCGGTACAC
9384213 TTACCTGAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
64 22 0.26
65 62 0.72
66 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (63 bp):
AGGTGCATCGATGCATAGTTGTGCATCGGTACACAAAATCAATTCGATGTTTCAATAAAACAA
Found at i:9385087 original size:77 final size:77
Alignment explanation
Indices: 9384998--9385144 Score: 186
Period size: 77 Copynumber: 1.9 Consensus size: 77
9384988 AAGTAAACAT
** * * *
9384998 TTAAAGAATGTAATTTTGATTACAACTTTTTAATGGATATTTAATTCAAAATAATTAAATAAGAG
1 TTAAAGAATGTAATTCAGATTACAACTCTTTAATGAATATTTAATTCAAAATAATTAAATAAGAA
9385063 TTTAAATAAACG
66 TTTAAATAAACG
* ** * ** *
9385075 TTAAAGAGTGTAATTCAGATTATGAGTCTTTAATGAATATTTAATTTGAATTAATTAAATAAGAA
1 TTAAAGAATGTAATTCAGATTACAACTCTTTAATGAATATTTAATTCAAAATAATTAAATAAGAA
9385140 TTTAA
66 TTTAA
9385145 TTAATTCGAA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
77 58 1.00
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (77 bp):
TTAAAGAATGTAATTCAGATTACAACTCTTTAATGAATATTTAATTCAAAATAATTAAATAAGAA
TTTAAATAAACG
Found at i:9387880 original size:40 final size:40
Alignment explanation
Indices: 9387836--9388046 Score: 123
Period size: 40 Copynumber: 5.1 Consensus size: 40
9387826 TTTTGGGGAA
9387836 AAAAAGCCGCTATAGATTACATCTATTGCGGCGTTTGTAT
1 AAAAAGCCGCTATAGATTACATCTATTGCGGCGTTTGTAT
* * *
9387876 AAAAA-CCTGCTA-A-AGTACAACTATCTTGCGGCGTTTGTTGAAAA
1 AAAAAGCC-GCTATAGATTACATCTA--TTGCGGCGTTTG-T---AT
* * *
9387920 AAAAAACCGCTATAGATTACATCTATTGTGGCGTTTATAT
1 AAAAAGCCGCTATAGATTACATCTATTGCGGCGTTTGTAT
* * *
9387960 AAAACGCCAC--TA-ATGTACAACTATATTGCGGCGTTTGT-T
1 AAAAAGCCGCTATAGAT-TAC-A-TCTATTGCGGCGTTTGTAT
* * * *
9387999 GAAAAAACTCCACTATAGATGTA-ATCTATAGCGGCATTTGTAT
1 --AAAAA-GCCGCTATAGAT-TACATCTATTGCGGCGTTTGTAT
9388042 AAAAA
1 AAAAA
9388047 CTCCGCTAAA
Statistics
Matches: 132, Mismatches: 19, Indels: 39
0.69 0.10 0.21
Matches are distributed among these distances:
37 2 0.02
38 13 0.10
39 5 0.04
40 43 0.33
41 10 0.08
42 18 0.14
43 3 0.02
44 22 0.17
45 8 0.06
46 8 0.06
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (40 bp):
AAAAAGCCGCTATAGATTACATCTATTGCGGCGTTTGTAT
Found at i:9387939 original size:84 final size:83
Alignment explanation
Indices: 9387833--9388059 Score: 289
Period size: 84 Copynumber: 2.7 Consensus size: 83
9387823 TTTTTTTGGG
* *
9387833 GAAAAAAAGCCGCTATAGATTACATCTATTGCGGCGTTTGTATAAAAAC-CTGCTAAAGTACAAC
1 GAAAAAAAACCGCTATAGATTACATCTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACAAC
*
9387897 TATCTTGCGGCGTTTGTT
66 TATATTGCGGCGTTTGTT
* * * *
9387915 GAAAAAAAAAACCGCTATAGATTACATCTATTGTGGCGTTTATAT-AAAACGCCACTAATGTACA
1 G--AAAAAAAACCGCTATAGATTACATCTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACA
9387979 ACTATATTGCGGCGTTTGTT
64 ACTATATTGCGGCGTTTGTT
** * * * *
9387999 GAAAAAACTCCACTATAGATGTA-ATCTATAGCGGCATTTGTATAAAAACTCCGCTAAAGTA
1 GAAAAAAAACCGCTATAGAT-TACATCTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTA
9388060 TTATATATAT
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
82 33 0.27
83 21 0.17
84 69 0.56
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (83 bp):
GAAAAAAAACCGCTATAGATTACATCTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACAAC
TATATTGCGGCGTTTGTT
Found at i:9389234 original size:22 final size:22
Alignment explanation
Indices: 9389206--9389253 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
9389196 ACGTTTTTCA
9389206 AAAGCTATTATTTTCCTATTCG
1 AAAGCTATTATTTTCCTATTCG
* *
9389228 AAAGCTATTATTTTTCTTTTCG
1 AAAGCTATTATTTTCCTATTCG
9389250 AAAG
1 AAAG
9389254 TAGTAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (22 bp):
AAAGCTATTATTTTCCTATTCG
Found at i:9391223 original size:15 final size:15
Alignment explanation
Indices: 9391203--9391233 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9391193 TTAAGGCACT
9391203 TTGATCAGACCGAGG
1 TTGATCAGACCGAGG
*
9391218 TTGATCATACCGAGG
1 TTGATCAGACCGAGG
9391233 T
1 T
9391234 GGAAAATACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (15 bp):
TTGATCAGACCGAGG
Found at i:9397399 original size:229 final size:228
Alignment explanation
Indices: 9396994--9397438 Score: 791
Period size: 229 Copynumber: 1.9 Consensus size: 228
9396984 GTAAATTATC
* * *
