Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 718 of 770
Found at i:226965529 original size:115 final size:116
Alignment explanation
Indices: 226965220--226965618 Score: 719
Period size: 116 Copynumber: 3.4 Consensus size: 116
226965210 GCTCAACTCA
* *
226965220 CTCAGCGTGTCCTGAAGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
1 CTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
*
226965285 AAAGGCTTAACTCACCTTTCGCAATATGAGTCAATTTAAAACTAAAAATAC
66 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
* *
226965336 CTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAGAAATAA
1 CTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
226965401 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
66 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
226965452 CTCAGCGTG-CCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
1 CTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
226965516 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
66 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
** *
226965567 CTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 CTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGA
226965619 CGAACAGAAA
Statistics
Matches: 273, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
115 114 0.42
116 159 0.58
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (116 bp):
CTCAGCGTGTCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
Found at i:226965638 original size:14 final size:14
Alignment explanation
Indices: 226965621--226965649 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
226965611 GATTTTGACG
226965621 AACAGAAATTGAAA
1 AACAGAAATTGAAA
226965635 AACAGAAATTGAAA
1 AACAGAAATTGAAA
226965649 A
1 A
226965650 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:226965766 original size:78 final size:79
Alignment explanation
Indices: 226965635--226965782 Score: 237
Period size: 78 Copynumber: 1.9 Consensus size: 79
226965625 GAAATTGAAA
*
226965635 AACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAATACCTCA-CGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
226965700 ATTTTTTTTTTGATG
65 ATTTTTTTTTTGATG
* *
226965715 AACAGAAATT-AAAATTACCTCA-GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AACAGAAATTGAAAA-TACCTCACGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
226965778 ATTTT
65 ATTTT
226965783 GACGAACAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
78 43 0.67
79 4 0.06
80 17 0.27
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (79 bp):
AACAGAAATTGAAAATACCTCACGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
TTTTTTTTTTGATG
Found at i:226965854 original size:165 final size:166
Alignment explanation
Indices: 226965558--226965863 Score: 578
Period size: 165 Copynumber: 1.8 Consensus size: 166
226965548 AATTTAAAAC
*
226965558 TAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
1 TAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
226965623 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
66 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
226965688 CAATATGAGTTAATTTTTTTTTTGATGAACAGAAAT
131 CAATATGAGTTAATTTTTTTTTTGATGAACAGAAAT
*
226965724 TAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
1 TAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
*
226965789 CA-AAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACTTCTCG
66 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
226965853 CAATATGAGTT
131 CAATATGAGTT
226965864 GATTCTTTGG
Statistics
Matches: 137, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
165 72 0.53
166 65 0.47
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (166 bp):
TAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTAATTTTTTTTTTGATGAACAGAAAT
Found at i:226978856 original size:20 final size:21
Alignment explanation
Indices: 226978813--226978858 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
226978803 ACTGTTCTGT
226978813 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
226978833 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
226978852 TATGGGC
1 TATGGGC
226978859 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:226978999 original size:27 final size:28
Alignment explanation
Indices: 226978947--226978999 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
226978937 TTACTGTAAG
* *
226978947 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
226978975 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
226979000 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:226984314 original size:20 final size:21
Alignment explanation
Indices: 226984271--226984316 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
226984261 GACTGTTTGT
226984271 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
226984291 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
226984310 TATGGGC
1 TATGGGC
226984317 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:226984457 original size:27 final size:28
Alignment explanation
Indices: 226984405--226984457 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
226984395 TTACTGTAAG
* *
226984405 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
226984433 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
226984458 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:226985380 original size:3 final size:3
Alignment explanation
Indices: 226985372--226985432 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
226985362 ACAAGGATAT
226985372 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
226985420 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
226985433 NNNNNNNNNN
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:226988226 original size:43 final size:43
Alignment explanation
Indices: 226988179--226988295 Score: 150
Period size: 43 Copynumber: 2.7 Consensus size: 43
226988169 TAACACATAT
*
226988179 CGATGCCACTGTCCCAGACAGGGTCTTACACGAAATCGAT-TAA
1 CGATGCCACTGTCCCAGACATGGTCTTACACGAAATC-ATATAA
* *
226988222 CGATGTCGA-TGTCCCAGACATGGTCTTACACGTAATCATATAA
1 CGATG-CCACTGTCCCAGACATGGTCTTACACGAAATCATATAA
*
226988265 TGATGCC-CATGTCCCAGACATGGTCTTACAC
1 CGATGCCAC-TGTCCCAGACATGGTCTTACAC
226988296 ATAATTAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
42 3 0.05
43 60 0.92
44 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (43 bp):
CGATGCCACTGTCCCAGACATGGTCTTACACGAAATCATATAA
Found at i:226996971 original size:28 final size:28
Alignment explanation
Indices: 226996921--226997022 Score: 127
Period size: 28 Copynumber: 3.6 Consensus size: 28
226996911 TGTGGTCCAC
* *
226996921 TAGGCCCAATCTC-TTTCAAATGGCCCAT
1 TAGGCCCAATCACATTT-ATATGGCCCAT
*
226996949 TAGGCCCATTCACATTTATATGGCCCAT
1 TAGGCCCAATCACATTTATATGGCCCAT
* *
226996977 TAGGCCCAATCACATTCATATGG-CCAC
1 TAGGCCCAATCACATTTATATGGCCCAT
226997004 TAGGCCCAAATCACATTTA
1 TAGGCCC-AATCACATTTA
226997023 CAGTCATGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 10 0.15
28 52 0.80
29 3 0.05
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.27
Consensus pattern (28 bp):
TAGGCCCAATCACATTTATATGGCCCAT
Found at i:226999571 original size:29 final size:29
Alignment explanation
Indices: 226999538--226999640 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
226999528 GTGACGAGAT
226999538 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
226999567 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
226999596 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
226999625 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
226999641 AGCTCGGAGG
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:227007522 original size:29 final size:29
Alignment explanation
Indices: 227007489--227007591 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
227007479 GTGACGAGAT
227007489 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
227007518 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
227007547 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
227007576 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
227007592 AGCTCGGAGG
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:227011739 original size:79 final size:79
Alignment explanation
Indices: 227011603--227011845 Score: 305
Period size: 79 Copynumber: 3.1 Consensus size: 79
227011593 TCGAATGATG
* * * *
227011603 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
*
227011666 TTGTGCGAGTTACTAAT
64 TTGTGCGAG-TACTAAA
* *
227011683 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
227011747 GTGCGAGTACTAAA
66 GTGCGAGTACTAAA
* *
227011761 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
** *
227011825 TGAACGAGTAGCTATA
65 TGTGCGAGTA-CTAAA
227011841 TCCGG
1 TCCGG
227011846 TTAAATTCCG
Statistics
Matches: 144, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
78 17 0.12
79 99 0.69
80 28 0.19
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTACTAAA
Found at i:227011840 original size:40 final size:40
Alignment explanation
Indices: 227011603--227011826 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
227011593 TCGAATGATG
* * *
227011603 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
227011643 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
227011683 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
227011722 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
227011761 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
227011802 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
227011827 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
39 74 0.45
40 82 0.49
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:227020242 original size:46 final size:46
Alignment explanation
