Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 46 of 93
Found at i:17640290 original size:11 final size:11
Alignment explanation
Indices: 17640274--17640314 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
17640264 AAAGTTTTTG
*
17640274 GGTTTAAAGCT
1 GGTTTAAAGTT
17640285 GGTTTAAAGTT
1 GGTTTAAAGTT
*
17640296 GTTTTAAAGTT
1 GGTTTAAAGTT
*
17640307 GTTTTAAA
1 GGTTTAAA
17640315 ATTTACAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.46
Consensus pattern (11 bp):
GGTTTAAAGTT
Found at i:17645359 original size:28 final size:27
Alignment explanation
Indices: 17645323--17645375 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
17645313 ATATCCTGGT
*
17645323 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
17645350 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
17645376 TTACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:17645443 original size:20 final size:20
Alignment explanation
Indices: 17645420--17645465 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
17645410 CTTCTAAACC
*
17645420 TCAAATCATACTTCAATAAG
1 TCAAATCATACTCCAATAAG
*
17645440 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
17645460 TCAAAT
1 TCAAAT
17645466 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:17647612 original size:28 final size:27
Alignment explanation
Indices: 17647581--17647637 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
17647571 TTTTTTGAAG
* **
17647581 CATAGGGGTAAAATGGTAATTTTGCCAC
1 CATAGGGGCAAAACAGTAATTTT-CCAC
17647609 CATAGGGGCAAAACAGTAATTTTCCAC
1 CATAGGGGCAAAACAGTAATTTTCCAC
17647636 CA
1 CA
17647638 CCAGAACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
CATAGGGGCAAAACAGTAATTTTCCAC
Found at i:17648235 original size:10 final size:10
Alignment explanation
Indices: 17648200--17648238 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
17648190 TTGTGGCTGA
17648200 ATTTGATGAT
1 ATTTGATGAT
*
17648210 ATTTCATGAT
1 ATTTGATGAT
*
17648220 ATTTTGGTGAT
1 A-TTTGATGAT
17648231 ATTTGATG
1 ATTTGATG
17648239 TTTGGTGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.51
Consensus pattern (10 bp):
ATTTGATGAT
Found at i:17655467 original size:55 final size:55
Alignment explanation
Indices: 17655383--17655505 Score: 185
Period size: 55 Copynumber: 2.2 Consensus size: 55
17655373 AGATCGTTAG
* * *
17655383 ATGAGCTGATGACCGATGGGTGATGATTCCAGCTACGTGTAGTGTGGGAGTGCAC
1 ATGAGCTGATGACAGATGGATGATGATTCCAGCTACGTGCAGTGTGGGAGTGCAC
* *
17655438 ATGAGCTGATGATCAGA-GGATGATGATTCCAGCTATGTGCGGTGTGGGAGTGCAC
1 ATGAGCTGATGA-CAGATGGATGATGATTCCAGCTACGTGCAGTGTGGGAGTGCAC
17655493 ATGAGCTGATGAC
1 ATGAGCTGATGAC
17655506 CGGTGGTTGT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
54 1 0.02
55 58 0.94
56 3 0.05
ACGTcount: A:0.24, C:0.15, G:0.36, T:0.25
Consensus pattern (55 bp):
ATGAGCTGATGACAGATGGATGATGATTCCAGCTACGTGCAGTGTGGGAGTGCAC
Found at i:17656017 original size:2 final size:2
Alignment explanation
Indices: 17656010--17656061 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
17656000 TTGGGAACGT
17656010 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17656052 TA TA TA TA TA
1 TA TA TA TA TA
17656062 NNNNNNNNNN
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17660810 original size:19 final size:18
Alignment explanation
Indices: 17660771--17660818 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
17660761 GTAACGAGTG
*
17660771 AAAAGAATATTTTAAAAT
1 AAAATAATATTTTAAAAT
*
17660789 AAAATAATATTTTATTAAT
1 AAAATAATATTTTA-AAAT
*
17660808 AAAATATTATT
1 AAAATAATATT
17660819 AAAATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
AAAATAATATTTTAAAAT
Found at i:17662573 original size:2 final size:2
Alignment explanation
Indices: 17662568--17662620 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
17662558 TATATATATA
17662568 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
17662610 TG TG TG TG TG T
1 TG TG TG TG TG T
17662621 TGATGTACTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:17665153 original size:63 final size:63
Alignment explanation
Indices: 17665053--17665183 Score: 172
Period size: 63 Copynumber: 2.1 Consensus size: 63
17665043 AATCCTTGAG
* * * * * *
17665053 AGATATGGAAGTTATATTTTAGCCTCCAAAATGTATTGTTAGAGGTTCTATCTGAGCCTTAAA
1 AGATATGAAAGTTATACTTTAACCTCCAAAAGGTATTGTTAAAGGTTCTATCTAAGCCTTAAA
* * * *
17665116 TGATATGAAAGTTATACTTTAACTTTCAAAAGGTATTGTTAAATGTTCTATCTAAGCCTTAAA
1 AGATATGAAAGTTATACTTTAACCTCCAAAAGGTATTGTTAAAGGTTCTATCTAAGCCTTAAA
17665179 AGATA
1 AGATA
17665184 AAGAGGTTAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.37
Consensus pattern (63 bp):
AGATATGAAAGTTATACTTTAACCTCCAAAAGGTATTGTTAAAGGTTCTATCTAAGCCTTAAA
Found at i:17671608 original size:19 final size:22
Alignment explanation
Indices: 17671586--17671634 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
17671576 TTTAACTTTT
17671586 TATTAA-AATTT-T-ATTAAAA
1 TATTAATAATTTATCATTAAAA
*
17671605 TATTAATTATTTATCATTAAAA
1 TATTAATAATTTATCATTAAAA
*
17671627 TATAAATA
1 TATTAATA
17671635 TGGAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 6 0.25
20 4 0.17
21 1 0.04
22 13 0.54
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TATTAATAATTTATCATTAAAA
Found at i:17672071 original size:12 final size:12
Alignment explanation
Indices: 17672048--17672084 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
17672038 ATAGTATATA
*
17672048 TATATATATATG
1 TATATATGTATG
*
17672060 TATCTATGTATG
1 TATATATGTATG
17672072 TATATATGTATG
1 TATATATGTATG
17672084 T
1 T
17672085 TTTAATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (12 bp):
TATATATGTATG
Found at i:17675630 original size:2 final size:2
Alignment explanation
Indices: 17675625--17675650 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17675615 TTTTTTTGTT