9396994 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
9397059 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
9397124 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
*
9397189 AAATATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTTCAAAAAAGTATA
*
9397222 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
9397287 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
9397352 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
9397417 GAAACATAAATTACATAACTTT
195 GAAACATAAATTACATAACTTT
9397439 TAAAGCAGTT
Statistics
Matches: 206, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
228 36 0.17
229 170 0.83
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (228 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTCAAAAAAGTATA
Found at i:9397532 original size:20 final size:19
Alignment explanation
Indices: 9397509--9397554 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
9397499 CGATATACCA
9397509 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
9397529 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
9397549 GGTAAA
1 GGTAAA
9397555 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:9399384 original size:17 final size:17
Alignment explanation
Indices: 9399362--9399400 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
9399352 AGACTGGGAT
9399362 CGATCGCGAGTATTAAA
1 CGATCGCGAGTATTAAA
9399379 CGATCGCGAGTATTAAA
1 CGATCGCGAGTATTAAA
9399396 CGATC
1 CGATC
9399401 TCGTAAGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (17 bp):
CGATCGCGAGTATTAAA
Found at i:9399522 original size:19 final size:19
Alignment explanation
Indices: 9399498--9399546 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
9399488 AATGTAGGGT
9399498 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
9399517 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
9399536 TATTTTTGTAT
1 TAATTTTGTAT
9399547 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:9400003 original size:198 final size:199
Alignment explanation
Indices: 9399665--9400491 Score: 1586
Period size: 199 Copynumber: 4.2 Consensus size: 199
9399655 CAATATGGCC
9399665 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
9399730 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGGTTTATGAGAG
9399795 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
9399859 GGAA
196 GGAA
9399863 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
9399928 CAAAAGTATAATGTAATATGTAATTTTTCAATATAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGGTTTATGAGAG
9399993 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
9400058 GGAA
196 GGAA
9400062 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
9400127 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGGTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGGTTTATGAGAG
*
9400192 AATATGTCTAAATATTGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
9400257 GGAA
196 GGAA
9400261 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
9400326 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATATCGGGTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGGTTTATGAGAG
*
9400391 AATATGTCTAAATATTGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
9400455 GGAA
196 GGAA
9400459 AACAGGGTGCACCCATAAAGTGTCGATCCATAT
1 AACAGGGTGCACCCATAAAGTGTCGATCCATAT
9400492 TTAGGTATGT
Statistics
Matches: 623, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
198 230 0.37
199 393 0.63
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGGTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:9400443 original size:397 final size:397
Alignment explanation
Indices: 9399665--9400491 Score: 1584
Period size: 397 Copynumber: 2.1 Consensus size: 397
9399655 CAATATGGCC
9399665 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
9399730 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGGTTTATGAGAG
9399795 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
9399860 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
*
9399925 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATATAACCGGTACAATTATACCGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATATAACCGGTACAATTATACCGGGTTTATGA