Indices: 227020192--227020367 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
227020182 TGGTTGAGCA
227020192 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
227020238 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
227020283 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
227020331 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
227020368 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:227020348 original size:93 final size:93
Alignment explanation
Indices: 227020189--227020360 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
227020179 GGATGGTTGA
* *
227020189 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
227020254 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
227020282 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
227020347 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
227020361 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:227027820 original size:46 final size:46
Alignment explanation
Indices: 227027770--227027945 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
227027760 TGGTTGAGCA
227027770 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
227027816 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
227027861 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
227027909 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
227027946 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:227027926 original size:93 final size:93
Alignment explanation
Indices: 227027767--227027938 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
227027757 GGATGGTTGA
* *
227027767 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
227027832 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
227027860 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
227027925 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
227027939 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:227031135 original size:40 final size:39
Alignment explanation
Indices: 227030968--227031137 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
227030958 AGAAATTGAA
*
227030968 TGATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
227031007 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
227031047 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
227031087 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
227031127 TGATATCCGGG
1 TGATATCCGGG
227031138 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 16, Indels: 15
0.78 0.12 0.11
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 18 0.17
40 81 0.76
41 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:227034989 original size:40 final size:40
Alignment explanation
Indices: 227034932--227035117 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
227034922 TCGAATGATG
* * * *
227034932 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
227034972 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
227035012 TCCGGACTAAGAT-CCGAAGACATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
227035052 TCCGGGA-TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCC-GGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
227035093 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
227035118 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 10, Indels: 12
0.86 0.07 0.08
Matches are distributed among these distances:
39 3 0.02
40 114 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:227035131 original size:40 final size:40
Alignment explanation
Indices: 227034985--227035136 Score: 107
Period size: 40 Copynumber: 3.8 Consensus size: 40
227034975 GGACTAAGAT
** *
227034985 CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
* ** *
227035025 CCGAAGACATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
227035065 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
227035105 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
227035137 TGAAACTCCG
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 91 0.92
41 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:227035135 original size:80 final size:81
Alignment explanation
Indices: 227034966--227035136 Score: 192
Period size: 80 Copynumber: 2.1 Consensus size: 81
227034956 GTGCTAAGTG
*
227034966 ACTATATCC-GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAA
1 ACTATATCCGGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAA
**
227035030 GACATTTGTGCGAGTT
66 GACATTTGAACGAGTT
* * *
227035046 ACTAAATCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCC
1 ACTATATCCGGGACTAAGAT-CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CC
**
227035107 GAAGGTATTTGAACGAG-T
63 GAAGACATTTGAACGAGTT
227035125 AGCTATATCCGG
1 A-CTATATCCGG
227035137 TGAAACTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
79 4 0.05
80 68 0.88
81 5 0.06
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (81 bp):
ACTATATCCGGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAA
GACATTTGAACGAGTT
Found at i:227041549 original size:29 final size:27
Alignment explanation
Indices: 227041515--227041617 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
227041505 TACTCGATCA
*
227041515 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
227041544 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
227041573 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
227041602 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
227041618 ATCTCGTCAT
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:227049537 original size:29 final size:27
Alignment explanation
Indices: 227049503--227049605 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
227049493 TACTCGATCA
*
227049503 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
227049532 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
227049561 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
227049590 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
227049606 ATCTCGTCAT
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:227054492 original size:40 final size:40
Alignment explanation
Indices: 227054283--227054464 Score: 262
Period size: 40 Copynumber: 4.5 Consensus size: 40
227054273 CTAAGTCCCA
* * * *
227054283 AAGGC-TTTGTGCTAAGTGACTATATTCGGACTAAGATCCG
1 AAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCG
227054323 AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCG
*
227054363 AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATTCG
1 AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCG
227054403 AAGGCATTTGTGCGAGTTACTAAATCCGGGA-TAAG-TCCCG
1 AAGGCATTTGTGCGAGTTACTAAATCC-GGACTAAGAT-CCG
*
227054443 AAGGCATTTGTGCGAGCTACTA
1 AAGGCATTTGTGCGAGTTACTA
227054465 TAACCGGGCT
Statistics
Matches: 132, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (40 bp):
AAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCG
Found at i:227054506 original size:40 final size:40
Alignment explanation
Indices: 227054320--227054506 Score: 111
Period size: 40 Copynumber: 4.7 Consensus size: 40
227054310 GGACTAAGAT
** *
227054320 CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
** *
227054360 CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
* ** *
227054400 TCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
227054440 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
*
227054480 CCGAAGGTATTTGAACGAG-TAGCTATA
1 CCGAAGGCATTTGAACGAGCTA-CTATA
227054507 TCTGGTTAAA
Statistics
Matches: 135, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 3 0.02
40 127 0.94
41 5 0.04
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:227058033 original size:40 final size:40
Alignment explanation
Indices: 227057968--227058134 Score: 214
Period size: 40 Copynumber: 4.2 Consensus size: 40
227057958 TCTTCGGAAT
* ** *
227057968 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
227058007 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
227058047 TTAGCCC-GATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
227058086 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
227058126 TTAGCCCGG
1 TTAGCCCGG
227058135 GTATCATTCA
Statistics
Matches: 112, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
39 40 0.36
40 71 0.63
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:227058071 original size:79 final size:79
Alignment explanation
Indices: 227057959--227058133 Score: 217
Period size: 79 Copynumber: 2.2 Consensus size: 79
227057949 AACCAAGTTT
* * * * * *
227057959 CTTCGGAATTTAGCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTAT-AGC
1 CTTCGGGACTTAGCCCGATATAACAACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAAGC
*
227058023 AACTCGCACAAATGC
66 -ACTAGCACAAATGC
* ** * *
227058038 CTTCGGGTCTTAGCCCGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC
1 CTTCGGGACTTAGCCCGATATAACAACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAAGC
*
227058103 ACTAGCATAAATGC
66 ACTAGCACAAATGC
227058117 CTTCGGGACTTAGCCCG
1 CTTCGGGACTTAGCCCG
227058134 GGTATCATTC
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
79 79 0.98
80 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGATATAACAACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAAGC
ACTAGCACAAATGC
Found at i:227059394 original size:40 final size:40
Alignment explanation
Indices: 227059339--227059462 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
227059329 AGAAACCGTT
*
227059339 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
227059379 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
227059419 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
227059459 CCGG
1 CCGG