17675625 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
17675651 ATGTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:17679632 original size:12 final size:12
Alignment explanation
Indices: 17679615--17679641 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17679605 CCGTGCAAGA
17679615 AGCCATCACCAG
1 AGCCATCACCAG
17679627 AGCCATCACCAG
1 AGCCATCACCAG
17679639 AGC
1 AGC
17679642 GATCCAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.41, G:0.19, T:0.07
Consensus pattern (12 bp):
AGCCATCACCAG
Found at i:17684838 original size:14 final size:14
Alignment explanation
Indices: 17684819--17684973 Score: 120
Period size: 14 Copynumber: 11.2 Consensus size: 14
17684809 GTTGTGGATA
17684819 TATATATATATATG
1 TATATATATATATG
17684833 TATATATATATATG
1 TATATATATATATG
* **
17684847 TATATACATATACA
1 TATATATATATATG
*
17684861 TATATATGTATATG
1 TATATATATATATG
* *
17684875 TATATGTATATACG
1 TATATATATATATG
*
17684889 TATATGTATATA--
1 TATATATATATATG
* *
17684901 TATACATATACA--
1 TATATATATATATG
* * *
17684913 TATACATGTATATA
1 TATATATATATATG
* *
17684927 CATATACATATATG
1 TATATATATATATG
*
17684941 TATATACATATATATT
1 TATAT--ATATATATG
*
17684957 TATATATGTATATG
1 TATATATATATATG
17684971 TAT
1 TAT
17684974 GGAGAGAGAG
Statistics
Matches: 112, Mismatches: 25, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
12 19 0.17
14 81 0.72
16 12 0.11
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (14 bp):
TATATATATATATG
Found at i:17684844 original size:22 final size:22
Alignment explanation
Indices: 17684816--17684969 Score: 132
Period size: 22 Copynumber: 7.0 Consensus size: 22
17684806 AGAGTTGTGG
17684816 ATATATATATATATATGTATAT
1 ATATATATATATATATGTATAT
* *
17684838 ATATATATGTATATA--CATAT
1 ATATATATATATATATGTATAT
* *
17684858 ACATATATATGTATATGTATAT
1 ATATATATATATATATGTATAT
* * *
17684880 GTATATACGTATATGTATATATAT
1 ATATATA--TATATATATGTATAT
* * *
17684904 ACATATACATATACATGTATAT
1 ATATATATATATATATGTATAT
* * * * *
17684926 ACATATACATATATGTATATAC
1 ATATATATATATATATGTATAT
*
17684948 ATATATATTTATATATGTATAT
1 ATATATATATATATATGTATAT
17684970 GTATGGAGAG
Statistics
Matches: 101, Mismatches: 27, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
20 16 0.16
22 68 0.67
24 17 0.17
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (22 bp):
ATATATATATATATATGTATAT
Found at i:17684973 original size:6 final size:6
Alignment explanation
Indices: 17684816--17684969 Score: 128
Period size: 6 Copynumber: 25.7 Consensus size: 6
17684806 AGAGTTGTGG
* * * *
17684816 ATATAT ATATAT ATATGT ATATAT ATATAT GTATAT ACATAT ACATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * * *
17684864 ATATGT ATATGT ATATGT ATATAC GTATAT GTATAT ATATAC ATATAC
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * * * *
17684912 ATATAC ATGTAT ATACAT ATACAT ATATGT ATATAC ATATAT ATTTAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
*
17684960 ATATGT ATAT
1 ATATAT ATAT
17684970 GTATGGAGAG
Statistics
Matches: 123, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 123 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (6 bp):
ATATAT
Found at i:17684980 original size:2 final size:2
Alignment explanation
Indices: 17684975--17684999 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17684965 TATATGTATG
17684975 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
17685000 GTGCATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:17689320 original size:73 final size:74
Alignment explanation
Indices: 17689121--17689437 Score: 378
Period size: 73 Copynumber: 4.3 Consensus size: 74
17689111 TCACCAGCTC
* * * * *
17689121 ACTCATCC-TCCAACCGACGACAACTCTAGGCTTTCCTCTCTAATCCCAACGGCACCGAACCTCT
1 ACTCA-CCTTCCAACCGGCGGCAACTCCAAGCTTTCCTCTCTAATCCCAACGGCGCCGAACCTCT
17689185 CTCTCTCTCTA
65 -TCTCTCTCTA
* * * * * *
17689196 ACTCACCTTCCGACCGACGACAACTCCAAGCTTTCTTCTCTAA-CTCTAACGGTGCCGAACCTCT
1 ACTCACCTTCCAACCGGCGGCAACTCCAAGCTTTCCTCTCTAATC-CCAACGGCGCCGAACCTCT
*
17689260 T-TTTCTCTA
65 TCTCTCTCTA
* * * *
17689269 ACTCACCTTCCAAGCGGCGGTAACTCCAAGCTTTCCTCTTTAATCCCAACGGCGCCAAACCT-TT
1 ACTCACCTTCCAACCGGCGGCAACTCCAAGCTTTCCTCTCTAATCCCAACGGCGCCGAACCTCTT
17689333 CTCTCTCTA
66 CTCTCTCTA
* *
17689342 ACTTACCTTCCAACCGGCGGCAACTCCAAGCTTTCCTCTCTAACCCCAACGGCGCCGAA-C-C-T
1 ACTCACCTTCCAACCGGCGGCAACTCCAAGCTTTCCTCTCTAATCCCAACGGCGCCGAACCTCTT
17689404 CTCTCTCTA
66 CTCTCTCTA
**
17689413 ACTCACCTTCCAACCTACGGCAACT
1 ACTCACCTTCCAACCGGCGGCAACT
17689438 AAACCCCCAG
Statistics
Matches: 209, Mismatches: 28, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
71 32 0.15
72 3 0.01
73 117 0.56
74 5 0.02
75 52 0.25
ACGTcount: A:0.22, C:0.41, G:0.11, T:0.26
Consensus pattern (74 bp):
ACTCACCTTCCAACCGGCGGCAACTCCAAGCTTTCCTCTCTAATCCCAACGGCGCCGAACCTCTT
CTCTCTCTA
Found at i:17689897 original size:12 final size:12
Alignment explanation
Indices: 17689882--17689921 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
17689872 TCTTTTTTTT
17689882 TTTTTTATTTCA
1 TTTTTTATTTCA
*
17689894 TTTTTCATTTCA
1 TTTTTTATTTCA
17689906 -TTTTT-TTTCA
1 TTTTTTATTTCA
17689916 TTTTTT
1 TTTTTT
17689922 TTGTTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 5 0.20
11 9 0.36
12 11 0.44
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTATTTCA
Found at i:17700660 original size:4 final size:4
Alignment explanation
Indices: 17700651--17700679 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
17700641 GATATAATCT
17700651 TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
17700680 ATATTCAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:17705332 original size:92 final size:94
Alignment explanation
Indices: 17705212--17705400 Score: 276
Period size: 99 Copynumber: 2.0 Consensus size: 94
17705202 ATTATTTTAA
* *
17705212 AGACATATAGTTGAAGCAATCCACCTATTTGTAG-ATA-AT-TTTTTGACCAATCAAAAATTAGT
