Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008448.1 Hibiscus syriacus cultivar Beakdansim tig00111253_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: 805563
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:520335 original size:49 final size:49
Alignment explanation
Indices: 520282--520569 Score: 399
Period size: 49 Copynumber: 6.0 Consensus size: 49
520272 GAATAACATG
* * *
520282 AGTGGCACCTTTTATGCCGAAATACACCGTTATGTATTTAACTTTCATT
1 AGTGGCACCTTTTATGCTGAAATGCACCGTTATGCATTTAACTTTCATT
* * *
520331 AGTGGCACCTTTTATGCTGAAATACACCGTGATGCATTTAACTTCCATT
1 AGTGGCACCTTTTATGCTGAAATGCACCGTTATGCATTTAACTTTCATT
* * * *
520380 TGTGGCACCTTTTATGCCGAAACGCACCGTTATGCATTTATCTTTCATT
1 AGTGGCACCTTTTATGCTGAAATGCACCGTTATGCATTTAACTTTCATT
* *
520429 AGTGGTACCTTTTATGCTGAAATGCACCG-T-T--A--TAATTTTCATT
1 AGTGGCACCTTTTATGCTGAAATGCACCGTTATGCATTTAACTTTCATT
*
520472 AGTGACACCTTTTATGCTGAAATGCACCGTTATGCATTTAACTTTCATT
1 AGTGGCACCTTTTATGCTGAAATGCACCGTTATGCATTTAACTTTCATT
* *
520521 TGTGGCACCTTTTATGCTGAAATGCACCGTTATGCATTTTACTTTCATT
1 AGTGGCACCTTTTATGCTGAAATGCACCGTTATGCATTTAACTTTCATT
520570 TTAGAGCATT
Statistics
Matches: 210, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
43 36 0.17
44 1 0.00
45 2 0.01
47 2 0.01
48 1 0.00
49 168 0.80
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (49 bp):
AGTGGCACCTTTTATGCTGAAATGCACCGTTATGCATTTAACTTTCATT
Found at i:520519 original size:92 final size:92
Alignment explanation
Indices: 520282--520553 Score: 382
Period size: 92 Copynumber: 2.9 Consensus size: 92
520272 GAATAACATG
* *
520282 AGTGGCACCTTTTATGCCGAAATACACCGTTATGTATTTAACTTTCATTAGTGGCACCTTTTATG
1 AGTGGCACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATG
*
520347 CTGAAATACACCGTGATGCATTTAACTTCCATT
66 CTGAAATGCACCGT--T--A--TAACTTCCATT
* * * *
520380 TGTGGCACCTTTTATGCCGAAACGCACCGTTATGCATTTATCTTTCATTAGTGGTACCTTTTATG
1 AGTGGCACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATG
* *
520445 CTGAAATGCACCGTTATAATTTTCATT
66 CTGAAATGCACCGTTATAACTTCCATT
* * *
520472 AGTGACACCTTTTATGCTGAAATGCACCGTTATGCATTTAACTTTCATTTGTGGCACCTTTTATG
1 AGTGGCACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATG
520537 CTGAAATGCACCGTTAT
66 CTGAAATGCACCGTTAT
520554 GCATTTTACT
Statistics
Matches: 158, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
92 84 0.53
94 1 0.01
96 1 0.01
98 72 0.46
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (92 bp):
AGTGGCACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATTAGTGGCACCTTTTATG
CTGAAATGCACCGTTATAACTTCCATT
Found at i:521019 original size:18 final size:19
Alignment explanation
Indices: 520981--521019 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
520971 TTCTATACTA
*
520981 TGGTAGCGATACTCCTTTT
1 TGGTAGCGATACTCATTTT
*
521000 TGGTATCGATAC-CATTTT
1 TGGTAGCGATACTCATTTT
521018 TG
1 TG
521020 CATTCTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.44
Consensus pattern (19 bp):
TGGTAGCGATACTCATTTT
Found at i:528374 original size:22 final size:21
Alignment explanation
Indices: 528336--528379 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
528326 AGGTAATCCC
*
528336 TCTTCTTTCTTTCTTTTTCATT
1 TCTTCTTTATTTCTTTTT-ATT
528358 TCTTCTTTATATT-TTTTTATT
1 TCTTCTTTAT-TTCTTTTTATT
528379 T
1 T
528380 TTCAAACTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 14 0.70
23 2 0.10
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (21 bp):
TCTTCTTTATTTCTTTTTATT
Found at i:528825 original size:3 final size:3
Alignment explanation
Indices: 528817--528861 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
528807 AAAAAATATA
*
528817 TAT TAT TAT TAT AAT TAT TATT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA
528862 ATACTATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:528842 original size:22 final size:22
Alignment explanation
Indices: 528817--528860 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
528807 AAAAAATATA
528817 TATTATTATTATAATTATTATT
1 TATTATTATTATAATTATTATT
*
528839 TATTATTATTATTATTATTATT
1 TATTATTATTATAATTATTATT
528861 AATACTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTATTATTATAATTATTATT
Found at i:531271 original size:18 final size:19
Alignment explanation
Indices: 531236--531273 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
531226 AATAATAAAT
*
531236 TTTGATTTTAATTTATTTA
1 TTTGATTTCAATTTATTTA
531255 TTTGATTTCAA-TTATTTA
1 TTTGATTTCAATTTATTTA
531273 T
1 T
531274 CTTTGATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTGATTTCAATTTATTTA
Found at i:533934 original size:64 final size:64
Alignment explanation
Indices: 533832--534188 Score: 475
Period size: 64 Copynumber: 5.6 Consensus size: 64
533822 TGCAGCTTTT
** * * *
533832 AGAGTCAATTTCAACTTCATGGCGAAGGATATTAGACTCAACAAAGAACTTTCTAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAAAAACTTTCCAGTTTCATTC
* * * *
533896 AGAGTCAATTTCAACTTCACAGCAAATGATATTGGACTCAACAAACAACTTTCCAGATTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAAAAACTTTCCAGTTTCATTC
* * * * *
533960 AGAGTCAATTTGAACTTTACAACG-AGGATATTGG-CTCAATAAAAAAATTTCCAGTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAAAAACTTTCCAGTTTCATTC
* * * * *
534022 AGAGTCAATTTTAACTTCACAACGAAGGATATTGGACTTAACAAAAAACTTTTCATTTTCATTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAAAAACTTTCCAGTTTCATTC
* * * * *
534086 AGAGTCAATTTCAACTTCACAGCGAAGAATATTAGACTCAGCAAACAACTTTCCAGTTTCAATC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAAAAACTTTCCAGTTTCATTC
*
534150 AGAGTCAATTTCAACTTCACAGCGAATGATATTGGACTC
1 AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTC
534189 GAAACATTGT
Statistics
Matches: 254, Mismatches: 37, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
62 46 0.18
63 19 0.07
64 189 0.74
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.30
Consensus pattern (64 bp):
AGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAAAAACTTTCCAGTTTCATTC
Found at i:534059 original size:126 final size:128
Alignment explanation
Indices: 533832--534188 Score: 484
Period size: 126 Copynumber: 2.8 Consensus size: 128
533822 TGCAGCTTTT
*** * *
533832 AGAGTCAATTTCAACTTCATGGCGAAGGATATTAGACTCAACAAAGAACTTTCTAGTTTCATTCA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAACAAAAAACTTTCCAGTTTCATTCA
* *
533897 GAGTCAATTTCAACTTCACAGCAAATGATATTGGACTCAACAAACAACTTTCCAGATTCATTC
66 GAGTCAATTTCAACTTCACAGCGAATGATATTGGACTCAACAAAAAACTTTCCAGATTCATTC
* * * * *
533960 AGAGTCAATTTGAACTTTACAACG-AGGATATT-GGCTCAATAAAAAAATTTCCAGTTTCATTCA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAACAAAAAACTTTCCAGTTTCATTCA
* * * * * **
534023 GAGTCAATTTTAACTTCACAACGAAGGATATTGGACTTAACAAAAAACTTTTCATTTTCATTC
66 GAGTCAATTTCAACTTCACAGCGAATGATATTGGACTCAACAAAAAACTTTCCAGATTCATTC
* * * * *
534086 AGAGTCAATTTCAACTTCACAGCGAAGAATATTAGACTCAGCAAACAACTTTCCAGTTTCAATCA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAACAAAAAACTTTCCAGTTTCATTCA
534151 GAGTCAATTTCAACTTCACAGCGAATGATATTGGACTC
66 GAGTCAATTTCAACTTCACAGCGAATGATATTGGACTC
534189 GAAACATTGT
Statistics
Matches: 194, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
126 101 0.52
127 15 0.08
128 78 0.40
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.30
Consensus pattern (128 bp):
AGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAACAAAAAACTTTCCAGTTTCATTCA
GAGTCAATTTCAACTTCACAGCGAATGATATTGGACTCAACAAAAAACTTTCCAGATTCATTC
Found at i:534155 original size:190 final size:191
Alignment explanation
Indices: 533832--534184 Score: 514
Period size: 190 Copynumber: 1.9 Consensus size: 191
533822 TGCAGCTTTT
*** *
533832 AGAGTCAATTTCAACTTCATGGCGAAGGATATTAGACTCAACAAAGAACTTTCTAGTTTCATTCA
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAACAAAAAACTTTCTAGTTTCATTCA
* *
533897 GAGTCAATTTCAACTTCACAGCAAATGATATTGGACTCAACAAACAACTTTCCAGATTCATTCAG
66 GAGTCAATTTCAACTTCACAGCAAATGATATTAGACTCAACAAACAACTTTCCAGATTCAATCAG
* *
533962 AGTCAATTTGAACTTTACAACG-AGGATATTGGCTCAATAAAAAAATTTCCAGTTTCATTC
131 AGTCAATTTCAACTTCACAACGAAGGATATTGGCTCAATAAAAAAATTTCCAGTTTCATTC
* * * *
534022 AGAGTCAATTTTAACTTCACAACGAAGGATATTGGACTTAACAAAAAACTTT-TCATTTTCATTC
1 AGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAACAAAAAACTTTCT-AGTTTCATTC
* * *
534086 AGAGTCAATTTCAACTTCACAGCGAA-GAATATTAGACTCAGCAAACAACTTTCCAGTTTCAATC
65 AGAGTCAATTTCAACTTCACAGCAAATG-ATATTAGACTCAACAAACAACTTTCCAGATTCAATC
* *
534150 AGAGTCAATTTCAACTTCACAGCGAATGATATTGG
129 AGAGTCAATTTCAACTTCACAACGAAGGATATTGG
534185 ACTCGAAACA
Statistics
Matches: 143, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
189 2 0.01
190 132 0.92
191 9 0.06
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.30
Consensus pattern (191 bp):
AGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCAACAAAAAACTTTCTAGTTTCATTCA
GAGTCAATTTCAACTTCACAGCAAATGATATTAGACTCAACAAACAACTTTCCAGATTCAATCAG
AGTCAATTTCAACTTCACAACGAAGGATATTGGCTCAATAAAAAAATTTCCAGTTTCATTC
Found at i:534589 original size:119 final size:122
Alignment explanation
Indices: 534207--534714 Score: 721
Period size: 121 Copynumber: 4.2 Consensus size: 122
534197 GTAACCCTTG
534207 GATTTCAACTTCACGACGATA-GATATCGTGCCCACAAGCA-GCAATGCAACCCTTGGATTTCAA
1 GATTTCAACTTCACGACGA-AGGATATCGTGCCCACAAGCATGCAATGCAACCCTTGGATTTCAA
* *
534270 CTTCACGATAAAGGATATACAATTCAAAGCTCAACTTCACAACGAA-GAAGCCATCCAC
65 CTTCACGACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATG-AGCCATCCAC
* *
534328 GATTTTAACTTCACGACGAAGGATATTGTGCCCACAAGCAAT--AATGCAACCCTTGGATTTCAA
1 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGC-ATGCAATGCAACCCTTGGATTTCAA
* * *
534391 CTTCACGACGAATGATATCCAATTCAAAGCTGAACTTCACAACGAATGAGCCATCCAC
65 CTTCACGACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCAC
* *
534449 GATTTCAACTTCACGATGAAGGAAATCGTGCCCACAAG-ATGCAATGCAACCCTTGGATTTCAAC
1 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCATGCAATGCAACCCTTGGATTTCAAC
* * ** ** *
534513 TTCACGACGAA-G-CATCCAATAAAAAAATCAACTTCACAATGAATGAGCCATCCAC
66 TTCACGACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCAC
* ** * *
534568 GATTTTAGTTTCACGATGAAGGATATCGTGCCCACAAG-AAGCAATGCAACCCTTGGATTTCAA-
1 GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCATGCAATGCAACCCTTGGATTTCAAC
*
534631 TTCACGACAAAGAATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCAC
66 TTCACGACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCAC
534688 GATTTCAACTTCACGACGAAGGATATC
1 GATTTCAACTTCACGACGAAGGATATC
534715 CAATTCAAAG
Statistics
Matches: 344, Mismatches: 35, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
118 10 0.03
119 96 0.28
120 62 0.18
121 174 0.51
122 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.23
Consensus pattern (122 bp):
GATTTCAACTTCACGACGAAGGATATCGTGCCCACAAGCATGCAATGCAACCCTTGGATTTCAAC
TTCACGACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCAC
Found at i:534696 original size:32 final size:32
Alignment explanation
Indices: 534660--534767 Score: 119
Period size: 32 Copynumber: 3.3 Consensus size: 32
534650 AATTCAAAGC
534660 TCAACTTCACAACGAATGAGCCATCCACGATT
1 TCAACTTCACAACGAATGAGCCATCCACGATT
* * * * * *
534692 TCAACTTCACGACGAAGGATATCCAATTCA-AAGT