227059463 GTATCATTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 77 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:227060752 original size:40 final size:40
Alignment explanation
Indices: 227060667--227060789 Score: 178
Period size: 40 Copynumber: 3.1 Consensus size: 40
227060657 AGAAACCGTT
*
227060667 CCGGATATAACAACTCGCACGAATGCCTTC-GGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
227060706 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
227060746 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
227060786 CCGG
1 CCGG
227060790 GTATCATTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
39 29 0.38
40 47 0.61
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:227062050 original size:40 final size:40
Alignment explanation
Indices: 227061995--227062118 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
227061985 AGAAACCGTT
*
227061995 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
227062035 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
227062075 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
227062115 CCGG
1 CCGG
227062119 GTATCATTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 77 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:227063379 original size:40 final size:40
Alignment explanation
Indices: 227063324--227063447 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
227063314 AGAAACCGTT
*
227063324 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
227063364 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
227063404 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
227063444 CCGG
1 CCGG
227063448 GTATCATTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 77 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:227064706 original size:40 final size:40
Alignment explanation
Indices: 227064651--227064774 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
227064641 AGAAACCGTT
*
227064651 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
227064691 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
227064731 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
227064771 CCGG
1 CCGG
227064775 GTATCATTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 77 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:227066035 original size:40 final size:40
Alignment explanation
Indices: 227065980--227066103 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
227065970 AGAAACCGTT
*
227065980 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
227066020 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
227066060 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
227066100 CCGG
1 CCGG
227066104 GTATCATTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 77 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:227067364 original size:40 final size:40
Alignment explanation
Indices: 227067309--227067432 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
227067299 AGAAACCGTT
*
227067309 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
227067349 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
227067389 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
227067429 CCGG
1 CCGG
227067433 GTATCATTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 77 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:227068691 original size:40 final size:40
Alignment explanation
Indices: 227068636--227068759 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
227068626 AGAAACCGTT
*
227068636 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
227068676 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
227068716 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
227068756 CCGG
1 CCGG
227068760 GTATCATTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 77 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:227070020 original size:40 final size:40
Alignment explanation
Indices: 227069965--227070088 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
227069955 AGAAACCGTT
*
227069965 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
227070005 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
227070045 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
227070085 CCGG
1 CCGG
227070089 GTATCATTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 77 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:227071350 original size:40 final size:40
Alignment explanation
Indices: 227071295--227071418 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
227071285 AGAAACCGTT
*
227071295 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
227071335 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
227071375 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
227071415 CCGG
1 CCGG
227071419 GTATCATTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 77 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:227072678 original size:40 final size:40
Alignment explanation
Indices: 227072623--227072746 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
227072613 AGAAACCGTT
*
227072623 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
227072663 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
227072703 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
227072743 CCGG
1 CCGG
227072747 GTATCATTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 77 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:227074007 original size:40 final size:40
Alignment explanation
Indices: 227073952--227074075 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
227073942 AGAAACCGTT
*
227073952 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
227073992 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
227074032 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
227074072 CCGG
1 CCGG
227074076 GTATCATTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 77 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:227075335 original size:40 final size:40
Alignment explanation
Indices: 227075280--227075403 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
227075270 AGAAACCGTT
*
227075280 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
227075320 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
227075360 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
227075400 CCGG
1 CCGG
227075404 GTATCATTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 77 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:227076664 original size:40 final size:40
Alignment explanation
Indices: 227076609--227076732 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
227076599 AGAAACCGTT
*
227076609 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
227076649 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
227076689 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
227076729 CCGG
1 CCGG
227076733 GTATCATTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 77 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:227077986 original size:40 final size:40
Alignment explanation
Indices: 227077931--227078054 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
227077921 AGAAACCGTT
*
227077931 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
227077971 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
227078011 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
227078051 CCGG
1 CCGG
227078055 GTATCATTCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 77 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:227079291 original size:40 final size:40
Alignment explanation
Indices: 227079236--227079353 Score: 163
Period size: 38 Copynumber: 3.0 Consensus size: 40
227079226 AAACCGTTCC
*
227079236 GATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCG
1 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
227079276 GATATAACAACTCGCACAAATGCCTTC-GGTCTTAG-CCG
1 GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
* * *
227079314 GATATAATC-ACTAGCATAAATGCCTT-GGGACTTAGCCCG
1 GATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
227079353 G
1 G
227079354 GTATCATTCA
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
38 32 0.45
39 13 0.18
40 26 0.37
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
GATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
Found at i:227082722 original size:28 final size:28
Alignment explanation
Indices: 227082657--227082757 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
227082647 ATAGTGAATC
*
227082657 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
227082686 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
227082714 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
227082744 CGCACACTTAGTGC
1 CGCACACTTAGTGC
227082758 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:227090676 original size:28 final size:28
Alignment explanation
Indices: 227090611--227090711 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
227090601 ATAGTGAATC
*
227090611 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
227090640 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
227090668 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
227090698 CGCACACTTAGTGC
1 CGCACACTTAGTGC
227090712 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:227096852 original size:40 final size:40
Alignment explanation
Indices: 227096744--227096953 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
227096734 CGGGATTTAA
* * * * *
227096744 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
227096784 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
227096824 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
227096864 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