9399990 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
9400055 AATGGAA
391 AATGGAA
9400062 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
9400127 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGGTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGGTTTATGAGAG
*
9400192 AATATGTCTAAATATTGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
9400257 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
195 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
* *
9400322 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATATCGGGTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATATAACCGGTACAATTATACCGGGTTTATG
*
9400387 AGAGAATATGTCTAAATATTGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAAT
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
9400451 GAATGGAA
390 GAATGGAA
9400459 AACAGGGTGCACCCATAAAGTGTCGATCCATAT
1 AACAGGGTGCACCCATAAAGTGTCGATCCATAT
9400492 TTAGGTATGT
Statistics
Matches: 423, Mismatches: 6, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
397 229 0.54
398 194 0.46
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (397 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGGTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
ACCCAAAAGTATAATGTAATATGTAATTTTTCAATATAACCGGTACAATTATACCGGGTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
AATGGAA
Found at i:9400695 original size:25 final size:25
Alignment explanation
Indices: 9400660--9400724 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
9400650 TTATCATTAA
9400660 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
* ****
9400685 ATTTAGTTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
9400710 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
9400725 TCTTTTGAGT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.43
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:9401100 original size:23 final size:23
Alignment explanation
Indices: 9401069--9401132 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
9401059 ATAGGTAAAC
*
9401069 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
9401092 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
9401115 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
9401133 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:9401139 original size:23 final size:23
Alignment explanation
Indices: 9401069--9401141 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
9401059 ATAGGTAAAC
* **
9401069 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
9401092 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
9401115 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
9401138 ATAT
1 ATAT
9401142 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:9411762 original size:66 final size:66
Alignment explanation
Indices: 9411648--9411771 Score: 194
Period size: 66 Copynumber: 1.9 Consensus size: 66
9411638 AGACTCAGGA
* * **
9411648 AGGTTCAGTCGTTGCTGCTAATTCCTTGTATAGGTTCTGCACCAACTGGTAATTCCTATGTCTGG
1 AGGTTCAGTCGCTGCTGATAATTCCTTGTATAGGTTCAACACCAACTGGTAATTCCTATGTCTGG
9411713 C
66 C
* *
9411714 AGGTTCAGTCGCTGCTGATAATTCCTTTTATAGGTTCAACACCGACTGGTAATTCCTA
1 AGGTTCAGTCGCTGCTGATAATTCCTTGTATAGGTTCAACACCAACTGGTAATTCCTA
9411772 ATGGACCGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (66 bp):
AGGTTCAGTCGCTGCTGATAATTCCTTGTATAGGTTCAACACCAACTGGTAATTCCTATGTCTGG
C
Found at i:9420279 original size:17 final size:17
Alignment explanation
Indices: 9420259--9420291 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9420249 ATTTAAAATG
9420259 TTATACTTTTAAAAAAA
1 TTATACTTTTAAAAAAA
*
9420276 TTATAGTTTTAAAAAA
1 TTATACTTTTAAAAAA
9420292 TAAATCATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (17 bp):
TTATACTTTTAAAAAAA
Found at i:9420711 original size:32 final size:29
Alignment explanation
Indices: 9420654--9420719 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 29
9420644 TTTAGTATTT
**
9420654 GGGTCAGATTTTTTTAAAATTTCGGGATC
1 GGGTCAGATTTTTTTAAAAAATCGGGATC
*
9420683 GGGTCAGATTTTTTTTAAACAAAATCGGGTTC
1 GGGTCAGA-TTTTTTT-AA-AAAATCGGGATC
9420715 GGGTC
1 GGGTC
9420720 GGGTCGGAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 8 0.26
30 7 0.23
31 2 0.06
32 14 0.45