1 TCAACTTCACAACGAATG--AGCC-ATCCACGATT
*
534726 TCAACTTCACAACGAATGAGTCATCCACGATT
1 TCAACTTCACAACGAATGAGCCATCCACGATT
534758 TCAACTTCAC
1 TCAACTTCAC
534768 GATGAAGGAT
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
31 4 0.07
32 30 0.51
34 21 0.36
35 4 0.07
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (32 bp):
TCAACTTCACAACGAATGAGCCATCCACGATT
Found at i:534741 original size:34 final size:34
Alignment explanation
Indices: 534626--534741 Score: 105
Period size: 34 Copynumber: 3.5 Consensus size: 34
534616 ACCCTTGGAT
* * *
534626 TTCAA-TTCACGACAAAGAATATCCAATTCAAAG
1 TTCAACTTCACAACGAAGGATATCCAATTCAAAG
* * * * * *
534659 CTCAACTTCACAACGAATG--AGCC-ATCCACGAT
1 TTCAACTTCACAACGAAGGATATCCAATTCA-AAG
*
534691 TTCAACTTCACGACGAAGGATATCCAATTCAAAG
1 TTCAACTTCACAACGAAGGATATCCAATTCAAAG
534725 TTCAACTTCACAACGAA
1 TTCAACTTCACAACGAA
534742 TGAGTCATCC
Statistics
Matches: 61, Mismatches: 17, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
31 4 0.07
32 20 0.33
33 4 0.07
34 29 0.48
35 4 0.07
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (34 bp):
TTCAACTTCACAACGAAGGATATCCAATTCAAAG
Found at i:534775 original size:66 final size:66
Alignment explanation
Indices: 534623--534780 Score: 264
Period size: 66 Copynumber: 2.4 Consensus size: 66
534613 GCAACCCTTG
* *
534623 GATTTCAA-TTCACGACAAAGAATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCA
534687 C
66 C
* *
534688 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGTTCAACTTCACAACGAATGAGTCATCCA
1 GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCA
534753 C
66 C
*
534754 GATTTCAACTTCACGATGAAGGATATC
1 GATTTCAACTTCACGACGAAGGATATC
534781 GTACCCACAA
Statistics
Matches: 87, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
65 8 0.09
66 79 0.91
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.24
Consensus pattern (66 bp):
GATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCA
C
Found at i:535653 original size:3 final size:3
Alignment explanation
Indices: 535645--535686 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
535635 AAAATATAAA
*
535645 TAT TAT TAT TAT TAAT TAT TAT TAT TAT TAT TAA TAT TAT TA
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA
535687 ATTTTTTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:537539 original size:25 final size:26
Alignment explanation
Indices: 537511--537561 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
537501 TATATTTTAT
*
537511 TTTTTTACACTCTTT-TTTTTTTTCC
1 TTTTTAACACTCTTTATTTTTTTTCC
* *
537536 TTTTTAACATTTTTTATTTTTTTTCC
1 TTTTTAACACTCTTTATTTTTTTTCC
537562 AGTTTATTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTTTAACACTCTTTATTTTTTTTCC
Found at i:537567 original size:26 final size:27
Alignment explanation
Indices: 537526--537581 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
537516 TACACTCTTT
** *
537526 TTTTTTTTCCTTTTTA-ACATTTTTTA
1 TTTTTTTTCCAGTTTATACATTTATTA
*
537552 TTTTTTTTCCAGTTTATTCATTTATTA
1 TTTTTTTTCCAGTTTATACATTTATTA
537579 TTT
1 TTT
537582 CCCTTCAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.71
Consensus pattern (27 bp):
TTTTTTTTCCAGTTTATACATTTATTA
Found at i:538496 original size:26 final size:26
Alignment explanation
Indices: 538466--538518 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
538456 ATGAATTGTT
538466 ATTATATATACATATTTGAGGAATTC
1 ATTATATATACATATTTGAGGAATTC
538492 ATTATATATACATATTTGAGGAATTC
1 ATTATATATACATATTTGAGGAATTC
538518 A
1 A
538519 GTAGTGTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (26 bp):
ATTATATATACATATTTGAGGAATTC
Found at i:540414 original size:59 final size:59
Alignment explanation
Indices: 540307--540418 Score: 154
Period size: 59 Copynumber: 1.9 Consensus size: 59
540297 TCGAGTGAAT
* * *
540307 ATTTTGTAACTTTTAATAGTCAAGTGACTCAACAAAGCAACTCTCTATAGTCGGGGGTC
1 ATTTTATAACTTTTAATAGTCAAGAGACTCAACAAAGCAAATCTCTATAGTCGGGGGTC
* * *
540366 ATTTTATAACTTTTAATAGTCAAGAGATTCAATAAAGTAATATC-CTATAGTCG
1 ATTTTATAACTTTTAATAGTCAAGAGACTCAACAAAGCAA-ATCTCTATAGTCG
540419 AGGGATCACT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 44 0.96
60 2 0.04
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (59 bp):
ATTTTATAACTTTTAATAGTCAAGAGACTCAACAAAGCAAATCTCTATAGTCGGGGGTC
Found at i:542422 original size:51 final size:51
Alignment explanation
Indices: 542346--542477 Score: 167
Period size: 51 Copynumber: 2.6 Consensus size: 51
542336 TAATTCATAC
*
542346 TAAAAAAATGTAACAATTAACACATACTTACA-TCAGTATAAGTGAATAAAA
1 TAAAAAAATGTAACAATTAACACATACTTACACT-AATATAAGTGAATAAAA
* ** * *
542397 TAAACAAATGTAGTAATTAATACATACTTACACTAATGTAAGTGAATAAAA
1 TAAAAAAATGTAACAATTAACACATACTTACACTAATATAAGTGAATAAAA
* *
542448 TAAAAAAAGTATAACACTTAACACATACTT
1 TAAAAAAA-TGTAACAATTAACACATACTT
542478 CGCCGGTGTA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
51 50 0.75
52 17 0.25
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (51 bp):
TAAAAAAATGTAACAATTAACACATACTTACACTAATATAAGTGAATAAAA
Found at i:542488 original size:51 final size:51
Alignment explanation
Indices: 542346--542502 Score: 160
Period size: 51 Copynumber: 3.1 Consensus size: 51
542336 TAATTCATAC
* * *
542346 TAAAAAAA-TGTAACAATTAACACATACTTACATCAGTATAAGTGAATAAAA
1 TAAAAAAAGTATAAC-ATTAACACATACTTACACCAGTGTAAGTGAATAAAA
* * * *
542397 TAAACAAATGTAGT-A-ATTAATACATACTTACACTAATGTAAGTGAATAAAA
1 TAAA-AAAAGTA-TAACATTAACACATACTTACACCAGTGTAAGTGAATAAAA
* * *
542448 TAAAAAAAGTATAACACTTAACACATACTT-CGCCGGTGTAAGTTAATAAAA
1 TAAAAAAAGTATAACA-TTAACACATACTTACACCAGTGTAAGTGAATAAAA
542499 TAAA
1 TAAA
542503 TACTTACAAC
Statistics
Matches: 86, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
49 1 0.01
50 7 0.08
51 60 0.70
52 15 0.17
53 2 0.02
54 1 0.01
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.27
Consensus pattern (51 bp):
TAAAAAAAGTATAACATTAACACATACTTACACCAGTGTAAGTGAATAAAA
Found at i:542570 original size:82 final size:82
Alignment explanation
Indices: 542415--542572 Score: 221
Period size: 82 Copynumber: 1.9 Consensus size: 82
542405 TGTAGTAATT
* * *
542415 AATACATACTTACACTAATGTAAGTGAATAAAATAAAAAAAGTATAACACTTAACACATACTTCG
1 AATAAATACTTACACTAATGTAAGTAAATAAAATAAAAAAAGTATAACACTTAACACATACTTCA
*
542480 CCGGTGTAAGTTAATAA
66 CCGATGTAAGTTAATAA
* * *
542497 AATAAATACTTACAAC-AGTGTAAGTAAATAAAAT-AAAAAAGTGTAGCACTTAACACATACTTA
1 AATAAATACTTAC-ACTAATGTAAGTAAATAAAATAAAAAAAGTATAACACTTAACACATACTT-
542560 CACCGATGTAAGT
64 CACCGATGTAAGT
542573 ATGTACATCT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
81 26 0.39
82 39 0.58
83 2 0.03
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (82 bp):
AATAAATACTTACACTAATGTAAGTAAATAAAATAAAAAAAGTATAACACTTAACACATACTTCA
CCGATGTAAGTTAATAA
Found at i:542777 original size:12 final size:12
Alignment explanation
Indices: 542760--542787 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
542750 AAATATAATC
542760 AATTAAAAATTT
1 AATTAAAAATTT
542772 AATTAAAAATTT
1 AATTAAAAATTT
542784 AATT
1 AATT
542788 TACTGTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
AATTAAAAATTT
Found at i:543582 original size:14 final size:14
Alignment explanation
Indices: 543559--543592 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
543549 CTAGTATAGA
*
543559 AACTCAAATAACTC
1 AACTCGAATAACTC
*
543573 GACTCGAATAACTC
1 AACTCGAATAACTC
543587 AACTCG
1 AACTCG
543593 TATTTCTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.29, G:0.09, T:0.21
Consensus pattern (14 bp):
AACTCGAATAACTC
Found at i:549011 original size:31 final size:32
Alignment explanation
Indices: 548967--549027 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
548957 TAGTATAAAT
548967 TATGTATTAAGTACCTAAACTATCAGTTTTGG
1 TATGTATTAAGTACCTAAACTATCAGTTTTGG
* * *
548999 TATGT-TTTAGTACCTAAACTTTCATTTTT
1 TATGTATTAAGTACCTAAACTATCAGTTTT
549028 TTCAAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (32 bp):
TATGTATTAAGTACCTAAACTATCAGTTTTGG
Found at i:556241 original size:61 final size:64
Alignment explanation
Indices: 556149--556286 Score: 174
Period size: 61 Copynumber: 2.2 Consensus size: 64
556139 AAGCTTACGT
* * *
556149 TCTAGTGCTAATCCGGATATGACACATAAGGTCGTGCCCACCACCTACAC-TAG-GT-TTACAC
1 TCTAGTGCTAATCCGGAAATGAAACACAAGGTCGTGCCCACCACCTACACTTAGTGTCTTACAC
* * * *
556210 TCTAGTGCTAATCCGGAAATGAAACACAAGGTTGTGCCCTCTACCTGCACTTAGTGTCCTTACAC
1 TCTAGTGCTAATCCGGAAATGAAACACAAGGTCGTGCCCACCACCTACACTTAGTGT-CTTACAC
*
556275 ACTAGTGCTAAT
1 TCTAGTGCTAAT
556287 ATAAACTTTC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
61 43 0.66
62 3 0.05
63 2 0.03
65 17 0.26
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (64 bp):
TCTAGTGCTAATCCGGAAATGAAACACAAGGTCGTGCCCACCACCTACACTTAGTGTCTTACAC
Found at i:558367 original size:23 final size:22
Alignment explanation
Indices: 558323--558368 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
558313 TTTCACGACA
* *
558323 TGCTCTAAAATCAAAAAGAAAT
1 TGCTCAAAAATCAAAAAAAAAT
*
558345 TGCTCAAAAATGAAAAATAAAAT
1 TGCTCAAAAATCAAAAA-AAAAT
558368 T
1 T
558369 CTCTTACCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.24
Consensus pattern (22 bp):
TGCTCAAAAATCAAAAAAAAAT
Found at i:561810 original size:88 final size:87
Alignment explanation
Indices: 561660--561831 Score: 265
Period size: 88 Copynumber: 2.0 Consensus size: 87
561650 CCTAACACAC
* * *
561660 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
1 CCTTTTATA-CCAAGTTACCCTAATCATATAAGGATTTTATTATTTCAAATTAATTAAATCTATA
*
561725 TTTAATTAATTAGAATTTAATAAT
65 TTTAATTAATT-GAAATTAATAAT
*
561749 CCTTTTAT-CCAAGTTACCCTAATCATATAAGAGATTTTTTTATTTCAAATTAATTAAATCTATA
1 CCTTTTATACCAAGTTACCCTAATCATATAAG-GATTTTATTATTTCAAATTAATTAAATCTATA
561813 TTTAATTAATTGAAATTAA
65 TTTAATTAATTGAAATTAA
561832 ATATTCGGGA
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
87 28 0.36
88 41 0.53
89 8 0.10
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (87 bp):
CCTTTTATACCAAGTTACCCTAATCATATAAGGATTTTATTATTTCAAATTAATTAAATCTATAT
TTAATTAATTGAAATTAATAAT
Found at i:570046 original size:24 final size:24
Alignment explanation
Indices: 569955--570064 Score: 107
Period size: 24 Copynumber: 4.6 Consensus size: 24
569945 CATAAATCAG
* *
569955 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAA
* *
569979 GTCAAGTAACAGATTAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAA
*
570003 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAA
*
570027 GTC-AGATATCAGATCAGAATTCAA
1 GTCAAG-TATCAGATCAGAATCCAA
* **
570051 ATCAAAAATCAGAT
1 GTCAAGTATCAGAT
570065 AAAATATTCA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
23 5 0.07
24 65 0.92
25 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAA
Found at i:571263 original size:18 final size:18
Alignment explanation
Indices: 571242--571276 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
571232 TGCCATCTGG
*
571242 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
571260 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
571277 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:571487 original size:19 final size:19
Alignment explanation
Indices: 571463--571501 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