1 AGACATATAGTTGAACCAATCCACCTATTGGTAGAATATATATTTTTGACCAATCAAAAATTAGT
17705274 TATTGGTCATCCAATTTATCTATAAATNAG
66 TATTGGTCATCCAATTTATCTATAAAT-AG
*
17705304 AGACATATAGTTGAACCAATTCACCTATTGGTAGATAATATTTATATTTTTGACCAATCAAAAAT
1 AGACATATAGTTGAACCAATCCACCTATTGGTAG--AATA--TATATTTTTGACCAATCAAAAAT
*
17705369 TTGTTATTGGTCATCCAATTTATCTATAAATA
62 TAGTTATTGGTCATCCAATTTATCTATAAATA
17705401 AATCAAAATA
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
92 31 0.36
95 3 0.03
98 3 0.03
99 49 0.57
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (94 bp):
AGACATATAGTTGAACCAATCCACCTATTGGTAGAATATATATTTTTGACCAATCAAAAATTAGT
TATTGGTCATCCAATTTATCTATAAATAG
Found at i:17705471 original size:81 final size:81
Alignment explanation
Indices: 17705336--17705556 Score: 415
Period size: 81 Copynumber: 2.7 Consensus size: 81
17705326 ACCTATTGGT
*
17705336 AGATAATATTTATATTTTTGACCAATCAAAAATTTGTTATTGGTCATCCAATTTATCTATAAATA
1 AGATAATATTTATATTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTATAAATA
17705401 AATCAAAATAATTTAG
66 AATCAAAATAATTTAG
17705417 AGATAATATTTATATTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTATAAATA
1 AGATAATATTTATATTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTATAAATA
17705482 AATCAAAATAATTTAG
66 AATCAAAATAATTTAG
*
17705498 AGATAATATTCATATTTTTGACCAATCAAAAAATTAGTTATTGGTCATCCAATTTATCT
1 AGATAATATTTATATTTTTGACCAATC-AAAAATTAGTTATTGGTCATCCAATTTATCT
17705557 CTATAATTAT
Statistics
Matches: 137, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
81 106 0.77
82 31 0.23
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (81 bp):
AGATAATATTTATATTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTATAAATA
AATCAAAATAATTTAG
Found at i:17705939 original size:23 final size:23
Alignment explanation
Indices: 17705912--17706012 Score: 103
Period size: 23 Copynumber: 4.3 Consensus size: 23
17705902 TTGAAGTGAA
* *
17705912 GATCAAGCAAAAACGAAGTTCGT
1 GATCAAGCGACAACGAAGTTCGT
* **
17705935 GATCAAGCGGCAATTAAGTTCGT
1 GATCAAGCGACAACGAAGTTCGT
*
17705958 GATCAAGCGACAACGAAGTTCAT
1 GATCAAGCGACAACGAAGTTCGT
** *
17705981 GATCAAGATATCAAGTGAAGTTCGT
1 GATCAAGCGA-CAA-CGAAGTTCGT
17706006 GATCAAG
1 GATCAAG
17706013 ATCAAGTGTT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
23 45 0.71
24 3 0.05
25 15 0.24
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.22
Consensus pattern (23 bp):
GATCAAGCGACAACGAAGTTCGT
Found at i:17706020 original size:23 final size:23
Alignment explanation
Indices: 17705926--17706039 Score: 87
Period size: 23 Copynumber: 5.0 Consensus size: 23
17705916 AAGCAAAAAC
**
17705926 GAAGTTCGTGATCAAGCGGCAA-T
1 GAAGTTCGTGATCAAG-ATCAAGT
* *
17705949 TAAGTTCGTGATCAAGCGA-CAA-C
1 GAAGTTCGTGATCAA--GATCAAGT
*
17705972 GAAGTTCATGATCAAGATATCAAGT
1 GAAGTTCGTGATCAAG--ATCAAGT
17705997 GAAGTTCGTGATCAAGATCAAGT
1 GAAGTTCGTGATCAAGATCAAGT
*
17706020 ---GTTCGTGATCAAGATTAAGT
1 GAAGTTCGTGATCAAGATCAAGT
17706040 TGTGAAGACC
Statistics
Matches: 77, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
20 19 0.25
21 1 0.01
23 38 0.49
24 3 0.04
25 16 0.21
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (23 bp):
GAAGTTCGTGATCAAGATCAAGT
Found at i:17706025 original size:20 final size:20
Alignment explanation
Indices: 17706000--17706039 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
17705990 ATCAAGTGAA
17706000 GTTCGTGATCAAGATCAAGT
1 GTTCGTGATCAAGATCAAGT
*
17706020 GTTCGTGATCAAGATTAAGT
1 GTTCGTGATCAAGATCAAGT
17706040 TGTGAAGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (20 bp):
GTTCGTGATCAAGATCAAGT
Found at i:17712445 original size:65 final size:64
Alignment explanation
Indices: 17712362--17712496 Score: 209
Period size: 65 Copynumber: 2.1 Consensus size: 64
17712352 TAAATTGCAT
* *
17712362 AAAAAAAAAAGCCTGCTAAGTTGAAAATCCTTAATAGGACT-ACTTAGGCAAAAGTTAAGGCAAA
1 AAAAAAAAAAGCCTGCTAAGTTGAAAATCCTTAACAAGA-TGACTTAGGCAAAAGTTAAGGCAAA
* *
17712426 AAAAAAAAAGAGCTTGCTAAGTTGAAAATCCTTAACAAGATGACTTAGGCAAAAGTTAAGGTAAA
1 AAAAAAAAA-AGCCTGCTAAGTTGAAAATCCTTAACAAGATGACTTAGGCAAAAGTTAAGGCAAA
17712491 AAAAAA
1 AAAAAA
17712497 TAATAAATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
64 10 0.15
65 55 0.85
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (64 bp):
AAAAAAAAAAGCCTGCTAAGTTGAAAATCCTTAACAAGATGACTTAGGCAAAAGTTAAGGCAAA
Found at i:17713519 original size:36 final size:35
Alignment explanation
Indices: 17713479--17713684 Score: 157
Period size: 36 Copynumber: 5.5 Consensus size: 35
17713469 TCTAAATTGT
*
17713479 GTGCTATTATAAAGAGCATCTCCCAAAGATCAACAA
1 GTGCTATTATAAAGAGCA-CTCCCAAGGATCAACAA
* *
17713515 GTGCTATTATAAAGAGCAC-CCTCAGAGGATAATAAATTA
1 GTGCTATTATAAAGAGCACTCC-CA-AGGATCA-ACA--A
**
17713554 TGTGCTAGAATAAAGAGCACCTCCCAAGGATCAACAA
1 -GTGCTATTATAAAGAGCA-CTCCCAAGGATCAACAA
* *
17713591 GTGCTATGATAAAGAGCAC-CCTCTAAGGAT-AATAAA
1 GTGCTATTATAAAGAGCACTCC-C-AAGGATCAA-CAA
* * *
17713627 TTGTGTGCTATTTTAAAGAGCACCCCTCAAGGATCAATAA
1 ----GTGCTATTATAAAGAGCACTCC-CAAGGATCAACAA
17713667 GTGCTATTATAAAGAGCA
1 GTGCTATTATAAAGAGCA
17713685 ACCTCCGAGA
Statistics
Matches: 139, Mismatches: 14, Indels: 34
0.74 0.07 0.18
Matches are distributed among these distances:
34 4 0.03
35 7 0.05
36 64 0.46
37 3 0.02
39 3 0.02
40 47 0.34
41 9 0.06
42 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (35 bp):
GTGCTATTATAAAGAGCACTCCCAAGGATCAACAA
Found at i:17713567 original size:76 final size:75
Alignment explanation
Indices: 17713471--17713726 Score: 343
Period size: 76 Copynumber: 3.4 Consensus size: 75
17713461 ATGGTGATTC
*
17713471 TAAATTGTGTGCTATTATAAAGAGCATCTCCCAAAGATCAACAAGTGCTATTATAAAGAGCACCC
1 TAAATTGTGTGCTATTATAAAGAGCA-CTCCCAAGGATCAACAAGTGCTATTATAAAGAGCACCC
17713536 TCAGAGGATAA
65 TCAGAGGATAA
* ** *
17713547 TAAATTATGTGCTAGAATAAAGAGCACCTCCCAAGGATCAACAAGTGCTATGATAAAGAGCACCC
