Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008397.1 Hibiscus syriacus cultivar Beakdansim tig00111166_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: 2560905
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 13
Found at i:849912 original size:13 final size:13
Alignment explanation
Indices: 849894--849923 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
849884 CCATGTATAG
849894 TATATATAAACTA
1 TATATATAAACTA
849907 TATATATAAACTA
1 TATATATAAACTA
849920 TATA
1 TATA
849924 AAGTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:849912 original size:20 final size:21
Alignment explanation
Indices: 849863--849913 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
849853 TAAATAATTT
*
849863 TATATAATATGTATGTATAAAC
1 TATAT-ATATGTATATATAAAC
* *
849885 CATGTATA-GTATATATAAAC
1 TATATATATGTATATATAAAC
849905 TATATATAT
1 TATATATAT
849914 AAACTATATA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 17 0.74
21 3 0.13
22 3 0.13
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (21 bp):
TATATATATGTATATATAAAC
Found at i:850055 original size:14 final size:14
Alignment explanation
Indices: 850038--850068 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
850028 TTCTAAACTT
850038 TAAACCATAAACAC
1 TAAACCATAAACAC
*
850052 TAAACCATAAACCC
1 TAAACCATAAACAC
850066 TAA
1 TAA
850069 TTTAAATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (14 bp):
TAAACCATAAACAC
Found at i:850458 original size:13 final size:13
Alignment explanation
Indices: 850440--850469 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
850430 CCATGTATAG
850440 TATATATAAACTA
1 TATATATAAACTA
*
850453 TATATATAGACTA
1 TATATATAAACTA
850466 TATA
1 TATA
850470 AAGTAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:850458 original size:20 final size:21
Alignment explanation
Indices: 850409--850459 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
850399 TAAATAATTT
*
850409 TATATAATATGTATGTATAAAC
1 TATAT-ATATGTATATATAAAC
* *
850431 CATGTATA-GTATATATAAAC
1 TATATATATGTATATATAAAC
850451 TATATATAT
1 TATATATAT
850460 AGACTATATA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
20 17 0.74
21 3 0.13
22 3 0.13
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (21 bp):
TATATATATGTATATATAAAC
Found at i:850569 original size:14 final size:14
Alignment explanation
Indices: 850544--850613 Score: 63
Period size: 14 Copynumber: 5.1 Consensus size: 14
850534 TAGTTTATAA
*
850544 AAACCCTAAACCCT
1 AAACCATAAACCCT
*
850558 AAATCATAAA-CCT
1 AAACCATAAACCCT
** **
850571 AATTC-TAAACTTT
1 AAACCATAAACCCT
*
850584 AAACCATAAACACT
1 AAACCATAAACCCT
850598 AAACCATAAACCCT
1 AAACCATAAACCCT
850612 AA
1 AA
850614 TTTAAATAGA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
12 4 0.09
13 11 0.25
14 29 0.66
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:850588 original size:40 final size:40
Alignment explanation
Indices: 850544--850619 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
850534 TAGTTTATAA
* * *
850544 AAACCCTAAACCCTAAATCATAAA-CCTAATTCTAAACTTT
1 AAACCATAAACACTAAACCATAAACCCTAATT-TAAACTTT
850584 AAACCATAAACACTAAACCATAAACCCTAATTTAAA
1 AAACCATAAACACTAAACCATAAACCCTAATTTAAA
850620 TAGACTAGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 25 0.78
41 7 0.22
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (40 bp):
AAACCATAAACACTAAACCATAAACCCTAATTTAAACTTT
Found at i:850797 original size:14 final size:14
Alignment explanation
Indices: 850778--850824 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
850768 ATTTTGTCTT
850778 TATATAAATTAAAC
1 TATATAAATTAAAC
850792 TATAT-AATT----
1 TATATAAATTAAAC
850801 TATATAAATTAAAC
1 TATATAAATTAAAC
*
850815 TATATTAATT
1 TATATAAATT
850825 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:850803 original size:23 final size:24
Alignment explanation
Indices: 850776--850825 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
850766 TTATTTTGTC
850776 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
850799 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
850823 TTT
1 TTT
850826 TCCTTTGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:851114 original size:16 final size:16
Alignment explanation
Indices: 851093--851179 Score: 120
Period size: 16 Copynumber: 5.4 Consensus size: 16
851083 TGGATCATTT
*
851093 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTGAAA
*
851109 ACAGGTCCGGTTGAAA
1 ACAGGTCAGGTTGAAA
* *
851125 ATAGGTCAGGTTAAAA
1 ACAGGTCAGGTTGAAA
* *
851141 ATAAGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
851157 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTGAAA
851173 ACAGGTC
1 ACAGGTC
851180 GGGTAATACC
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 62 1.00
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.21
Consensus pattern (16 bp):
ACAGGTCAGGTTGAAA
Found at i:852848 original size:16 final size:16
Alignment explanation
Indices: 852823--852855 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
852813 ATAGTATATA
852823 TATATATTTTTTTTAT
1 TATATATTTTTTTTAT
*
852839 TATATGTTTTTTTTAT
1 TATATATTTTTTTTAT
852855 T
1 T
852856 TAAAGGCCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
TATATATTTTTTTTAT
Found at i:853738 original size:29 final size:29
Alignment explanation
Indices: 853696--853752 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
853686 AAAAAGAGGT
*
853696 TTGTATTTGGTAAAGTTTAAATTTCAGTG
1 TTGTATTTGGTAAAGTTAAAATTTCAGTG
* *
853725 TTGTGTTTTGTAAAGTTAAAATTTCAGT
1 TTGTATTTGGTAAAGTTAAAATTTCAGT
853753 CATTGAATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.49
Consensus pattern (29 bp):
TTGTATTTGGTAAAGTTAAAATTTCAGTG
Found at i:856624 original size:16 final size:17
Alignment explanation
Indices: 856603--856639 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
856593 TCCTTAAGTC
856603 TTTCATAA-TTTATTTA
1 TTTCATAATTTTATTTA
*
856619 TTTCATAATTTTATTTT
1 TTTCATAATTTTATTTA
856636 TTTC
1 TTTC
856640 TTTCTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTCATAATTTTATTTA
Found at i:857144 original size:2 final size:2
Alignment explanation
Indices: 857131--857166 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
857121 TGTGTTTGTT
857131 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
857167 TTTGAGTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:870105 original size:13 final size:15
Alignment explanation
Indices: 870075--870107 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
870065 TGTATTACTG
870075 CAAAAAAGTAAATCA
1 CAAAAAAGTAAATCA
870090 CAAAAAA-TAAAT-A
1 CAAAAAAGTAAATCA
870103 CAAAA
1 CAAAA
870108 CATAGAAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 5 0.28
15 7 0.39
ACGTcount: A:0.73, C:0.12, G:0.03, T:0.12
Consensus pattern (15 bp):
CAAAAAAGTAAATCA
Found at i:871840 original size:13 final size:13
Alignment explanation
Indices: 871822--871849 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
871812 CTATGTTCCG
871822 CTTCTAATTCTTC
1 CTTCTAATTCTTC
871835 CTTCTAATTCTTC
1 CTTCTAATTCTTC
871848 CT
1 CT
871850 CGACACTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.32, G:0.00, T:0.54
Consensus pattern (13 bp):
CTTCTAATTCTTC
Found at i:873739 original size:22 final size:22
Alignment explanation
Indices: 873711--873936 Score: 295
Period size: 22 Copynumber: 10.6 Consensus size: 22
873701 ATAATAATTT
873711 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
873733 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
****
873755 TTTTAAAATAAATTTCCCCATA
1 TTTTAAAATAAATCAATCCATA
*
873777 TTTTAAAATAAATCAATACATA
1 TTTTAAAATAAATCAATCCATA
873799 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
873821 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
873843 TTTTAAAATAAATCAAT--ATA
1 TTTTAAAATAAATCAATCCATA
** *
873863 TTTTAAAAT-AAT-TTTTCATA
1 TTTTAAAATAAATCAATCCATA
873883 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
873905 TTTTAAAATAAATCAAT--ATA
1 TTTTAAAATAAATCAATCCATA
873925 -TTTAAAATAAAT
1 TTTTAAAATAAAT
873937 TTTAAAATAG
Statistics
Matches: 177, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
18 1 0.01
19 15 0.08
20 27 0.15
21 3 0.02
22 131 0.74
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:873960 original size:21 final size:23
Alignment explanation
Indices: 873919--873962 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
873909 AAAATAAATC
*
873919 AATATATTTAAAATAAATTTTAA
1 AATAGATTTAAAATAAATTTTAA
873942 AATAGATTT-AAAT-AATTTTAA
1 AATAGATTTAAAATAAATTTTAA
873963 TTTCTTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 4 0.20
23 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AATAGATTTAAAATAAATTTTAA
Found at i:883696 original size:43 final size:43
Alignment explanation
Indices: 883623--883770 Score: 188
Period size: 43 Copynumber: 3.4 Consensus size: 43
883613 TGCTATTGGT
* * * * *
883623 TGTGTATTTAGCGGCGTTTATCTTTGAAAACGCCGATATTTAC
1 TGTGTATTTGGCGGCATTTGTCTTTTAAAACGCCGATATTGAC
* * *
883666 TGTTTATTTGGCGGTATTTGTCTTTTAAAACGCCGCTATTGAC
1 TGTGTATTTGGCGGCATTTGTCTTTTAAAACGCCGATATTGAC
** *
883709 TGTGTATTTGGCGGCATTTGTCTTTTAAAACTTCGCTATTGAC
1 TGTGTATTTGGCGGCATTTGTCTTTTAAAACGCCGATATTGAC
*
883752 TGTGTATTTAGCGGCATTT
1 TGTGTATTTGGCGGCATTT
883771 ATAAAGATAA
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 92 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.43
Consensus pattern (43 bp):
TGTGTATTTGGCGGCATTTGTCTTTTAAAACGCCGATATTGAC
Found at i:883826 original size:43 final size:43
Alignment explanation
Indices: 883614--883826 Score: 171
Period size: 43 Copynumber: 5.0 Consensus size: 43
883604 GTGTTGAGGT
** * * * *
883614 GCTATTGGTTGTGTATTTAGCGGCGTTTATCT-TTGAAAACGCC
1 GCTATTGACTGTGTATTTAGCGGCATTTGT-TATTAAAAACGTC
* * * * * * *
883657 GATATTTACTGTTTATTTGGCGGTATTTGTCT-TTTAAAACGCC
1 GCTATTGACTGTGTATTTAGCGGCATTTGT-TATTAAAAACGTC
* * *
883700 GCTATTGACTGTGTATTTGGCGGCATTTGTCT-TTTAAAACTTC
1 GCTATTGACTGTGTATTTAGCGGCATTTGT-TATTAAAAACGTC
* * ** *
883743 GCTATTGACTGTGTATTTAGCGGCATTTATAAAGATAAACGTC
1 GCTATTGACTGTGTATTTAGCGGCATTTGTTATTAAAAACGTC
* *
883786 GCTATTAACTGTGTATTTAGTGGCATTTGTTATTAAAAACG
1 GCTATTGACTGTGTATTTAGCGGCATTTGTTATTAAAAACG