571453 AGTACGAATC
571463 CCCTAAGTATTTTCTCATT
1 CCCTAAGTATTTTCTCATT
*
571482 CCCTAAGTATTTTTTCATT
1 CCCTAAGTATTTTCTCATT
571501 C
1 C
571502 AGAGTCAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.05, T:0.49
Consensus pattern (19 bp):
CCCTAAGTATTTTCTCATT
Found at i:572647 original size:18 final size:18
Alignment explanation
Indices: 572620--572662 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
572610 CGGTCAATGA
*
572620 GTCGGATCAACGGGTCGG
1 GTCGGGTCAACGGGTCGG
572638 GTCGGGTCAACGGGTCGG
1 GTCGGGTCAACGGGTCGG
572656 GTCGGGT
1 GTCGGGT
572663 TGTGACCGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.12, C:0.21, G:0.49, T:0.19
Consensus pattern (18 bp):
GTCGGGTCAACGGGTCGG
Found at i:574410 original size:21 final size:21
Alignment explanation
Indices: 574344--574410 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
574334 GATGAACTTG
* *
574344 AAGTAAATGAGGTACCTTGGT
1 AAGTAGATGAAGTACCTTGGT
**
574365 AAGCGGATGAAGTACCTTGGT
1 AAGTAGATGAAGTACCTTGGT
*
574386 AAGTAGATGAAGTACCTTGAT
1 AAGTAGATGAAGTACCTTGGT
574407 AAGT
1 AAGT
574411 GTCTCAGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.27
Consensus pattern (21 bp):
AAGTAGATGAAGTACCTTGGT
Found at i:579845 original size:17 final size:17
Alignment explanation
Indices: 579816--579848 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
579806 CATATTTTTT
579816 ATATAAAATATAATATA
1 ATATAAAATATAATATA
579833 ATATGAAAA-ATAATAT
1 ATAT-AAAATATAATAT
579849 TGTGATCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
ATATAAAATATAATATA
Found at i:584455 original size:13 final size:13
Alignment explanation
Indices: 584437--584462 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
584427 ACAGAATCGA
584437 TGATTAATTGTAC
1 TGATTAATTGTAC
584450 TGATTAATTGTAC
1 TGATTAATTGTAC
584463 CTCTCCAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TGATTAATTGTAC
Found at i:586801 original size:24 final size:23
Alignment explanation
Indices: 586778--586835 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
586768 AAATAAAATA
*
586778 AATAAATAAATGATAATATTAAT
1 AATAAATAAATGATAATACTAAT
* *
586801 AAT-GATGATGATGATAATACTAAT
1 AATAAAT-A-AATGATAATACTAAT
586825 AATAAATAAAT
1 AATAAATAAAT
586836 CCCAGACAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
22 2 0.07
23 6 0.22
24 17 0.63
25 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.33
Consensus pattern (23 bp):
AATAAATAAATGATAATACTAAT
Found at i:587229 original size:131 final size:131
Alignment explanation
Indices: 586990--587520 Score: 513
Period size: 131 Copynumber: 4.1 Consensus size: 131
586980 GAGAGATTAT
* *
586990 GAAGATCAAATCT-GAAAAAAGGATATGCT-TCACTACTTTTCAGGGTAGATCATATCTGGAAAC
1 GAAGATCAAATCTAGAAAAAGGGATATGCTCT-ACTACTTTTCAGGGTAGATCAGATCTGGAAA-
* * * * *
587053 T-TTGATTCACTTCACTGCTCTTCGGGGAAGATTGAATCGAAGTAGATTTTCTCCACTGCTCTTC
64 TGTTGATTCACTTCACCGCTCTTCAGGGAAGATTGAATCGAGGTAGATTTGCTCCACTACTCTTC
587117 AGG
129 AGG
* * * *
587120 GAAGATCAAATATAGAAAAAGGGATATGGTCTACTACTTTTCAGGGAATATCAGATCTGGAAATG
1 GAAGATCAAATCTAGAAAAAGGGATATGCTCTACTACTTTTCAGGGTAGATCAGATCTGGAAATG
* * *
587185 TTGATTCACTTCACCGCTCTTCAGGGAAGATTGAATCTAGGTAGATTTGCTCCATTAATCTTCAG
66 TTGATTCACTTCACCGCTCTTCAGGGAAGATTGAATCGAGGTAGATTTGCTCCACTACTCTTCAG
587250 G
131 G
* * * * * * * * *
587251 AAAGATCAAATCTGGAAAAAAGGG-TCTTCTCCT-CTGCATTTCAGGGTATATCAGATATAGAAA
1 GAAGATCAAATCTAG-AAAAAGGGATATGCT-CTACTACTTTTCAGGGTAGATCAGATCTGGAAA
* * *** * *
587314 TTTTGATTC-CTTTATTTCTCTTCA-GGAAGACTGAATCGAGGTAGATTTTCTCCACTACTCTTC
64 TGTTGATTCACTTCACCGCTCTTCAGGGAAGATTGAATCGAGGTAGATTTGCTCCACTACTCTTC
587377 AGG
129 AGG
* ** * * * * *
587380 GAA-ATCAAATCTACAAAAAGGGATATGCTCTGTTGCGTTCCAGGGTAGATCAAATCT-GAAAAG
1 GAAGATCAAATCTAGAAAAAGGGATATGCTCTACTACTTTTCAGGGTAGATCAGATCTGGAAATG
* * * * * * * ** *
587443 TTTGATCCACTTCACCTCTCTTAAGGGAAGATTAAATCGGGGTTGATTTGCTTCACTGTTCTTTA
66 -TTGATTCACTTCACCGCTCTTCAGGGAAGATTGAATCGAGGTAGATTTGCTCCACTACTCTTCA
587508 GG
130 GG
*
587510 GAATATCAAAT
1 GAAGATCAAAT
587521 ATAAAATAAG
Statistics
Matches: 328, Mismatches: 62, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
127 14 0.04
128 38 0.12
129 50 0.15
130 60 0.18
131 155 0.47
132 11 0.03
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (131 bp):
GAAGATCAAATCTAGAAAAAGGGATATGCTCTACTACTTTTCAGGGTAGATCAGATCTGGAAATG
TTGATTCACTTCACCGCTCTTCAGGGAAGATTGAATCGAGGTAGATTTGCTCCACTACTCTTCAG
G
Found at i:587472 original size:259 final size:261
Alignment explanation
Indices: 586991--587494 Score: 620
Period size: 259 Copynumber: 1.9 Consensus size: 261
586981 AGAGATTATG
* * * * *
586991 AAGATCAAATCTGAAAAAAGGATATGCTTCACTACTTTTCAGGGTAGATCATATCTGGAAACTTT
1 AAGATCAAATCTGAAAAAAGGATATGCTCCACTACATTTCAGGGTAGATCAGATATAGAAACTTT
* * *
587056 GATTCACTTCACTGCTCTTCGGGGAAGATTGAATCGAAGTAGATTTTCTCCACTGCTCTTCAGGG
66 GATTCACTTCACTGCTCTTCGAGGAAGACTGAATCGAAGTAGATTTTCTCCACTACTCTTCAGGG
* * * * * * *
587121 AAGATCAAATATAGAAAAAGGGATATGGTCTACTACTTTTCAGGGAATATCAGATCTGGAAATGT
131 AAGATCAAATATACAAAAAGGGATATGCTCTACTACGTTCCAGGGAAGATCAAATCTGAAAATGT
* * * *
587186 TGATTCACTTCACCGCTCTTCAGGGAAGATTGAATCTAGGTAGATTTGCTCCATTAATCTTCAGG
196 TGATCCACTTCACCGCTCTTAAGGGAAGATTAAATCGAGGTAGATTTGCTCCATTAATCTTCAGG
587251 A
261 A
* * * * * * *
587252 AAGATCAAATCTGGAAAAAAGGGTCTTCTCCTCTGCATTTCAGGGTATATCAGATATAGAAATTT
1 AAGATCAAATCT-GAAAAAAGGATATGCTCCACTACATTTCAGGGTAGATCAGATATAGAAACTT
* * * *
587317 TGATTC-CTTTATTTCTCTTC-AGGAAGACTGAATCGAGGTAGATTTTCTCCACTACTCTTCAGG
65 TGATTCACTTCACTGCTCTTCGAGGAAGACTGAATCGAAGTAGATTTTCTCCACTACTCTTCAGG
* ** * *
587380 GAA-ATCAAATCTACAAAAAGGGATATGCTCTGTTGCGTTCCAGGGTAGATCAAATCTGAAAA-G
130 GAAGATCAAATATACAAAAAGGGATATGCTCTACTACGTTCCAGGGAAGATCAAATCTGAAAATG
* * *
587443 TTTGATCCACTTCACCTCTCTTAAGGGAAGATTAAATCGGGGTTGATTTGCT
195 -TTGATCCACTTCACCGCTCTTAAGGGAAGATTAAATCGAGGTAGATTTGCT
587495 TCACTGTTCT
Statistics
Matches: 203, Mismatches: 38, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
258 1 0.00
259 91 0.45
260 42 0.21
261 23 0.11
262 46 0.23
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (261 bp):
AAGATCAAATCTGAAAAAAGGATATGCTCCACTACATTTCAGGGTAGATCAGATATAGAAACTTT
GATTCACTTCACTGCTCTTCGAGGAAGACTGAATCGAAGTAGATTTTCTCCACTACTCTTCAGGG
AAGATCAAATATACAAAAAGGGATATGCTCTACTACGTTCCAGGGAAGATCAAATCTGAAAATGT
TGATCCACTTCACCGCTCTTAAGGGAAGATTAAATCGAGGTAGATTTGCTCCATTAATCTTCAGG
A
Found at i:588959 original size:21 final size:21
Alignment explanation
Indices: 588935--588975 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
588925 CCCTTTTTAT
588935 ATTTTTATTTTC-TCTTTTCTC
1 ATTTTTATTTTCAT-TTTTCTC
*
588956 ATTTTTTTTTTCATTTTTCT
1 ATTTTTATTTTCATTTTTCT
588976 TCTTTATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.76
Consensus pattern (21 bp):
ATTTTTATTTTCATTTTTCTC
Found at i:617526 original size:21 final size:21
Alignment explanation
Indices: 617501--617546 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
617491 CGTTGATGTG
617501 CCACCACTAGCAACTCAAGTA
1 CCACCACTAGCAACTCAAGTA
*
617522 CCACCTCTAGCAACTCAAGTA
1 CCACCACTAGCAACTCAAGTA
617543 CCAC
1 CCAC
617547 ATGTATCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.41, G:0.09, T:0.15
Consensus pattern (21 bp):
CCACCACTAGCAACTCAAGTA
Found at i:619604 original size:12 final size:12
Alignment explanation
Indices: 619587--619611 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
619577 CAGGGTGGTA
619587 TATCGATACTCC
1 TATCGATACTCC
619599 TATCGATACTCC
1 TATCGATACTCC
619611 T
1 T
619612 CATAGGAGTA
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:0.32, G:0.08, T:0.36
Consensus pattern (12 bp):
TATCGATACTCC
Found at i:630988 original size:23 final size:23
Alignment explanation
Indices: 630954--631022 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
630944 CACCACAGCT
* **
630954 CGTATAAATGCACCAAAGTGCCA
1 CGTAGAAATGCACTGAAGTGCCA
* * *
630977 CGTAGAATTGCACTGTAGTGCCG
1 CGTAGAAATGCACTGAAGTGCCA
631000 CGTAGAAATGCACTGAAGTGCCA
1 CGTAGAAATGCACTGAAGTGCCA
631023 TATAAGATTA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACTGAAGTGCCA
Found at i:640416 original size:2 final size:2
Alignment explanation
Indices: 640409--640440 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
640399 TGATCAAATC
640409 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
640441 CCTATTTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:647970 original size:22 final size:22
Alignment explanation
Indices: 647942--647992 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
647932 GATGGAGATA
647942 GACGGATTTCGTCAGAAATGGG
1 GACGGATTTCGTCAGAAATGGG
* *
647964 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCAGAAATGGG
647986 GACGGAT
1 GACGGAT
647993 GTCGCCGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.14, G:0.41, T:0.22
Consensus pattern (22 bp):
GACGGATTTCGTCAGAAATGGG
Found at i:648195 original size:20 final size:20
Alignment explanation
Indices: 648165--648219 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
648155 GCGATTTACA
648165 AATTCGCGTTGCGAAATTGG
1 AATTCGCGTTGCGAAATTGG
*
648185 AAATT-GGGTTGCGAAATTGG
1 -AATTCGCGTTGCGAAATTGG
648205 AATTCGCGTTGCGAA
1 AATTCGCGTTGCGAA
648220 TTTGTTGGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 4 0.13
20 23 0.74
21 4 0.13
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (20 bp):
AATTCGCGTTGCGAAATTGG
Found at i:650461 original size:20 final size:20
Alignment explanation
Indices: 650436--650477 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
650426 GCAGAATTTC
650436 AAAATCTGGATTCCAACATA
1 AAAATCTGGATTCCAACATA
* *
650456 AAAATCTGGTTTCCAACCTA
1 AAAATCTGGATTCCAACATA
650476 AA
1 AA
650478 TTATGGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (20 bp):
AAAATCTGGATTCCAACATA
Found at i:658970 original size:31 final size:31
Alignment explanation
Indices: 658907--658970 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
658897 TTTTGATAAT
* * * *
658907 GATGATTTAGAAATGATTCTAATTTGAAATG
1 GATGATTAAGAAATGAATATAATATGAAATG
* *
658938 GATGATTAATAAATGAATATAATATGATATG
1 GATGATTAAGAAATGAATATAATATGAAATG
658969 GA
1 GA
658971 AGTCCAATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.36
Consensus pattern (31 bp):
GATGATTAAGAAATGAATATAATATGAAATG
Found at i:660823 original size:47 final size:47
Alignment explanation
Indices: 660715--660824 Score: 139
Period size: 47 Copynumber: 2.3 Consensus size: 47
660705 CTTCCATGGC
* *
660715 AGAATCTTATATCATAAATTCATGATTTAACATATATCTTTCATGACA
1 AGAA-CTTATATCATAAATTCATAATTTAACATATAACTTTCATGACA
** * * *
660763 ATCACTTACATCATAAATTCATAATTTAACATATAACTTTCATGTCT
1 AGAACTTATATCATAAATTCATAATTTAACATATAACTTTCATGACA
*
660810 AGAACTTTTATCATA
1 AGAACTTATATCATA
660825 TTTTTAGGTT
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
47 49 0.96
48 2 0.04
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (47 bp):
AGAACTTATATCATAAATTCATAATTTAACATATAACTTTCATGACA
Found at i:663988 original size:21 final size:21
Alignment explanation
Indices: 663962--664009 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
663952 ACTAGGTACG
*
663962 TAGCTAGCTACCTACA-CTGCC