1 TAAATTGTGTGCTATTATAAAGAGCA-CTCCCAAGGATCAACAAGTGCTATTATAAAGAGCACCC
17713612 TCTA-AGGATAA
65 TC-AGAGGATAA
* * * *
17713623 TAAATTGTGTGCTATTTTAAAGAGCACCCCTCAAGGATCAATAAGTGCTATTATAAAGAGCAACC
1 TAAATTGTGTGCTATTATAAAGAGCACTCC-CAAGGATCAACAAGTGCTATTATAAAGAGCACCC
* *
17713688 TCCGAGAATAA
65 TCAGAGGATAA
* * *
17713699 CAAATTGCGTGCTATTGTAAAGAGCACT
1 TAAATTGTGTGCTATTATAAAGAGCACT
17713727 ACTTCTCCCA
Statistics
Matches: 157, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
75 3 0.02
76 153 0.97
77 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.25
Consensus pattern (75 bp):
TAAATTGTGTGCTATTATAAAGAGCACTCCCAAGGATCAACAAGTGCTATTATAAAGAGCACCCT
CAGAGGATAA
Found at i:17713570 original size:40 final size:38
Alignment explanation
Indices: 17713523--17713666 Score: 134
Period size: 40 Copynumber: 3.7 Consensus size: 38
17713513 AAGTGCTATT
17713523 ATAAAGAGCACCCTCAGAGGATAATAAATTATGTGCTAG
1 ATAAAGAGCACCCTCA-AGGATAATAAATTATGTGCTAG
* * *
17713562 AATAAAGAGCACCTCCCAAGGATCA-ACA--A-GTGCTATG
1 -ATAAAGAGCACC-CTCAAGGATAATAAATTATGTGCTA-G
* *
17713599 ATAAAGAGCACCCTCTAAGGATAATAAATTGTGTGCTATT
1 ATAAAGAGCACCCTC-AAGGATAATAAATTATGTGCTA-G
*
17713639 TTAAAGAGCACCCCTCAAGGATCAATAA
1 ATAAAGAGCA-CCCTCAAGGAT-AATAA
17713667 GTGCTATTAT
Statistics
Matches: 86, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
35 2 0.02
36 25 0.29
37 4 0.05
39 2 0.02
40 40 0.47
41 13 0.15
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.22
Consensus pattern (38 bp):
ATAAAGAGCACCCTCAAGGATAATAAATTATGTGCTAG
Found at i:17714658 original size:61 final size:61
Alignment explanation
Indices: 17714563--17714679 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 61
17714553 TGTAATCCTA
* * *
17714563 ATTGCAATATACTTCTTTAAATAGTTTTATTGCAATATACCTCTTTCAAAATTATAGCCTT
1 ATTGCAATATACTTCTTCAAATAGTTTTATTGCAATATACATCTTCCAAAATTATAGCCTT
*
17714624 ATTGCAATATACTTCTTCAAATAGTTTTATTGCAATATACATCTTCCAAGATTATA
1 ATTGCAATATACTTCTTCAAATAGTTTTATTGCAATATACATCTTCCAAAATTATA
17714680 ATTCTCTTAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (61 bp):
ATTGCAATATACTTCTTCAAATAGTTTTATTGCAATATACATCTTCCAAAATTATAGCCTT
Found at i:17714669 original size:28 final size:28
Alignment explanation
Indices: 17714563--17714669 Score: 124
Period size: 28 Copynumber: 3.6 Consensus size: 28
17714553 TGTAATCCTA
*
17714563 ATTGCAATATACTTCTTTAAATAGTTTT
1 ATTGCAATATACTTCTTCAAATAGTTTT
* **
17714591 ATTGCAATATACCTCTTTCAAAATTATAGCCTT
1 ATTGCAATATACTTC-TTC--AA--ATAGTTTT
17714624 ATTGCAATATACTTCTTCAAATAGTTTT
1 ATTGCAATATACTTCTTCAAATAGTTTT
*
17714652 ATTGCAATATACATCTTC
1 ATTGCAATATACTTCTTC
17714670 CAAGATTATA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
28 37 0.56
29 2 0.03
30 2 0.03
31 2 0.03
32 3 0.05
33 20 0.30
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.44
Consensus pattern (28 bp):
ATTGCAATATACTTCTTCAAATAGTTTT
Found at i:17715084 original size:81 final size:81
Alignment explanation
Indices: 17714990--17715222 Score: 371
Period size: 81 Copynumber: 2.9 Consensus size: 81
17714980 GGTAGATAAT
17714990 TTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTCTAAATAAATCAAAATAATTT
1 TTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTCTAAATAAATCAAAATAATTT
*
17715055 AGAGATAATATTTATA
66 AGAGATAATATTCATA
*
17715071 TTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTCTAAATAAATCAAGATAATTT
1 TTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTCTAAATAAATCAAAATAATTT
17715136 AGAGATAATATTCATA
66 AGAGATAATATTCATA
* * ** * * *
17715152 TTTTTGACCAATCAAAATTTAATTATTGGTCATTTAATTTATCTCT-AAT-AATTATATTAATTT
1 TTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTCTAAATAAATCAAAATAATTT
17715215 AGAGATAA
66 AGAGATAA
17715223 AAGTCAAATG
Statistics
Matches: 142, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
79 18 0.13
80 3 0.02
81 121 0.85
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (81 bp):
TTTTTGACCAATCAAAAATTAGTTATTGGTCATCCAATTTATCTCTAAATAAATCAAAATAATTT
AGAGATAATATTCATA
Found at i:17715579 original size:23 final size:23
Alignment explanation
Indices: 17715552--17715652 Score: 132
Period size: 23 Copynumber: 4.3 Consensus size: 23
17715542 CTGAAGTGAA
17715552 GATCAAGCAAAAACGAAGTTCGT
1 GATCAAGCAAAAACGAAGTTCGT
*
17715575 GATCAAGCAAAAATGAAGTTCGT
1 GATCAAGCAAAAACGAAGTTCGT
* *
17715598 GATCAAGCGACAACGAAGTTCGT
1 GATCAAGCAAAAACGAAGTTCGT
*
17715621 GATCAAG-ATATCAAGCGAAGTTCGT
1 GATCAAGCA-A--AAACGAAGTTCGT
17715646 GATCAAG
1 GATCAAG
17715653 ATCAAGTGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
23 50 0.74
25 18 0.26
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.20
Consensus pattern (23 bp):
GATCAAGCAAAAACGAAGTTCGT
Found at i:17715645 original size:25 final size:23
Alignment explanation
Indices: 17715563--17715674 Score: 124
Period size: 23 Copynumber: 4.9 Consensus size: 23
17715553 ATCAAGCAAA
*
17715563 AACGAAGTTCGTGATCAAGCA-AA
1 AACGAAGTTCGTGATCAAG-ATAC
* **
17715586 AATGAAGTTCGTGATCAAGCGAC
1 AACGAAGTTCGTGATCAAGATAC
17715609 AACGAAGTTCGTGATCAAGATATC
1 AACGAAGTTCGTGATCAAGATA-C
17715633 AAGCGAAGTTCGTGATCAAGAT-C
1 AA-CGAAGTTCGTGATCAAGATAC
*
17715656 AA-G-TGTTCGTGATCAAGAT
1 AACGAAGTTCGTGATCAAGAT
17715675 TAAGTCGTGA
Statistics
Matches: 79, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
20 15 0.19
21 1 0.01
23 41 0.52
24 3 0.04
25 19 0.24
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (23 bp):
AACGAAGTTCGTGATCAAGATAC
Found at i:17715665 original size:20 final size:20
Alignment explanation
Indices: 17715640--17715679 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
17715630 ATCAAGCGAA
17715640 GTTCGTGATCAAGATCAAGT
1 GTTCGTGATCAAGATCAAGT
*
17715660 GTTCGTGATCAAGATTAAGT
1 GTTCGTGATCAAGATCAAGT
17715680 CGTGAAGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (20 bp):
GTTCGTGATCAAGATCAAGT