227096904 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
227096944 CCGGATATAT
1 CCGGATATAT
227096954 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:227105899 original size:40 final size:40
Alignment explanation
Indices: 227105844--227106047 Score: 284
Period size: 40 Copynumber: 5.1 Consensus size: 40
227105834 TGAATGATAC
* * * *
227105844 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
227105884 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
227105924 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
227105964 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *
227106004 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
227106044 CCGG
1 CCGG
227106048 CTAAATTCCG
Statistics
Matches: 147, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 145 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:227105977 original size:80 final size:80
Alignment explanation
Indices: 227105840--227106051 Score: 320
Period size: 80 Copynumber: 2.7 Consensus size: 80
227105830 CAATTGAATG
* * * *
227105840 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
227105904 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
227105920 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
227105985 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
227106000 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
227106052 ATTCCGAGAA
Statistics
Matches: 120, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
79 6 0.05
80 112 0.93
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:227115360 original size:40 final size:40
Alignment explanation
Indices: 227115294--227115444 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
227115284 AAATTGAATG
* * *
227115294 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
227115333 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
227115373 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
227115413 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
227115445 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:227115458 original size:40 final size:40
Alignment explanation
Indices: 227115331--227115460 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
227115321 ATGCTGGAAA
* * *
227115331 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
227115371 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
227115411 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
227115451 TTATATCCGG
1 TTATATCCGG
227115461 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:227123343 original size:40 final size:40
Alignment explanation
Indices: 227123277--227123380 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
227123267 AAATTGAATG
* * *
227123277 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ***
227123316 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
227123356 ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
227123381 TTTGCACATG
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
39 13 0.24
40 42 0.76
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
Found at i:227124818 original size:40 final size:40
Alignment explanation
Indices: 227124761--227124964 Score: 277
Period size: 40 Copynumber: 5.1 Consensus size: 40
227124751 TGAATGATAC
* * *
227124761 CCGGGCTAAG-CCACGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACC-CGAAGGCATTTGTGCGAGTTG-TTATAT
*
227124801 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
227124841 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
227124881 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *
227124921 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
227124961 CCGG
1 CCGG
227124965 CTAAATTCCG
Statistics
Matches: 147, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 143 0.97
41 4 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:227124894 original size:80 final size:80
Alignment explanation
Indices: 227124757--227124968 Score: 313
Period size: 80 Copynumber: 2.7 Consensus size: 80
227124747 CAATTGAATG
* * *
227124757 ATACCCGGGCTAAG-CCACGAAGGCATTTATGCTAG-TGATTATATCCGGGTTAAGACCCGAAGG
1 ATACCCGGGTTAAGACC-CGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGG
227124820 CATTTGTGCGAGTTGCT
64 CATTTGTGCGAGTTGCT
* *
227124837 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
227124902 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
227124917 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
227124969 ATTCCGAAGA
Statistics
Matches: 120, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
79 6 0.05
80 110 0.92
81 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:227129409 original size:25 final size:25
Alignment explanation
Indices: 227129381--227129428 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
227129371 TTATACCATG
* * *
227129381 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
227129406 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
227129429 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:227129497 original size:20 final size:20
Alignment explanation
Indices: 227129472--227129530 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
227129462 TAAATATGGT
227129472 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
227129492 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
227129512 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
227129531 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:227129512 original size:11 final size:11
Alignment explanation
Indices: 227129476--227129530 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
227129466 TATGGTATGT
227129476 ATGATATGCAC
1 ATGATATGCAC
* *
227129487 ATGAAATG--T
1 ATGATATGCAC
227129496 ATGATATGCAC
1 ATGATATGCAC
*
227129507 ATGATATG--T
1 ATGATATGCAC
227129516 ATGATATGCAC
1 ATGATATGCAC
227129527 ATGA
1 ATGA
227129531 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:227129649 original size:24 final size:24
Alignment explanation
Indices: 227129582--227129674 Score: 120
Period size: 23 Copynumber: 3.9 Consensus size: 24
227129572 AGGAAGTGAA
227129582 AAAGGGCTTATGCCCCAGTTA-TG
1 AAAGGGCTTATGCCCCAGTTATTG
227129605 AAAGGGCTTATG-CCCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTG
* *
227129628 AAAGGGCTTTTGCCCCAGTTATTA
1 AAAGGGCTTATGCCCCAGTTATTG
*
227129652 AAAGAGGC-TAGGCCTCCAGTTAT
1 AAAG-GGCTTATGCC-CCAGTTAT
227129675 ATGATAAAGC
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
22 8 0.13
23 25 0.40
24 18 0.29
25 11 0.18
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATTG
Found at i:227129900 original size:30 final size:31
Alignment explanation
Indices: 227129866--227129928 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
227129856 CGTTTACAGT
227129866 AAAGGCTTCGG-CCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
227129896 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
227129927 AA
1 AA
227129929 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:227132154 original size:18 final size:19
Alignment explanation
Indices: 227132131--227132166 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
227132121 ACGAAAGAAA
*
227132131 TATTGATGTGT-CATGATT
1 TATTGATATGTGCATGATT
227132149 TATTGATATGTGCATGAT
1 TATTGATATGTGCATGAT
227132167 ATTCGGATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.25, C:0.06, G:0.22, T:0.47
Consensus pattern (19 bp):
TATTGATATGTGCATGATT
Found at i:227132237 original size:39 final size:39
Alignment explanation
Indices: 227132184--227132432 Score: 294
Period size: 39 Copynumber: 6.4 Consensus size: 39
227132174 TTGATAATCG
*
227132184 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
* *
227132222 GGCTAAGTCCCGAAGGTATTTGT-CGAGATACTATAACC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
* *
227132260 GAGCCAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACTG
1 G-GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC-C
* *
227132301 GGCCAAGTCCCGAAGGCAATTGT-CGAGTTACTATAACC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
* *
227132339 GGGCTAAGTCCCGAAGGCA-TTGTACGAGTTACTATAATCG
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
* *
227132379 GGCTAAGT-CCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAACC
**
227132417 GGCTAAACCCCGAAGG
1 GGCTAAGTCCCGAAGG
227132433 TACTTGGTTT
Statistics
Matches: 184, Mismatches: 17, Indels: 19
0.84 0.08 0.09
Matches are distributed among these distances:
38 43 0.23
39 105 0.57
40 35 0.19
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:227140139 original size:40 final size:40
Alignment explanation
Indices: 227140076--227140296 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
227140066 ATTCGGATTG
227140076 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
227140115 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
227140155 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
227140195 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
227140235 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
227140275 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
227140297 TACTTGGTTT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 29 0.17
40 141 0.83
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:227148240 original size:40 final size:40
Alignment explanation
Indices: 227148177--227148432 Score: 375
Period size: 40 Copynumber: 6.6 Consensus size: 40
227148167 ATTCGGATTG
227148177 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
227148216 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
227148256 ATAACC-GGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
227148295 ATAACCGGGC----TCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