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (29 bp):
GGGTCAGATTTTTTTAAAAAATCGGGATC
Found at i:9420754 original size:33 final size:32
Alignment explanation
Indices: 9420712--9420931 Score: 130
Period size: 33 Copynumber: 6.6 Consensus size: 32
9420702 CAAAATCGGG
*
9420712 TTCGGGTCGGGTCGGAGTTTTTTAAGTTTGATA
1 TTCGGGTCGGGTCGG-GTTTTTTAAGTGTGATA
** *
9420745 TTCGGGTCGGGTCATGTTTTTTAAGGGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
* * * *
9420777 TTTGGGTCGGGTTCGGTTCGGGTCAGGGTTTTT---TTTAAAA
1 --T---TCGGG-TCGGGTCGGGT-----TTTTTAAGTGTGATA
9420817 TTCGGGATCGGGTCGGGGTTTTTTAAGTGTGATA
1 TTCGGG-TCGGGTC-GGGTTTTTTAAGTGTGATA
*
9420851 TTCGGGACGGGT----TTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
* * * *
9420879 TTCGAGTCGAGTTGGGTTTTTTTAAGTTTGATA
1 TTCGGGTCGGGTCGGG-TTTTTTAAGTGTGATA
9420912 TTCGGGTCGGGTTCGGGTTT
1 TTCGGGTCGGG-TCGGGTTT
9420932 AGAGTGAAAA
Statistics
Matches: 142, Mismatches: 24, Indels: 42
0.68 0.12 0.20
Matches are distributed among these distances:
28 25 0.18
31 5 0.04
32 15 0.11
33 45 0.32
34 15 0.11
35 11 0.08
36 4 0.03
37 5 0.04
38 9 0.06
40 3 0.02
43 5 0.04
ACGTcount: A:0.14, C:0.09, G:0.35, T:0.42
Consensus pattern (32 bp):
TTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
Found at i:9420769 original size:32 final size:32
Alignment explanation
Indices: 9420712--9420788 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
9420702 CAAAATCGGG
**
9420712 TTCGGGTCGGGTCGGAGTTTTTTAAGTTTGATA
1 TTCGGGTCGGGTC-GAGTTTTTTAAGGGTGATA
9420745 TTCGGGTCGGGTC-ATGTTTTTTAAGGGTGATA
1 TTCGGGTCGGGTCGA-GTTTTTTAAGGGTGATA
*
9420777 TTTGGGTCGGGT
1 TTCGGGTCGGGT
9420789 TCGGTTCGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
31 1 0.03
32 26 0.65
33 13 0.32
ACGTcount: A:0.13, C:0.09, G:0.36, T:0.42
Consensus pattern (32 bp):
TTCGGGTCGGGTCGAGTTTTTTAAGGGTGATA
Found at i:9420924 original size:28 final size:28
Alignment explanation
Indices: 9420824--9420924 Score: 121
Period size: 28 Copynumber: 3.4 Consensus size: 28
9420814 AAATTCGGGA
*
9420824 TCGGGTCGGGGTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATAT
*
9420852 TCGGGACGGGTTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATAT
* *
9420880 TCGAGTCGAGTTGGGTTTTTTTAAGTTTGATAT
1 TC--G--G-GTCGGGTTTTTTTAAGTGTGATAT
9420913 TCGGGTCGGGTT
1 TCGGGTCGGGTT
9420925 CGGGTTTAGA
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
28 35 0.56
29 1 0.02
30 1 0.02
31 1 0.02
32 1 0.02
33 23 0.37
ACGTcount: A:0.15, C:0.08, G:0.34, T:0.44
Consensus pattern (28 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATAT
Found at i:9421496 original size:18 final size:18
Alignment explanation
Indices: 9421473--9421513 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
9421463 ATTCATATTT
9421473 CAATTCCTTAACAGATTC
1 CAATTCCTTAACAGATTC
*
9421491 CAATTCCTTCACAGATTC
1 CAATTCCTTAACAGATTC
*
9421509 TAATT
1 CAATT
9421514 TCATCATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (18 bp):
CAATTCCTTAACAGATTC
Found at i:9431124 original size:14 final size:14
Alignment explanation
Indices: 9431105--9431132 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9431095 GTTTTGTCGA
9431105 GGCAAGAAAAATAT
1 GGCAAGAAAAATAT
9431119 GGCAAGAAAAATAT
1 GGCAAGAAAAATAT
9431133 TCAAAGGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GGCAAGAAAAATAT
Found at i:9431650 original size:53 final size:52
Alignment explanation
Indices: 9431573--9431752 Score: 220
Period size: 53 Copynumber: 3.4 Consensus size: 52
9431563 GAAAAACGAC
* *
9431573 AATCTCTCGAAAGCTTTTACAAAGACTATGAATGTTTTGCCGAGGCACCA-GA
1 AATCTCTCAAAAGCTCTTACAAAGACTA-GAATGTTTTGCCGAGGCACCAGGA
* * **
9431625 CAATCTCTCGAAAGCTCTTACAAAGATTAGGAATGTTTTGCCGAGGCAAAAGGA
1 -AATCTCTCAAAAGCTCTTACAAAGACTA-GAATGTTTTGCCGAGGCACCAGGA
**
9431679 AATCTCTCAAAAGCTCTTACAAATG-CTAGAAATGTTTTGCCGAATCACCAGGA
1 AATCTCTCAAAAGCTCTTACAAA-GACTAG-AATGTTTTGCCGAGGCACCAGGA
*
9431732 AATCTCTTAAAAGCTCTTACA
1 AATCTCTCAAAAGCTCTTACA
9431753 GTGTCAAGGC
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
52 1 0.01
53 108 0.96
54 3 0.03
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (52 bp):
AATCTCTCAAAAGCTCTTACAAAGACTAGAATGTTTTGCCGAGGCACCAGGA
Found at i:9437068 original size:53 final size:53