Found at i:17715718 original size:49 final size:49
Alignment explanation
Indices: 17715650--17715780 Score: 208
Period size: 49 Copynumber: 2.6 Consensus size: 49
17715640 GTTCGTGATC
*
17715650 AAGATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCTTTGAAGCG
1 AAGATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCG
*
17715699 AAGATCAAGTGTTCATGATCAAGATTAAGTCGTGAAGACCCTTGAAGCG
1 AAGATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCG
* *
17715748 AAGATCAAGCAAGTTCGTGATCAAGACTAAGTC
1 AAGATCAAG--TGTTCGTGATCAAGATTAAGTC
17715781 CAAGTTCGTG
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
49 56 0.75
51 19 0.25
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (49 bp):
AAGATCAAGTGTTCGTGATCAAGATTAAGTCGTGAAGACCCTTGAAGCG
Found at i:17718826 original size:11 final size:11
Alignment explanation
Indices: 17718806--17718859 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
17718796 CAAGCTTTTT
17718806 CTTCCTTTCTC
1 CTTCCTTTCTC
*
17718817 CTTGCTTTCT-
1 CTTCCTTTCTC
17718827 -TTCCTTTCTC
1 CTTCCTTTCTC
*
17718837 CTTTC-TTC-C
1 CTTCCTTTCTC
*
17718846 TTTCCTTTCTC
1 CTTCCTTTCTC
17718857 CTT
1 CTT
17718860 TCTTCCAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 12 0.36
10 6 0.18
11 15 0.45
ACGTcount: A:0.00, C:0.39, G:0.02, T:0.59
Consensus pattern (11 bp):
CTTCCTTTCTC
Found at i:17718860 original size:20 final size:20
Alignment explanation
Indices: 17718807--17718865 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
17718797 AAGCTTTTTC
* *
17718807 TTCCTTTCTCCTTGCTTTCT
1 TTCCTTTCTCCTTTCTTCCT
17718827 TTCCTTTCTCCTTTCTTCCT
1 TTCCTTTCTCCTTTCTTCCT
17718847 TTCCTTTCTCCTTTCTTCC
1 TTCCTTTCTCCTTTCTTCC
17718866 AATTGATCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.00, C:0.39, G:0.02, T:0.59
Consensus pattern (20 bp):
TTCCTTTCTCCTTTCTTCCT
Found at i:17726068 original size:21 final size:21
Alignment explanation
Indices: 17726032--17726082 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
17726022 ACATGTTGAG
17726032 TAGTT-AA-TTTAAGTTATTT
1 TAGTTAAATTTTAAGTTATTT
*
17726051 TAGTTAAATTTTATGTTATTT
1 TAGTTAAATTTTAAGTTATTT
*
17726072 TATTTTAAATT
1 TA-GTTAAATT
17726083 ACTTTAAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 5 0.19
20 2 0.07
21 13 0.48
22 7 0.26
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (21 bp):
TAGTTAAATTTTAAGTTATTT
Found at i:17734819 original size:19 final size:19
Alignment explanation
Indices: 17734795--17734833 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
17734785 TTAAAAGATA
17734795 GTCCCCATGACTTTAACAT
1 GTCCCCATGACTTTAACAT
17734814 GTCCCCATGACTTTAACAT
1 GTCCCCATGACTTTAACAT
17734833 G
1 G
17734834 CAATTGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.31
Consensus pattern (19 bp):
GTCCCCATGACTTTAACAT
Found at i:17735940 original size:36 final size:37
Alignment explanation
Indices: 17735900--17735969 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
17735890 TTGCTCAGAG
* *
17735900 GGAAAATTTATG-GAGTTAAGTTTGAGCGGAAGTAAC
1 GGAAAATTAATGAAAGTTAAGTTTGAGCGGAAGTAAC
* *
17735936 GGAAAATTAATGAAATTTAAGTTTGAGTGGAAGT
1 GGAAAATTAATGAAAGTTAAGTTTGAGCGGAAGT
17735970 TATGTTGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
36 11 0.38
37 18 0.62
ACGTcount: A:0.39, C:0.03, G:0.29, T:0.30
Consensus pattern (37 bp):
GGAAAATTAATGAAAGTTAAGTTTGAGCGGAAGTAAC
Found at i:17744826 original size:16 final size:17
Alignment explanation
Indices: 17744799--17744833 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
17744789 CAATTTTCCT
17744799 TCCCTAATTCTTTTCTC
1 TCCCTAATTCTTTTCTC
*
17744816 TCCCT-ATTCTTTTTTC
1 TCCCTAATTCTTTTCTC
17744832 TC
1 TC
17744834 TCTCTCGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.09, C:0.34, G:0.00, T:0.57
Consensus pattern (17 bp):
TCCCTAATTCTTTTCTC
Found at i:17745452 original size:43 final size:43
Alignment explanation
Indices: 17745332--17745454 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
17745322 AAGATAAAGG
* * * *
17745332 TCCTCATCTAGAATGAGGCTATGTCACTTTAAAGAAGGAATAAAC
1 TCCTCATTTAGAATGAGGCTACGTAACTTT-AA-AAGAAATAAAC
* * * *
17745377 TCCTCATCTTGGAATTAAGCTACGTAACTTTAAAAGAAATAAGC
1 TCCTCAT-TTAGAATGAGGCTACGTAACTTTAAAAGAAATAAAC
*
17745421 TCCTCATTTAGAATGAGGTTACGTAACTTTAAAA
1 TCCTCATTTAGAATGAGGCTACGTAACTTTAAAA
17745455 ATTTAAACAA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 23 0.35
44 16 0.25
45 9 0.14
46 17 0.26
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.30
Consensus pattern (43 bp):
TCCTCATTTAGAATGAGGCTACGTAACTTTAAAAGAAATAAAC
Found at i:17749737 original size:63 final size:61
Alignment explanation
Indices: 17749663--17749825 Score: 193
Period size: 63 Copynumber: 2.6 Consensus size: 61
17749653 GTAACCGTGC
* ** *
17749663 ATGTGCGGAGTGGGCAGTGCATATGCCGGTTAAATGATGAGGTTTTGATAGTTACAACCGTAA
1 ATGTGC-GAGTGGGCAGTGCACATGCCGGTT-AATGATGAGGTTGCGATAATTACAACCGTAA
* * * **
17749726 ATGTGCAGAGTGGGTAGTGCACATGCCGGTTGAATGATGATGTTGCGATAATTACTACCGTGC
1 ATGTGC-GAGTGGGCAGTGCACATGCCGGTT-AATGATGAGGTTGCGATAATTACAACCGTAA
17749789 ATGTGCGAAGTGGGCAGTGCACATGCCGG-TAATGATG
1 ATGTGCG-AGTGGGCAGTGCACATGCCGGTTAATGATG
17749826 CATATGAGCT
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
61 7 0.08
62 2 0.02
63 78 0.90
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (61 bp):
ATGTGCGAGTGGGCAGTGCACATGCCGGTTAATGATGAGGTTGCGATAATTACAACCGTAA
Found at i:17762606 original size:21 final size:21
Alignment explanation
Indices: 17762555--17762643 Score: 115
Period size: 21 Copynumber: 4.2 Consensus size: 21
17762545 TTGAATAGAG
* * *
17762555 GCATCAGTCCTTATCATAAAT
1 GCATCAGTCTTTGTCATGAAT
*
17762576 GCATCAGTCTTTGTTATGAAT
1 GCATCAGTCTTTGTCATGAAT
**
17762597 GCATCAGTCTTTGTTGTGAAT
1 GCATCAGTCTTTGTCATGAAT
17762618 GCATCAGTCTTTGTCATGAATT
1 GCATCAGTCTTTGTCATGAA-T
17762640 GCAT
1 GCAT