883827 CTGCAAATAA
Statistics
Matches: 138, Mismatches: 31, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
43 138 1.00
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.41
Consensus pattern (43 bp):
GCTATTGACTGTGTATTTAGCGGCATTTGTTATTAAAAACGTC
Found at i:887372 original size:41 final size:41
Alignment explanation
Indices: 887124--887376 Score: 169
Period size: 41 Copynumber: 6.1 Consensus size: 41
887114 TATTATTGCA
* * * * *
887124 TTTGTATAAAAACGCCGTTAAAGTACT-ATTTTGTTGCGGCG
1 TTTGTATAAAAACGCCGCTAAAGTA-TGACTCTATTACGGCG
* * * * *
887165 TTTATTGAAAAAAACGCCACTATA-TATGAACTCTATTACGGCA
1 TTT-GT-ATAAAAACGCCGCTAAAGTATG-ACTCTATTACGGCG
* * *
887208 TTTGTATAAAAAAGCCGCTAAAG-ATGGAATCTATTACGACG
1 TTTGTATAAAAACGCCGCTAAAGTAT-GACTCTATTACGGCG
* * * **
887249 TTTTTATCAAAACACCGCTAAAGTAAT-ACTCTATTGTGGCG
1 TTTGTATAAAAACGCCGCTAAAGT-ATGACTCTATTACGGCG
* * *
887290 TTTGT-TGAAAAACGCCACTATAG-ATGAACCCTATTACGGCG
1 TTTGTAT-AAAAACGCCGCTAAAGTATG-ACTCTATTACGGCG
* *
887331 TTTGTATAAAAACGCCGCTAAAGTACT-ACTCTGTTATGGCG
1 TTTGTATAAAAACGCCGCTAAAGTA-TGACTCTATTACGGCG
887372 TTTGT
1 TTTGT
887377 TGGAAAAATG
Statistics
Matches: 159, Mismatches: 39, Indels: 28
0.70 0.17 0.12
Matches are distributed among these distances:
39 2 0.01
40 1 0.01
41 121 0.76
42 7 0.04
43 28 0.18
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (41 bp):
TTTGTATAAAAACGCCGCTAAAGTATGACTCTATTACGGCG
Found at i:887420 original size:83 final size:82
Alignment explanation
Indices: 887194--887437 Score: 285
Period size: 82 Copynumber: 3.0 Consensus size: 82
887184 CTATATATGA
* * * * * * * *
887194 ACTCTATTACGGCATTTGTAT-AAAAAAGCCGCTAAAGATGGAA-TCTATTACGACGTTTTTATC
1 ACTCTATTATGGCGTTTGT-TGAAAAACGCCACTATAGAT-GAACCCTATTACGACGTTTGTATA
887257 AAAACACCGCTAAAGTAAT
64 AAAACACCGCTAAAGTAAT
* *
887276 ACTCTATTGTGGCGTTTGTTGAAAAACGCCACTATAGATGAACCCTATTACGGCGTTTGTATAAA
1 ACTCTATTATGGCGTTTGTTGAAAAACGCCACTATAGATGAACCCTATTACGACGTTTGTATAAA
* *
887341 AACGCCGCTAAAGTACT
66 AACACCGCTAAAGTAAT
* * * * * *
887358 ACTCTGTTATGGCGTTTGTTGGAAAAATGTCACTATAGATTAACCCTATTACAACATTTGTATAA
1 ACTCTATTATGGCGTTTGTT-GAAAAACGCCACTATAGATGAACCCTATTACGACGTTTGTATAA
887423 AAACACCGCTAAAGT
65 AAACACCGCTAAAGT
887438 TACCATTTTA
Statistics
Matches: 138, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
81 4 0.03
82 82 0.59
83 52 0.38
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (82 bp):
ACTCTATTATGGCGTTTGTTGAAAAACGCCACTATAGATGAACCCTATTACGACGTTTGTATAAA
AACACCGCTAAAGTAAT
Found at i:900939 original size:2 final size:2
Alignment explanation
Indices: 900928--900959 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
900918 ACATTTTAAA
900928 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
900960 ATTGCGTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:904273 original size:17 final size:18
Alignment explanation
Indices: 904251--904284 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
904241 TCAGTCGGTC
904251 CGGTT-CGAACGGTTCAG
1 CGGTTCCGAACGGTTCAG
*
904268 CGGTTCCGACCGGTTCA
1 CGGTTCCGAACGGTTCA
904285 CTAGTAGCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.15, C:0.29, G:0.32, T:0.24
Consensus pattern (18 bp):
CGGTTCCGAACGGTTCAG
Found at i:904298 original size:24 final size:24
Alignment explanation
Indices: 904266--904317 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
904256 CGAACGGTTC
*
904266 AGCGGTTCCGACCGGTTCACTAGT
1 AGCGATTCCGACCGGTTCACTAGT
904290 AGCGATTCCGACCGGTTCACTAGT
1 AGCGATTCCGACCGGTTCACTAGT
904314 AGCG
1 AGCG
904318 GTTCAACCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.19, C:0.29, G:0.29, T:0.23
Consensus pattern (24 bp):
AGCGATTCCGACCGGTTCACTAGT
Found at i:904580 original size:19 final size:19
Alignment explanation
Indices: 904556--904601 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
904546 AAGTAATGTG
*
904556 AATGAAATAAATGGTTTTT
1 AATGAAATAAATGATTTTT
904575 AATGAAATAAATGATTTTT
1 AATGAAATAAATGATTTTT
904594 AATGAAAT
1 AATGAAAT
904602 GTTATAGAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (19 bp):
AATGAAATAAATGATTTTT
Found at i:905185 original size:21 final size:21
Alignment explanation
Indices: 905156--905202 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
905146 ATTCTGACTA
905156 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
905177 TCGCGTTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCAAAT
905198 TCGCA
1 TCGCA
905203 ATTAGAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:905223 original size:20 final size:20
Alignment explanation
Indices: 905198--905245 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
905188 TTTTCCGAAT
*
905198 TCGCAATTAGAATATGTAAA
1 TCGCAATGAGAATATGTAAA
*
905218 TCGCAATGCGAATATGTAAA
1 TCGCAATGAGAATATGTAAA
*
905238 TCACAATG
1 TCGCAATG
905246 CGATTATGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (20 bp):
TCGCAATGAGAATATGTAAA
Found at i:905246 original size:20 final size:20
Alignment explanation
Indices: 905207--905253 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
905197 TTCGCAATTA
*
905207 GAATATGTAAATCGCAATGC
1 GAATATGTAAATCACAATGC
905227 GAATATGTAAATCACAATGC
1 GAATATGTAAATCACAATGC
*
905247 GATTATG
1 GAATATG
905254 ACTATCGCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (20 bp):
GAATATGTAAATCACAATGC
Found at i:905261 original size:40 final size:40
Alignment explanation
Indices: 905217--905344 Score: 114
Period size: 40 Copynumber: 3.2 Consensus size: 40
905207 GAATATGTAA
* *
905217 ATCGCAATGCGAATATGTA-AATCACAATGCGATTATGACT
1 ATCGCAACGCGAATATG-ACAATCACAACGCGATTATGACT
* * * * *
905257 ATCGCAACGCGATTCTGACTATCGCAACGCGATTCTGACT
1 ATCGCAACGCGAATATGACAATCACAACGCGATTATGACT
* * * * * *
905297 ATCGCAACGAGATTCTGACTATCGCAACGCGATTCTGACT
1 ATCGCAACGCGAATATGACAATCACAACGCGATTATGACT
*
905337 GTCGCAAC
1 ATCGCAAC
905345 ACTGAATTTC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 77 0.99
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (40 bp):
ATCGCAACGCGAATATGACAATCACAACGCGATTATGACT
Found at i:905268 original size:20 final size:20
Alignment explanation
Indices: 905245--905344 Score: 173
Period size: 20 Copynumber: 5.0 Consensus size: 20
905235 AAATCACAAT
*
905245 GCGATTATGACTATCGCAAC
1 GCGATTCTGACTATCGCAAC
905265 GCGATTCTGACTATCGCAAC
1 GCGATTCTGACTATCGCAAC
905285 GCGATTCTGACTATCGCAAC
1 GCGATTCTGACTATCGCAAC
*
905305 GAGATTCTGACTATCGCAAC
1 GCGATTCTGACTATCGCAAC
*
905325 GCGATTCTGACTGTCGCAAC
1 GCGATTCTGACTATCGCAAC
905345 ACTGAATTTC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 76 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (20 bp):
GCGATTCTGACTATCGCAAC
Found at i:905281 original size:60 final size:60
Alignment explanation
Indices: 905217--905344 Score: 159
Period size: 60 Copynumber: 2.1 Consensus size: 60
905207 GAATATGTAA
* * *
905217 ATCGCAATGCGAATATGTA-AATCACAATGCGATTATGACTATCGCAACGCGATTCTGACT
1 ATCGCAACGCGAATATG-ACAATCACAACGAGATTATGACTATCGCAACGCGATTCTGACT
* * * * *
905277 ATCGCAACGCGATTCTGACTATCGCAACGAGATTCTGACTATCGCAACGCGATTCTGACT
1 ATCGCAACGCGAATATGACAATCACAACGAGATTATGACTATCGCAACGCGATTCTGACT
*
905337 GTCGCAAC
1 ATCGCAAC
905345 ACTGAATTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 1 0.02
60 57 0.98
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (60 bp):
ATCGCAACGCGAATATGACAATCACAACGAGATTATGACTATCGCAACGCGATTCTGACT
Found at i:906197 original size:24 final size:24
Alignment explanation
Indices: 906165--906218 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
906155 GTATTCAAAA
906165 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
906189 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
906213 TTTGAT
1 TTTGAT
906219 GATGTTTCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:908495 original size:18 final size:18
Alignment explanation
Indices: 908462--908501 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
908452 AGAAAAAGAC
**
908462 AATCAAAATCGTAATCAA
1 AATCAAAATCCCAATCAA
*
908480 AATCAAAATCCCAATCAC
1 AATCAAAATCCCAATCAA
908498 AATC
1 AATC
908502 GGTTTCACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.25, G:0.03, T:0.20
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:908808 original size:140 final size:140
Alignment explanation
Indices: 908556--908821 Score: 514
Period size: 140 Copynumber: 1.9 Consensus size: 140
908546 AAACATTGTA
*
908556 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTCTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
908621 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
908686 TTTGTGTATT
131 TTTGTGTATT
908696 TTATGTCTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
1 TTATGTCTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
*
908761 TGATATGTTCAGTTGTTATCACTTATTACACATTTATTTGAATATCGCAACGCGAATTTGA
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGA
908822 TTATCGCAAC
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (140 bp):
TTATGTCTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
TTTGTGTATT
Found at i:908821 original size:20 final size:20
Alignment explanation
Indices: 908796--909109 Score: 243
Period size: 20 Copynumber: 16.6 Consensus size: 20
908786 TTACACATTT
*
908796 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
908816 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
* * *
908835 A----A-AATCGCGACGCTA
1 ATTTGACTATCGCAACGCGA
*
908850 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
908870 ATATGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
* *
908889 A----A-AATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
908904 ATTTGTCTATCGCAACTCGA
1 ATTTGACTATCGCAACGCGA
908924 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
908944 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
* *
908964 ATTTGACTATCGCAATGAGA
1 ATTTGACTATCGCAACGCGA
* *
908984 ATTTGACTATCGCAATGTGA
1 ATTTGACTATCGCAACGCGA
909004 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
909024 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
* *
909044 ATTTGACTATCGTAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
909064 A----A--ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
909078 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