Alignment explanation
Indices: 9436954--9437079 Score: 146
Period size: 53 Copynumber: 2.4 Consensus size: 53
9436944 GAAAAATGAC
* * *
9436954 AATCTCTCGAAAGCTCTTACAAATACAAGGAATGTTTTACCGAGGTACCATGT
1 AATCTCTCAAAAGCTCTTACAAAGACAAGGAATGTTTTACCGAGGCACCATGT
* * * * *
9437007 AATATCTCAAAATCTCTTACAAAGACTAGGAATGTTTTGCTGAGGCACCA-GT
1 AATCTCTCAAAAGCTCTTACAAAGACAAGGAATGTTTTACCGAGGCACCATGT
*
9437059 CAGTCTCTCAAAAAGCTCTTA
1 -AATCTCTC-AAAAGCTCTTA
9437080 TAGTGTCAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
52 2 0.03
53 48 0.80
54 10 0.17
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (53 bp):
AATCTCTCAAAAGCTCTTACAAAGACAAGGAATGTTTTACCGAGGCACCATGT
Found at i:9442700 original size:32 final size:32
Alignment explanation
Indices: 9442659--9442724 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
9442649 GCCTGTATGA
* *
9442659 AAGACTAACTATGGTATGCATTATCTGAATGC
1 AAGAATAACTATAGTATGCATTATCTGAATGC
*
9442691 AAGAATAACTCTAGTATGCATTATCTGAATGC
1 AAGAATAACTATAGTATGCATTATCTGAATGC
9442723 AA
1 AA
9442725 TACTGGTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (32 bp):
AAGAATAACTATAGTATGCATTATCTGAATGC
Found at i:9447682 original size:19 final size:19
Alignment explanation
Indices: 9447658--9447720 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 19
9447648 TTGCTGAAAG
9447658 TATCGATACTCTTGAAAAA
1 TATCGATACTCTTGAAAAA
9447677 TATCGATACTC-TGAGGTAAAA
1 TATCGATACTCTTGA---AAAA
*
9447698 TATTGATACTCTT-AAAAA
1 TATCGATACTCTTGAAAAA
9447716 GTATC
1 -TATC
9447721 AATTATTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 7 0.19
19 14 0.38
21 15 0.41
22 1 0.03
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (19 bp):
TATCGATACTCTTGAAAAA
Found at i:9448709 original size:29 final size:28
Alignment explanation
Indices: 9448556--9448709 Score: 71
Period size: 29 Copynumber: 5.2 Consensus size: 28
9448546 TTTTTAAAAG
*
9448556 GGTGCCTAATACGTAATTAATTTATGTTAA
1 GGTG-CTAATACGTAAATAATTT-TGTTAA
* * ** ***
9448586 GGTGTTATTTTTGTAAAT-ATTTTAAAAA
1 GGTGCTA-ATACGTAAATAATTTTGTTAA
*
9448614 GGGTGACTAATACGTAATTAATTTATGTTAA
1 -GGTG-CTAATACGTAAATAATTT-TGTTAA
* ** **
9448645 GGTGCTATTTTTGTAAAT-ATTTT-AAAA
1 GGTGCTA-ATACGTAAATAATTTTGTTAA
9448672 GTGTGGCTAATACGTAAATAATTTCTGTTAA
1 G-GT-GCTAATACGTAAATAATTT-TGTTAA
9448703 GGTGCTA
1 GGTGCTA
9448710 TTTGCGTAAA
Statistics
Matches: 86, Mismatches: 27, Indels: 23
0.63 0.20 0.17
Matches are distributed among these distances:
27 3 0.03
28 13 0.15
29 35 0.41
30 29 0.34
31 6 0.07
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.42
Consensus pattern (28 bp):
GGTGCTAATACGTAAATAATTTTGTTAA
Found at i:9448719 original size:58 final size:58
Alignment explanation
Indices: 9448547--9448712 Score: 269
Period size: 59 Copynumber: 2.8 Consensus size: 58
9448537 TTGTTGATAT
* *
9448547 TTTTAAAAGGGTGCCTAATACGTAATTAATTTATGTTAAGGTGTTATTTTTGTAAATA
1 TTTTAAAAGGGTGACTAATACGTAATTAATTTATGTTAAGGTGCTATTTTTGTAAATA
9448605 TTTTAAAAAGGGTGACTAATACGTAATTAATTTATGTTAAGGTGCTATTTTTGTAAATA
1 TTTT-AAAAGGGTGACTAATACGTAATTAATTTATGTTAAGGTGCTATTTTTGTAAATA
* * * *
9448664 TTTTAAAAGTGTGGCTAATACGTAAATAATTTCTGTTAAGGTGCTATTT
1 TTTTAAAAGGGTGACTAATACGTAATTAATTTATGTTAAGGTGCTATTT
9448713 GCGTAAAAGT
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
58 45 0.45
59 56 0.55
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.43
Consensus pattern (58 bp):
TTTTAAAAGGGTGACTAATACGTAATTAATTTATGTTAAGGTGCTATTTTTGTAAATA
Found at i:9451564 original size:23 final size:23
Alignment explanation
Indices: 9451534--9451583 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
9451524 TTCCACTCTA
9451534 AAATTGAGTTGTGAGTTCTGTGG
1 AAATTGAGTTGTGAGTTCTGTGG
9451557 AAATTGAGTTGTGAGTTCTGTGG
1 AAATTGAGTTGTGAGTTCTGTGG
9451580 AAAT
1 AAAT
9451584 CAACACGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.32, T:0.38
Consensus pattern (23 bp):
AAATTGAGTTGTGAGTTCTGTGG
Found at i:9452190 original size:21 final size:21
Alignment explanation
Indices: 9452166--9452210 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
9452156 AATATATCTT
9452166 ATGGGCACTA-AGAATAAAATA
1 ATGGGCACTATA-AATAAAATA
*
9452187 ATGGGCACTATAAATATAATA
1 ATGGGCACTATAAATAAAATA
9452208 ATG
1 ATG