17762644 GAACATATCC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
21 55 0.92
22 5 0.08
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (21 bp):
GCATCAGTCTTTGTCATGAAT
Found at i:17774389 original size:42 final size:42
Alignment explanation
Indices: 17774342--17774421 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
17774332 TGATGTGGAT
17774342 CCGGCTATGTGCGAGTAGAAGTGCACATAAGCCGTTGCTGAC
1 CCGGCTATGTGCGAGTAGAAGTGCACATAAGCCGTTGCTGAC
* * **
17774384 CCGGCTATGTGCGAGTGGGAGTGTGCATAAGCCGTTGC
1 CCGGCTATGTGCGAGTAGAAGTGCACATAAGCCGTTGC
17774422 ATATGAAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.20, C:0.23, G:0.35, T:0.23
Consensus pattern (42 bp):
CCGGCTATGTGCGAGTAGAAGTGCACATAAGCCGTTGCTGAC
Found at i:17779783 original size:60 final size:60
Alignment explanation
Indices: 17779716--17779910 Score: 158
Period size: 60 Copynumber: 3.2 Consensus size: 60
17779706 ATCTATCAAA
* ** * * * * *
17779716 GATGGCTATATAAAATGTTAAGGGTGTATCGAGGGAAATATTGATGGAATATCCGTCGGT
1 GATGGCTATATAAAATGTCAAGGGAATACCAAGGGAAATACTCATGGAATATCCATCGGT
* * *
17779776 GATGGCTACATAAAATGTCAAGGGAATACCAATGGAAATACTCATGGAATATCCATTGGT
1 GATGGCTATATAAAATGTCAAGGGAATACCAAGGGAAATACTCATGGAATATCCATCGGT
** * * * * * * * * *
17779836 GATGGCT-TCATAAAACATCAAGGTATTACAAATGAAAATACCCATGGAATATTCGTCGAT
1 GATGGCTAT-ATAAAATGTCAAGGGAATACCAAGGGAAATACTCATGGAATATCCATCGGT
* *
17779896 GATGTCTACATAAAA
1 GATGGCTATATAAAA
17779911 CACCAAGGTT
Statistics
Matches: 108, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
60 108 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.27
Consensus pattern (60 bp):
GATGGCTATATAAAATGTCAAGGGAATACCAAGGGAAATACTCATGGAATATCCATCGGT
Found at i:17779911 original size:60 final size:60
Alignment explanation
Indices: 17779759--17779919 Score: 196
Period size: 60 Copynumber: 2.7 Consensus size: 60
17779749 GGAAATATTG
** * * * *
17779759 ATGGAATATCCGTCGGTGATGGCTACATAAAATGTCAAGGGAATACCAATGGAAATACTC
1 ATGGAATATCCGTCGGTGATGGCTACATAAAACATCAAGGTAATACAAATGAAAATACCC
* * * *
17779819 ATGGAATATCCATTGGTGATGGCTTCATAAAACATCAAGGTATTACAAATGAAAATACCC
1 ATGGAATATCCGTCGGTGATGGCTACATAAAACATCAAGGTAATACAAATGAAAATACCC
* * * *
17779879 ATGGAATATTCGTCGATGATGTCTACATAAAACACCAAGGT
1 ATGGAATATCCGTCGGTGATGGCTACATAAAACATCAAGGT
17779920 TGATGACGAA
Statistics
Matches: 84, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 84 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (60 bp):
ATGGAATATCCGTCGGTGATGGCTACATAAAACATCAAGGTAATACAAATGAAAATACCC
Found at i:17782327 original size:23 final size:24
Alignment explanation
Indices: 17782294--17782342 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
17782284 TAAGTAGGCC
*
17782294 TAAGGCAT-AAATGAATGATGAAAA
1 TAAGGCATAAAATG-ATGAAGAAAA
17782318 TAAGG-ATAAAATGATGAAGAAAA
1 TAAGGCATAAAATGATGAAGAAAA
17782341 TA
1 TA
17782343 GAAATAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.57, C:0.02, G:0.20, T:0.20
Consensus pattern (24 bp):
TAAGGCATAAAATGATGAAGAAAA
Found at i:17782588 original size:20 final size:20
Alignment explanation
Indices: 17782563--17782610 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
17782553 GCTATAAATA
17782563 TCATTTTTCCAGTAGCTTCT
1 TCATTTTTCCAGTAGCTTCT
17782583 TCATTTCTT-CAGTAGCTTCT
1 TCATTT-TTCCAGTAGCTTCT
17782603 TC-TTTTTC
1 TCATTTTTC
17782611 TCATCCCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 19 0.73
21 2 0.08
ACGTcount: A:0.12, C:0.25, G:0.08, T:0.54
Consensus pattern (20 bp):
TCATTTTTCCAGTAGCTTCT
Found at i:17786339 original size:43 final size:43
Alignment explanation
Indices: 17786278--17786372 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 43
17786268 TTTTGTATGA
* * *
17786278 TAATGAGGACCCAGCTATGTGC-GATGTGGGAGTGCACATGAGC
1 TAATGATGACCCAACTATGTACAG-TGTGGGAGTGCACATGAGC
17786321 TAATGATGACCCAACTATGTACAGTGTGGGAGTGCACATGAGC
1 TAATGATGACCCAACTATGTACAGTGTGGGAGTGCACATGAGC
*
17786364 TGATGATGA
1 TAATGATGA
17786373 TGATATTGCA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.23
Consensus pattern (43 bp):
TAATGATGACCCAACTATGTACAGTGTGGGAGTGCACATGAGC
Found at i:17794732 original size:18 final size:18
Alignment explanation
Indices: 17794711--17794797 Score: 68
Period size: 18 Copynumber: 4.8 Consensus size: 18
17794701 AGACACACCT
* *
17794711 TTTGAGCAAACATAACTG
1 TTTGAGCAAACATAATTA
17794729 TTTG-GACAAACATAATTA
1 TTTGAG-CAAACATAATTA
* * * * *
17794747 TTTAAACAAATATAGTTG
1 TTTGAGCAAACATAATTA
** *
17794765 TTTGAATAAACTTAATTA
1 TTTGAGCAAACATAATTA
17794783 TTTGAGCAAACATAA
1 TTTGAGCAAACATAA
17794798 CTTCTAAATA
Statistics
Matches: 51, Mismatches: 16, Indels: 4
0.72 0.23 0.06
Matches are distributed among these distances:
17 1 0.02
18 50 0.98
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.34
Consensus pattern (18 bp):
TTTGAGCAAACATAATTA
Found at i:17801720 original size:2 final size:2
Alignment explanation
Indices: 17801708--17801749 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
17801698 AGTAGGATCA
* *
17801708 AT AT GAT AT AT AT AT AT AT AT AT AT AG AT A- AT AT AA AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17801750 TTTTTCTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
1 1 0.03
2 31 0.91
3 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (2 bp):
AT
Found at i:17806617 original size:139 final size:138
Alignment explanation
Indices: 17806445--17806723 Score: 549
Period size: 139 Copynumber: 2.0 Consensus size: 138
17806435 ACTAATCTGT
17806445 ATAAATTGACGAAATCATCTAATGCTGGAATATTGTTAGCACATTCTTATATACTGCAGAATATG
1 ATAAATTGACGAAATCATCTAATGCTGGAATATTGTTAGCACATTCTTATATACTGCAGAATATG
17806510 GGTTGATGAAAAACATGTATGACTTTCACTTTCTTTCTTCCTTTGTCACATTATTTTCCTATTTC
66 GGTTGATGAAAAACATGTATGA-TTTCACTTTCTTTCTTCCTTTGTCACATTATTTTCCTATTTC
17806575 ATTCTAGGA
130 ATTCTAGGA