227148331 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
227148371 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
227148411 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
227148433 TACTTGGTTT
Statistics
Matches: 201, Mismatches: 9, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
36 35 0.17
39 67 0.33
40 99 0.49
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:227150908 original size:13 final size:13
Alignment explanation
Indices: 227150890--227150920 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
227150880 GTTTGAATTT
*
227150890 TAATTAATTTTTA
1 TAATTAATTTTGA
227150903 TAATTAATTTTGA
1 TAATTAATTTTGA
227150916 TAATT
1 TAATT
227150921 TTGGTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (13 bp):
TAATTAATTTTGA
Found at i:227160603 original size:40 final size:40
Alignment explanation
Indices: 227160558--227160724 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
227160548 CGGAATATAA
227160558 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
227160598 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
227160638 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
227160678 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
227160717 CCGGATAT
1 CCGGATAT
227160725 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:227168543 original size:40 final size:40
Alignment explanation
Indices: 227168498--227168664 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
227168488 CGGAATATAA
227168498 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
227168538 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
227168578 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
227168618 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
227168657 CCGGATAT
1 CCGGATAT
227168665 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:227175449 original size:27 final size:27
Alignment explanation
Indices: 227175387--227175451 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
227175377 GGGCATATTC
227175387 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
227175414 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
227175441 GTCTTTTTACC
1 GTCATTTTACC
227175452 TTTTAGGGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:227175535 original size:27 final size:26
Alignment explanation
Indices: 227175505--227175560 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
227175495 GTAAATCAAC
*
227175505 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTACTTCTA-TAATTTT-T
*
227175532 AAACCAATGGTACTTCTATAATTTTT
1 AAACCAAAGGTACTTCTATAATTTTT
227175558 AAA
1 AAA
227175561 AAGTCAAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (26 bp):
AAACCAAAGGTACTTCTATAATTTTT
Found at i:227175652 original size:27 final size:27
Alignment explanation
Indices: 227175513--227176123 Score: 233
Period size: 27 Copynumber: 22.8 Consensus size: 27
227175503 ACAAACCAAA
* * * * *
227175513 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTCGGTAATTTTATAAATCGAG
* ** * *
227175540 GGTACTTCTATAATTTTTAAAAAGTCAAG
1 GGTATTTCGGTAA-TTTTATAAA-TCGAG
* * *
227175569 GGTATTTCTGTAACTTTGTAAATC-AGG
1 GGTATTTCGGTAATTTTATAAATCGA-G
* * *
227175596 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTCGGTAATTTTATAAATCGAG
*
227175623 GGTATTTCGGTAATTTTGTAAATCGAG
1 GGTATTTCGGTAATTTTATAAATCGAG
*** * * * *
227175650 GGTAAAACAGTAATTCTGTAAATCAAG
1 GGTATTTCGGTAATTTTATAAATCGAG
*** * *
227175677 GGTAAAACAGTAATTCTATAAATCGAG
1 GGTATTTCGGTAATTTTATAAATCGAG
*** * *
227175704 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTATTTCGGTAATTTTATAAATCGAG
*** * * *
227175731 GGTAAAACGGTAATTCTGTAAGTCGAG
1 GGTATTTCGGTAATTTTATAAATCGAG
*** * * *
227175758 GGTAAAACGATAATTATGTAAATC-AG
1 GGTATTTCGGTAATTTTATAAATCGAG
*** * * *
227175784 GGTAAAACGGTAATTATGTAAAT-TAG
1 GGTATTTCGGTAATTTTATAAATCGAG
*** *
227175810 GGTAAAACGGTAATTCTATAAATCGAG
1 GGTATTTCGGTAATTTTATAAATCGAG
** *
227175837 GGTAAAAT-GGTAATTCTATAAATCGAG
1 GGT-ATTTCGGTAATTTTATAAATCGAG
* *
227175864 GGTACTTT-GGTAATTTTACAAGTCGAG
1 GGTA-TTTCGGTAATTTTATAAATCGAG
** * **
227175891 GGTATTTCAATAATTTTACAGGTCGAG
1 GGTATTTCGGTAATTTTATAAATCGAG
* * * *
227175918 GGTATTTCAGTAATTTCACAAAT-TAGG
1 GGTATTTCGGTAATTTTATAAATCGA-G
* * *
227175945 GGTATTTTGGTAATTTTACAAA-CTAG
1 GGTATTTCGGTAATTTTATAAATCGAG
* * * *
227175971 GGTATTTTGATAATTTTACAAA-CTAAG
1 GGTATTTCGGTAATTTTATAAATC-GAG
*
227175998 GGTATTT-GGTAATTTTACAAA-CTGA-
1 GGTATTTCGGTAATTTTATAAATC-GAG
* * *
227176023 GGTATTTTGGTAA-TTTACAAA-CTAGG
1 GGTATTTCGGTAATTTTATAAATCGA-G
* * *
227176049 GGTATTTTGGTAATTTTATAAACCAAG
1 GGTATTTCGGTAATTTTATAAATCGAG
** * *
227176076 GGTATTTTAGTAATTTTACAAAGC-AG
1 GGTATTTCGGTAATTTTATAAATCGAG
* *
227176102 GGTATTTTGGTAATTTTGTAAA
1 GGTATTTCGGTAATTTTATAAA
227176124 CCAAAGTATT
Statistics
Matches: 497, Mismatches: 70, Indels: 35
0.83 0.12 0.06
Matches are distributed among these distances:
24 1 0.00
25 16 0.03
26 131 0.26
27 316 0.64
28 19 0.04
29 14 0.03
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTATAAATCGAG
Found at i:227175690 original size:81 final size:80
Alignment explanation
Indices: 227175630--227175867 Score: 345
Period size: 81 Copynumber: 3.0 Consensus size: 80
227175620 GAGGGTATTT
* *
227175630 CGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTA
1 CGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GTAATTCTA
227175695 TAAATCGAGGGTAAAA
65 TAAATCGAGGGTAAAA
* * * *
227175711 CGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATG
1 CGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG-TAATTCTA
227175776 TAAATC-AGGGTAAAA
65 TAAATCGAGGGTAAAA
* * * *
227175791 CGGTAATTATGTAAAT-TAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTA
1 CGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA-CGTAATTCTA
227175855 TAAATCGAGGGTA
65 TAAATCGAGGGTA
227175868 CTTTGGTAAT
Statistics
Matches: 141, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
79 46 0.33
80 32 0.23
81 63 0.45
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (80 bp):
CGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGTAATTCTAT
AAATCGAGGGTAAAA
Found at i:227175876 original size:133 final size:135
Alignment explanation
Indices: 227175633--227175894 Score: 384
Period size: 133 Copynumber: 2.0 Consensus size: 135
227175623 GGTATTTCGG
* *
227175633 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAA
1 TAATTATGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
* **
227175698 ATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAA
66 ATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTACAAGTCGAGGGTAA
227175763 AACGA
131 AACGA
* * *
227175768 TAATTATGTAAATC-AGGGTAAAACGGTAATTATGTAAAT-TAGGGTAAAACGGTAATTCTATAA
1 TAATTATGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
* **** *
227175831 ATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTA
66 ATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTACAAGTCGAGGGTA
227175895 TTTCAATAAT
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
133 77 0.68
134 23 0.20
135 13 0.12
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (135 bp):
TAATTATGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACAGTAATTCTATAA
ATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTACAAGTCGAGGGTAA
AACGA
Found at i:227175984 original size:26 final size:26
Alignment explanation
Indices: 227175844--227176118 Score: 261
Period size: 27 Copynumber: 10.4 Consensus size: 26
227175834 GAGGGTAAAA
* * * *
227175844 TGGTAATTCTATAAATCGAGGGTACTT
1 TGGTAATTTTACAAA-CTAGGGTATTT
* *
227175871 TGGTAATTTTACAAGTCGAGGGTATTT
1 TGGTAATTTTACAA-ACTAGGGTATTT
*** ** *
227175898 CAATAATTTTACAGGTCGAGGGTATTT
1 TGGTAATTTTACA-AACTAGGGTATTT
** * *
227175925 CAGTAATTTCACAAATTAGGGGTATTT
1 TGGTAATTTTACAAACTA-GGGTATTT
227175952 TGGTAATTTTACAAACTAGGGTATTT
1 TGGTAATTTTACAAACTAGGGTATTT
*
227175978 TGATAATTTTACAAACTAAGGGTA-TT
1 TGGTAATTTTACAAACT-AGGGTATTT
227176004 TGGTAATTTTACAAACT-GAGGTATTT
1 TGGTAATTTTACAAACTAG-GGTATTT
227176030 TGGTAA-TTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAAACTA-GGGTATTT
* *
227176056 TGGTAATTTTATAAACCAAGGGTATTT
1 TGGTAATTTTACAAA-CTAGGGTATTT
*
227176083 TAGTAATTTTACAAAGC-AGGGTATTT
1 TGGTAATTTTACAAA-CTAGGGTATTT
227176109 TGGTAATTTT
1 TGGTAATTTT
227176119 GTAAACCAAA
Statistics
Matches: 212, Mismatches: 26, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.00
25 14 0.07
26 82 0.39
27 113 0.53
28 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (26 bp):
TGGTAATTTTACAAACTAGGGTATTT
Found at i:227176124 original size:53 final size:54
Alignment explanation
Indices: 227175916--227176136 Score: 260
Period size: 53 Copynumber: 4.2 Consensus size: 54
227175906 TTACAGGTCG
* * * *
227175916 AGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTACAAA-CT
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCA
* **
227175969 AGGGTATTTT-GATAATTTTACAAACTAAGGGTA-TTTGGTAATTTTACAAACTG
1 AGGGTATTTTAG-TAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCA
* *
227176022 A-GGTATTTTGGTAA-TTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCA
**
227176074 AGGGTATTTTAGTAATTTTACAAAGC-A-GGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCA
*
227176127 A-AGTATTTTA
1 AGGGTATTTTA
227176137 AACATGGATA
Statistics
Matches: 148, Mismatches: 13, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
51 16 0.11
52 55 0.37
53 67 0.45
54 9 0.06
55 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCA
Found at i:227176132 original size:26 final size:26
Alignment explanation
Indices: 227175945--227176135 Score: 179
Period size: 26 Copynumber: 7.3 Consensus size: 26
227175935 ACAAATTAGG
* * *
227175945 GGTATTTTGGTAATTTTACAAACTAG