9452211 TAGTGGCAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.49, C:0.09, G:0.18, T:0.24
Consensus pattern (21 bp):
ATGGGCACTATAAATAAAATA
Found at i:9452848 original size:59 final size:59
Alignment explanation
Indices: 9452760--9452926 Score: 237
Period size: 59 Copynumber: 2.8 Consensus size: 59
9452750 TTGTTGATAT
* *
9452760 TTTTAAAAA-GGTGTTTAATACGTAATTAATTTATGTTAAGATGATATTTTTGTAAATA
1 TTTTAAAAAGGGTGTCTAATACGTAATTAATTTATGTTAAGGTGATATTTTTGTAAATA
* * *
9452818 TTTTAAAAAGGGTGCCTAATACGTAATTAATTTATGTTAAGGTGTTACTTTTGTAAATA
1 TTTTAAAAAGGGTGTCTAATACGTAATTAATTTATGTTAAGGTGATATTTTTGTAAATA
* * * * *
9452877 TTTTTAAAAGTGTGTCTAATACGTAAATAATTTCTGTTAAGGTGCTATTT
1 TTTTAAAAAGGGTGTCTAATACGTAATTAATTTATGTTAAGGTGATATTT
9452927 GCGTAAAAGT
Statistics
Matches: 96, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
58 9 0.09
59 87 0.91
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (59 bp):
TTTTAAAAAGGGTGTCTAATACGTAATTAATTTATGTTAAGGTGATATTTTTGTAAATA
Found at i:9456281 original size:99 final size:98
Alignment explanation
Indices: 9456096--9456297 Score: 239
Period size: 99 Copynumber: 2.0 Consensus size: 98
9456086 TTATAATATT
* * * * *
9456096 ATATATATACAATAAAGCTTGAACTGTCCCTCTAGAGCAGTTGGTTAAACGCCCCAGTTTTATGG
1 ATATATATACAATAAAGCCTGAACTGTCCCTCTAAAGCAATTGGTTAAACG-CCCAGCTTTATAG
*
9456161 ATAAAATTCAGGTAGCTTGATAAAGGTGATCATA
65 ATAAAATTCAGCTAGCTTGATAAAGGTGATCATA
* * *
9456195 ATATCTATACAATAAAGCCTGAGA-TGTCCCTCTAAAGGAATTGGTTAAATG-CCATGACTTTAT
1 ATATATATACAATAAAGCCTGA-ACTGTCCCTCTAAAGCAATTGGTTAAACGCCCA-G-CTTTAT
* *
9456258 AGATAAGATTCAGCTAG-TCTGATAAAGGTGATTATA
63 AGATAAAATTCAGCTAGCT-TGATAAAGGTGATCATA
9456294 ATAT
1 ATAT
9456298 TGAGTTGCCC
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
97 3 0.03
98 2 0.02
99 82 0.93
100 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (98 bp):
ATATATATACAATAAAGCCTGAACTGTCCCTCTAAAGCAATTGGTTAAACGCCCAGCTTTATAGA
TAAAATTCAGCTAGCTTGATAAAGGTGATCATA
Found at i:9457772 original size:57 final size:56
Alignment explanation
Indices: 9457643--9457855 Score: 205
Period size: 61 Copynumber: 3.6 Consensus size: 56
9457633 AACAACTTTT
* ** * *
9457643 TTTCAACTTCACGACGAAGGATATTGAACTCGAAGCGACACAACT-TACAAAAGATTAGA
1 TTTCAACTTCACAACGAAGGATATCCAACTCAAAGCGA-ACAA-TATAC--AAGATTGGA
*
9457702 TTTCAACTTCACAACGAAGGATATCCAACTCAAAGTCGAACAATATTCAAGATTGGA
1 TTTCAACTTCACAACGAAGGATATCCAACTCAAAG-CGAACAATATACAAGATTGGA
* * * *
9457759 TTTCAACTTCACAACAAAGGATATCCAACTCAAAGCTAATTTGGTGAA-ACACAAGATTGGA
1 TTTCAACTTCACAACGAAGGATATCCAACTCAAAGCGAA------CAATATACAAGATTGGA
* *
9457820 TTTCAACTTCACAATGAAGGATATCCAATTCAAAGC
1 TTTCAACTTCACAACGAAGGATATCCAACTCAAAGC
9457856 TAAACTTCAC
Statistics
Matches: 132, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
56 3 0.02
57 42 0.32
58 1 0.01
59 37 0.28
60 3 0.02
61 44 0.33
62 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (56 bp):
TTTCAACTTCACAACGAAGGATATCCAACTCAAAGCGAACAATATACAAGATTGGA
Found at i:9458283 original size:85 final size:85
Alignment explanation
Indices: 9458140--9458503 Score: 466
Period size: 85 Copynumber: 4.3 Consensus size: 85
9458130 TCCCAGCCTA
* * * * *
9458140 TTACAACATAGCTCAAGGTGAGAAGGGCTATATGTCAACAAATACCTTCGAGTTCGATTACATTC
1 TTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTC
*
9458205 AGCTCAAAGGCACATCAAAT
66 AGCTCAAAGGCATATCAAAT
* * * *
9458225 TTACAGTATAACTCAAGGCGAGAAGGGCCAGCTGTCAATAAAGACCTTCGAGTTCGATTACATTC
1 TTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTC
9458290 AGCTCAAAGGCATATCAAAT
66 AGCTCAAAGGCATATCAAAT
* * *
9458310 TTACAGCATAGCTCAAGGCGAGAAGGGCTATCTTTCAACAAAGACCTTTGAGTTCGATTACATTC
1 TTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTC
*
9458375 AGCTCAGAGGCATATCAAAT
66 AGCTCAAAGGCATATCAAAT
* * * * *
9458395 TTACTGCATAACTCAAGG-TAGAAGGGTTATCCGTTGAA-AAAGACCTTCGAGTTCGATTACATT
1 TTACAGCATAACTCAAGGCGAGAAGGGCTATCTG-TCAACAAAGACCTTCGAGTTCGATTACATT
*
9458458 CAACTC-AAGGACATATCAAAAT
65 CAGCTCAAAGG-CATATC-AAAT
* * *
9458480 TT-CAGTATAACTCAAAGCAAGAAG
1 TTACAGCATAACTCAAGGCGAGAAG
9458504 AATTATCAGT
Statistics
Matches: 243, Mismatches: 32, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
83 3 0.01
84 58 0.24
85 182 0.75