909098 A-TTGACTTTCGC
1 ATTTGACTATCGC
909110 GTTGCGATTT
Statistics
Matches: 232, Mismatches: 44, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
14 26 0.11
15 6 0.03
16 1 0.00
18 1 0.00
19 14 0.06
20 184 0.79
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:908881 original size:54 final size:54
Alignment explanation
Indices: 908796--909109 Score: 222
Period size: 54 Copynumber: 5.6 Consensus size: 54
908786 TTACACATTT
* * * * *
908796 ATTTGAATATCGCAACGCGAATTTGATTATCGCAACTCAAAAATCGCGACGCT-A
1 ATTTGACTATCGCAACACGAATTTGACTATCGCAACGCAAAAATCGCAACG-TGA
*
908850 ATTTGACTATCGCAACACGAATATGACTATCGCAACGCAAAAATCGCAACGTGA
1 ATTTGACTATCGCAACACGAATTTGACTATCGCAACGCAAAAATCGCAACGTGA
* * * * *
908904 ATTTGTCTATCGCAACTCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACACGAATTTGACTATCGCAACGC-AA----A-AATCGCAACGTGA
* * * * *
908964 ATTTGACTATCGCAATGA-GAATTTGACTATCGCAATGTGAATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAA-CACGAATTTGACTATCGCAACG-CAA----A-AATCGCAACGTGA
* ** * * * * *
909024 ATTTGATTATCGCAACGGGTATTTGACTATCGTAACG-AGAAAATCGCAAAGCGT
1 ATTTGACTATCGCAACACGAATTTGACTATCGCAACGCA-AAAATCGCAACGTGA
* * *
909078 ATTAGACTATCGCAACGCGAA-TTGACTTTCGC
1 ATTTGACTATCGCAACACGAATTTGACTATCGC
909110 GTTGCGATTT
Statistics
Matches: 214, Mismatches: 35, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
53 10 0.05
54 108 0.50
55 3 0.01
58 1 0.00
59 2 0.01
60 90 0.42
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (54 bp):
ATTTGACTATCGCAACACGAATTTGACTATCGCAACGCAAAAATCGCAACGTGA
Found at i:909010 original size:80 final size:80
Alignment explanation
Indices: 908892--909064 Score: 285
Period size: 80 Copynumber: 2.2 Consensus size: 80
908882 CAACGCAAAA
* *
908892 ATCGCAACGTGAATTTGTCTATCGCAACTCGAATTTGACTATCGCAACGCGAATTTGATTATCGC
1 ATCGCAACGAGAATTTGACTATCGCAACTCGAATTTGACTATCGCAACGCGAATTTGATTATCGC
908957 AACGGGTATTTGACT
66 AACGGGTATTTGACT
* *
908972 ATCGCAATGAGAATTTGACTATCGCAA-TGTGAATTTGACTATCGCAACGCGAATTTGATTATCG
1 ATCGCAACGAGAATTTGACTATCGCAACT-CGAATTTGACTATCGCAACGCGAATTTGATTATCG
909036 CAACGGGTATTTGACT
65 CAACGGGTATTTGACT
*
909052 ATCGTAACGAGAA
1 ATCGCAACGAGAA
909065 AATCGCAAAG
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
79 1 0.01
80 85 0.99
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (80 bp):
ATCGCAACGAGAATTTGACTATCGCAACTCGAATTTGACTATCGCAACGCGAATTTGATTATCGC
AACGGGTATTTGACT
Found at i:909128 original size:20 final size:20
Alignment explanation
Indices: 909103--909141 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
909093 CGCGAATTGA
*
909103 CTTTCGCGTTGCGATTTTGT
1 CTTTCGCATTGCGATTTTGT
909123 CTTTCGCATTGCGATTTTG
1 CTTTCGCATTGCGATTTTG
909142 ATTTTAACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.08, C:0.21, G:0.23, T:0.49
Consensus pattern (20 bp):
CTTTCGCATTGCGATTTTGT
Found at i:909154 original size:20 final size:20
Alignment explanation
Indices: 909109--909156 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
909099 TTGACTTTCG
**
909109 CGTTGCGATTTTGTCTTTCG
1 CGTTGCGATTTTGTCTTTAA
*
909129 CATTGCGATTTTGAT-TTTAA
1 CGTTGCGATTTTG-TCTTTAA
909149 CGTTGCGA
1 CGTTGCGA
909157 AAGTGTACCT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.15, C:0.17, G:0.23, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTTTGTCTTTAA
Found at i:909305 original size:14 final size:14
Alignment explanation
Indices: 909255--909316 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
909245 AACAAATAAG
*
909255 AATTATTTACACATC
1 AATT-TTTACAAATC
**
909270 AATATTAAACAAATC
1 AAT-TTTTACAAATC
* *
909285 AACTTTTACAAACC
1 AATTTTTACAAATC
*
909299 AATTTTTATAAATC
1 AATTTTTACAAATC
909313 AATT
1 AATT
909317 AAACAAGCAA
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 23 0.64
15 12 0.33
16 1 0.03
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:912026 original size:31 final size:31
Alignment explanation
Indices: 911988--912112 Score: 225
Period size: 31 Copynumber: 4.0 Consensus size: 31
911978 TTGGCCGAGG
911988 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
912019 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
912050 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
912081 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
912112 G
1 G
912113 GTCCTTCGGG
Statistics
Matches: 92, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
31 91 0.99
32 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:915649 original size:64 final size:64
Alignment explanation
Indices: 915581--915740 Score: 189
Period size: 64 Copynumber: 2.5 Consensus size: 64
915571 TTAAAGGTGT
** * **
915581 ATCGATGCATTGGGAGTGCATCGATGCACT-CTTTTAA-AATAAAAACATCGAATGCAATTCATG
1 ATCGATGCATAAGTAGTGCATCGATGCA-TACTAGTAATAAT-AAAACATCGAATGCAATTCATG
915644 C
64 C
* * * *
915645 ATCGATGCATAAGTAGTGCATCGATGCATACTAGTAATAATACAACTTCGAATGCATTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATACTAGTAATAATAAAACATCGAATGCAATTCATGC
* *
915709 ACCGATGCATCAGTAGTGCATCGATGCATACT
1 ATCGATGCATAAGTAGTGCATCGATGCATACT
915741 TTCATTGAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 1 0.01
64 79 0.95
65 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATACTAGTAATAATAAAACATCGAATGCAATTCATGC
Found at i:916426 original size:31 final size:31
Alignment explanation
Indices: 916388--916563 Score: 298
Period size: 31 Copynumber: 5.7 Consensus size: 31
916378 AGGGTCGAGG
916388 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
916419 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
916450 ATTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
916481 ATTTACCTATGTTCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
916512 GTTTACCTATGTTCTTCGGGACATATGAACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
916543 GTTTACCTAGGTTCTTCGGGA
1 GTTTACCTATGTTCTTCGGGA
916564 TCTAGGGACT
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 139 1.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:917683 original size:42 final size:42
Alignment explanation
Indices: 917579--917683 Score: 106
Period size: 42 Copynumber: 2.5 Consensus size: 42
917569 AGAATGTTGG
* * * * *
917579 GAGGGACCTCTTCAACGATTATAGTGGCCTCTTGAACGGTGT
1 GAGGGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGATGT
* **
917621 GAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGATAG-
1 GAGGGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGAT-GT
917663 G-GGAGGCCTCTTGAACGATGA
1 GAGG-GGCCTCTTGAACGATGA
917684 CAGATAAGTC
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.04
42 47 0.94
43 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.24
Consensus pattern (42 bp):
GAGGGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGATGT
Found at i:918217 original size:20 final size:20
Alignment explanation
Indices: 918170--918223 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
918160 TTGCAACACG
*
918170 AATGACTATCGCAACGTGAA
1 AATGACTATCGCAACGCGAA
*
918190 AATAACTATCGCAACGCGAA
1 AATGACTATCGCAACGCGAA
**
918210 TTTGACTATCGCAA
1 AATGACTATCGCAA
918224 AGAGAGAATC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (20 bp):
AATGACTATCGCAACGCGAA
Found at i:918535 original size:20 final size:20
Alignment explanation
Indices: 918468--918529 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
918458 TAGTTTACTT
*
918468 TCGCAACGCGAAA-ATGACTA
1 TCGCAACGC-AAATTTGACTA
*
918488 TCGCAACGCGAATTTGACTA
1 TCGCAACGCAAATTTGACTA
918508 TCGCAACGCAAATTTGACTA
1 TCGCAACGCAAATTTGACTA
918528 TC
1 TC
918530 ATAACGAGAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 2 0.05
20 36 0.95
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (20 bp):
TCGCAACGCAAATTTGACTA
Found at i:918607 original size:20 final size:20
Alignment explanation
Indices: 918578--918645 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
918568 GCGATTCTTT
* **
918578 CGTTGAGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
918598 CGTTGCGATAGTCATTTTCA
1 CGTTGCGATAGTCATTTTCG
*
918618 CGATGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
918638 CGTTGCGA
1 CGTTGCGA
918646 AAGTAAACTA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:918816 original size:18 final size:18
Alignment explanation
Indices: 918793--918842 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
918783 TTTACTAAGC
918793 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
918811 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
918829 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
918843 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:920588 original size:20 final size:20
Alignment explanation
Indices: 920565--920620 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
920555 TCTGAAACTT
920565 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
920585 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
920605 ACTATCGCAACGCGAA
1 AAAATCGCAACACGAA
920621 TTTGACTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:921077 original size:22 final size:22
Alignment explanation
Indices: 921051--921093 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
921041 GAGATAGACG
921051 GATTTCGCCAGAGATGGGGACT
1 GATTTCGCCAGAGATGGGGACT
**
921073 GATTTCGTTAGAGATGGGGAC
1 GATTTCGCCAGAGATGGGGAC
921094 GTATGTCGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.37, T:0.26
Consensus pattern (22 bp):
GATTTCGCCAGAGATGGGGACT
Found at i:921392 original size:20 final size:20
Alignment explanation
Indices: 921262--921399 Score: 82
Period size: 20 Copynumber: 6.8 Consensus size: 20
921252 TGGCGCTTTG
*
921262 AAAATCGCGTTGCGATAGTC
1 AAAATCGCATTGCGATAGTC
** *
921282 AGCATCGCGTTGCGATAGTC
1 AAAATCGCATTGCGATAGTC
* *
921302 ATAATCGCATTGCGAT-TTAC
1 AAAATCGCATTGCGATAGT-C
* *
921322 ATATTCGCATTGCGATAGTC
1 AAAATCGCATTGCGATAGTC
** * *
921342 GGAAAATCGCAACGCGA-ATTTGA
1 --AAAATCGCATTGCGATA-GT-C
*
921365 AAAATCGCAATGCGATAGTC
1 AAAATCGCATTGCGATAGTC
* *
921385 AGAATCGCGTTGCGA
1 AAAATCGCATTGCGA
921400 ATCTGGAAAC
Statistics
Matches: 91, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
19 1 0.01
20 60 0.66
21 17 0.19
22 13 0.14
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (20 bp):
AAAATCGCATTGCGATAGTC