1 TAGCTAGCTACCTA-AGCTACC
663983 TAGCTAGCTACCTAAGCTACC
1 TAGCTAGCTACCTAAGCTACC
664004 TAGCTA
1 TAGCTA
664010 TAAAACTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (21 bp):
TAGCTAGCTACCTAAGCTACC
Found at i:665216 original size:82 final size:82
Alignment explanation
Indices: 665130--665293 Score: 319
Period size: 82 Copynumber: 2.0 Consensus size: 82
665120 TAAACTGTAA
*
665130 AGTATAAAAAATAGTTCTATCATGAAGAGAGTATGCATGATTTTAATAATGATAGTGATCATGAT
1 AGTATAAAAAATAGTTCTATCATGAAGAGAGTATGCATGATTTTAATAATGATAGCGATCATGAT
665195 ATAATACATAATATGGT
66 ATAATACATAATATGGT
665212 AGTATAAAAAATAGTTCTATCATGAAGAGAGTATGCATGATTTTAATAATGATAGCGATCATGAT
1 AGTATAAAAAATAGTTCTATCATGAAGAGAGTATGCATGATTTTAATAATGATAGCGATCATGAT
665277 ATAATACATAATATGGT
66 ATAATACATAATATGGT
665294 GTTTAACTTT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.34
Consensus pattern (82 bp):
AGTATAAAAAATAGTTCTATCATGAAGAGAGTATGCATGATTTTAATAATGATAGCGATCATGAT
ATAATACATAATATGGT
Found at i:666536 original size:23 final size:23
Alignment explanation
Indices: 666506--666558 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
666496 TCCCGAAAAA
666506 CCACATAGGTTTGCACCAAAGTG
1 CCACATAGGTTTGCACCAAAGTG
*
666529 CCACATAGGTTTGCACCGAAGTG
1 CCACATAGGTTTGCACCAAAGTG
666552 CCACATA
1 CCACATA
666559 TTTGTCCCGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (23 bp):
CCACATAGGTTTGCACCAAAGTG
Found at i:666568 original size:21 final size:21
Alignment explanation
Indices: 666477--666600 Score: 85
Period size: 21 Copynumber: 5.7 Consensus size: 21
666467 GTAATTTGCA
**
666477 CCGAAGTGCCACATAAATGTC
1 CCGAAGTGCCACATATTTGTC
***
666498 CCGAAAAACCACATAGGTTTG-C
1 CCGAAGTGCCACATA--TTTGTC
*
666520 ACCAAAGTGCCACATAGGTTTG-C
1 -CCGAAGTGCCACATA--TTTGTC
666543 ACCGAAGTGCCACATATTTGTC
1 -CCGAAGTGCCACATATTTGTC
*
666565 CCGAA-TGAACACATATTTGTC
1 CCGAAGTG-CCACATATTTGTC
666586 CCGAA-TGACCACATA
1 CCGAAGTG-CCACATA
666601 GAACCCTCGA
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
20 2 0.02
21 47 0.55
22 2 0.02
23 35 0.41
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (21 bp):
CCGAAGTGCCACATATTTGTC
Found at i:671247 original size:21 final size:20
Alignment explanation
Indices: 671206--671267 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
671196 GTAATTTGTA
**
671206 CCGAAGAGCCACATAAATTTC
1 CCGAAG-GCCACATATTTTTC
671227 CCGAAGTGCCACATATTTTTC
1 CCGAAG-GCCACATATTTTTC
*
671248 TCGAAGGACCACATATTTTT
1 CCGAAGG-CCACATATTTTT
671268 TTTTCCGAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
20 1 0.03
21 35 0.97
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (20 bp):
CCGAAGGCCACATATTTTTC
Found at i:676178 original size:60 final size:60
Alignment explanation
Indices: 676092--676231 Score: 199
Period size: 60 Copynumber: 2.3 Consensus size: 60
676082 CTTCTTTGGC
* *
676092 AGGTACAGCATTTTTTGCCGTCGGAACAGGCACATCCTTCACTGGATCAAATTCTTTTTG
1 AGGTACAGCATTTGTTGCCATCGGAACAGGCACATCCTTCACTGGATCAAATTCTTTTTG
* * * *
676152 AGGTACAGCATTTGTTGCCATTGGAACAGGCACATCCTTTACTGGATTAACTTCTTTTTG
1 AGGTACAGCATTTGTTGCCATCGGAACAGGCACATCCTTCACTGGATCAAATTCTTTTTG
* * *
676212 CGGTACGGAATTTGTTGCCA
1 AGGTACAGCATTTGTTGCCA
676232 CCTCTTTCAG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (60 bp):
AGGTACAGCATTTGTTGCCATCGGAACAGGCACATCCTTCACTGGATCAAATTCTTTTTG
Found at i:677641 original size:22 final size:23
Alignment explanation
Indices: 677616--677670 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
677606 AATGGTGTTA
*
677616 AGGAAGAATACGGGG-TGGGTTG
1 AGGAAGAAGACGGGGTTGGGTTG
*
677638 AGGAAGAAGATGGGGTTGGGTTG
1 AGGAAGAAGACGGGGTTGGGTTG
*
677661 AAGAAGAAGA
1 AGGAAGAAGA
677671 AGAGTCGGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 13 0.45
23 16 0.55
ACGTcount: A:0.35, C:0.02, G:0.47, T:0.16
Consensus pattern (23 bp):
AGGAAGAAGACGGGGTTGGGTTG
Found at i:678879 original size:23 final size:23
Alignment explanation
Indices: 678849--678904 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
678839 AATGGTGTTA
*
678849 AGGAAGAATACGGGGTTGGGTTG
1 AGGAAGAAGACGGGGTTGGGTTG
*
678872 AGGAAGAAGATGGGGTTGGGTTG
1 AGGAAGAAGACGGGGTTGGGTTG
*
678895 AAGAAGAAGA
1 AGGAAGAAGA
678905 AGAGTCGGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.34, C:0.02, G:0.46, T:0.18
Consensus pattern (23 bp):
AGGAAGAAGACGGGGTTGGGTTG
Found at i:679574 original size:20 final size:21
Alignment explanation
Indices: 679551--679589 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
679541 ATAATCATTT
*
679551 ATATTATTTAA-AAAAAAAAA
1 ATATTAATTAAGAAAAAAAAA
679571 ATATTAATTAAGAAAAAAA
1 ATATTAATTAAGAAAAAAA
679590 TTGAAAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (21 bp):
ATATTAATTAAGAAAAAAAAA
Found at i:686810 original size:63 final size:62
Alignment explanation
Indices: 686676--686859 Score: 172
Period size: 63 Copynumber: 2.9 Consensus size: 62
686666 TACACTAGGG
* * ** * *
686676 GTGCATCGATGCATAAAATACATTCGACGGTTCAAATAAGCATGGAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATAAAATGCATTCGAC--TTCAAATTA-TTTAGAGTGCATCGATGCATGCTAT
*
686741 GTGCATCTATGCATAAAATGCATTCGATCTTCAAATTATTTAGAGTGCATCGATGCATGCCT-T
1 GTGCATCGATGCATAAAATGCATTCGA-CTTCAAATTATTTAGAGTGCATCGATGCATG-CTAT
* * * * * * *
686804 GTGCATCGGTACACAAAATGCATTCGAAATTCAATTTATTCAAGGGTGCATCGATG
1 GTGCATCGATGCATAAAATGCATTCG-ACTTCAAATTATT-TAGAGTGCATCGATG
686860 ATTATATAGG
Statistics
Matches: 100, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
63 51 0.51
64 23 0.23
65 25 0.25
66 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (62 bp):
GTGCATCGATGCATAAAATGCATTCGACTTCAAATTATTTAGAGTGCATCGATGCATGCTAT
Found at i:686894 original size:20 final size:19
Alignment explanation
Indices: 686849--686894 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
686839 TTATTCAAGG
686849 GTGCATCGATGATTATATA
1 GTGCATCGATGATTATATA
686868 G-GTCATCGATGCATTATATA
1 GTG-CATCGATG-ATTATATA
686888 GTGCATC
1 GTGCATC
686895 AATACACTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.04
19 9 0.38
20 13 0.54
21 1 0.04
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (19 bp):
GTGCATCGATGATTATATA
Found at i:689465 original size:7 final size:7
Alignment explanation
Indices: 689453--689519 Score: 55
Period size: 7 Copynumber: 8.6 Consensus size: 7
689443 TAAACAAGCA
689453 AATAAAT
1 AATAAAT
689460 AATAAAGT
1 AATAAA-T
689468 AACATAAA-
1 -A-ATAAAT
689476 ATATAAAAT
1 A-AT-AAAT
689485 AATAAAT
1 AATAAAT
689492 AATAATAT
1 AATAA-AT
689500 ATATAATAT
1 A-ATAA-AT
689509 AATAAAT
1 AATAAAT
689516 AATA
1 AATA
689520 CGTACACTAT
Statistics
Matches: 52, Mismatches: 1, Indels: 14
0.78 0.01 0.21
Matches are distributed among these distances:
7 24 0.46
8 13 0.25
9 10 0.19
10 5 0.10
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (7 bp):
AATAAAT
Found at i:689518 original size:12 final size:12
Alignment explanation
Indices: 689452--689519 Score: 61
Period size: 12 Copynumber: 5.7 Consensus size: 12
689442 TTAAACAAGC
689452 AAATAA-ATAAT
1 AAATAATATAAT
*
689463 AAAGTAACATAA-
1 AAA-TAATATAAT
*
689475 AATATAAAATAAT
1 AA-ATAATATAAT
689488 AAATAATA-ATAT
1 AAATAATATA-AT
*
689500 ATATAATATAAT
1 AAATAATATAAT
689512 AAATAATA
1 AAATAATA
689520 CGTACACTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
11 4 0.09
12 35 0.74
13 8 0.17
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (12 bp):
AAATAATATAAT
Found at i:690202 original size:79 final size:80
Alignment explanation
Indices: 690051--690202 Score: 182
Period size: 79 Copynumber: 1.9 Consensus size: 80
690041 GACTTATTCA
** *
690051 TCGTGAAGTTGAGTCAATCTTGGATGACTTTGAACATGATATCATTCATCATGAAGTTGAAATCA
1 TCGTGAAGTCAAGTCAATCTTGAATGACTTTGAACATGATATCATTCATCATGAAGTTGAAATCA
**
690116 TGGTTGATCCCTTCG
66 TACTTGATCCCTTCG
* * * * **
690131 TCGTGAAGTCAAGTCAATCTT-AATTACTTTGACCATGTTATCTTTCATTGTGAAGTTGAAATC-
1 TCGTGAAGTCAAGTCAATCTTGAATGACTTTGAACATGATATCATTCATCATGAAGTTGAAATCA
690194 TAACTTGAT
66 T-ACTTGAT
690203 ACTTAGGTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
78 1 0.02
79 40 0.67
80 19 0.32
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (80 bp):
TCGTGAAGTCAAGTCAATCTTGAATGACTTTGAACATGATATCATTCATCATGAAGTTGAAATCA
TACTTGATCCCTTCG
Found at i:698688 original size:31 final size:31
Alignment explanation
Indices: 698650--698711 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
698640 TTCTAAGAGA
* *
698650 CCAAAAAATAATTCAAATGTACATTCTAGCT
1 CCAAAAAACAATTCAAAGGTACATTCTAGCT
* *
698681 CCAAAAAACAATTCAAAGGTAGATTTTAGCT
1 CCAAAAAACAATTCAAAGGTACATTCTAGCT
698712 ATATTTTCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (31 bp):
CCAAAAAACAATTCAAAGGTACATTCTAGCT
Found at i:700852 original size:5 final size:5
Alignment explanation
Indices: 700811--700860 Score: 55
Period size: 6 Copynumber: 9.0 Consensus size: 5
700801 ATAAAGTTAG
700811 TAAAA TAGAAA TAAAAA TCAAAA TAATAA TGAAAA TAAAA TAAAA TAAAA
1 TAAAA TA-AAA T-AAAA T-AAAA TAA-AA T-AAAA TAAAA TAAAA TAAAA
700861 ATTCCTACCC
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
5 18 0.45
6 19 0.47
7 3 0.08
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:703191 original size:2 final size:2
Alignment explanation
Indices: 703184--703230 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
703174 TTTTAAAAAC
703184 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
703226 TA TA T
1 TA TA T
703231 TCAAAAATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:703262 original size:36 final size:35
Alignment explanation
Indices: 703216--703337 Score: 111
Period size: 36 Copynumber: 3.3 Consensus size: 35
703206 TATATATATA
*
703216 TATATATATATATATTCAAAAATATGTTTTCAAGAAC
1 TATAT-TATATATTTTCAAAAATATGTTTTCAA-AAC
* * **
703253 TATATTATATATGTTTTCAAAAGACA-ATTTAGAAAAC
1 TATATTATATA--TTTTCAAAA-ATATGTTTTCAAAAC
* * *
703290 TATACTATATTTTTTCAAATATATGTTTTCAAAAAC
1 TATATTATATATTTTCAAAAATATGTTTTC-AAAAC
703326 TATATTATATAT
1 TATATTATATAT
703338 GTTTTAGAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
34 2 0.03
35 11 0.17
36 21 0.32
37 17 0.26
38 13 0.20
39 2 0.03
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.43
Consensus pattern (35 bp):
TATATTATATATTTTCAAAAATATGTTTTCAAAAC
Found at i:703339 original size:24 final size:22
Alignment explanation
Indices: 703308--703422 Score: 91
Period size: 24 Copynumber: 5.2 Consensus size: 22
703298 ATTTTTTCAA
703308 ATATATGTTTTCAAAAACTATATT
1 ATATATGTTTT-AAAAACTATA-T
703332 ATATATGTTTTAGAAAA--A-A-
1 ATATATGTTTTA-AAAACTATAT
*
703351 AT-TA-ATTTTAAAAACTATAT
1 ATATATGTTTTAAAAACTATAT
703371 ATTATATGTTTTTAAAAAAACTATACT
1 A-TATATG-TTTT--AAAAACTATA-T
*
703398 ATATAT-TTTCAAAAACTATAT
1 ATATATGTTTTAAAAACTATAT
703419 ATAT
1 ATAT
703423 GATATATTTT
Statistics
Matches: 76, Mismatches: 3, Indels: 27
0.72 0.03 0.25
Matches are distributed among these distances:
16 4 0.05
17 5 0.07
18 3 0.04
19 3 0.04
20 1 0.01
21 7 0.09
22 13 0.17
23 1 0.01
24 22 0.29
26 15 0.20
27 2 0.03
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.43
Consensus pattern (22 bp):
ATATATGTTTTAAAAACTATAT
Found at i:703364 original size:40 final size:40
Alignment explanation