1 GGTATTTTGGTAATTTTATAAACCAA
* * *
227175971 GGTATTTTGATAATTTTACAAACTAA
1 GGTATTTTGGTAATTTTATAAACCAA
* **
227175997 GGGTA-TTTGGTAATTTTACAAACTGA
1 -GGTATTTTGGTAATTTTATAAACCAA
* * *
227176023 GGTATTTTGGTAA-TTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
227176049 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
* * * *
227176075 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTATAAACCAA
*
227176102 GGTATTTTGGTAATTTTGTAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
*
227176128 AGTATTTT
1 GGTATTTT
227176136 AAACATGGAT
Statistics
Matches: 141, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
25 14 0.10
26 92 0.65
27 35 0.25
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.41
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTATAAACCAA
Found at i:227177921 original size:26 final size:26
Alignment explanation
Indices: 227177892--227177942 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
227177882 AATAAAAGAA
227177892 AACATTCAATATTTCTA-TTTAATTAT
1 AACATTCAATATTTC-AGTTTAATTAT
227177918 AACATTCAATATTTCAGTTTAATTA
1 AACATTCAATATTTCAGTTTAATTA
227177943 GCATTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (26 bp):
AACATTCAATATTTCAGTTTAATTAT
Found at i:227184129 original size:46 final size:46
Alignment explanation
Indices: 227183966--227184138 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
227183956 ATATTGGCAT
*
227183966 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-GT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
227184010 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
227184055 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
227184103 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
227184139 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
41 5 0.05
43 2 0.02
44 28 0.25
45 1 0.01
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:227187105 original size:15 final size:15
Alignment explanation
Indices: 227187085--227187153 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
227187075 GTATCTTGGG
227187085 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
227187100 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
227187115 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
227187130 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
227187145 TTTCTTTAT
1 TTTCTTTAT
227187154 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:227187154 original size:30 final size:30
Alignment explanation
Indices: 227187076--227187163 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
227187066 CATAGTATCG
* * * *
227187076 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
227187106 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
227187136 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
227187164 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:227189598 original size:46 final size:46
Alignment explanation
Indices: 227189548--227189723 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
227189538 TATTTGGGCA
227189548 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
227189594 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
227189641 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
227189687 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
227189724 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:227189703 original size:93 final size:93
Alignment explanation
Indices: 227189544--227189715 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
227189534 TGGATATTTG
* *
227189544 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
227189609 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
227189637 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
227189702 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
227189716 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:227192693 original size:15 final size:15
Alignment explanation
Indices: 227192673--227192741 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
227192663 GTATCTTGGG
227192673 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
227192688 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
227192703 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
227192718 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
227192733 TTTCTTTAT
1 TTTCTTTAT
227192742 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:227192742 original size:30 final size:30
Alignment explanation
Indices: 227192664--227192751 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
227192654 CATAGTATCG
* * * *
227192664 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
227192694 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
227192724 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
227192752 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:227195183 original size:46 final size:46
Alignment explanation
Indices: 227195133--227195308 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
227195123 TATTTGGGCA
227195133 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
227195179 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
227195226 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
227195272 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
227195309 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:227195288 original size:93 final size:93
Alignment explanation
Indices: 227195129--227195300 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
227195119 TGGATATTTG
* *
227195129 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
227195194 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
227195222 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
227195287 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
227195301 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:227204458 original size:40 final size:40
Alignment explanation
Indices: 227204380--227204561 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
227204370 AACCCAAGTA
* * *
227204380 CCTTCGGGAATTAG-CCGAATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
227204419 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCAGAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
227204459 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
227204499 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
227204539 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
227204562 CATCCGAATA
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.09
40 117 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:227212058 original size:30 final size:30
Alignment explanation
Indices: 227212020--227212148 Score: 222
Period size: 30 Copynumber: 4.3 Consensus size: 30
227212010 CTAGCCTTTG
227212020 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
227212050 CCATCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
227212080 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
227212110 CCACCACCTACTCCACTAGCCACACTTGTT
1 CCACCACCAACTCCACTAGCCACACTTGCT
227212140 CCACCACCA
1 CCACCACCA
227212149 CTTGTACCTA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 94 1.00
ACGTcount: A:0.26, C:0.50, G:0.06, T:0.19
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:227212665 original size:23 final size:23
Alignment explanation
Indices: 227212628--227212755 Score: 84
Period size: 23 Copynumber: 5.5 Consensus size: 23
227212618 TTTTTTTTGT
*
227212628 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
227212651 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
227212673 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
227212696 TATTACGTATATA-TATT-ATACTA
1 TATTA--TATATATTCTTAATACTA
* *
227212719 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
*
227212744 TATTATTTATAT
1 TATTATATATAT
227212756 ATATATTTTT
Statistics
Matches: 79, Mismatches: 18, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
21 5 0.06
22 17 0.22
23 29 0.37
24 8 0.10
25 20 0.25
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:227212731 original size:25 final size:26
Alignment explanation
Indices: 227212703--227212762 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 26
227212693 CTATATTACG
*
227212703 TATATATATT-ATACTATTTTATGTA
1 TATATATATTAATACTATATTATGTA
* *
227212728 TATATCT-TTAATACTATATTATTTA
1 TATATATATTAATACTATATTATGTA
227212753 TATATATATT
1 TATATATATT
227212763 TTTTTTCTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 2 0.07
25 25 0.86
26 2 0.07
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (26 bp):
TATATATATTAATACTATATTATGTA
Found at i:227212753 original size:29 final size:27
Alignment explanation
Indices: 227212720--227212831 Score: 88
Period size: 29 Copynumber: 4.0 Consensus size: 27
227212710 ATTATACTAT
227212720 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAAT-CTATATTA
* ** *
227212749 TTTATATATATATTTTTTTTCTACATGTTA
1 TTTATGTATATA-TTTTAATCT--ATATTA
227212779 TCTTATGTATATATTTTAAT-TATATTA
1 T-TTATGTATATATTTTAATCTATATTA
*
227212806 TGTATGTAT-T-TTTTACA-CTATATTA
1 TTTATGTATATATTTTA-ATCTATATTA
227212831 T
1 T
227212832 GTACATATTT
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
24 5 0.07
25 10 0.15
26 7 0.10
27 6 0.09
28 2 0.03
29 16 0.24
30 12 0.18
31 10 0.15
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.59
Consensus pattern (27 bp):
TTTATGTATATATTTTAATCTATATTA
Found at i:227212806 original size:22 final size:23
Alignment explanation
Indices: 227212776--227212842 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
227212766 TTTCTACATG
*
227212776 TTATCTTATGTATATATTTTA-A
1 TTATATTATGTATATATTTTACA
*
227212798 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTACA
* *
227212823 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
227212843 TTTTATATCT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (23 bp):
TTATATTATGTATATATTTTACA
Found at i:227212934 original size:25 final size:24
Alignment explanation
Indices: 227212906--227212961 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
227212896 GTTATATTTT
*
227212906 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
227212931 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
227212954 CACTATTA
1 CACTATTA
227212962 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:227225065 original size:40 final size:40
Alignment explanation
Indices: 227224963--227225146 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
227224953 AAATTGAATG
* * * * *
227224963 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
227225003 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
227225043 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
227225083 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
227225123 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
227225147 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:227227335 original size:38 final size:38
Alignment explanation
Indices: 227227284--227227462 Score: 268
Period size: 38 Copynumber: 4.7 Consensus size: 38
227227274 GACCTAAAGA
*
227227284 CCCGCAGGCTTCGTGCTGGTAATATATCGGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
*
227227322 CCCGCAGGCTTCGTGCTGGTAATATATTCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
*
227227360 CTCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
** *
227227398 CCCGCAGGCTTAATGCTAGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* * * *
227227436 CCCGCAGGCCTAGTGTTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTAATATAT
227227463 TTGGGCCTTC
Statistics
Matches: 128, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 128 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
Found at i:227227513 original size:43 final size:43
Alignment explanation
Indices: 227227460--227227616 Score: 242
Period size: 43 Copynumber: 3.6 Consensus size: 43
227227450 GTTGGTATTA
* *
227227460 TATTTGGGCCTTCGTGCCTAGCAGGGTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
227227503 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCTGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
227227546 TATTCGGGCCTTCGTGCGCCTAGCAGGCTTCATGCCAGTGATGTG
1 TATTCGGGCCTTCGT--GCCTAGCAGGCTTCGTGCCGGTGATGTG
227227591 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
227227617 GTAATGCCGG
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
43 65 0.62
45 39 0.38
ACGTcount: A:0.11, C:0.25, G:0.33, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:227231987 original size:48 final size:48
Alignment explanation
Indices: 227231916--227232287 Score: 462
Period size: 48 Copynumber: 7.8 Consensus size: 48
227231906 ACCGTGCTGA
227231916 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
227231964 ATGTGTCTGTGTAAGACCATGTCTGGGACATGACAACGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* ****
227232012 ATGTGCTTGTGTAAGACCATGTCTGGGACATGGCATTAAAGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
227232060 ATGTTCTTGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGGTAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
227232108 ATGTGCCTGTTTAAGACCATGTTTGGGATATGGCATCAGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * *
227232156 ATGGGCCTTTGTAAGTCCATGTCT-GGAGCATGGCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGA-CATGGCATCGGCGATGATAT
* * *
227232204 ATGTGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* ** *
227232252 GTG-GATTCATGTAAGACCATGTC-GAGGACATGGCAT
1 ATGTGCCT-GTGTAAGACCATGTCTG-GGACATGGCAT
227232288 TGATACTTTA
Statistics
Matches: 275, Mismatches: 45, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
47 5 0.02
48 267 0.97
49 3 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:227235000 original size:40 final size:40
Alignment explanation
Indices: 227234892--227235141 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
227234882 CGGGATTTAA
* * * * *
227234892 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
227234932 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
227234972 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
227235012 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
227235052 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
227235092 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
227235132 CCGGATATAT
1 CCGGATATAT
227235142 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:227243156 original size:39 final size:40
Alignment explanation
Indices: 227242986--227243232 Score: 358
Period size: 40 Copynumber: 6.2 Consensus size: 40
227242976 CGGGATTTAA
* * * * *
227242986 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
227243026 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
227243066 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
227243106 CCGGATATATCAACTCGCACGAATGCCTTCGGGTC-TAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
227243145 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
227243185 CCGGATATATCAACT-GCACGAATGCCTTCGGGTCTTAG-
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
227243223 CCGGATATAT
1 CCGGATATAT
227243233 TCAATGTTCA
Statistics
Matches: 189, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
38 10 0.05
39 63 0.33
40 116 0.61
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:227243171 original size:79 final size:79
Alignment explanation
Indices: 227242986--227243232 Score: 356
Period size: 79 Copynumber: 3.1 Consensus size: 79
227242976 CGGGATTTAA
* * * * * * * * * *
227242986 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGT-GACTTGCACAAAG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAAC-TGCACGAAT
227243050 GCCTTCGGGTCTTAGC
64 GCCTTCGGGTCTTAGC
227243066 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACGAATG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACT-GCACGAATG
227243131 CCTTCGGGTC-TAGC
65 CCTTCGGGTCTTAGC
227243145 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTGCACGAATGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTGCACGAATGC
227243210 CTTCGGGTCTTAG-
66 CTTCGGGTCTTAGC
227243223 CCGGATATAT
1 CCGGATATAT
227243233 TCAATGTTCA
Statistics
Matches: 154, Mismatches: 10, Indels: 8
0.90 0.06 0.05
Matches are distributed among these distances:
78 29 0.19
79 64 0.42
80 61 0.40
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (79 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTGCACGAATGC
CTTCGGGTCTTAGC
Found at i:227254417 original size:24 final size:24
Alignment explanation
Indices: 227254367--227254420 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
227254357 AATCGAATTT
*
227254367 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
227254391 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
227254415 GCACAC
1 GCACAC
227254421 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:227257453 original size:40 final size:40
Alignment explanation
Indices: 227257368--227257518 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
227257358 AATTGAATGA
* * *
227257368 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGATA-TAC
* * *
227257408 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGCTAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT--ATAC
*
227257449 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATATAC
*
227257488 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
227257519 ACGTGATTAT
Statistics
Matches: 91, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
39 5 0.05
40 82 0.90
41 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATATAC
Found at i:227257532 original size:40 final size:40
Alignment explanation
Indices: 227257404--227257534 Score: 158
Period size: 40 Copynumber: 3.3 Consensus size: 40
227257394 TATGCTGGAA
* * *
227257404 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
227257444 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TG
*
227257484 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
227257524 ATTATATCCGG
1 ATTATATCCGG
227257535 TTATATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:227265427 original size:40 final size:40
Alignment explanation
Indices: 227265361--227265527 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
227265351 AAATTGAATG
* * *
227265361 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
227265400 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
227265440 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
227265480 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
227265520 ATATCCGG
1 ATATCCGG
227265528 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:227291897 original size:24 final size:22
Alignment explanation
Indices: 227291870--227291916 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
227291860 AAACTTCAAT
227291870 ATCTCTTAGTATACTGTTCATATG
1 ATCTCTTAGT-TACT-TTCATATG
* *
227291894 ATCTTTTCGTTACTTTCATATG
1 ATCTCTTAGTTACTTTCATATG
227291916 A
1 A
227291917 AAATAGACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 4 0.19
24 8 0.38
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (22 bp):
ATCTCTTAGTTACTTTCATATG
Found at i:227292849 original size:39 final size:39
Alignment explanation
Indices: 227292806--227292915 Score: 186
Period size: 39 Copynumber: 2.8 Consensus size: 39
227292796 TATGGTAGCC
*
227292806 CGCACAA-TGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
227292845 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