Found at i:922991 original size:23 final size:23
Alignment explanation
Indices: 922965--923010 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
922955 GGAACATAAC
*
922965 GGCGGAGTAGTTGGAGTAGAGGA
1 GGCGGAGCAGTTGGAGTAGAGGA
922988 GGCGGAGCAGTTGGAGTAGAGGA
1 GGCGGAGCAGTTGGAGTAGAGGA
923011 ACGGCTGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.07, G:0.52, T:0.15
Consensus pattern (23 bp):
GGCGGAGCAGTTGGAGTAGAGGA
Found at i:923592 original size:122 final size:123
Alignment explanation
Indices: 923302--923630 Score: 360
Period size: 122 Copynumber: 2.7 Consensus size: 123
923292 GGAATCTAGC
* * ** * * **
923302 AAAAGATTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTCTTCAGACGAGTTTTTCTTATT
1 AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCAGATT
* *
923367 ATGAACTCCTTCTGGAAATGTCGATGCAGTTCTATCTCATTCTGCGATAGAGTCAAGA
66 ATGAACTCCTTCTGGAAATGGCGATGCAGCTCTATCTCATTCTGCGATAGAGTCAAGA
* *
923425 AAAAAGTTGAATACA-TTCTTCAGATTATGAACTTC-TCATTTCTCTTCAGATGAGTTCTTCAGA
1 AAAAGGTTGAATA-AGTTCTTCAGATTATGAACTTCTTC-TTCCTCTTCAGATGAGTTCTTCAGA
* * ** ** * *
923488 TTATGAACTCCTATTTGTAAATGGCTCTGTTGCTCTATCTCCTTCTGTGATAGAGT-AA-A
64 TTATGAACTCCT-TCTGGAAATGGCGATGCAGCTCTATCTCATTCTGCGATAGAGTCAAGA
* * **
923547 AAAAGGTTGAATAAGTTCTTCAGACTATGAACTTCTTCTTCCTCTTCGGATGAGTTCTTCTTATT
1 AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCAGATT
* * *
923612 ACGAACTTCTTCTGAAAAT
66 ATGAACTCCTTCTGGAAAT
923631 ATTGGTACAT
Statistics
Matches: 171, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
121 8 0.05
122 65 0.38
123 64 0.37
124 34 0.20
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (123 bp):
AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCAGATT
ATGAACTCCTTCTGGAAATGGCGATGCAGCTCTATCTCATTCTGCGATAGAGTCAAGA
Found at i:924165 original size:45 final size:44
Alignment explanation
Indices: 923936--924494 Score: 620
Period size: 45 Copynumber: 12.7 Consensus size: 44
923926 ATCTTGCTCG
* *
923936 GAAGG-CTTACAGATGACCCGAAGGATTT--AACATCTTGCACT
1 GAAGGTCTTACAGATGACCCGAAGGTTTTAAAACATCATGCACT
* * * * *
923977 GGAGGTCTTACAAATGACCCGAAGGATTTT-AAACATCCTGTATT
1 GAAGGTCTTACAGATGACCCGAAGG-TTTTAAAACATCATGCACT
* ** * * *
924021 GGAGGTCTTATGGATGACCCGGAGGATTT--AACAT-ATTGCATT
1 GAAGGTCTTACAGATGACCCGAAGGTTTTAAAACATCA-TGCACT
* * *
924063 GGAGGTCTTACAGATGACCCGGAGGATTTT-AAACATCCTGCACT
1 GAAGGTCTTACAGATGACCCGAAGG-TTTTAAAACATCATGCACT
* *
924107 GTAGGTCTTACAGATGACCCGAAGGTTTTGAAAATATCATGCACT
1 GAAGGTCTTACAGATGACCCGAAGGTTTT-AAAACATCATGCACT
*
924152 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCATT
1 GAAGGTCTTACAGATGACCCGAAGGTTTT-AAAACATCATGCACT
* * *
924197 GAAGGTCTTACAGATGACTCGAAGGTTTTGGAAATATCATGCACT
1 GAAGGTCTTACAGATGACCCGAAGGTTTT-AAAACATCATGCACT
*
924242 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCGTGCACT
1 GAAGGTCTTACAGATGACCCGAAGGTTTT-AAAACATCATGCACT
* *
924287 GAAGGTCTTATAGATGACCTGAAGGTTTTTAAAA-ATCATGCACT
1 GAAGGTCTTACAGATGACCCGAAGG-TTTTAAAACATCATGCACT
* *
924331 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCTTACACT
1 GAAGGTCTTACAGATGACCCGAAGGTTTT-AAAACATCATGCACT
* *
924376 GAAGGTCTTACAGATGACCCGAAAGTTTTGGAAACATCATGCACT
1 GAAGGTCTTACAGATGACCCGAAGGTTTT-AAAACATCATGCACT
* * * *
924421 GAAGGTCTTACAGATGGCCCTG-AGGTCTT--ATCATCTTGCACT
1 GAAGGTCTTACAGATGACCC-GAAGGTTTTAAAACATCATGCACT
* *
924463 GTAGGTCTTACAGATGACCCGAAGGCTTTAAA
1 GAAGGTCTTACAGATGACCCGAAGGTTTTAAA
924495 TATCAAAAAG
Statistics
Matches: 449, Mismatches: 53, Indels: 29
0.85 0.10 0.05
Matches are distributed among these distances:
41 5 0.01
42 85 0.19
43 17 0.04
44 101 0.22
45 236 0.53
46 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
GAAGGTCTTACAGATGACCCGAAGGTTTTAAAACATCATGCACT
Found at i:924340 original size:179 final size:176
Alignment explanation
Indices: 923936--924487 Score: 683
Period size: 179 Copynumber: 3.1 Consensus size: 176
923926 ATCTTGCTCG
* * * * *
923936 GAAGG-CTTACAGATGACCCGAAGG-ATTT-AACATCTTGCACTGGAGGTCTTACAAATGACCCG
1 GAAGGTCTTACAGATGACCCGAAGGTTTTTAAAAATCATGCACTGAAGGTCTTACAGATGACCCG
* * * ** * *
923998 AAGGATTTT--AAACATCCTGTATTGGAGGTCTTATGGATGACCCGGAGGATTT--AACATAT--
66 AAGG-TTTTGAAAACATCATGCATTGAAGGTCTTACAGATGACCCGAAGGTTTTGGAA-ATATCA
* *
924057 TGCATTGGAGGTCTTACAGATGACCCGGAGGATTTTAAACATCCTGCACT
129 TGCACTGAAGGTCTTACAGATGACCC-GAGG-TTTTAAACATCCTGCACT
* *
924107 GTAGGTCTTACAGATGACCCGAAGGTTTTGAAAATATCATGCACTGAAGGTCTTACAGATGACCC
1 GAAGGTCTTACAGATGACCCGAAGGTTTTTAAAA-ATCATGCACTGAAGGTCTTACAGATGACCC
*
924172 GAAGGTTTTGAAAACATCATGCATTGAAGGTCTTACAGATGACTCGAAGGTTTTGGAAATATCAT
65 GAAGGTTTTGAAAACATCATGCATTGAAGGTCTTACAGATGACCCGAAGGTTTTGGAAATATCAT
*
924237 GCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCGTGCACT
130 GCACTGAAGGTCTTACAGATGACCCG-AGGTTTT--AAACATCCTGCACT
* *
924287 GAAGGTCTTATAGATGACCTGAAGGTTTTTAAAAATCATGCACTGAAGGTCTTACAGATGACCCG
1 GAAGGTCTTACAGATGACCCGAAGGTTTTTAAAAATCATGCACTGAAGGTCTTACAGATGACCCG
* * * * *
924352 AAGGTTTTGAAAACATCTTACACTGAAGGTCTTACAGATGACCCGAAAGTTTTGGAAACATCATG
66 AAGGTTTTGAAAACATCATGCATTGAAGGTCTTACAGATGACCCGAAGGTTTTGGAAATATCATG
* * * *
924417 CACTGAAGGTCTTACAGATGGCCCTGAGGTCTT-ATCATCTTGCACT
131 CACTGAAGGTCTTACAGATGACCC-GAGGTTTTAAACATCCTGCACT
*
924463 GTAGGTCTTACAGATGACCCGAAGG
1 GAAGGTCTTACAGATGACCCGAAGG
924488 CTTTAAATAT
Statistics
Matches: 332, Mismatches: 35, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
171 4 0.01
172 19 0.06
173 2 0.01
174 6 0.02
175 32 0.10
176 68 0.20
177 4 0.01
178 7 0.02
179 146 0.44
180 44 0.13
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (176 bp):
GAAGGTCTTACAGATGACCCGAAGGTTTTTAAAAATCATGCACTGAAGGTCTTACAGATGACCCG
AAGGTTTTGAAAACATCATGCATTGAAGGTCTTACAGATGACCCGAAGGTTTTGGAAATATCATG
CACTGAAGGTCTTACAGATGACCCGAGGTTTTAAACATCCTGCACT
Found at i:924448 original size:20 final size:21
Alignment explanation
Indices: 924416--924478 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
924406 GAAACATCAT
*
924416 GCACTGAAGGTCTTACAGATG
1 GCACTGTAGGTCTTACAGATG
* ** *
924437 GCCCTG-AGGTCTTATCATCTT
1 GCACTGTAGGTCTTA-CAGATG
924458 GCACTGTAGGTCTTACAGATG
1 GCACTGTAGGTCTTACAGATG
924479 ACCCGAAGGC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 8 0.25
21 16 0.50
22 8 0.25
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (21 bp):
GCACTGTAGGTCTTACAGATG
Found at i:924583 original size:74 final size:74
Alignment explanation
Indices: 924452--924626 Score: 323
Period size: 74 Copynumber: 2.4 Consensus size: 74
924442 GAGGTCTTAT
* *
924452 CATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCTCGAAGGCT
1 CATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAACTCTCGAAGGCT
924517 TTTTGAAAA
66 TTTTGAAAA
*
924526 CATCCTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAACTCTCGAAGGCT
1 CATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAACTCTCGAAGGCT
924591 TTTTGAAAA
66 TTTTGAAAA
924600 CATCCTGCACTGTAGGTCTTACAGATG
1 CATCCTGCACTGTAGGTCTTACAGATG
924627 TGGGAATAGT
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 98 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (74 bp):
CATCCTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAACTCTCGAAGGCT
TTTTGAAAA
Found at i:925795 original size:55 final size:55
Alignment explanation
Indices: 925703--925808 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
925693 ATCACTGGTT
* * *
925703 CGTAAAACATTTGACAATATATTCATCATTTCATGTGGCTTTTGCACAGATGTTC
1 CGTAAAACATTTGACAATACATTAATCATTTCATGTGGCTTCTGCACAGATGTTC
* *
925758 CGTAAAACATTTGACAATACATTAAT-ATTTTCTTGTGGCTTCTGCCCAGAT
1 CGTAAAACATTTGACAATACATTAATCA-TTTCATGTGGCTTCTGCACAGAT
925809 TTCTCATCAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
54 1 0.02
55 44 0.98
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (55 bp):
CGTAAAACATTTGACAATACATTAATCATTTCATGTGGCTTCTGCACAGATGTTC
Found at i:928286 original size:72 final size:72
Alignment explanation
Indices: 928164--928305 Score: 241
Period size: 72 Copynumber: 2.0 Consensus size: 72
928154 ATATAATAAT
*
928164 ATAATAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGATTAACCAATTGCTTTA-GAGGGACA
1 ATAACAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGATTAACCAATTGCTTTAGGA-GGACA
928228 ACTCAATC
65 ACTCAATC
* *
928236 ATAACAGGCTAGCTGAATATTATCCATAAAGCCGGGGCTATTAACCAATTGCTTTAGGAGGATAA
1 ATAACAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGATTAACCAATTGCTTTAGGAGGACAA
928301 CTCAA
66 CTCAA
928306 GCTTTATTGT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
72 64 0.97
73 2 0.03
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (72 bp):
ATAACAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGATTAACCAATTGCTTTAGGAGGACAA
CTCAATC
Found at i:932002 original size:20 final size:18
Alignment explanation
Indices: 931964--932002 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
931954 CTTTTTGTCC
931964 ATTTATGAAAACTTTTCA
1 ATTTATGAAAACTTTTCA
*
931982 ATTTGATGAACACTCTTTCA
1 ATTT-ATGAAAACT-TTTCA
932002 A
1 A
932003 ATCAACACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 8 0.44
20 6 0.33
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (18 bp):
ATTTATGAAAACTTTTCA
Found at i:936327 original size:13 final size:13
Alignment explanation
Indices: 936311--936337 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
936301 TTATCAGGTT
936311 ATCGTCATTTGCA
1 ATCGTCATTTGCA
936324 ATCGTCATTTGCA
1 ATCGTCATTTGCA
936337 A
1 A
936338 ATGGAAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (13 bp):
ATCGTCATTTGCA
Found at i:936389 original size:2 final size:2
Alignment explanation
Indices: 936384--936420 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
936374 CTGAACCTAT
936384 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
936421 GAGATAAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:937009 original size:117 final size:118
Alignment explanation
Indices: 936799--937044 Score: 318
Period size: 117 Copynumber: 2.1 Consensus size: 118
936789 TAATATGACT
*
936799 GGTTAATTACTGAAAACACTATCAACCATAATAACATAACAAGTAGCGATTATTTAACGTAATAG
1 GGTTAATTACTGAAAACACTATCAACCATAATAACATAACAAATAGCGATTATTTAACGTAATAG
** *
936864 TTAGCGTTTTTTAAAGCTAACGGAGCC-TTAGAAATCCGACGATAACAAAATA