Indices: 703315--703390 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
703305 CAAATATATG
703315 TTTTCAAAAACTATAT-TATATATGTTTTAGAAAAAAATTAA
1 TTTTCAAAAACTATATAT-TATATGTTTT-GAAAAAAATTAA
*
703356 TTTT-AAAAACTATATATTATATGTTTTTAAAAAAA
1 TTTTCAAAAACTATATATTATATGTTTTGAAAAAAA
703391 CTATACTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
39 7 0.21
40 21 0.64
41 5 0.15
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (40 bp):
TTTTCAAAAACTATATATTATATGTTTTGAAAAAAATTAA
Found at i:703421 original size:26 final size:24
Alignment explanation
Indices: 703355--703450 Score: 76
Period size: 24 Copynumber: 4.0 Consensus size: 24
703345 AAAAAAATTA
703355 ATTTTAAAAACTATATAT-TATAT
1 ATTTTAAAAACTATATATATATAT
*
703378 GTTTTTAAAAA--A-ACTATACTATAT
1 -ATTTTAAAAACTATA-TATA-TATAT
703402 ATTTTCAAAAACTATATATATGATAT
1 ATTTT-AAAAACTATATATAT-ATAT
** *
703428 ATTTTTGAAATTAT-TATATATAT
1 ATTTTAAAAACTATATATATATAT
703451 TACCATATAT
Statistics
Matches: 59, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
21 1 0.02
22 4 0.07
23 8 0.14
24 24 0.41
25 7 0.12
26 14 0.24
27 1 0.02
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (24 bp):
ATTTTAAAAACTATATATATATAT
Found at i:703802 original size:14 final size:14
Alignment explanation
Indices: 703783--703818 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
703773 TAATGAATCG
703783 TTTAAAATAAAAAA
1 TTTAAAATAAAAAA
703797 TTTAAAATAAAAAA
1 TTTAAAATAAAAAA
703811 TTTAAAAT
1 TTTAAAAT
703819 TTTATGTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TTTAAAATAAAAAA
Found at i:706180 original size:3 final size:3
Alignment explanation
Indices: 706172--706215 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
706162 AATTATTTAT
*
706172 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA -AA TAT TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
706216 TTTAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:706194 original size:17 final size:17
Alignment explanation
Indices: 706172--706215 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
706162 AATTATTTAT
*
706172 TAATAATAATAATATAA
1 TAATAATAATAAAATAA
*
706189 TAATAATAATAAAATAT
1 TAATAATAATAAAATAA
706206 TAATAATAAT
1 TAATAATAAT
706216 TTTAAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAATAATAATAAAATAA
Found at i:706214 original size:14 final size:14
Alignment explanation
Indices: 706173--706214 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
706163 ATTATTTATT
*
706173 AATAATAATAATAT
1 AATAATAATAATAA
706187 AATAATAATAATAA
1 AATAATAATAATAA
*
706201 AATATTAATAATAA
1 AATAATAATAATAA
706215 TTTTAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:706221 original size:20 final size:19
Alignment explanation
Indices: 706172--706230 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
706162 AATTATTTAT
706172 TAATAATAATAATATAATAA
1 TAATAATAA-AATATAATAA
706192 TAATAATAAAATATTAATAA
1 TAATAATAAAATA-TAATAA
** *
706212 TAATTTTAAAATAAAATAA
1 TAATAATAAAATATAATAA
706231 AAAAATTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 9 0.26
20 26 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAATAATAAAATATAATAA
Found at i:707445 original size:22 final size:22
Alignment explanation
Indices: 707414--707496 Score: 105
Period size: 22 Copynumber: 3.8 Consensus size: 22
707404 AAATCCAATA
*
707414 AATCTTTCATCTTTGAAAAGAG
1 AATCTATCATCTTTGAAAAGAG
* *
707436 AATCTATCATTTTTGAAGAGAG
1 AATCTATCATCTTTGAAAAGAG
* *
707458 AATCTATCATTTTTGAATAA-TG
1 AATCTATCATCTTTGAA-AAGAG
707480 AATCTATCATCTTTGAA
1 AATCTATCATCTTTGAA
707497 GAATGTAGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
22 53 0.98
23 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (22 bp):
AATCTATCATCTTTGAAAAGAG
Found at i:707925 original size:54 final size:53
Alignment explanation
Indices: 707857--708007 Score: 239
Period size: 54 Copynumber: 2.8 Consensus size: 53
707847 TAACTGGTTT
* *
707857 GTAAACATTTGACAACACATTCATCCGTTCATGTGGTTTCTGCACATATGTTC
1 GTAAACATTTGACAACACATTCATCCTTTCATGTGGTTTCTGCACAGATGTTC
* *
707910 GTAACACATTTGACAACACATTCATCCTTTCATGTGGTTTCTTCCCAGATGTTC
1 GTAA-ACATTTGACAACACATTCATCCTTTCATGTGGTTTCTGCACAGATGTTC
*
707964 GTAAAACATTTGACAACACATTCATCCTTTCATGTGGCTTCTGC
1 GT-AAACATTTGACAACACATTCATCCTTTCATGTGGTTTCTGC
708008 CTAGATTTCT
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 4 0.04
54 84 0.93
55 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.36
Consensus pattern (53 bp):
GTAAACATTTGACAACACATTCATCCTTTCATGTGGTTTCTGCACAGATGTTC
Found at i:708465 original size:35 final size:35
Alignment explanation
Indices: 708384--708471 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
708374 AATCATGGTG
*
708384 TGAGCTTTCAAAATGCCCCAAATTTTCTATCTGAAA
1 TGAGCTTTCAAAATG-CCCAAACTTTCTATCTGAAA
* * * *
708420 TGGGCCTTCAAAATGCCCAAACTTTC-ATGTTAATA
1 TGAGCTTTCAAAATGCCCAAACTTTCTATCTGAA-A
708455 TGAGCTTTCAAAATGCC
1 TGAGCTTTCAAAATGCC
708472 ACATATGGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
34 5 0.11
35 26 0.59
36 13 0.30
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (35 bp):
TGAGCTTTCAAAATGCCCAAACTTTCTATCTGAAA
Found at i:709614 original size:20 final size:20
Alignment explanation
Indices: 709571--709616 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
709561 GAAATGTAAA
*
709571 ATAAAAATGCCAATGAAAAT
1 ATAAAAATGCCAATGAAAAC
*
709591 ATAAAAATG-CAAGTGCAAAC
1 ATAAAAATGCCAA-TGAAAAC
709611 ATAAAA
1 ATAAAA
709617 GTTCGAATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.17
Consensus pattern (20 bp):
ATAAAAATGCCAATGAAAAC
Found at i:713626 original size:3 final size:3
Alignment explanation
Indices: 713618--713662 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
713608 TAAAATTATT
* *
713618 TAA TAA TAA TAA TAA TAA TAA TTA TAA TAA -AA TAT TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
713663 TTTAAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:713668 original size:20 final size:22
Alignment explanation
Indices: 713620--713672 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
713610 AAATTATTTA
713620 ATAATAATAATAATAATAATTAT
1 ATAA-AATAATAATAATAATTAT
*
713643 AATAAAATATTAATAATAATT-T
1 -ATAAAATAATAATAATAATTAT
713665 -TAAAATAA
1 ATAAAATAA
713673 AATGGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.26
22 1 0.04
23 15 0.56
24 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAAAATAATAATAATAATTAT
Found at i:715383 original size:24 final size:26
Alignment explanation
Indices: 715342--715389 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
715332 CATGTAATTT
715342 GGATGGCAAGATTATATG-TAGGGAC
1 GGATGGCAAGATTATATGTTAGGGAC
* *
715367 GGATGG-AATATTTTATGTTAGGG
1 GGATGGCAAGATTATATGTTAGGG
715390 GCGAACTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.29, C:0.04, G:0.35, T:0.31
Consensus pattern (26 bp):
GGATGGCAAGATTATATGTTAGGGAC
Found at i:717095 original size:21 final size:21
Alignment explanation
Indices: 717069--717118 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
717059 ATTTACCGTG
* *
717069 ATTGCGGTCGTCGCGGGCGCT
1 ATTGCGGCCGTCGCGGACGCT
717090 ATTGCGGCCGTCGCGGACGCT
1 ATTGCGGCCGTCGCGGACGCT
717111 ATTGCGGC
1 ATTGCGGC
717119 AGTCACGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.08, C:0.30, G:0.40, T:0.22
Consensus pattern (21 bp):
ATTGCGGCCGTCGCGGACGCT
Found at i:721337 original size:3 final size:3
Alignment explanation
Indices: 721324--721373 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
721314 AACTCCAAAT
* *
721324 GAA GAA GGAA GAA GAA GAA -AA GAA AAA GAA GAA GAA -AA GAA AAA
1 GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
721368 GAA GAA
1 GAA GAA
721374 AAAAGATGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.82
4 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:721354 original size:17 final size:17
Alignment explanation
Indices: 721332--721379 Score: 89
Period size: 17 Copynumber: 2.9 Consensus size: 17
721322 ATGAAGAAGG
721332 AAGAAGAAGAAAAGAAA
1 AAGAAGAAGAAAAGAAA
721349 AAGAAGAAGAAAAGAAA
1 AAGAAGAAGAAAAGAAA
721366 AAGAAGAA-AAAAGA
1 AAGAAGAAGAAAAGA
721380 TGTTAGCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 6 0.19
17 25 0.81
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAAAAGAAA
Found at i:728690 original size:109 final size:107
Alignment explanation
Indices: 728483--728694 Score: 246
Period size: 109 Copynumber: 2.0 Consensus size: 107
728473 AATATTAAAC
* * * * * *
728483 TTAGAGGGACCAAACAGAGAATAACCCAAAAATACAAAGCATGCAAGAAAAGGGAAAATAGCAAT
1 TTAGAGGGACCAAACAGAGAATAACCCAAAAATACAAAGCACGCAAAAAAAAGGAAAAGAACAAA
* *
728548 TTTAAACCCTACAGGTGACCAGAATACAAAAACACGCTGAAG
66 TTTAAACCCTACAGGTGACAAAAATACAAAAACACGCTGAAG
* *
728590 TTAGAGGGACTAAGACA-TGAATAACCCAAAAATTACAAAGCACGCAAAAAAAAAGGAAAAGAAC
1 TTAGAGGGACCAA-ACAGAGAATAACCCAAAAA-TACAAAGCACGC-AAAAAAAAGGAAAAGAAC
*** * **
728654 AAATTTGGTCCCTACATGTGACAAAAATGTAAAAACACGCT
63 AAATTTAAACCCTACAGGTGACAAAAATACAAAAACACGCT
728695 AAAACAAAGG
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
107 26 0.30
108 14 0.16
109 46 0.53
ACGTcount: A:0.50, C:0.18, G:0.17, T:0.15
Consensus pattern (107 bp):
TTAGAGGGACCAAACAGAGAATAACCCAAAAATACAAAGCACGCAAAAAAAAGGAAAAGAACAAA
TTTAAACCCTACAGGTGACAAAAATACAAAAACACGCTGAAG
Found at i:730339 original size:112 final size:111
Alignment explanation
Indices: 730154--730381 Score: 350
Period size: 112 Copynumber: 2.0 Consensus size: 111
730144 GTTATAGGTG
* ** *
730154 CATTTCGACATACTTTGTGAATGATAGTATCGATCGATTTTGTTTAATGCATAACGGTGCATTTT
1 CATTTCAACATACTCCGTGAATGAAAGTATCGATCGATTTTGTTTAATGCATAACGGTGCATTTT
* * *
730219 CGGTATAAAAGGTGCCACCCATGGTATTCATAATGAGTTGAGTTAC
66 CGGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
*
730265 CATTTCAACATACTCCGTGTATGAAAGTTATCGATCGATTTT-TCTTAATGCATAACGGTGCATT
1 CATTTCAACATACTCCGTGAATGAAAG-TATCGATCGATTTTGT-TTAATGCATAACGGTGCATT
*
730329 TTCGGCATAAAAGGTGCCACCCATTGTATTCATAATGAGGTGAATTAC
64 TTCGGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
730377 CATTT
1 CATTT
730382 TGCCACTTCG
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
111 23 0.22
112 83 0.78
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (111 bp):
CATTTCAACATACTCCGTGAATGAAAGTATCGATCGATTTTGTTTAATGCATAACGGTGCATTTT
CGGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
Found at i:731740 original size:18 final size:18
Alignment explanation
Indices: 731717--731753 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
731707 TTGAGTTTGA
*
731717 TATTTAGGTTAGTTTGGG
1 TATTTAAGTTAGTTTGGG
*
731735 TATTTAAGTTGGTTTGGG
1 TATTTAAGTTAGTTTGGG
731753 T
1 T
731754 TGGGCTTCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.51
Consensus pattern (18 bp):
TATTTAAGTTAGTTTGGG
Found at i:732797 original size:81 final size:81
Alignment explanation
Indices: 732705--733345 Score: 987
Period size: 81 Copynumber: 7.9 Consensus size: 81
732695 CGTTTAGAGC
* **
732705 ATTTAACCTTTCATCTAACTGGCATGATTGACACCTTTCT-TCCAAATGCACAGCTAGGCTTTTA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGT-CAAATGCACAGCTAGGCCATTA
* *
732769 GTCTTTTACTCAAAGGC
65 ATCTTTTACTCAAAGGT
*