227292884 CGCACAATTACCTTCGGGCTTAGCCCGGATAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
227292916 TACCCGAACA
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
39 58 0.85
40 10 0.15
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:227299971 original size:24 final size:22
Alignment explanation
Indices: 227299944--227299990 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
227299934 AAACTTCAAT
227299944 ATCTCTTAGTATACTGTTCATATG
1 ATCTCTTAGT-TACT-TTCATATG
* *
227299968 ATCTTTTCGTTACTTTCATATG
1 ATCTCTTAGTTACTTTCATATG
227299990 A
1 A
227299991 AAATAGACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 4 0.19
24 8 0.38
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (22 bp):
ATCTCTTAGTTACTTTCATATG
Found at i:227300951 original size:38 final size:39
Alignment explanation
Indices: 227300877--227301024 Score: 246
Period size: 39 Copynumber: 3.8 Consensus size: 39
227300867 TATGGTAGCC
*
227300877 CGCACAA-TGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
227300916 CGCACAATTG-CTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
227300954 CACACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
227300993 CGCACAATTGCCTTCAGGCTTAGCCCGGATAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT
227301025 TACCCGAACA
Statistics
Matches: 103, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
38 29 0.28
39 72 0.70
40 2 0.02
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:227300960 original size:77 final size:78
Alignment explanation
Indices: 227300879--227301024 Score: 251
Period size: 77 Copynumber: 1.9 Consensus size: 78
227300869 TGGTAGCCCG
*
227300879 CACAA-TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG-CTTCGGGCTTAGCCCG
1 CACAATTGCCTTCGGG-CTTAACCCGGATATCACAACTCGCACAATTGCCTTCAGGCTTAGCCCG
227300942 GATATCACAACTCA
65 GATATCACAACTCA
*
227300956 CACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCAGGCTTAGCCCGG
1 CACAATTGCCTTCGGGCTTAACCCGGATATCACAACTCGCACAATTGCCTTCAGGCTTAGCCCGG
227301021 ATAT
66 ATAT
227301025 TACCCGAACA
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
77 35 0.54
78 30 0.46
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.23
Consensus pattern (78 bp):
CACAATTGCCTTCGGGCTTAACCCGGATATCACAACTCGCACAATTGCCTTCAGGCTTAGCCCGG
ATATCACAACTCA
Found at i:227306504 original size:64 final size:64
Alignment explanation
Indices: 227306426--227306609 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
227306416 AGACATTATG
* * *
227306426 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
227306490 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
227306555 AA
63 AA
* * *
227306557 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
227306610 CAAAATTATG
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:227310305 original size:33 final size:33
Alignment explanation
Indices: 227310244--227310307 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
227310234 GAGTTTGATC
*
227310244 ATATAGCACTAAGTGTGCAAGCTGAATATATAT
1 ATATAGCACTAAGTGTGCAAGCTCAATATATAT
*
227310277 ATATAGCACTAAGTGTGC-GGACTCAATATAT
1 ATATAGCACTAAGTGTGCAAG-CTCAATATAT
227310308 GCTTTTGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (33 bp):
ATATAGCACTAAGTGTGCAAGCTCAATATATAT
Found at i:227313262 original size:29 final size:29
Alignment explanation
Indices: 227313228--227313332 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
227313218 CACTCGATTT
* * *
227313228 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
227313257 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
227313286 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
227313315 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
227313333 TATTTCCAGC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:227313333 original size:29 final size:29
Alignment explanation
Indices: 227313287--227313357 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
227313277 CTTCGAGCTC
227313287 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
227313316 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
227313345 GCACACTTAGTGC
1 GCACACTTAGTGC
227313358 TAATCTCGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:227321970 original size:28 final size:28
Alignment explanation
Indices: 227321901--227322001 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
227321891 GACAAGATTG
* * * *
227321901 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
227321931 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
227321959 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
227321988 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
227322002 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:227327535 original size:38 final size:39
Alignment explanation
Indices: 227327447--227327627 Score: 161
Period size: 40 Copynumber: 4.6 Consensus size: 39
227327437 GACTCGCTCA
** ** *
227327447 AATGCCTTCGGGACGAAGCCCGG-TTATAGCGACTCGCACG
1 AATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTTGCACG
* *
227327487 AATGCCTTCGGACTTAACCCGGGTTTAGTAACTTGCAC-
1 AATGCCTTCGGACTTAGCCCGGATTTAGTAACTTGCACG
* * *
227327525 AATGCCTTCGGGCTTAGCCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGACTTAGCCCGGATTTAGTAACTTGCACG
* * * *
227327564 AATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCAC-
1 AATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTT-GCACG
*
227327604 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTC-GGACTTAGCCCGGA
227327628 CATCATTCGA
Statistics
Matches: 115, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 33 0.29
39 31 0.27
40 44 0.38
41 7 0.06
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGACTTAGCCCGGATTTAGTAACTTGCACG
Found at i:227327565 original size:77 final size:80
Alignment explanation
Indices: 227327478--227327627 Score: 216
Period size: 77 Copynumber: 1.9 Consensus size: 80
227327468 GGTTATAGCG
* * * *
227327478 ACTCGCACGAATGCCTTCGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
227327540 AGCCCGGATTTATTA
66 AGCCCGGATTTATTA
** *
227327555 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
227327620 AGCCCGGA
66 AGCCCGGA
227327628 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
77 21 0.33
78 16 0.25
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:227334552 original size:14 final size:15
Alignment explanation
Indices: 227334533--227334563 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
227334523 ATTTACAATA
227334533 AATTT-CAAAGTCGG
1 AATTTCCAAAGTCGG
227334547 AATTTCCAAAGTCGG
1 AATTTCCAAAGTCGG
227334562 AA
1 AA
227334564 CAGGGGATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (15 bp):
AATTTCCAAAGTCGG
Found at i:227335621 original size:39 final size:40
Alignment explanation
Indices: 227335490--227335627 Score: 149
Period size: 40 Copynumber: 3.5 Consensus size: 40
227335480 GGATATAACG
* * * **
227335490 ACTCGCTCAAATGCCTTCGGGAC-GAAGCCCGG-TTATAGCG
1 ACTCGCACGAATGCCTTCGGGACTTAA-CCCGGATT-TAGTA
*
227335530 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * *
227335570 ACTTGCAC-AATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
227335608 ACTCGCACGAATGCCTTCGG
1 ACTCGCACGAATGCCTTCGG
227335628 ATCCTAGTCC
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
38 22 0.26
39 23 0.27
40 36 0.42
41 4 0.05
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:227340020 original size:38 final size:39
Alignment explanation
Indices: 227339888--227340080 Score: 271
Period size: 39 Copynumber: 4.9 Consensus size: 39
227339878 TCGTTCAAAC
* * ** * *
227339888 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* *
227339928 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
227339968 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
227340007 -CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
* *
227340045 GCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
227340081 TTCATACACA
Statistics
Matches: 140, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 38 0.27
39 61 0.44
40 41 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:227340036 original size:77 final size:78
Alignment explanation
Indices: 227339888--227340080 Score: 271
Period size: 77 Copynumber: 2.5 Consensus size: 78
227339878 TCGTTCAAAC
* * ** *
227339888 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCAC-AATGCCTTCGGGACTTAACCCGGATATC
227339953 ACAACTCGCACAATT
64 ACAACTCGCACAATT
* * *
227339968 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTCCTTCGGG-CTTAGCCCGGATATCAT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATGCCTTCGGGACTTAACCCGGATATCAC
227340032 AACTCGCACAATT
66 AACTCGCACAATT
* *
227340045 GCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
227340081 TTCATACACA
Statistics
Matches: 103, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
77 62 0.60
78 11 0.11
79 21 0.20
80 9 0.09
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (78 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATGCCTTCGGGACTTAACCCGGATATCAC
AACTCGCACAATT
Found at i:227342545 original size:40 final size:40
Alignment explanation
Indices: 227342490--227342693 Score: 284
Period size: 40 Copynumber: 5.1 Consensus size: 40
227342480 TGAATGATAC
* * * *
227342490 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
227342530 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
227342570 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
227342610 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *
227342650 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
227342690 CCGG
1 CCGG
227342694 CTAAATTCCG
Statistics
Matches: 147, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 145 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Done.