66 TTAGCCCTGTTTAAAGCTAACGGAGCCTTTAGAAATCCGACGATAACAAAATA
* * * * * *
936916 GGTTAATTACTGAAAATATTTTCAACCATTATAACATAACAAATAGCGTTTATTTAATGTAATA-
1 GGTTAATTACTGAAAACACTATCAACCATAATAACATAACAAATAGCGATTATTTAACGTAATAG
* * * *
936980 TGTAGCACCTGTTTAAAGCTGATGG-GCCTTTAGAAATCTGACGATAATAAAATA
66 T-TAGC-CCTGTTTAAAGCTAACGGAGCCTTTAGAAATCCGACGATAACAAAATA
*
937034 TGTTAATTACT
1 GGTTAATTACT
937045 TAATTTGTTT
Statistics
Matches: 111, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
116 1 0.01
117 64 0.58
118 46 0.41
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (118 bp):
GGTTAATTACTGAAAACACTATCAACCATAATAACATAACAAATAGCGATTATTTAACGTAATAG
TTAGCCCTGTTTAAAGCTAACGGAGCCTTTAGAAATCCGACGATAACAAAATA
Found at i:937427 original size:131 final size:131
Alignment explanation
Indices: 937072--937539 Score: 615
Period size: 131 Copynumber: 3.6 Consensus size: 131
937062 TATCAACATA
* * * **
937072 TTATCATGTACATTGTTAATTTATCTATTACTTTAAAATAATATATTTCGAAATTATAAGTATTA
1 TTATCATGTACATTGTTAATTTACCTATTACTTTAAAGTAATATGTTTCGAAATTATAAGTATCG
* * * *
937137 ATAC-TTATATGAC-AATATTGATACTTGTACATTTACGCCTATTTTTATTATACCGGTAGAAAC
66 ATACTTTATAT-ACGAGTATTGATACTTGGACATTTAAGCCTATTTTTATTATACCGGTAGAAAT
937200 GT
130 GT
* * * * *
937202 TTATCGTGTACATTATTAATTTAATCTATTACTTTAAAGTAATAGGTTCCGAAATTATAAGTATC
1 TTATCATGTACATTGTTAATTT-ACCTATTACTTTAAAGTAATATGTTTCGAAATTATAAGTATC
* * * * *
937267 GATACTTTATTTATGAGTATTAATACTTGGACATTTAAGCTTATTTTTATTATACCAGTAGAAAT
65 GATACTTTATATACGAGTATTGATACTTGGACATTTAAGCCTATTTTTATTATACCGGTAGAAAT
937332 GT
130 GT
*
937334 TTATCATGTACATTGTTAATTTACCTATTACTTTAAAGTAATATGTTTCAAAATTATAAGTATCG
1 TTATCATGTACATTGTTAATTTACCTATTACTTTAAAGTAATATGTTTCGAAATTATAAGTATCG
* * *
937399 ATACTTTGTATACGAGTATCGATACTTGGACATTTACA-CCTATTTTCATTATACCGGTAGAAAT
66 ATACTTTATATACGAGTATTGATACTTGGACATTTA-AGCCTATTTTTATTATACCGGTAGAAAT
937463 GT
130 GT
* * * *
937465 TTACCGTGTACATTGTTAATTTACCTATTAATTT--AGTAATA-GATTTCGAAATTATAAGTATT
1 TTATCATGTACATTGTTAATTTACCTATTACTTTAAAGTAATATG-TTTCGAAATTATAAGTATC
937527 GATACTTTATATA
65 GATACTTTATATA
937540 TATGTGTATC
Statistics
Matches: 296, Mismatches: 37, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
128 1 0.00
129 36 0.12
130 20 0.07
131 168 0.57
132 71 0.24
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (131 bp):
TTATCATGTACATTGTTAATTTACCTATTACTTTAAAGTAATATGTTTCGAAATTATAAGTATCG
ATACTTTATATACGAGTATTGATACTTGGACATTTAAGCCTATTTTTATTATACCGGTAGAAATG
T
Found at i:939023 original size:22 final size:22
Alignment explanation
Indices: 938998--939053 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
938988 GGGTATATTA
938998 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
939020 GTCCTTCGGGACGTATCTAGTG
1 GTCCTTCGGGACGTATCCAGTG
939042 GTCCTTCGGGAC
1 GTCCTTCGGGAC
939054 ATAGTGGTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.12, C:0.27, G:0.32, T:0.29
Consensus pattern (22 bp):
GTCCTTCGGGACGTATCCAGTG
Found at i:939060 original size:18 final size:19
Alignment explanation
Indices: 939016--939072 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
939006 GGACGTATCC
939016 AGTGGTCCTTCGGGACGTATCT
1 AGTGGTCCTTCGGGAC--A-CT
939038 AGTGGTCCTTCGGGACA-T
1 AGTGGTCCTTCGGGACACT
*
939056 AGTGGTCATTCGGGACA
1 AGTGGTCCTTCGGGACA
939073 AATATTGAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
18 17 0.50
20 1 0.03
22 16 0.47
ACGTcount: A:0.18, C:0.21, G:0.33, T:0.28
Consensus pattern (19 bp):
AGTGGTCCTTCGGGACACT
Found at i:944777 original size:21 final size:21
Alignment explanation
Indices: 944751--944827 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 21
944741 GCTTTTCATG
944751 ATATGAAATGTTACAATAATTAT
1 ATATGAAATGTTACAATAA-T-T
* * *
944774 ATGATGATATATGTTTCTAT-ATG
1 AT-ATGA-A-ATGTTACAATAATT
944797 ATATGAAATGTTACAATAATT
1 ATATGAAATGTTACAATAATT
944818 ATATGAAATG
1 ATATGAAATG
944828 CACAACCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
20 8 0.18
21 13 0.30
22 4 0.09
23 4 0.09
24 5 0.11
25 2 0.05
26 8 0.18
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.40
Consensus pattern (21 bp):
ATATGAAATGTTACAATAATT
Found at i:944787 original size:26 final size:24
Alignment explanation
Indices: 944753--944823 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
944743 TTTTCATGAT
944753 ATGAAATGTTACAATAATTATATG
1 ATGAAATGTTACAATAATTATATG
*
944777 ATGATATATGTTTC--T-A-TATGAT-
1 ATGA-A-ATGTTACAATAATTAT-ATG
944799 ATGAAATGTTACAATAATTATATG
1 ATGAAATGTTACAATAATTATATG
944823 A
1 A
944824 AATGCACAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 16
0.67 0.04 0.29
Matches are distributed among these distances:
20 6 0.16
21 1 0.03
22 8 0.22
23 6 0.16
24 9 0.24
25 1 0.03
26 6 0.16
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.41
Consensus pattern (24 bp):
ATGAAATGTTACAATAATTATATG
Found at i:944799 original size:46 final size:44
Alignment explanation
Indices: 944721--944823 Score: 154
Period size: 46 Copynumber: 2.3 Consensus size: 44
944711 AGAGATAAAT
944721 ATAATATATATGATGTATATGCTTTTCATGATATGAAATGTTACA
1 ATAAT-TATATGATGTATATGCTTTTCATGATATGAAATGTTACA
*
944766 ATAATTATATGATGATATATG-TTTCTATATGATATGAAATGTTACA
1 ATAATTATATGATG-TATATGCTTT-T-CATGATATGAAATGTTACA
944812 ATAATTATATGA
1 ATAATTATATGA
944824 AATGCACAAC
Statistics
Matches: 54, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
44 12 0.22
45 12 0.22
46 30 0.56
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.43
Consensus pattern (44 bp):
ATAATTATATGATGTATATGCTTTTCATGATATGAAATGTTACA
Found at i:945285 original size:66 final size:64
Alignment explanation
Indices: 945197--945357 Score: 191
Period size: 66 Copynumber: 2.5 Consensus size: 64
945187 GAATAAATTG
* ** * * *
945197 AACATCGAATGCATTTTATGCATCGATGCA-TGGTACCATGCATCGATGCACTTAGGGT-TTTAT
1 AACATCGAATGCATTTCATGCATCGATGCACAAGT--CATGCATCGATGCACTCAAGCTATTT-T
945260 GAA
63 G-A
* *
945263 AATATCGAATGCATTTGATGCATCGATGCACAAGTCATGCATCGATGCACTCAAGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGTCATGCATCGATGCACTCAAGCTATTTTGA
*
945327 AACATCGAATGCACTTCATGCATCGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
945358 TCTTAGTGCA
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
64 29 0.35
65 21 0.25
66 31 0.37
67 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGTCATGCATCGATGCACTCAAGCTATTTTGA
Found at i:945357 original size:17 final size:19
Alignment explanation
Indices: 945329--945377 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
945319 TATTTTGAAA
945329 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
945347 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
945366 CACCGATGCACT
1 CATCGATGCACT
945378 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:951205 original size:23 final size:22
Alignment explanation
Indices: 951134--951215 Score: 103
Period size: 23 Copynumber: 3.6 Consensus size: 22
951124 ACACTTAACA
951134 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCA-CCC-TTGAAT
* * *
951158 GTGCATCGATACA-CCATGAAG
1 GTGCATCGATGCACCCTTGAAT
951179 GTGCATCGATGCACGCCTTGAAT
1 GTGCATCGATGCAC-CCTTGAAT
951202 GTGCATCGATGCAC
1 GTGCATCGATGCAC
951216 AAGGCCATGC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
21 16 0.32
22 2 0.04
23 20 0.40
24 12 0.24
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCACCCTTGAAT
Found at i:953529 original size:24 final size:25
Alignment explanation
Indices: 953493--953539 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
953483 TGATTTAACA
953493 AAAAGGGGGAGAAGTGTAAAAGTGT
1 AAAAGGGGGAGAAGTGTAAAAGTGT
*
953518 AAAA-GGGGAGAAGTGTTAAAGT
1 AAAAGGGGGAGAAGTGTAAAAGT
953540 AAAACTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.38, T:0.17
Consensus pattern (25 bp):
AAAAGGGGGAGAAGTGTAAAAGTGT
Found at i:953551 original size:30 final size:30
Alignment explanation
Indices: 953508--953571 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
953498 GGGGAGAAGT
* * *
953508 GTAAAAGTGTAAAAGGGGAGAAGTGTTAAA
1 GTAAAACTATAAAAGGGGAGAAGTATTAAA
953538 GTAAAACTATAAAAGGGGAGAAGTATTAAA
1 GTAAAACTATAAAAGGGGAGAAGTATTAAA
953568 GTAA
1 GTAA
953572 GGGGGAGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.50, C:0.02, G:0.28, T:0.20
Consensus pattern (30 bp):
GTAAAACTATAAAAGGGGAGAAGTATTAAA
Found at i:954115 original size:64 final size:66
Alignment explanation
Indices: 953961--954121 Score: 202
Period size: 64 Copynumber: 2.5 Consensus size: 66
953951 GAATAAATTG
* ** * * *
953961 AACATCGAATGCATTTTATGCATCGATGCA-TGGTACCATGCATCGATGCACTCAGGGTTTTATT
1 AACATCGAATGCATTTCATGCATCGATGCACAAGTA-CATGCATCGATGCACTCAAGCTATTATT
954025 AA
65 AA
* * *
954027 AATATCGAATGCATTTGATGCATCGATGCACAAGT-CATGCATCGATGCACTCAAGCTATT-TTG
1 AACATCGAATGCATTTCATGCATCGATGCACAAGTACATGCATCGATGCACTCAAGCTATTATTA
954090 A
66 A
*
954091 AACATCGAATGCACTTCATGCATCGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
954122 TCTTAGTGCA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
64 31 0.37
65 22 0.27
66 28 0.34
67 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (66 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGTACATGCATCGATGCACTCAAGCTATTATTA
A
Found at i:954121 original size:17 final size:19
Alignment explanation
Indices: 954093--954141 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
954083 TATTTTGAAA
954093 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
954111 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
954130 CACCGATGCACT
1 CATCGATGCACT
954142 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:954137 original size:64 final size:64
Alignment explanation
Indices: 953961--954141 Score: 186
Period size: 64 Copynumber: 2.8 Consensus size: 64
953951 GAATAAATTG
* * * * *
953961 AACATCGAATGCATTTTATGCATCGATGCA-TGGTACCATGCATCGATGCACTCAGGGTTTTATT
1 AACATCGAATGCATTTCATGCATCGATGCACT-GT--TATGCATCGATGCACTCAAGCTATTATT
954025 AA
63 AA
* * * * *
954027 AATATCGAATGCATTTGATGCATCGATGCACAAGTCATGCATCGATGCACTCAAGCTATT-TTGA
1 AACATCGAATGCATTTCATGCATCGATGCAC-TGTTATGCATCGATGCACTCAAGCTATTATTAA
* * *
954091 AACATCGAATGCACTTCATGCATCGATGCACTCTTAGTGCACCGATGCACT
1 AACATCGAATGCATTTCATGCATCGATGCACTGTTA-TGCATCGATGCACT
954142 AAGGGTCCAA
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