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (85 bp):
TTACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTC
AGCTCAAAGGCATATCAAAT
Found at i:9459185 original size:18 final size:17
Alignment explanation
Indices: 9459142--9459177 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
9459132 TAGTATATAG
*
9459142 TATATATATATGTATTA
1 TATATATATATGTACTA
9459159 TATAATATATATGTACTA
1 TAT-ATATATATGTACTA
9459177 T
1 T
9459178 GCTATATACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (17 bp):
TATATATATATGTACTA
Found at i:9460357 original size:2 final size:2
Alignment explanation
Indices: 9460350--9460375 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9460340 GTATATGTAC
9460350 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9460376 TTTATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9460567 original size:9 final size:9
Alignment explanation
Indices: 9460525--9460727 Score: 77
Period size: 9 Copynumber: 22.2 Consensus size: 9
9460515 CTATTATTTC
9460525 TTATTTTAT
1 TTATTTTAT
9460534 TTATTATT-T
1 TTATT-TTAT
**
9460543 TTATTTCCT
1 TTATTTTAT
9460552 TTATATTTAT
1 TTAT-TTTAT
*
9460562 TT-TATTTCT
1 TTAT-TTTAT
9460571 TTATATTTA-
1 TTAT-TTTAT
*
9460580 TTATATTAT
1 TTATTTTAT
9460589 TGT-TTTTAT
1 T-TATTTTAT
*
9460598 TTATTATAT
1 TTATTTTAT
9460607 GTATATTATTA-
1 -T-TATT-TTAT
*
9460618 TTATTTTCT
1 TTATTTTAT
*
9460627 TTATTTTCT
1 TTATTTTAT
*
9460636 TAATTTTTAT
1 TTA-TTTTAT
9460646 TTA-TTTATT
1 TTATTTTA-T
** *
9460655 TTACGTTCT
1 TTATTTTAT
9460664 TTATCTTT-T
1 TTAT-TTTAT
9460673 TTA-TTTACT
1 TTATTTTA-T
9460682 TT-TTTTAT
1 TTATTTTAT
*
9460690 AT-TTTTAT
1 TTATTTTAT
9460698 TT-TCTTTAT
1 TTAT-TTTAT
*
9460707 CTCATTTTAT
1 -TTATTTTAT
*
9460717 TTATTTCAT
1 TTATTTTAT
9460726 TT
1 TT
9460728 GTTTCTTTTT
Statistics
Matches: 151, Mismatches: 22, Indels: 42
0.70 0.10 0.20
Matches are distributed among these distances:
7 3 0.02
8 21 0.14
9 88 0.58
10 32 0.21
11 5 0.03
12 2 0.01
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.71
Consensus pattern (9 bp):
TTATTTTAT
Found at i:9460574 original size:19 final size:20
Alignment explanation
Indices: 9460541--9460586 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
9460531 TATTTATTAT
9460541 TTTTATTTCCTTTATATTTA
1 TTTTATTTCCTTTATATTTA
9460561 TTTTATTT-CTTTATATTTA
1 TTTTATTTCCTTTATATTTA
*
9460580 TTATATT
1 TTTTATT
9460587 ATTGTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTATTTCCTTTATATTTA
Found at i:9460600 original size:27 final size:26
Alignment explanation
Indices: 9460493--9460654 Score: 83
Period size: 27 Copynumber: 6.2 Consensus size: 26
9460483 TTTATTATTA
9460493 TTATTATA-TATAATTATTTTTACTATTAT
1 TTATTATATTAT-ATTA-TTTTA-T-TTAT
* *
9460522 TTCTTATTTTAT-TTATTATT-TTTAT
1 TTATTATATTATATTATT-TTATTTAT
* *
9460547 TTCCTT-TA-TAT-TTATTTTATTTCT
1 TT-ATTATATTATATTATTTTATTTAT
*
9460571 TTATATTTATTATATTATTGTT-TTTAT
1 TTAT-TATATTATATTATT-TTATTTAT
*
9460598 TTATTATATGTATATTATTATTATTTTCT
1 TTATTATAT-TATATTATT-TTA-TTTAT
* *
9460627 TTATTTTCTTA-A-T-TTTTATTTAT
1 TTATTATATTATATTATTTTATTTAT
9460650 TTATT
1 TTATT
9460655 TTACGTTCTT
Statistics
Matches: 109, Mismatches: 12, Indels: 30
0.72 0.08 0.20
Matches are distributed among these distances:
23 12 0.11
24 18 0.17
25 11 0.10
26 12 0.11
27 27 0.25
28 9 0.08
29 17 0.16
30 3 0.03
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (26 bp):
TTATTATATTATATTATTTTATTTAT
Found at i:9460605 original size:30 final size:33
Alignment explanation
Indices: 9460555--9460632 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 33
9460545 ATTTCCTTTA
*
9460555 TATTTATTTTATTTCTTTATAT-T-TATTA-TAT
1 TATTT-TTTTATTTCATTATATGTATATTATTAT
9460586 TATTGTTTTTATTT-ATTATATGTATATTATTAT
1 TATT-TTTTTATTTCATTATATGTATATTATTAT
9460619 TATTTTCTTTATTT
1 TATTTT-TTTATTT
9460633 TCTTAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
30 6 0.15
31 13 0.32
32 8 0.20
33 14 0.34
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (33 bp):
TATTTTTTTATTTCATTATATGTATATTATTAT
Found at i:9460618 original size:21 final size:21
Alignment explanation
Indices: 9460485--9460619 Score: 74
Period size: 19 Copynumber: 6.8 Consensus size: 21
9460475 GGTTCTGTTT
* *
9460485 TATTATTATTATTATATATAA