17806584 ATAAATTGACGAAATCATCTAATGCTGGAATATTGTTAGCACATTCTTATATACTGCAGAATATG
1 ATAAATTGACGAAATCATCTAATGCTGGAATATTGTTAGCACATTCTTATATACTGCAGAATATG
17806649 GGTTGATGAAAAACATGTATGATTTCACTTTCTTTCTTCCTTTGTCACATTATTTTCCTATTTCA
66 GGTTGATGAAAAACATGTATGATTTCACTTTCTTTCTTCCTTTGTCACATTATTTTCCTATTTCA
17806714 TTCTAGGA
131 TTCTAGGA
17806722 AT
1 AT
17806724 TGTACTATTT
Statistics
Matches: 140, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
138 53 0.38
139 87 0.62
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (138 bp):
ATAAATTGACGAAATCATCTAATGCTGGAATATTGTTAGCACATTCTTATATACTGCAGAATATG
GGTTGATGAAAAACATGTATGATTTCACTTTCTTTCTTCCTTTGTCACATTATTTTCCTATTTCA
TTCTAGGA
Found at i:17815038 original size:38 final size:38
Alignment explanation
Indices: 17814990--17815103 Score: 174
Period size: 38 Copynumber: 3.0 Consensus size: 38
17814980 AGAGTATGTG
17814990 TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
1 TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
* *
17815028 TGATGATATTGAAATGTGAGAGTAGGGAGTGCAAATGA
1 TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
*** *
17815066 TGATGATATTGCCTTGTGCGTGTAGGGAGTGCACATGA
1 TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
17815104 GCTGAGTTTG
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 68 1.00
ACGTcount: A:0.30, C:0.08, G:0.34, T:0.28
Consensus pattern (38 bp):
TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
Found at i:17817213 original size:21 final size:22
Alignment explanation
Indices: 17817189--17817235 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
17817179 AGGCCAAAAC
17817189 AGAATG-TTTCTAGCTGCAGTG
1 AGAATGCTTTCTAGCTGCAGTG
* *
17817210 AGAATGCTTTCTCGTTGCAGTG
1 AGAATGCTTTCTAGCTGCAGTG
17817232 AGAA
1 AGAA
17817236 GCAGAGCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.32
Consensus pattern (22 bp):
AGAATGCTTTCTAGCTGCAGTG
Found at i:17817559 original size:37 final size:37
Alignment explanation
Indices: 17817489--17817561 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
17817479 TACCACCATA
* ** *
17817489 TGTGCATTCCCAACTCGCACATTTCAATGTCATCATG
1 TGTGCACTCCCAACTCGCACACCTCAATATCATCATG
* *
17817526 TGTGCACTCCCTACTCGCACACCTCATTATCATCAT
1 TGTGCACTCCCAACTCGCACACCTCAATATCATCAT
17817562 ACAACATTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.23, C:0.34, G:0.11, T:0.32
Consensus pattern (37 bp):
TGTGCACTCCCAACTCGCACACCTCAATATCATCATG
Found at i:17818175 original size:2 final size:2
Alignment explanation
Indices: 17818168--17818192 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17818158 ATGTGGAAAG
17818168 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
17818193 AGAATGTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:17827718 original size:37 final size:37
Alignment explanation
Indices: 17827648--17827720 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
17827638 TACCACCATA
* ** *
17827648 TGTGCATTCCCTAATCGCACATTTCAATGTCATCATG
1 TGTGCACTCCCTAATCGCACACCTCAATATCATCATG
* *
17827685 TGTGCACTCCCTACTCGCACACCTCATTATCATCAT
1 TGTGCACTCCCTAATCGCACACCTCAATATCATCAT
17827721 ACAACATTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.23, C:0.33, G:0.11, T:0.33
Consensus pattern (37 bp):
TGTGCACTCCCTAATCGCACACCTCAATATCATCATG
Found at i:17833699 original size:39 final size:39
Alignment explanation
Indices: 17833631--17833739 Score: 128
Period size: 39 Copynumber: 2.8 Consensus size: 39
17833621 GCACCTCACC
* * * *
17833631 ATCACCATCATGTGCACTCTCACATCACACATGGCATAT
1 ATCATCATCATGTGCTCTCCCACAACACACATGGCATAT
*
17833670 ATCATCATCATGTGCTCTCCCACACCACACATGGCATAT
1 ATCATCATCATGTGCTCTCCCACAACACACATGGCATAT
* ** * *
17833709 TTCATCGGCGTGTGCTCTCCCATAACACACA
1 ATCATCATCATGTGCTCTCCCACAACACACA
17833740 CTACCGGCAG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 60 1.00
ACGTcount: A:0.28, C:0.35, G:0.12, T:0.26
Consensus pattern (39 bp):
ATCATCATCATGTGCTCTCCCACAACACACATGGCATAT
Found at i:17834795 original size:12 final size:11
Alignment explanation
Indices: 17834764--17834822 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
17834754 CAAAACCAAG
17834764 CTTT-TTTCTTC
1 CTTTCTTTC-TC
*
17834775 CTTTCTCTCT-
1 CTTTCTTTCTC
*
17834785 TTTTCTTTCTC
1 CTTTCTTTCTC
17834796 CTTTCTTTCT-
1 CTTTCTTTCTC
*
17834806 -TTACTTTCTC
1 CTTTCTTTCTC
17834816 CTTTCTT
1 CTTTCTT
17834823 CCAACTAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 8 0.21
10 8 0.21
11 19 0.50
12 3 0.08
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.68
Consensus pattern (11 bp):
CTTTCTTTCTC
Found at i:17834814 original size:20 final size:21
Alignment explanation
Indices: 17834768--17834822 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
17834758 ACCAAGCTTT
* *
17834768 TTTCTTCCTTTCTCTCTTTTTC
1 TTTC-TCCTTTCTTTCTTTTAC
17834790 TTTCTCCTTTCTTTC-TTTAC
1 TTTCTCCTTTCTTTCTTTTAC
17834810 TTTCTCCTTTCTT
1 TTTCTCCTTTCTT
17834823 CCAACTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 17 0.55
21 10 0.32
22 4 0.13
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTCTCCTTTCTTTCTTTTAC
Found at i:17836959 original size:17 final size:16
Alignment explanation
Indices: 17836937--17836971 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
17836927 ATAATGACAT
*
17836937 TATATATTCAGAATATA
1 TATATATACAG-ATATA
17836954 TATATATACAGATATA
1 TATATATACAGATATA
17836970 TA
1 TA
17836972 GGGTAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (16 bp):
TATATATACAGATATA
Found at i:17837035 original size:13 final size:14
Alignment explanation
Indices: 17837013--17837044 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
17837003 TTATCATCAA
17837013 TATT-TCAACAGTG
1 TATTGTCAACAGTG
17837026 T-TTGTCAACAGTG
1 TATTGTCAACAGTG
17837039 TATTGT
1 TATTGT
17837045 TACCAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.12
13 11 0.65
14 4 0.24