63 2 0.02
64 44 0.45
65 22 0.22
66 28 0.29
67 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACTGTTATGCATCGATGCACTCAAGCTATTATTAA
Found at i:956181 original size:199 final size:198
Alignment explanation
Indices: 955819--956214 Score: 553
Period size: 199 Copynumber: 2.0 Consensus size: 198
955809 TCCCAACACG
* * *
955819 ATACATTTTATGTGCAAATTGTTTGAAAATCATACTGGAATAAAAGTATTGATACCTATAAAAAA
1 ATACATTTTACGTGCAAATTGTTTGAAAATCATACTGGAATAAAAATATTGATACATATAAAAAA
* *
955884 TATTGATACTTGGTATTTACGCCTATTATCAATATACCAATAAACTTTTACCGTTTACATTGTTA
66 TATCGATACTTGGTATTTACGCCTATTATCAATATACCAATAAACTTTTACCATTTACATTGTTA
* * *
955949 ATTACCTATTACTTTAAAGTAACATGTTTTCAAAATTCCAAATATCAATACTTTATATATGTGTA
131 ATTACATATTACTTTAAAATAACAAGTTTTCAAAATTCCAAATATCAATACTTTATATATGTGTA
956014 TCA
196 TCA
* * *
956017 ATACATTTTGCGTGCAAATTGTTTGAGAAGT-ATACTGGAATAAAAATATTTATACATATATAAA
1 ATACATTTTACGTGCAAATTGTTTGA-AAATCATACTGGAATAAAAATATTGATACATATA-AAA
* * * ** *
956081 AGTATCGATACTTGGTATTTACGCCTATTATCATTATAGCGGTAGACTTTTACCATTTACATTGT
64 AATATCGATACTTGGTATTTACGCCTATTATCAATATACCAATAAACTTTTACCATTTACATTGT
* * ** *
956146 TAATTTATATATTACTTTAAAATAATAAG-TTTCAAAATTTTAAATATCGATACTTTATATATGT
129 TAA-TTACATATTACTTTAAAATAACAAGTTTTCAAAATTCCAAATATCAATACTTTATATATGT
956210 GTATC
193 GTATC
956215 GATATGAAAT
Statistics
Matches: 173, Mismatches: 22, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
198 50 0.29
199 103 0.60
200 20 0.12
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.40
Consensus pattern (198 bp):
ATACATTTTACGTGCAAATTGTTTGAAAATCATACTGGAATAAAAATATTGATACATATAAAAAA
TATCGATACTTGGTATTTACGCCTATTATCAATATACCAATAAACTTTTACCATTTACATTGTTA
ATTACATATTACTTTAAAATAACAAGTTTTCAAAATTCCAAATATCAATACTTTATATATGTGTA
TCA
Found at i:956759 original size:197 final size:196
Alignment explanation
Indices: 956412--956879 Score: 645
Period size: 197 Copynumber: 2.4 Consensus size: 196
956402 AGCCATTGTT
* * *
956412 TTTATATATGTGTATCGATACATTTTGTGTGCAAATTGTTTGA-AAATCATACTAGAATAAAAAT
1 TTTATATATGTGTATCGATACATTTTGCGTGCAAATTGTTTGAGAAA-CATACTGGAAT--AAGT
* * * * *
956476 ATCTATACCTATAAAAAATATTGATACTTGGTATTTACGCCTATTACCAATATACCGGTAGACTT
63 ATCCATACCTATAAAAAATATCGATACTTGGTATTTACGCATATTACCAATATACCGATAAACTT
956541 TTACCGTTTACATTATTAATTTACCTATTACTTTAAAGTAAAATGTTTC-GAAATTCCAAGTATC
128 TTACCGTTTACATTATTAATTTACCTATTACTTTAAAGTAAAA-GTTTCTGAAATTCCAAGTATC
956605 GATAC
192 GATAC
*
956610 TTTATATATATGTATCGATACATTTTGCGTGCAAATTGTTTGAGAAACATACTGGAAT-AGTATC
1 TTTATATATGTGTATCGATACATTTTGCGTGCAAATTGTTTGAGAAACATACTGGAATAAGTATC
* * * * *
956674 CATACCTATATAAAGAGTATCGATAGTTGGTATTTACGCATATTATCATTATACCGATAAATTTT
66 CATACCTATA-AAA-AATATCGATACTTGGTATTTACGCATATTACCAATATACCGATAAACTTT
* * *
956739 TACCGTTTACATTGTTAATTTATCTATTACTTTAAAGTAATAGTTTCTGAAATTCCAAGTATCGA
129 TACCGTTTACATTATTAATTTACCTATTACTTTAAAGTAAAAGTTTCTGAAATTCCAAGTATCGA
956804 TAC
194 TAC
* * * * *
956807 TTTATATATGTGTATTGATAAATTTTGCATGCAAATTGTTTGAGAATCATATTGGAATAAAAGTA
1 TTTATATATGTGTATCGATACATTTTGCGTGCAAATTGTTTGAGAAACATACTGGAAT--AAGTA
956872 TCCATACC
64 TCCATACC
956880 GGCATAAGAA
Statistics
Matches: 240, Mismatches: 23, Indels: 12
0.87 0.08 0.04
Matches are distributed among these distances:
195 14 0.06
196 8 0.03
197 152 0.63
198 51 0.21
199 3 0.01
200 12 0.05
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (196 bp):
TTTATATATGTGTATCGATACATTTTGCGTGCAAATTGTTTGAGAAACATACTGGAATAAGTATC
CATACCTATAAAAAATATCGATACTTGGTATTTACGCATATTACCAATATACCGATAAACTTTTA
CCGTTTACATTATTAATTTACCTATTACTTTAAAGTAAAAGTTTCTGAAATTCCAAGTATCGATA
C
Found at i:961160 original size:2 final size:2
Alignment explanation
Indices: 961153--961181 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
961143 TATACAAATT
961153 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
961182 GGAATATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:970008 original size:114 final size:112
Alignment explanation
Indices: 969855--970060 Score: 313
Period size: 114 Copynumber: 1.8 Consensus size: 112
969845 ATTCAAAAAT
*
969855 AAATAAAAGCAGTGCATTTTTTTTAAAATTGAAATTGCCATTATGATTAATAAAAGAAAATAAAG
1 AAATAAAAGCAGTGCATTTTTTTTAAAATTGAAACTGCCATTATGATTAATAAAAGAAAATAAAG
**
969920 AGTACTAGCAGGCCGCCACTCCTAACAACGATCATCTCTAGAACTTA
66 AGTACTAGCAGGCCAACACTCCTAACAACGATCATCTCTAGAACTTA
* * * *
969967 AAATAAATGCAGTGTATTTGTTTTTGAAAATTTAAACTGCCATTGTGATTAATAAAAGAAAATAA
1 AAATAAAAGCAGTGCATTT-TTTTT-AAAATTGAAACTGCCATTATGATTAATAAAAGAAAATAA
**
970032 AGAGTGTTAGCAGGCCAACACTCCTAACA
64 AGAGTACTAGCAGGCCAACACTCCTAACA
970061 GCAGTTCAGA
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
112 17 0.20
113 5 0.06
114 61 0.73
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (112 bp):
AAATAAAAGCAGTGCATTTTTTTTAAAATTGAAACTGCCATTATGATTAATAAAAGAAAATAAAG
AGTACTAGCAGGCCAACACTCCTAACAACGATCATCTCTAGAACTTA
Found at i:971386 original size:3 final size:3
Alignment explanation
Indices: 971374--971403 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
971364 TTGAGATCTC
971374 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
971404 TTCATTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:981025 original size:2 final size:2
Alignment explanation
Indices: 981018--981055 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
981008 CTAACACTAC
981018 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
981056 CCGCAAAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:992061 original size:2 final size:2
Alignment explanation
Indices: 992054--992104 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
992044 ATTATTTAAA
* *
992054 AT AT AT AT AT AT AA AT AT AT AA AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
992096 AT AT TT AT A
1 AT AT AT AT A
992105 AATAAAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:992123 original size:23 final size:23
Alignment explanation
Indices: 992088--992131 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
992078 ATATATATAT
*
992088 ATATATATATATTTATAAATAAA
1 ATATATATATATTTAAAAATAAA
* *
992111 ATATTTATTTATTTAAAAATA
1 ATATATATATATTTAAAAATA
992132 TATCAGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATATATATATTTAAAAATAAA
Found at i:992310 original size:2 final size:2
Alignment explanation
Indices: 992303--992348 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
992293 ATTATTTAAA
*
992303 AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
992345 AT AT
1 AT AT
992349 TTATTTATGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:992384 original size:17 final size:17
Alignment explanation
Indices: 992362--992428 Score: 54
Period size: 17 Copynumber: 4.1 Consensus size: 17
992352 TTTATGTGAT
992362 TAATATGAAAA-TAATAA
1 TAATAT-AAAAGTAATAA
992379 TAATATAAAAGTAATAA
1 TAATATAAAAGTAATAA
* *
992396 CAA-AT-TAA-TAAT-A
1 TAATATAAAAGTAATAA
*
992409 TAAATTTAAAAGTAATAA
1 T-AATATAAAAGTAATAA
992427 TA
1 TA
992429 TTAAATTGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
13 1 0.03
14 6 0.15
15 3 0.08
16 8 0.21
17 19 0.49
18 2 0.05
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (17 bp):
TAATATAAAAGTAATAA
Found at i:993982 original size:112 final size:112
Alignment explanation
Indices: 993840--994732 Score: 1095
Period size: 112 Copynumber: 8.0 Consensus size: 112
993830 ATAGAGTCAT
993840 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
* * * *
993905 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
66 TTATGAACTCTATCTGGAAAAGCTGATCCATCAAATGATGAATTTAA
* *
993952 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTC
* * * * *
994017 ATTATGAATTTTTTCTGGAAAAGCTGATCCATCAAGTGATGAATTCAA
65 ATTATGAACTCTATCTGGAAAAGCTGATCCATCAAATGATGAATTTAA
* * *
994065 GTAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
* ** * * *
994130 TTATGAACTCTAACT-GACACTGTTGATCCATCGAATGATGAATTCAA
66 TTATGAACTCTATCTGGA-AAAGCTGATCCATCAAATGATGAATTTAA
* * *
994177 GTAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTC-T--TCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
* * * * *
994239 TTATGAACT-TCTCTGGAAAAGCTGCTCCATCAAGTGATGGATTTGA
66 TTATGAACTCTATCTGGAAAAGCTGATCCATCAAATGATGAATTTAA
* *
994285 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA--T-TTCTTCTTCTTCAGATGACGAGTTCTTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT---GAGTTCTTC
* * * * *
994347 TCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAA
63 TCATTATGAACTCTATCTGGAAAAGCTGATCCATCAAATGATGAATTTAA
* * * * *
994397 ACAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCATTCTTTAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-CTCTTCAGATGAGTTCTTCTC
* * * *
994462 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
65 ATTATGAACTCTATCTGGAAAAGCTGATCCATCAAATGATGAATTTAA
* * *
994510 GCAAAAGATTGAACAAGTTCTTCTTATTTTGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTC
* * * * * *
994575 ATTATGAACTCGACCTGGTAATG-TGATCCATCGAATGATGAATTCAA
65 ATTATGAACTCTATCTGGAAAAGCTGATCCATCAAATGATGAATTTAA
994622 GCGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 GC-AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCT
* * * * ** *
994686 CATTATGAACTCGACCTGGTAATGCTGATCCATTGAATGATGGATTT
64 CATTATGAACTCTATCTGGAAAAGCTGATCCATCAAATGATGAATTT
994733 GAACTTTGCT
Statistics
Matches: 684, Mismatches: 80, Indels: 33
0.86 0.10 0.04
Matches are distributed among these distances:
105 3 0.00
106 2 0.00
108 61 0.09
109 32 0.05
111 24 0.04
112 296 0.43
113 250 0.37
114 1 0.00
115 6 0.01
116 9 0.01
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (112 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
TTATGAACTCTATCTGGAAAAGCTGATCCATCAAATGATGAATTTAA
Found at i:994216 original size:17 final size:17
Alignment explanation
Indices: 994194--994250 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
994184 GTTGAACAAG
994194 TTCTTCTTATTATGAAC
1 TTCTTCTTATTATGAAC
* *
994211 TTCTTCTTCTTCA-GATGAG
1 TTCTTCTTATT-ATGA--AC
*
994230 TTCTTCTCATTATGAAC
1 TTCTTCTTATTATGAAC
994247 TTCT
1 TTCT
994251 CTGGAAAAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
17 17 0.55
18 2 0.06
19 12 0.39
ACGTcount: A:0.19, C:0.21, G:0.09, T:0.51
Consensus pattern (17 bp):
TTCTTCTTATTATGAAC
Found at i:994606 original size:225 final size:225