1 TATTATTATTATTATTTATTA
* * *
9460506 TTATTTTTACTATTATTTCTTA
1 -TATTATTATTATTATTTATTA
*
9460528 TTTTA-T-TTATTATTT-TTA
1 TATTATTATTATTATTTATTA
** *
9460546 T-TTCCT-TTA-TATTTATTT
1 TATTATTATTATTATTTATTA
9460564 TATT-TCT-TTA-TATTTATTA
1 TATTAT-TATTATTATTTATTA
* *
9460583 TATTATTGTTTTTATTTATTA
1 TATTATTATTATTATTTATTA
9460604 TATGTA-TATTATTATT
1 TAT-TATTATTATTATT
9460620 ATTTTCTTTA
Statistics
Matches: 90, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
17 7 0.08
18 11 0.12
19 27 0.30
20 4 0.04
21 23 0.26
22 18 0.20
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (21 bp):
TATTATTATTATTATTTATTA
Found at i:9460622 original size:93 final size:93
Alignment explanation
Indices: 9460516--9460689 Score: 205
Period size: 93 Copynumber: 1.9 Consensus size: 93
9460506 TTATTTTTAC
* * *
9460516 TATTATTTCTTATTTTATTTATTATT-TTTATTTCCTT-TATATTTATTTTA-TTTCTTTATATT
1 TATTATTTATTATTTTATTTATT-TTCTTAATTT--TTATATATTTATTTTACGTTCTTTATATT
9460578 TATTATATTA-TTGTTTTTATTTATTATATGTA
63 TATTAT-TTACTT-TTTTTATTTATTATATGTA
* * * *
9460610 TATTA-TTATTATTTTCTTTATTTTCTTAATTTTTATTTATTTATTTTACGTTCTTTATCTTTTT
1 TATTATTTATTATTTTATTTATTTTCTTAATTTTTATATATTTATTTTACGTTCTTTATATTTAT
9460674 TATTTACTTTTTTTAT
66 TATTTACTTTTTTTAT
9460690 ATTTTTATTT
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
91 2 0.03
92 24 0.35
93 38 0.55
94 5 0.07
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (93 bp):
TATTATTTATTATTTTATTTATTTTCTTAATTTTTATATATTTATTTTACGTTCTTTATATTTAT
TATTTACTTTTTTTATTTATTATATGTA
Found at i:9469616 original size:18 final size:18
Alignment explanation
Indices: 9469595--9469631 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
9469585 CAGATATTTC
9469595 CCAATTTAAAAATATTAT
1 CCAATTTAAAAATATTAT
9469613 CCAATTTAAAAATATTAT
1 CCAATTTAAAAATATTAT
9469631 C
1 C
9469632 GAAAAGAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.38
Consensus pattern (18 bp):
CCAATTTAAAAATATTAT
Found at i:9472213 original size:13 final size:13
Alignment explanation
Indices: 9472195--9472237 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
9472185 TAGCATTTAA
9472195 AAAAATAAAACTT
1 AAAAATAAAACTT
9472208 AAAAATAAAA--T
1 AAAAATAAAACTT
9472219 AAAAATGAAAACTT
1 AAAAAT-AAAACTT
9472233 GAAAA
1 -AAAA
9472238 GAGAAGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 7 0.27
12 4 0.15
13 10 0.38
14 1 0.04
15 4 0.15
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.19
Consensus pattern (13 bp):
AAAAATAAAACTT
Found at i:9472247 original size:25 final size:24
Alignment explanation
Indices: 9472195--9472251 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
9472185 TAGCATTTAA
* *
9472195 AAAAATAAAACTTAAAAATAAAAT
1 AAAAATAAAACTTAAAAAGAAAAG
* *
9472219 AAAAATGAAAACTTGAAAAGAGAAG
1 AAAAAT-AAAACTTAAAAAGAAAAG
9472244 -AAAATAAA
1 AAAAATAAA
9472252 GAACTTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 3 0.11
24 11 0.39
25 14 0.50
ACGTcount: A:0.72, C:0.04, G:0.09, T:0.16
Consensus pattern (24 bp):
AAAAATAAAACTTAAAAAGAAAAG
Found at i:9500394 original size:6 final size:6
Alignment explanation
Indices: 9500383--9500408 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9500373 TATGGTTCTG
9500383 AATTAA AATTAA AATTAA AATTAA AA
1 AATTAA AATTAA AATTAA AATTAA AA
9500409 CCTTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATTAA
Found at i:9503139 original size:22 final size:22
Alignment explanation
Indices: 9503111--9503172 Score: 115
Period size: 22 Copynumber: 2.8 Consensus size: 22
9503101 AGTGAGGATT
9503111 TTGGTGGAAGATTTTTATGTTA
1 TTGGTGGAAGATTTTTATGTTA
9503133 TTGGTGGAAGATTTTTATGTTA
1 TTGGTGGAAGATTTTTATGTTA
*
9503155 TTGGTGGAATATTTTTAT
1 TTGGTGGAAGATTTTTAT
9503173 ATGGTTATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.52
Consensus pattern (22 bp):
TTGGTGGAAGATTTTTATGTTA
Found at i:9503941 original size:21 final size:20
Alignment explanation
Indices: 9503911--9503949 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
9503901 TTGAGTATGA
*
9503911 TACTTCAATGTTGGAAATTAT
1 TACTTCAATGCT-GAAATTAT
*
9503932 TACTTGAATGCTGAAATT
1 TACTTCAATGCTGAAATT
9503950 TAAGTTTAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (20 bp):
TACTTCAATGCTGAAATTAT
Done.