732786 ATTTAATCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
*
732851 TATTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * * * *
732867 ATTTAACCTTACATCTAACTAGCATAATTGACACCTTTCTATCAAATGCACTGCTAGGCCATTTA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
732932 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* * * * *
732948 ATTTAACCATTCATCTAACTTGAATAATTGTCACTTTTCTGTCAAATGCACAGCTAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
733013 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* *
733029 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGCACAACTAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
*
733094 TCTTTTACTCAAATGT
66 TCTTTTACTCAAAGGT
* * **
733110 ATTTAAGCTTTCATCTAACTGGCATAATTGACACTTTTCTGTCAAATGCACATATAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
733175 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
* ** * * *
733191 ATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCAATCAAATGCATAACTATGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
733256 TCTTTTACTCAAAGGT
66 TCTTTTACTCAAAGGT
*
733272 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCATAGCTAGGCCATTAA
1 ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
733337 TCTTTTACT
66 TCTTTTACT
733346 TTAGAACAGT
Statistics
Matches: 509, Mismatches: 50, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
81 508 1.00
82 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (81 bp):
ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAA
TCTTTTACTCAAAGGT
Found at i:734001 original size:95 final size:95
Alignment explanation
Indices: 733823--734009 Score: 218
Period size: 95 Copynumber: 2.0 Consensus size: 95
733813 CAGGGTATCG
* ** **
733823 ATACTTATGGTACCGATATCCATTTCAGTATCGATACCATTTCTATATTCTGTAATTTATGATAT
1 ATACTTATGGTACCGATATCCATTTCAGTATCGATACCATTTCTACATTCTAAAATCCATGATAT
*
733888 CGATACCTTTCTCTTAGTATCGATACTACT
66 CAATACCTTTCTCTTAGTATCGATACTACT
* * * *
733918 ATAC-TATGGTACCGATACTCCCTTTCAGTATCGATGCCATTT-TGGCATTCTAAAATCCATGGT
1 ATACTTATGGTACCGATA-TCCATTTCAGTATCGATACCATTTCT-ACATTCTAAAATCCATGAT
* *
733981 ATCAATA-CTTTGTTTATAGTATCGATACT
64 ATCAATACCTTTCTCT-TAGTATCGATACT
734010 CATTGCACCA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
94 20 0.26
95 57 0.74
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.40
Consensus pattern (95 bp):
ATACTTATGGTACCGATATCCATTTCAGTATCGATACCATTTCTACATTCTAAAATCCATGATAT
CAATACCTTTCTCTTAGTATCGATACTACT
Found at i:734580 original size:22 final size:22
Alignment explanation
Indices: 734552--734617 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
734542 CGGGGTATTT
734552 AGGTTGGTTTGGGTTGGGCTTG
1 AGGTTGGTTTGGGTTGGGCTTG
*
734574 AGGTTGGTTTGAGTAT----TT-
1 AGGTTGGTTTGGGT-TGGGCTTG
*
734592 AGGTTGGTTTAGGTTGGGCTTG
1 AGGTTGGTTTGGGTTGGGCTTG
734614 AGGT
1 AGGT
734618 CCGTTTGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
17 1 0.03
18 12 0.34
19 2 0.06
21 2 0.06
22 17 0.49
23 1 0.03
ACGTcount: A:0.11, C:0.03, G:0.44, T:0.42
Consensus pattern (22 bp):
AGGTTGGTTTGGGTTGGGCTTG
Found at i:734624 original size:40 final size:40
Alignment explanation
Indices: 734546--734624 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
734536 TTTACACGGG
* **
734546 GTATTTAGGTTGGTTTGGGTTGGGCTTGAGGTTGGTTTGA
1 GTATTTAGGTTGGTTTAGGTTGGGCTTGAGGTCCGTTTGA
734586 GTATTTAGGTTGGTTTAGGTTGGGCTTGAGGTCCGTTTG
1 GTATTTAGGTTGGTTTAGGTTGGGCTTGAGGTCCGTTTG
734625 TAAACGGGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.10, C:0.05, G:0.41, T:0.44
Consensus pattern (40 bp):
GTATTTAGGTTGGTTTAGGTTGGGCTTGAGGTCCGTTTGA
Found at i:741375 original size:15 final size:14
Alignment explanation
Indices: 741355--741386 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
741345 TTCCTCTCTC
741355 TTTTTTCTTTTCTAT
1 TTTTTTCTTTT-TAT
741370 TTTTTTCTTTTTAT
1 TTTTTTCTTTTTAT
741384 TTT
1 TTT
741387 CCTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTTCTTTTTAT
Found at i:741393 original size:21 final size:21
Alignment explanation
Indices: 741356--741397 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
741346 TCCTCTCTCT
*
741356 TTTTTCTTTTCTATTTTTTTC
1 TTTTTATTTTCTATTTTTTTC
*
741377 TTTTTATTTTCCTTTTTTTTT
1 TTTTTATTTT-CTATTTTTTT
741398 TCATACAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTATTTTCTATTTTTTTC
Found at i:744817 original size:43 final size:44
Alignment explanation
Indices: 744746--745287 Score: 626
Period size: 43 Copynumber: 12.6 Consensus size: 44
744736 TGAGAACCAA
* * * *
744746 AAACGCCGCTATAGTTCAAGATCTATAGCGGCGTTTTTGGA-AC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
* * * * *
744789 AAACGTCGTAAAAGGTCGATATATATAGCGGCGTTTTTAGA-AC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
* * *
744832 AAACGCCGCAAAAGGTCAAGATCTCTAGCGGCGTTTATGGA-AC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
* *
744875 AAATGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGTA-AC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
* * * * *
744918 AAACGTCGCAAAAGGT-TAGATATTTAGCGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
* *
744961 AAATGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGTA-AC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
* * * * *
745004 AAACGTCGCAAAAGGT-TAGATATTTAGCGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
* * * * *
745047 AAATGCTGCAAAAGGAC-AGATCTATAGTGGCGTTTTTGGAAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
* * * *
745090 AAACGCCGCAAAAGGT-TAGATATTTAGCGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
*
745133 AAACGCTGCAAAA-GTAC-AGATCTATAGCGGCGTTTTTGGACAC
1 AAACGCCGCAAAAGGT-CGAGATCTATAGCGGCGTTTTTGGACAC
*
745176 AAACGCCGCAAAAGGTC-AGATCTATAGCGACGTTTTTGGACAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
*
745219 AAACGCCGCAAAAGGTC-AGATCTATAGCGACGTTTTTGGACAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
*
745262 AAACGCCGCAAAAAGTC-AGATCTATA
1 AAACGCCGCAAAAGGTCGAGATCTATA
745288 ATTACCATTC
Statistics
Matches: 429, Mismatches: 62, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
42 42 0.10
43 365 0.85
44 22 0.05
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (44 bp):
AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGACAC
Found at i:746162 original size:26 final size:26
Alignment explanation
Indices: 746133--746186 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
746123 TAAAATAATT
746133 AATGATTAAAATCACAAAATGCAAGG
1 AATGATTAAAATCACAAAATGCAAGG
*
746159 AATGATTAAAATCACAAAATGCAGGG
1 AATGATTAAAATCACAAAATGCAAGG
746185 AA
1 AA
746187 ACAAGATACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.19
Consensus pattern (26 bp):
AATGATTAAAATCACAAAATGCAAGG
Found at i:747818 original size:41 final size:41
Alignment explanation
Indices: 747766--747999 Score: 168
Period size: 41 Copynumber: 5.8 Consensus size: 41
747756 TGTAAACTTT
* * * *
747766 CGACATTTGTATATAAACACCACTAAAGTATAATTGTATAA
1 CGACGTTTGTATATAAACGCCACTAAAGTACAAGTGTATAA
* * * *
747807 CGACGTTTGTATAAAAATGCCACGAAAGTACAAGTGTATAG
1 CGACGTTTGTATATAAACGCCACTAAAGTACAAGTGTATAA
* * * * * *
747848 CGGCGTTTGTATATAAACGCCTCTAAAGTACGAGTCTTTAG
1 CGACGTTTGTATATAAACGCCACTAAAGTACAAGTGTATAA
* * * * *
747889 CGGA-GTTTTTATAAAAACACCACTAAAGTACAAGTCTATAG
1 C-GACGTTTGTATATAAACGCCACTAAAGTACAAGTGTATAA
* * * * * * * *
747930 CGTCGTTTATATAAAAACGCTACTACAGTACGAGTCTATAG
1 CGACGTTTGTATATAAACGCCACTAAAGTACAAGTGTATAA
* * *
747971 CGTCG-TT-TATAGAAATGCCACTAAAGTAC
1 CGACGTTTGTATATAAACGCCACTAAAGTAC
748000 GAGAATTTAG
Statistics
Matches: 158, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
39 18 0.11
40 3 0.02
41 136 0.86
42 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (41 bp):
CGACGTTTGTATATAAACGCCACTAAAGTACAAGTGTATAA
Found at i:747917 original size:82 final size:82
Alignment explanation
Indices: 747810--748303 Score: 453
Period size: 82 Copynumber: 6.1 Consensus size: 82
747800 TGTATAACGA
* * * * * * *
747810 CGTTTGTATAAAAATGCCACGAAAGTACAAGTGTATAGCGGCGTTTGT-A-TATAAACGCCTCTA
1 CGTTTATATAAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTGATTA-AAACGCCACTA
*
747873 AAGTACGAGTCTTTAGCGG
65 AAGTAC-AGTATTTAGCGG
* * * * * * * * * * *
747892 AGTTTTTATAAAAACACCACTAAAGTACAAGTCTATAGCGTCGTTTAT-ATAAAAACGCTACTAC
1 CGTTTATATAAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTGATTAAAACGCCACTAA
* * *
747956 AGTACGAGTCTATAGCGT
66 AGTAC-AGTATTTAGCGG
* * * * *
747974 CG-TT-TATAGAAATGCCACTAAAGTACGAGAATTTAGCGGCGTTTGTGCTTAAAATGCCACTAA
1 CGTTTATATAAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTGATTAAAACGCCACTAA
*
748037 AGTATAGTATTTAGCGG
66 AGTACAGTATTTAGCGG
* * * * *
748054 CGTTTATACAAAAACGCCACTAAAGTACGAGCATTTAGCGGCGTTTGTGCTTAAAACGTCACTAT
1 CGTTTATATAAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTGATTAAAACGCCACTAA
*
748119 AGTACATTATTTAGCGG
66 AGTACAGTATTTAGCGG
* * * * *
748136 CGTTTATATAGAAACGCCACTAAAGTACGAGCATTTAGCGACGTTTGTGCTTAAAACGCCACTAT
1 CGTTTATATAAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTGATTAAAACGCCACTAA
* *
748201 TGTACATTATTTAGCGG
66 AGTACAGTATTTAGCGG
** ** * *
748218 CGTTTATACGAAAACGCCACTAAAGTAC-AGTAGGTAGCGGCGTTTAT-ATAAAAACGCCACTAA
1 CGTTTATATAAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTGATTAAAACGCCACTAA
** *
748281 AACACAAGTATTTACCGG
66 AGTAC-AGTATTTAGCGG
748299 CGTTT
1 CGTTT
748304 GTTCAAAAAA
Statistics
Matches: 344, Mismatches: 63, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
80 59 0.17
81 48 0.14
82 236 0.69
83 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (82 bp):
CGTTTATATAAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTGATTAAAACGCCACTAA
AGTACAGTATTTAGCGG
Found at i:748060 original size:121 final size:123
Alignment explanation
Indices: 747771--748303 Score: 352
Period size: 123 Copynumber: 4.3 Consensus size: 123
747761 ACTTTCGACA
* * * * * * * * *
747771 TTTGTATATAAACACCACTAAAGTATAATTGTATAACGACGTTTGTATAAAAATGCCACGAAAGT
1 TTTG-ATAAAAACACCACTAAAGTACAAGTATATAGCGGCGTTTATATAAAAACGCCACTAAAGT
* * * * **
747836 ACAAGTGTATAGCGGCGTTTGTATATAAACGCCTCTAAAGTACGAGTCTTTAGCGGAGT
65 ACGAGTCTATAGCGGCGTTTGTATAGAAACGCCACTAAAGTACGAGAATTTAGCGGAGT
* * * * *
747895 TTTTATAAAAACACCACTAAAGTACAAGTCTATAGCGTCGTTTATATAAAAACGCTACTACAGTA
1 TTTGATAAAAACACCACTAAAGTACAAGTATATAGCGGCGTTTATATAAAAACGCCACTAAAGTA
* * *
747960 CGAGTCTATAGCGTCG-TT-TATAGAAATGCCACTAAAGTACGAGAATTTAGCGGCGT
66 CGAGTCTATAGCGGCGTTTGTATAGAAACGCCACTAAAGTACGAGAATTTAGCGGAGT
* * ** * * *
748016 TTGTGCTTAAAATGCCACTAAAGTA-TAGTATTTAGCGGCGTTTATACAAAAACGCCACTAAAGT
1 TT-TGATAAAAACACCACTAAAGTACAAGTATATAGCGGCGTTTATATAAAAACGCCACTAAAGT
* * * * ** *
748080 ACGAG-CATTTAGCGGCGTTTGTGCTTA-AAACGTCACTATAGTAC-ATTATTTAGCGGCGT
65 ACGAGTC-TATAGCGGCGTTTGT--ATAGAAACGCCACTAAAGTACGAGAATTTAGCGGAGT
* * * * * * * * * **
748139 TTAT-ATAGAAACGCCACTAAAGTACGAGCATTTAGCGACGTTTGTGCTTAAAACGCCACTATTG
1 TT-TGATAAAAACACCACTAAAGTACAAGTATATAGCGGCGTTTAT-ATAAAAACGCCACTAAAG
* * * * ** *
748203 TAC-ATTATTTAGCGGCG-TT-TATACGAAAACGCCACTAAAGTAC-AGTAGGTAGCGGCGT
64 TACGAGTCTATAGCGGCGTTTGTATA-G-AAACGCCACTAAAGTACGAGAATTTAGCGGAGT
* ** * *
748261 TTAT-ATAAAAACGCCACTAAAACACAAGTATTTACCGGCGTTT