Alignment explanation
Indices: 993840--994734 Score: 1193
Period size: 225 Copynumber: 4.0 Consensus size: 225
993830 ATAGAGTCAT
*
993840 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
* ** * * * * **
993905 TTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAAT
66 TTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAAT
* * *
993970 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAATTTTTTCTGG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* * **
994035 AAAAGCTGATCCATCAAGTGATGAATTCAA
196 AAAAGCTGATCCATCAAATGATGGATTTGA
* *
994065 GTAAAA-AGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTC
1 GCAAAAGA-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTC
* * * * * * *
994129 ATTATGAACTCTAACTGACACTGTTGATCCATCGAATGATGAATTCAAGTAAAAAGTTGAACAAG
65 ATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
*
994194 TTCTTCTTATTATGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTG
130 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
994254 GAAAAGCTGCTCCATCAAGTGATGGATTTGA
195 GAAAAGCTGATCCATCAAATGATGGATTTGA
* * *
994285 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA--T-TTCTTCTTCTTCAGATGACGAGTTCTTC
1 GCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT---GAGTTCTTC
* * *
994347 TCATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACA
63 TCATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACA
* * *
994412 AATTCTTCTTATTATGAACTTCTTCTTCATTCTTTAGATGAGTTCTTCTCATTATGAACTTTCTC
128 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
994477 TGGAAAAGCTGATCCATCAAATGATGGATTTGA
193 TGGAAAAGCTGATCCATCAAATGATGGATTTGA
* *
994510 GCAAAAGATTGAACAAGTTCTTCTTATTTTGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTC
* * *
994575 ATTATGAACTCGACCTGGTAATG-TGATCCATCGAATGATGAATTCAAGCGAAAA-GTTGAACAA
65 ATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGC-AAAAGGTTGAACAA
* **
994638 GTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAC-C
129 ATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTC
* * **
994702 TGGTAATGCTGATCCATTGAATGATGGATTTGA
193 TGGAAAAGCTGATCCATCAAATGATGGATTTGA
994735 ACTTTGCTAA
Statistics
Matches: 589, Mismatches: 65, Indels: 32
0.86 0.09 0.05
Matches are distributed among these distances:
217 15 0.03
218 1 0.00
220 143 0.24
221 30 0.05
222 6 0.01
223 6 0.01
224 29 0.05
225 306 0.52
226 37 0.06
227 1 0.00
228 6 0.01
229 9 0.02
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (225 bp):
GCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
TTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAAT
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGCTGATCCATCAAATGATGGATTTGA
Found at i:995161 original size:22 final size:22
Alignment explanation
Indices: 995136--995190 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
995126 GATAAAGCTT
*
995136 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
995158 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
995180 TCATCTTTGAA
1 TCATCTTTGAA
995191 GAATGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:995665 original size:40 final size:40
Alignment explanation
Indices: 995610--995688 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
995600 TTCAGCTCAT
995610 ATGTAAAACACTTGACAACACATTCATCCTTTTCTGTGGG
1 ATGTAAAACACTTGACAACACATTCATCCTTTTCTGTGGG
995650 ATGTAAAACACTTGACAACACATTCATCCTTTTCTGTGG
1 ATGTAAAACACTTGACAACACATTCATCCTTTTCTGTGG
995689 CTTCTGCTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (40 bp):
ATGTAAAACACTTGACAACACATTCATCCTTTTCTGTGGG
Found at i:995719 original size:54 final size:54
Alignment explanation
Indices: 995652--995755 Score: 181
Period size: 54 Copynumber: 1.9 Consensus size: 54
995642 TCTGTGGGAT
*
995652 GTAAAACACTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGATGTTC
1 GTAAAACACTTGACAACACATTCATCCTTTTCTATGGCTTCTGCTCAGATGTTC
* *
995706 GTAAAGCATTTGACAACACATTCATCCTTTTCTATGGCTTCTGCTCAGAT
1 GTAAAACACTTGACAACACATTCATCCTTTTCTATGGCTTCTGCTCAGAT
995756 TTCTCAATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (54 bp):
GTAAAACACTTGACAACACATTCATCCTTTTCTATGGCTTCTGCTCAGATGTTC
Found at i:998074 original size:93 final size:92
Alignment explanation
Indices: 997911--998100 Score: 272
Period size: 93 Copynumber: 2.1 Consensus size: 92
997901 CTACTATGAT
* * * ** * *
997911 CACATTCATCTTTCGAATTCAATGATTGGTTCTGTGGTTTCTACCGAACAAGATCAGATAACTCA
1 CACATTCATATTTCAAATCCAATGATTGGTTCTCAGGGTTCTACCAAACAAGATCAGATAACTCA
997976 AAGAACACTTCCAGAAGATGCTACGAG
66 AAGAACACTTCCAGAAGATGCTACGAG
* * *
998003 CACATTCATATTTCAAATCCAATGATTGGTTTTCAGGGTTCATATCAAACCAGATCAGATAACTC
1 CACATTCATATTTCAAATCCAATGATTGGTTCTCAGGGTTC-TACCAAACAAGATCAGATAACTC
*
998068 AAAGAACACTTCCAGAAGATGCTATGAG
65 AAAGAACACTTCCAGAAGATGCTACGAG
998096 CACAT
1 CACAT
998101 GGCCACTTGT
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
92 34 0.40
93 52 0.60
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (92 bp):
CACATTCATATTTCAAATCCAATGATTGGTTCTCAGGGTTCTACCAAACAAGATCAGATAACTCA
AAGAACACTTCCAGAAGATGCTACGAG
Found at i:1004880 original size:13 final size:13
Alignment explanation
Indices: 1004864--1004912 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
1004854 TTAATTCTTG
1004864 AATATAATAAATA
1 AATATAATAAATA
*
1004877 AATAAAATAAA-A
1 AATATAATAAATA
*
1004889 AATAATAATATATA
1 AAT-ATAATAAATA
*
1004903 AAAATAATAA
1 AATATAATAA
1004913 GTAATAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 4 0.14
13 22 0.76
14 3 0.10
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AATATAATAAATA
Found at i:1004891 original size:16 final size:15
Alignment explanation
Indices: 1004867--1004924 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 15
1004857 ATTCTTGAAT
*
1004867 ATAATAAATAAATAAA
1 ATAAAAAAT-AATAAA
*
1004883 ATAAAAAATAATAAT
1 ATAAAAAATAATAAA
1004898 ATATAAAAATAATAAGTA
1 ATA-AAAAATAATAA--A
1004916 ATAAAAAAT
1 ATAAAAAAT
1004925 TTTGAAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
15 8 0.22
16 19 0.53
17 6 0.17
18 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (15 bp):
ATAAAAAATAATAAA
Found at i:1004906 original size:23 final size:23
Alignment explanation
Indices: 1004867--1004924 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
1004857 ATTCTTGAAT
1004867 ATAATAAATAAATAAAATAAAAA
1 ATAATAAATAAATAAAATAAAAA
* *
1004890 ATAAT-AATATATAAAAATAATAA
1 ATAATAAATAAAT-AAAATAAAAA
*
1004913 GTAATAAA-AAAT
1 ATAATAAATAAAT
1004925 TTTGAAAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 6 0.21
23 21 0.72
24 2 0.07
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (23 bp):
ATAATAAATAAATAAAATAAAAA
Found at i:1005459 original size:2 final size:2
Alignment explanation
Indices: 1005452--1005484 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1005442 ATTTAAAATG
*
1005452 TA TA TA TA -A TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1005485 AATAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1005494 original size:21 final size:21
Alignment explanation
Indices: 1005468--1005509 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
1005458 TAATATATAT
*
1005468 ATATATATATATTTATAAATAAA
1 ATAT-TAT-TATTTAAAAATAAA
1005491 ATATTATTATTTAAAAATA
1 ATATTATTATTTAAAAATA
1005510 TCAGAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 3 0.17
23 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTATTATTTAAAAATAAA
Found at i:1005678 original size:2 final size:2
Alignment explanation
Indices: 1005671--1005706 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1005661 ATTATTTAAA
*
1005671 AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1005707 TTATTTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1005684 original size:22 final size:22
Alignment explanation
Indices: 1005641--1005713 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
1005631 TTTTCTTTGA
* * * *
1005641 TATTGAAAATAAATAAACATAT
1 TATTTAAAATATATATATATAT
1005663 TATTTAAAATATATATATATA-
1 TATTTAAAATATATATATATAT
** *
1005684 TAAATATATATATATATATATATT
1 TATTTA-AAATATATATATATA-T
1005708 TATTTA
1 TATTTA
1005714 TTTATGTGAT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 4 0.10
22 31 0.79
24 4 0.10
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (22 bp):
TATTTAAAATATATATATATAT
Found at i:1005699 original size:18 final size:18
Alignment explanation
Indices: 1005649--1005703 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
1005639 GATATTGAAA
* *
1005649 ATAAATAAACATAT-TAT
1 ATAAATATATATATATAT
*
1005666 TTAAA-ATATATATATAT
1 ATAAATATATATATATAT
1005683 ATAAATATATATATATAT
1 ATAAATATATATATATAT
1005701 ATA
1 ATA
1005704 TATTTATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 6 0.19
17 11 0.34
18 15 0.47
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAATATATATATATAT
Found at i:1005746 original size:17 final size:17
Alignment explanation
Indices: 1005724--1005790 Score: 54
Period size: 17 Copynumber: 4.1 Consensus size: 17
1005714 TTTATGTGAT
1005724 TAATATGAAAA-TAATAA
1 TAATAT-AAAAGTAATAA
1005741 TAATATAAAAGTAATAA
1 TAATATAAAAGTAATAA
* *
1005758 CAA-AT-TAA-TAAT-A
1 TAATATAAAAGTAATAA
*
1005771 TAAATTTAAAAGTAATAA
1 T-AATATAAAAGTAATAA
1005789 TA
1 TA
1005791 TTAAATTGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
13 1 0.03
14 6 0.15
15 3 0.08
16 8 0.21
17 19 0.49
18 2 0.05
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (17 bp):
TAATATAAAAGTAATAA
Found at i:1006659 original size:14 final size:14
Alignment explanation
Indices: 1006640--1006666 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1006630 GTTTCTGTTT
1006640 TTTCTTTTTTTTTC
1 TTTCTTTTTTTTTC
1006654 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
1006667 TGGTGCCCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTCTTTTTTTTTC
Found at i:1007426 original size:38 final size:39
Alignment explanation
Indices: 1007375--1007454 Score: 144
Period size: 38 Copynumber: 2.1 Consensus size: 39
1007365 CTGATACATA
1007375 GTCTCTCATCCTAAACGGTGGTATTC-TATTCTCTCTTC
1 GTCTCTCATCCTAAACGGTGGTATTCTTATTCTCTCTTC
*
1007413 GTCTCTCATCCTAAACGGTGGTATTCTTTTTCTCTCTTC
1 GTCTCTCATCCTAAACGGTGGTATTCTTATTCTCTCTTC
1007452 GTC
1 GTC