1 TT-TGATAAAAACACCACTAAAGTACAAGTATATAGCGGCGTTT
748304 GTTCAAAAAA
Statistics
Matches: 327, Mismatches: 70, Indels: 26
0.77 0.17 0.06
Matches are distributed among these distances:
119 2 0.01
120 1 0.00
121 80 0.24
122 102 0.31
123 107 0.33
124 33 0.10
125 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (123 bp):
TTTGATAAAAACACCACTAAAGTACAAGTATATAGCGGCGTTTATATAAAAACGCCACTAAAGTA
CGAGTCTATAGCGGCGTTTGTATAGAAACGCCACTAAAGTACGAGAATTTAGCGGAGT
Found at i:748090 original size:41 final size:41
Alignment explanation
Indices: 747845--748323 Score: 337
Period size: 41 Copynumber: 11.7 Consensus size: 41
747835 TACAAGTGTA
* * * *
747845 TAGCGGCGTTTGTATATAAACGCCTCTAAAGTACGAGTC-TT
1 TAGCGGCGTTTATACAAAAACGCCACTAAAGTACGAG-CATT
* * * * * *
747886 TAGCGGAGTTTTTATAAAAACACCACTAAAGTACAAGTC-TA
1 TAGCGGCGTTTATACAAAAACGCCACTAAAGTACGAG-CATT
* * * * *
747927 TAGCGTCGTTTATATAAAAACGCTACTACAGTACGAGTC-TA
1 TAGCGGCGTTTATACAAAAACGCCACTAAAGTACGAG-CATT
* * * *
747968 TAGCGTCGTTTAT--AGAAATGCCACTAAAGTACGAGAATT
1 TAGCGGCGTTTATACAAAAACGCCACTAAAGTACGAGCATT
* * * * * *
748007 TAGCGGCGTTTGTGCTTAAAATGCCACTAAAGTA-TAGTATT
1 TAGCGGCGTTTATAC-AAAAACGCCACTAAAGTACGAGCATT
748048 TAGCGGCGTTTATACAAAAACGCCACTAAAGTACGAGCATT
1 TAGCGGCGTTTATACAAAAACGCCACTAAAGTACGAGCATT
* * * * * **
748089 TAGCGGCGTTTGTGCTTAAAACGTCACTATAGTAC-ATTATT
1 TAGCGGCGTTTATAC-AAAAACGCCACTAAAGTACGAGCATT
* *
748130 TAGCGGCGTTTATATAGAAACGCCACTAAAGTACGAGCATT
1 TAGCGGCGTTTATACAAAAACGCCACTAAAGTACGAGCATT
* * * * ** **
748171 TAGCGACGTTTGTGCTTAAAACGCCACTATTGTAC-ATTATT
1 TAGCGGCGTTTATAC-AAAAACGCCACTAAAGTACGAGCATT
* * **
748212 TAGCGGCGTTTATACGAAAACGCCACTAAAGTAC-AGTAGG
1 TAGCGGCGTTTATACAAAAACGCCACTAAAGTACGAGCATT
* ** * *
748252 TAGCGGCGTTTATATAAAAACGCCACTAAAACACAAGTATT
1 TAGCGGCGTTTATACAAAAACGCCACTAAAGTACGAGCATT
* * * *
748293 TACCGGCGTTTGTTCAAAAAACGCCGCTAAA
1 TAGCGGCGTTTATAC-AAAAACGCCACTAAA
748324 AGTGCCGCTA
Statistics
Matches: 350, Mismatches: 78, Indels: 19
0.78 0.17 0.04
Matches are distributed among these distances:
39 30 0.09
40 80 0.23
41 179 0.51
42 61 0.17
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (41 bp):
TAGCGGCGTTTATACAAAAACGCCACTAAAGTACGAGCATT
Found at i:748317 original size:164 final size:164
Alignment explanation
Indices: 747810--748303 Score: 439
Period size: 162 Copynumber: 3.0 Consensus size: 164
747800 TGTATAACGA
* * * * ** * * * *
747810 CGTTTGTATAAAAATGCCACGAAAGTACAAGTGTATAGCGGCGTTTGT--ATATAAACGCCTCTA
1 CGTTTATATAAAAACGCCACTAAAGTACGAGAATTTAGCGACGTTTGTGCTTA-AAACGCCACTA
* * * * * * *
747873 AAGTACGAGTCTTTAGCGGAGTTTTTATAAAAACACCACTAAAGTACAAGTCTA--TAGCGTCGT
65 AAGTAC-AGTATTTAGCGGCGTTTATACAAAAACGCCACTAAAGTACGAG-C-AGGTAGCGGCGT
* * ** * * * *
747936 TTAT-ATAAAAACGCTACTACAGTACGAGTCTATAGCGT
127 TTATGATAAAAACGCCACTAAAACAC-AGTATTTACCGG
* * * *
747974 CG-TT-TATAGAAATGCCACTAAAGTACGAGAATTTAGCGGCGTTTGTGCTTAAAATGCCACTAA
1 CGTTTATATAAAAACGCCACTAAAGTACGAGAATTTAGCGACGTTTGTGCTTAAAACGCCACTAA
* ** *
748037 AGTATAGTATTTAGCGGCGTTTATACAAAAACGCCACTAAAGTACGAGCATTTAGCGGCGTTTGT
66 AGTACAGTATTTAGCGGCGTTTATACAAAAACGCCACTAAAGTACGAGCAGGTAGCGGCGTTTAT
* * * * ** * *
748102 GCTTAAAACGTCACTATAGTACATTATTTAGCGG
131 GATAAAAACGCCACTAAAACACAGTATTTACCGG
* * *
748136 CGTTTATATAGAAACGCCACTAAAGTACGAGCATTTAGCGACGTTTGTGCTTAAAACGCCACTAT
1 CGTTTATATAAAAACGCCACTAAAGTACGAGAATTTAGCGACGTTTGTGCTTAAAACGCCACTAA
* * * *
748201 TGTACATTATTTAGCGGCGTTTATACGAAAACGCCACTAAAGTAC-AGTAGGTAGCGGCGTTTAT
66 AGTACAGTATTTAGCGGCGTTTATACAAAAACGCCACTAAAGTACGAGCAGGTAGCGGCGTTTAT
748265 -ATAAAAACGCCACTAAAACACAAGTATTTACCGG
131 GATAAAAACGCCACTAAAACAC-AGTATTTACCGG
748299 CGTTT
1 CGTTT
748304 GTTCAAAAAA
Statistics
Matches: 274, Mismatches: 48, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
160 1 0.00
161 1 0.00
162 109 0.40
163 64 0.23
164 99 0.36
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (164 bp):
CGTTTATATAAAAACGCCACTAAAGTACGAGAATTTAGCGACGTTTGTGCTTAAAACGCCACTAA
AGTACAGTATTTAGCGGCGTTTATACAAAAACGCCACTAAAGTACGAGCAGGTAGCGGCGTTTAT
GATAAAAACGCCACTAAAACACAGTATTTACCGG
Found at i:749850 original size:20 final size:19
Alignment explanation
Indices: 749811--749852 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
749801 TTTCTTCGAT
749811 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
749830 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
749850 ATT
1 ATT
749853 TATAAATAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:749860 original size:118 final size:116
Alignment explanation
Indices: 749720--749953 Score: 285
Period size: 118 Copynumber: 2.0 Consensus size: 116
749710 GAAAAAATAT
* * * *
749720 ATTAATTTATATATTTATAAATAAAATA-TATTTATTTTAGAAATATCAGAAAA-GGACTTCTAG
1 ATTAATATATATATTTATAAATAAAATATTATTTA-TTTAAAAATATCAGAAAATGGACATCCAG
* *
749783 GTGCCTTAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATAAATAATTAAAACA
65 GTGCCTTAAGACAGC-CCTTTCTT-AATATT-AAAAATAAATAAAT-ATTAAAACA
** *
749839 ATTAATATATA-ATTTATAAATAGGATATTATTTATTTAAAAATATCAGAAAATGGACATCCAGT
1 ATTAATATATATATTTATAAATAAAATATTATTTATTTAAAAATATCAGAAAATGGACATCCAGG
** * *
749903 TGTTTTAAGACTGCCCTTTCTTAATATTGAAAATAAATAAATATTAAAACA
66 TGCCTTAAGACAGCCCTTTCTTAATATTAAAAATAAATAAATATTAAAACA
749954 GGATTAAAAT
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
115 9 0.09
116 13 0.13
117 5 0.05
118 38 0.38
119 35 0.35
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (116 bp):
ATTAATATATATATTTATAAATAAAATATTATTTATTTAAAAATATCAGAAAATGGACATCCAGG
TGCCTTAAGACAGCCCTTTCTTAATATTAAAAATAAATAAATATTAAAACA
Found at i:750043 original size:22 final size:18
Alignment explanation
Indices: 749998--750033 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
749988 TTTAATAAAA
749998 AAATAAATATTATTTATT
1 AAATAAATATTATTTATT
*
750016 ATATAAATATATATTTAT
1 AAATAAATAT-TATTTAT
750034 GGCTAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATAAATATTATTTATT
Found at i:751961 original size:137 final size:139
Alignment explanation
Indices: 751814--752171 Score: 506
Period size: 139 Copynumber: 2.6 Consensus size: 139
751804 AATCTAGCAA
*
751814 AAGGTTGAACAAGTTCTACTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
751879 GAACTCCTTCTGGAAATATTGATCCTCAAGAGAGG-T-GTCGTTGATTCAACTTCATATATGATG
66 GAACTCCTTCTGGAAATATTGATCCTCAAGAGAGGTTCGTCGTTCATTCAACTTCATAGATGATG
*
751942 AATTAAGAC
131 AATCAAGAC
* * *
751951 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTCTCTTCCTATTCAGATGAGTTCTTCTTATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * * * *
752016 GAACTTCC-TCTGAAAATGTTGATCCTCAAGTGAGGTTCTTCTTTCATTCAACTTCATAGGTGAT
66 GAAC-TCCTTCTGGAAATATTGATCCTCAAGAGAGGTTCGTCGTTCATTCAACTTCATAGATGAT
*
752080 GAATCAAGAT
130 GAATCAAGAC
* * * * *
752090 AAGGTCGAACAAATTATTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
*
752155 GAACTCTTTCTGGAAAT
66 GAACTCCTTCTGGAAAT
752172 GGCTCTGCTG
Statistics
Matches: 193, Mismatches: 24, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
137 89 0.46
138 6 0.03
139 98 0.51
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (139 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTCCTTCTGGAAATATTGATCCTCAAGAGAGGTTCGTCGTTCATTCAACTTCATAGATGATG
AATCAAGAC
Found at i:752464 original size:110 final size:112
Alignment explanation
Indices: 752240--752544 Score: 497
Period size: 111 Copynumber: 2.7 Consensus size: 112
752230 ATAGAGTCAT
* *
752240 GCAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTC
752305 ATTATGAACTCGACCTGGAAATATTGATCCATCGAGTGATGAATTCAA
65 ATTATGAACTCGACCTGGAAATATTGATCCATCGAGTGATGAATTCAA
* * *
752353 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTC-TCTCATTCTTTAGATGAGTTCTTCTTA
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
** * * *
752417 TTATGAACTCTTCC-GGCAATGTTGATCCATTGAGTGATGAATTCAA
66 TTATGAACTCGACCTGGAAATATTGATCCATCGAGTGATGAATTCAA
752463 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
752528 TTATGAACTCGACCTGG
66 TTATGAACTCGACCTGG
752545 CAATGAGATG
Statistics
Matches: 175, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
110 66 0.38
111 70 0.40
112 4 0.02
113 35 0.20
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (112 bp):
GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCGACCTGGAAATATTGATCCATCGAGTGATGAATTCAA
Found at i:752682 original size:31 final size:31
Alignment explanation
Indices: 752639--752713 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
752629 ACCCTAAGGC
*
752639 TTTGAAAACATCAAAAAGCTCCCGAAGGCTT
1 TTTGGAAACATCAAAAAGCTCCCGAAGGCTT
*
752670 TTTGGAAACATCAAAAAGCTCCTGAAGGCTT
1 TTTGGAAACATCAAAAAGCTCCCGAAGGCTT
752701 TTTGGAAACATCA
1 TTTGGAAACATCA
752714 TGCACTGCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (31 bp):
TTTGGAAACATCAAAAAGCTCCCGAAGGCTT
Found at i:752854 original size:181 final size:181
Alignment explanation
Indices: 752550--753422 Score: 711
Period size: 181 Copynumber: 4.7 Consensus size: 181
752540 CCTGGCAATG
* * * *
752550 AGATGACCCTAAGGGTTTAAACATCAAAAAGCTCCAGAAGGCTTTTTGGAAACATCATGCACTGT
1 AGATGACCCTGAGGGTTTAAACATCAAAAAGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
752615 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
66 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
*
752680 TCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGCAAGTCTTAC
131 TCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGCAAGACTTAC
752731 AGATGACCCTGAGGGTTTAAACATCAAAAAGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
1 AGATGACCCTGAGGGTTTAAACATCAAAAAGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
* *
752796 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGATACA
66 AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
* * * *** * * * * ** * *
752861 TC---ATGC-ACTGCAGGAC-TTACAGATGACCCTAAGGCTTTG-AAAACAT-C
131 TCAAAAAGCTCCTGAAGG-CTTTTTGGA--AACATCATGCACTGCAAGACTTAC
* * * * * * * **
752908 AAAAAG-CTCTCGAAGGCATTTTGGAAACATCATGCACTATAGGAATTACAGATAACCTTAAGGC
1 -AGATGACCCT-G-AGG--GTTT--AAACATCA---A--A-A--AGTTCCCGA-AGGCTT-----
* * * * *** * * * * ** * *
752972 TTTGAAAACATCAAAAG-ATCCCGAAGG-CTTTTTG--GAAACATCATGCACTGCAAGAC-TTAC
45 TTTGGAAACATC--ATGCA--CTGCAGGACTTACAGATG-ACCCTAAGGCTTTG-AAAACATCA-
* * * * * *
753032 AGATG-ACCCTAAGGC--TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGC
103 AAAAGCTCCCGAAGGCTTTTTGGAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGC
*
753094 ACTGCAGGACTTAC
168 ACTGCAAGACTTAC
* * * * * *
753108 AGATGACACTAAGGCTTTGAAAACATCAAAAGGCTCCCAAAGGCTTTTTGGAAACATCATGCACT
1 AGATGACCCTGAGGGTTT--AAACATCAAAAAGTTCCCGAAGGCTTTTTGGAAACATCATGCACT
* * *
753173 GCAGGACTTACATATGACCCTAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTAGAAA
64 GCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAA
* *
753238 CATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGTAAGTCTTAC
129 CATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGCAAGACTTAC
*
753291 AGATAACCCTGAGGGTTTAAACATCAAAAAGCTT-CCGAAGGCTTTTTGGAAACATCATGCACTG
1 AGATGACCCTGAGGGTTTAAACATCAAAAAG-TTCCCGAAGGCTTTTTGGAAACATCATGCACTG
* * *
753355 TAGGACTTACAGATGACCCTGAGGCTTTGAAAACATCAAAAAGCTCTCGAAGGCTTTTTGGAAA-