1007455 GATACTAGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
38 26 0.65
39 14 0.35
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.44
Consensus pattern (39 bp):
GTCTCTCATCCTAAACGGTGGTATTCTTATTCTCTCTTC
Found at i:1013671 original size:224 final size:225
Alignment explanation
Indices: 1013257--1013706 Score: 861
Period size: 224 Copynumber: 2.0 Consensus size: 225
1013247 AGCCGGGTCT
1013257 TATGTTTCTGTCTATATGCAGAGATTCTTTCGCAGGGATTATATGCAGGGATTAATTCCCGTTAC
1 TATGTTTCTGTCTATATGCAGAGATTCTTTCGCAGGGATTATATGCAGGGATTAATTCCCGTTAC
1013322 AGACGCACATATGATTTTAATGACTGCATATGAATATTGTTAGCTATGTATTTATTTATATATGC
66 AGACGCACATATGATTTTAATGACTGCATATGAATATTGTTAGCTATGTATTTATTTATATATGC
1013387 ACTGCATTTTATCTATATTTTAATTTTCTGACTGCCGGAGGTCTTCCACGGAAGCTACTCTCAAC
131 ACTGCATTTTATCTATATTTTAATTTTCTGACTGCCGGAGGTCTTCCACGGAAGCTACTCTCAAC
1013452 CTGGCGTTGGGAGCAGCCTACTACCCTACC
196 CTGGCGTTGGGAGCAGCCTACTACCCTACC
1013482 TATGTTTCTGTCTATATGCAGAGATTCTTTCGCAGGGATTATTATGCAGGGATTAATTCCCGTTA
1 TATGTTTCTGTCTATATGCAGAGATTCTTTCGCAGGGATTA-TATGCAGGGATTAATTCCCGTTA
1013547 CAGACGCACATATGA-TTTAATGACTGCATATGAATATTGTTTAGCTATGTATTTA-TT-TATAT
65 CAGACGCACATATGATTTTAATGACTGCATATGAATATTG-TTAGCTATGTATTTATTTATATAT
1013609 GCACTGCATTTTATCTATATTTTAATTTTCTGACTGCCGGAGGTCTTCCACGGAAGCTACTCTCA
129 GCACTGCATTTTATCTATATTTTAATTTTCTGACTGCCGGAGGTCTTCCACGGAAGCTACTCTCA
1013674 ACCTGGCGTTGGGAGCAGCCTACTACCCTACC
194 ACCTGGCGTTGGGAGCAGCCTACTACCCTACC
1013706 T
1 T
1013707 CCCCCTTACC
Statistics
Matches: 223, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
224 103 0.46
225 67 0.30
226 53 0.24
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (225 bp):
TATGTTTCTGTCTATATGCAGAGATTCTTTCGCAGGGATTATATGCAGGGATTAATTCCCGTTAC
AGACGCACATATGATTTTAATGACTGCATATGAATATTGTTAGCTATGTATTTATTTATATATGC
ACTGCATTTTATCTATATTTTAATTTTCTGACTGCCGGAGGTCTTCCACGGAAGCTACTCTCAAC
CTGGCGTTGGGAGCAGCCTACTACCCTACC
Found at i:1014690 original size:26 final size:27
Alignment explanation
Indices: 1014661--1014719 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
1014651 ATTGGGCCTG
1014661 TAAAAATTATT-TAATAATAATAATAA
1 TAAAAATTATTATAATAATAATAATAA
* * *
1014687 T-AAAATTATTATAATAATTATTATTA
1 TAAAAATTATTATAATAATAATAATAA
1014713 TAAAAAT
1 TAAAAAT
1014720 AAAATCAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.32
26 14 0.50
27 5 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
TAAAAATTATTATAATAATAATAATAA
Found at i:1014705 original size:12 final size:12
Alignment explanation
Indices: 1014665--1014715 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
1014655 GGCCTGTAAA
1014665 AATTATT-TAAT
1 AATTATTATAAT
* *
1014676 AATAATAATAAT
1 AATTATTATAAT
1014688 AAAATTATTATAAT
1 --AATTATTATAAT
*
1014702 AATTATTATTAT
1 AATTATTATAAT
1014714 AA
1 AA
1014716 AAATAAAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
11 5 0.16
12 17 0.53
14 10 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTATTATAAT
Found at i:1015719 original size:113 final size:113
Alignment explanation
Indices: 1015043--1015716 Score: 1016
Period size: 113 Copynumber: 6.0 Consensus size: 113
1015033 GATAGTGTCG
* * * *
1015043 AGCAAAAGGTTGAACAAATTCTTCTCATTAGGAACTTCTTCTTCC-TCTTCAGATAAGTTATTCT
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * * * *
1015107 CATTATAAACT-T-CTCTGGAAATGTTGATTCATCGAGTGATGAATTCG
66 CATTATGAACTCTAC-CTGGCAATGTTGATCCATCGAATGATGAATTCA
* * * *
1015154 AGTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAATTCTTCT
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * * *
1015219 CATTATGAACTCTAACTGGCAATGTTAATCCATCGAGTGATGAATTAA
66 CATTATGAACTCTACCTGGCAATGTTGATCCATCGAATGATGAATTCA
*
1015267 AGCAAAATGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * *
1015332 CATTATGAACTCTACCTGACAATGCTGATCCATC-AAGTGATGAATTCG
66 CATTATGAACTCTACCTGGCAATGTTGATCCATCGAA-TGATGAATTCA
1015380 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1015445 CATTATGAACTCTACCTGGCAATGTTGATCCATCGAATGATGAATTCA
66 CATTATGAACTCTACCTGGCAATGTTGATCCATCGAATGATGAATTCA
* * *
1015493 AGCGAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTATTCTTCCTTCTTCAGATGATTTCTTC
1 AGC-AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
*
1015557 TCATTATGAACTCTACCTGGCAATGTTGATCCATCGAATGATGAATTTA
65 TCATTATGAACTCTACCTGGCAATGTTGATCCATCGAATGATGAATTCA
* *
1015606 AGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTATTCAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * *
1015671 CATTATGAACTCTACCTAGCAATGCTGATCCATTGAATGATGAATT
66 CATTATGAACTCTACCTGGCAATGTTGATCCATCGAATGATGAATT
1015717 TAAATCTTTG
Statistics
Matches: 518, Mismatches: 38, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
111 43 0.08
112 32 0.06
113 437 0.84
114 6 0.01
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
CATTATGAACTCTACCTGGCAATGTTGATCCATCGAATGATGAATTCA
Found at i:1016565 original size:48 final size:48
Alignment explanation
Indices: 1016509--1016632 Score: 158
Period size: 50 Copynumber: 2.5 Consensus size: 48
1016499 ATATGGTTTA
* **
1016509 TAAAACATTCGACAACACATTTATCCAGTTGTGGATTCTGCTCAGATG
1 TAAAACATTTGACAACACATTTATCCACCTGTGGATTCTGCTCAGATG
*** *
1016557 TAAAACATTTGACAACACATTCATATTTTCCTGTGGCTTCTGCTCAGATG
1 TAAAACATTTGACAACACATT--TATCCACCTGTGGATTCTGCTCAGATG
*
1016607 TAAAACATTTGACAACACATTCATCC
1 TAAAACATTTGACAACACATTTATCC
1016633 TTTCTTGTGG
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
48 22 0.34
50 42 0.66
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (48 bp):
TAAAACATTTGACAACACATTTATCCACCTGTGGATTCTGCTCAGATG
Found at i:1016608 original size:50 final size:50
Alignment explanation
Indices: 1016538--1016649 Score: 188
Period size: 50 Copynumber: 2.2 Consensus size: 50
1016528 TTTATCCAGT
* *
1016538 TGTGGATTCTGCTCAGATGTAAAACATTTGACAACACATTCATATTTTCC
1 TGTGGCTTCTGCTCAGATGTAAAACATTTGACAACACATTCATACTTTCC
* *
1016588 TGTGGCTTCTGCTCAGATGTAAAACATTTGACAACACATTCATCCTTTCT
1 TGTGGCTTCTGCTCAGATGTAAAACATTTGACAACACATTCATACTTTCC
1016638 TGTGGCTTCTGC
1 TGTGGCTTCTGC
1016650 CTGGATTTCT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (50 bp):
TGTGGCTTCTGCTCAGATGTAAAACATTTGACAACACATTCATACTTTCC
Found at i:1020231 original size:30 final size:30
Alignment explanation
Indices: 1020195--1020255 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
1020185 AAAATGATTG
* *
1020195 TTATGCTTATCTGTAGAGATACTTCTCGTT
1 TTATGCTCATCTATAGAGATACTTCTCGTT
*
1020225 TTATGCTCATCTATAGAGATACTTCTTGTT
1 TTATGCTCATCTATAGAGATACTTCTCGTT
1020255 T
1 T
1020256 CCAGACTCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.48
Consensus pattern (30 bp):
TTATGCTCATCTATAGAGATACTTCTCGTT
Found at i:1020711 original size:20 final size:21
Alignment explanation
Indices: 1020686--1020727 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
1020676 CTTGGTTCAA
1020686 TTTTTTCCTTTTT-CTTTTTT
1 TTTTTTCCTTTTTCCTTTTTT
**
1020706 TTTTTTTTTTTTTCCTTTTTT
1 TTTTTTCCTTTTTCCTTTTTT
1020727 T
1 T
1020728 CAAGTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (21 bp):
TTTTTTCCTTTTTCCTTTTTT
Found at i:1024110 original size:18 final size:18
Alignment explanation
Indices: 1024089--1024126 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
1024079 TTGCCAAAAA
1024089 AAGATGGGTTGCAATAAT
1 AAGATGGGTTGCAATAAT
1024107 AAGATGGGTTGCAATAAT
1 AAGATGGGTTGCAATAAT
1024125 AA
1 AA
1024127 AATGTATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.26
Consensus pattern (18 bp):
AAGATGGGTTGCAATAAT
Found at i:1024324 original size:23 final size:23
Alignment explanation
Indices: 1024298--1024361 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 23
1024288 CAGCTCATAT
1024298 AATTGCACCTAAGTGCCA-CGTAG
1 AATTGCACCT-AGTGCCAGCGTAG
*
1024321 AATTGCACCGGAGTG-CAGCGTAG
1 AATTGCACC-TAGTGCCAGCGTAG
1024344 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
1024362 TATAATAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
22 2 0.06
23 32 0.89
24 2 0.06
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (23 bp):
AATTGCACCTAGTGCCAGCGTAG
Found at i:1024545 original size:102 final size:102
Alignment explanation
Indices: 1024377--1024592 Score: 398
Period size: 102 Copynumber: 2.1 Consensus size: 102
1024367 TAATGTCCAT
1024377 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1024442 GACCTC-CACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCC-AAGAATACATATATGTCCCG
*
1024479 AATGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
1024544 GACTTCACACATGTTCCAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAGAATACATATATGTCCCG
1024581 AAGGACCACATA
1 AAGGACCACATA
1024593 GACCCTCTAC
Statistics
Matches: 110, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
102 100 0.91
103 10 0.09
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (102 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAGAATACATATATGTCCCG
Found at i:1025089 original size:18 final size:18
Alignment explanation
Indices: 1025063--1025097 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1025053 TTTTATTATA
*
1025063 GGGGAATCGGTTCCCCTG
1 GGGGAATCGATTCCCCTG
*
1025081 GGGGTATCGATTCCCCT
1 GGGGAATCGATTCCCCT
1025098 CTAGCATTCT
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:0.11, C:0.29, G:0.34, T:0.26
Consensus pattern (18 bp):
GGGGAATCGATTCCCCTG
Found at i:1032030 original size:20 final size:20
Alignment explanation
Indices: 1032007--1032045 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1031997 TCATATTCGT
*
1032007 TTGAGGGGGTATCGATTCCC
1 TTGAAGGGGTATCGATTCCC
*
1032027 TTGAATGGGTATCGATTCC
1 TTGAAGGGGTATCGATTCC
1032046 TTAGCCAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.31, T:0.33
Consensus pattern (20 bp):
TTGAAGGGGTATCGATTCCC
Found at i:1032838 original size:30 final size:30
Alignment explanation
Indices: 1032803--1032866 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
1032793 AGCTTATAGG
*
1032803 CCATATTGCTTGTCTGGACTGCAGCTTCTT
1 CCATATTGCTTATCTGGACTGCAGCTTCTT
1032833 CCATATTGCTTATCTGGACTGCAGCTTCTT
1 CCATATTGCTTATCTGGACTGCAGCTTCTT
1032863 CCAT
1 CCAT
1032867 GACATTCTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.16, C:0.28, G:0.17, T:0.39
Consensus pattern (30 bp):
CCATATTGCTTATCTGGACTGCAGCTTCTT
Done.