65 CAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAC
753419 ATCA
130 ATCA
753423 TGCACTGTAG
Statistics
Matches: 523, Mismatches: 121, Indels: 97
0.71 0.16 0.13
Matches are distributed among these distances:
177 14 0.03
178 12 0.02
179 16 0.03
180 16 0.03
181 246 0.47
182 13 0.02
183 77 0.15
186 1 0.00
187 4 0.01
188 4 0.01
189 1 0.00
190 1 0.00
191 7 0.01
192 4 0.01
193 1 0.00
196 22 0.04
197 12 0.02
198 30 0.06
199 24 0.05
200 18 0.03
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.24
Consensus pattern (181 bp):
AGATGACCCTGAGGGTTTAAACATCAAAAAGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
AGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
TCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGCAAGACTTAC
Found at i:752870 original size:76 final size:76
Alignment explanation
Indices: 752670--753242 Score: 909
Period size: 76 Copynumber: 7.6 Consensus size: 76
752660 CCGAAGGCTT
* * * *
752670 TTTGGAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGCAAGTCTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
* *
752735 GACCCTGAGGG
66 GACCCTAAGGC
*
752746 TTT--AAACATCAAAAAGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
752809 GACCCTAAGGC
66 GACCCTAAGGC
* *
752820 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGATACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
752885 GACCCTAAGGC
66 GACCCTAAGGC
* * ** *
752896 TTTGAAAACATCAAAAAGCTCTCGAAGGCATTTTGGAAACATCATGCACTATAGGAATTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
* *
752961 AACCTTAAGGC
66 GACCCTAAGGC
* *
752972 TTTGAAAACATC-AAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAAGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
753036 GACCCTAAGGC
66 GACCCTAAGGC
753047 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
*
753112 GACACTAAGGC
66 GACCCTAAGGC
* * *
753123 TTTGAAAACATCAAAAGGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACATAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
*
753188 GACCCTAAGGA
66 GACCCTAAGGC
*
753199 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTAGAAACATCA
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCA
753243 AAAAGCTCCT
Statistics
Matches: 457, Mismatches: 37, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
74 68 0.15
75 66 0.14
76 323 0.71
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.24
Consensus pattern (76 bp):
TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
GACCCTAAGGC
Found at i:753042 original size:227 final size:227
Alignment explanation
Indices: 752670--753242 Score: 900
Period size: 227 Copynumber: 2.5 Consensus size: 227
752660 CCGAAGGCTT
* * *
752670 TTTGGAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGCAAGTCTTACAGAT
1 TTTGAAAACATCAAAAAGCTCC-GAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
* * * *
752735 GACCCTGAGGGTTT--AAACATCAAAAAGTTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAG
65 GACCCTAAGGATTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAA
*
752798 GACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGATACATC
130 GACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATC
*
752863 ATGCACTGCAGGACTTACAGATGACCCTAAGGC
195 ATGCACTGCAGGACTTACAGATGACACTAAGGC
* ** *
752896 TTTGAAAACATCAAAAAGCTCTCGAAGGCATTTTGGAAACATCATGCACTATAGGAATTACAGAT
1 TTTGAAAACATCAAAAAGCTC-CGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
* * *
752961 AACCTTAAGGCTTTGAAAACATC-AAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAA
65 GACCCTAAGGATTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAA
*
753025 GACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATC
130 GACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATC
753090 ATGCACTGCAGGACTTACAGATGACACTAAGGC
195 ATGCACTGCAGGACTTACAGATGACACTAAGGC
* * *
753123 TTTGAAAACATCAAAAGGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACATAT
1 TTTGAAAACATCAAAAAGCT-CCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
* *
753188 GACCCTAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTAGAAACATCA
65 GACCCTAAGGATTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCA
753243 AAAAGCTCCT
Statistics
Matches: 314, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
226 66 0.21
227 211 0.67
228 37 0.12
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.24
Consensus pattern (227 bp):
TTTGAAAACATCAAAAAGCTCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
ACCCTAAGGATTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGCAAG
ACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCA
TGCACTGCAGGACTTACAGATGACACTAAGGC
Found at i:753239 original size:31 final size:31
Alignment explanation
Indices: 753204--753273 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
753194 AAGGATTTGA
753204 AAACATCAAAAAGCTCCCGAAGGCTTTTTAG
1 AAACATCAAAAAGCTCCCGAAGGCTTTTTAG
* *
753235 AAACATCAAAAAGCTCCTGAAGGCTTTTTGG
1 AAACATCAAAAAGCTCCCGAAGGCTTTTTAG
753266 AAACATCA
1 AAACATCA
753274 TGCACTGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (31 bp):
AAACATCAAAAAGCTCCCGAAGGCTTTTTAG
Found at i:753251 original size:107 final size:105
Alignment explanation
Indices: 753128--753347 Score: 314
Period size: 107 Copynumber: 2.1 Consensus size: 105
753118 AAGGCTTTGA
* * * *
753128 AAACATCAAAAGGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACATATGACCC
1 AAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAAGACTTACAGATAACCC
753193 TAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTAG
66 TAAGGATTT--AAACATCAAAAAGCTCCCGAAGGCTTTTTAG
** * *
753235 AAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGTAAGTCTTACAGATAACCC
1 AAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAAGACTTACAGATAACCC
* * * *
753300 TGAGGGTTTAAACATCAAAAAGCTTCCGAAGGCTTTTTGG
66 TAAGGATTTAAACATCAAAAAGCTCCCGAAGGCTTTTTAG
753340 AAACATCA
1 AAACATCA
753348 TGCACTGTAG
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
105 37 0.37
107 64 0.63
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (105 bp):
AAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGCAAGACTTACAGATAACCC
TAAGGATTTAAACATCAAAAAGCTCCCGAAGGCTTTTTAG
Found at i:753356 original size:74 final size:74
Alignment explanation
Indices: 753230--753443 Score: 333
Period size: 74 Copynumber: 2.9 Consensus size: 74
753220 CCGAAGGCTT
* *
753230 TTTAGAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGTAAGTCTTACAGAT
1 TTTA-AAACATCAAAAAGCTCC-GAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGAT
*
753295 AACCCTGAGGG
64 AACCCTGAGGC
*
753306 TTT-AAACATCAAAAAGCTTCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
1 TTTAAAACATCAAAAAGC-TCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATA
753370 ACCCTGAGGC
65 ACCCTGAGGC
753380 TTTGAAAACATCAAAAAGCTCTCGAAGGCTTTTTGGAAA-ATCATGCACTGTAGGACTTACAGAT
1 TTT-AAAACATCAAAAAGCTC-CGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGAT
753444 GTGGGAAATA
Statistics
Matches: 130, Mismatches: 4, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
74 66 0.51
75 30 0.23
76 34 0.26
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (74 bp):
TTTAAAACATCAAAAAGCTCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATAA
CCCTGAGGC
Found at i:754307 original size:22 final size:22
Alignment explanation
Indices: 754282--754341 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
754272 AATAAAGCTT
*
754282 TCATTTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
754304 TCATCTTTAAAAAGATAATCTA
1 TCATCTTTGAAAAGAGAATCTA
754326 TCATCTTTGAAAAGAG
1 TCATCTTTGAAAAGAG
754342 TGTAGATGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:759115 original size:19 final size:17
Alignment explanation
Indices: 759091--759126 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
759081 CATCTTGGTT
759091 CCCTTTTTTCCTTTTTTTC
1 CCCTTTTTT--TTTTTTTC
759110 CCCTTTTTTTTTTTTTC
1 CCCTTTTTTTTTTTTTC
759127 AAGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
19 9 0.53
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (17 bp):
CCCTTTTTTTTTTTTTC
Found at i:764263 original size:29 final size:30
Alignment explanation
Indices: 764217--764274 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
764207 ATTTCAAAAT
764217 TATAATTATGAAAAAAAATATTAATTTATA
1 TATAATTATGAAAAAAAATATTAATTTATA
* * *
764247 TATATTTAT-AAATAAAATATTTATTTAT
1 TATAATTATGAAAAAAAATATTAATTTAT
764275 TTAGAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
TATAATTATGAAAAAAAATATTAATTTATA
Found at i:764369 original size:20 final size:19
Alignment explanation
Indices: 764330--764371 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
764320 TTTCTTCGAT
764330 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
764349 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
764369 ATT
1 ATT
764372 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:764481 original size:119 final size:120
Alignment explanation
Indices: 764243--764474 Score: 303
Period size: 119 Copynumber: 2.0 Consensus size: 120
764233 AATATTAATT
* * * *
764243 TATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGTGCCT
1 TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAAGTGCCT
* *
764308 TAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATAAATAATTAAAACAATTAA
66 TAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAA
* * *
764363 TATATA-ATTTATAAA-ATAGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAATTGT
1 TATATATATTTATAAATA-AAATATTTATTTATTTAAAAATATCAGAAAAT-GACATCCAAGTGC
* * *
764426 TTTAAGACTGC-CCTTTCTT-AATATTGAAAAATAAATAAAT-ATTAAAACA
64 CTTAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACA
764475 GGATTAAAAT
Statistics
Matches: 98, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
117 9 0.09
118 20 0.20
119 46 0.47
120 23 0.23
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (120 bp):
TATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACATCCAAGTGCCT
TAAGACAGCTCCTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAA
Found at i:764571 original size:3 final size:3
Alignment explanation
Indices: 764563--764589 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
764553 TTTATGGCTA
764563 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
764590 TAAAAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:766067 original size:6 final size:6
Alignment explanation
Indices: 766053--766091 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
766043 AATAAACAGA
*
766053 ATATAT ATATGT ATATGT ATATGT ATATGT ATATGT ATA
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATA
766092 GATTGAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (6 bp):
ATATGT
Found at i:767109 original size:25 final size:25
Alignment explanation
Indices: 767077--767133 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
767067 TTTTCTTTTT
767077 AAACATACTGAATGATATCATAATA
1 AAACATACTGAATGATATCATAATA
767102 AAACATACTGAATGATATCATAATA
1 AAACATACTGAATGATATCATAATA
767127 AAACATA
1 AAACATA
767134 ATTAACTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.26
Consensus pattern (25 bp):
AAACATACTGAATGATATCATAATA
Done.