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (14 bp):
TATTGTCAACAGTG
Found at i:17846404 original size:59 final size:59
Alignment explanation
Indices: 17846312--17846432 Score: 233
Period size: 59 Copynumber: 2.1 Consensus size: 59
17846302 AAGATCTTGA
*
17846312 GAACTTACATAGCTAAAGCTGCTGCTCCTCCCATGAAGTGTTGATGATAGAAAATGGTG
1 GAACTTACATAGCAAAAGCTGCTGCTCCTCCCATGAAGTGTTGATGATAGAAAATGGTG
17846371 GAACTTACATAGCAAAAGCTGCTGCTCCTCCCATGAAGTGTTGATGATAGAAAATGGTG
1 GAACTTACATAGCAAAAGCTGCTGCTCCTCCCATGAAGTGTTGATGATAGAAAATGGTG
17846430 GAA
1 GAA
17846433 TATCCTCAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (59 bp):
GAACTTACATAGCAAAAGCTGCTGCTCCTCCCATGAAGTGTTGATGATAGAAAATGGTG
Found at i:17849579 original size:37 final size:37
Alignment explanation
Indices: 17849538--17849673 Score: 193
Period size: 37 Copynumber: 3.7 Consensus size: 37
17849528 CATATGCATT
*
17849538 CATCATCATGTGTGCACTCCCTACTCGTACACT-TCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTCT-AA
* * * *
17849575 CATCATCATGTGTGCACTCCTTACACACACACTCTGA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
* *
17849612 CATCAACATGTGTGCGCTCCCTACTCGCACACTCTAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
17849649 CATCATCATGTGTGCACTCCCTACT
1 CATCATCATGTGTGCACTCCCTACT
17849674 TGCAAACTTT
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
37 84 0.99
38 1 0.01
ACGTcount: A:0.24, C:0.36, G:0.12, T:0.28
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
Found at i:17862500 original size:23 final size:23
Alignment explanation
Indices: 17862470--17862523 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
17862460 TACATATACT
17862470 CATCATCATCATGCACACCATCC
1 CATCATCATCATGCACACCATCC
* * *
17862493 CATCATCATCATGCACATCGTCT
1 CATCATCATCATGCACACCATCC
17862516 CATCATCA
1 CATCATCA
17862524 CCAGCTCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.30, C:0.39, G:0.06, T:0.26
Consensus pattern (23 bp):
CATCATCATCATGCACACCATCC
Found at i:17862629 original size:43 final size:43
Alignment explanation
Indices: 17862518--17862640 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 43
17862508 CATCGTCTCA
**
17862518 TCATCACCAG-CTCATGTGCACTCCCTACTCGCACATGGCTGGG
1 TCATCACCAGCCT-ATGTGCACTCCCTACTCGCACATAACTGGG
* ** *
17862561 TCATCACCGGGTTATGCGCACTCCCTACTCGCACATAACTGGG
1 TCATCACCAGCCTATGTGCACTCCCTACTCGCACATAACTGGG
* * * *
17862604 TCATCATCATCCTATGTGCATTCCCTACTTGCACATA
1 TCATCACCAGCCTATGTGCACTCCCTACTCGCACATA
17862641 GCCGAGTCAA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
43 65 0.98
44 1 0.02
ACGTcount: A:0.21, C:0.35, G:0.17, T:0.27
Consensus pattern (43 bp):
TCATCACCAGCCTATGTGCACTCCCTACTCGCACATAACTGGG
Found at i:17865222 original size:39 final size:39
Alignment explanation
Indices: 17865163--17865271 Score: 110
Period size: 39 Copynumber: 2.8 Consensus size: 39
17865153 TAACCATACG
* * * * *
17865163 TGTGCGGTGTGGAAGTGCACACGCCGATGATATTTGCCA
1 TGTGCGGTGTGGGAGAGCACACGACGATGATATATACCA
* * *
17865202 TGTGCGGTGTGGGAGAGCACATGATGATGATATATACCG
1 TGTGCGGTGTGGGAGAGCACACGACGATGATATATACCA
* * * *
17865241 TGTGCGGTGTGGGGGTGCACATGACGGTGAT
1 TGTGCGGTGTGGGAGAGCACACGACGATGAT
17865272 GGTGAGGTGC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.20, C:0.16, G:0.39, T:0.26
Consensus pattern (39 bp):
TGTGCGGTGTGGGAGAGCACACGACGATGATATATACCA
Found at i:17865482 original size:22 final size:22
Alignment explanation
Indices: 17865454--17865496 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
17865444 CATTCAAATT
17865454 GATTTTCATTGT-AGCAAGAATG
1 GATTTTCATTGTGA-CAAGAATG
17865476 GATTTTCATTGTGACAAGAAT
1 GATTTTCATTGTGACAAGAAT
17865497 TCTTCTAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (22 bp):
GATTTTCATTGTGACAAGAATG
Found at i:17871029 original size:2 final size:2
Alignment explanation
Indices: 17871022--17871064 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
17871012 GATGCAAAAG
* *
17871022 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17871064 A
1 A
17871065 GTACACTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17890973 original size:21 final size:19
Alignment explanation
Indices: 17890945--17891007 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 19
17890935 TTTAGATGTC
17890945 TAAAATAAT--TATTTGAAA
1 TAAAATAATAATATTTG-AA
* * *
17890963 TGAAATTATAACTGTTTGAA
1 TAAAATAATAA-TATTTGAA
17890983 TAAAATAATAATATTT-AA
1 TAAAATAATAATATTTGAA
17891001 TAAAATA
1 TAAAATA
17891008 TTCTATTTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
18 16 0.44
19 4 0.11
20 11 0.31
21 5 0.14
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (19 bp):
TAAAATAATAATATTTGAA
Found at i:17892229 original size:28 final size:29
Alignment explanation
Indices: 17892188--17892247 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
17892178 GTCTATGGGC
*
17892188 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
17892216 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
17892246 AA
1 AA
17892248 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:17908603 original size:29 final size:31
Alignment explanation
Indices: 17908566--17908626 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
17908556 AATTGGTATT
*
17908566 TATTGATGA-TTGAATG-TTCACTTTGAATA
1 TATTGATGAGTTGAATGCTTCACTTTCAATA
* * *
17908595 TATTTATGAGTTGAGTGCTTTACTTTCAATA
1 TATTGATGAGTTGAATGCTTCACTTTCAATA
17908626 T
1 T
17908627 TCTATAACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 8 0.31
30 6 0.23
31 12 0.46
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (31 bp):
TATTGATGAGTTGAATGCTTCACTTTCAATA
Found at i:17911817 original size:35 final size:34
Alignment explanation
Indices: 17911778--17911955 Score: 105
Period size: 35 Copynumber: 5.3 Consensus size: 34
17911768 GTTGATCCCG
*
17911778 TGAAAAGCCATTGTTCTAAGTTGTGGTTGAGCCTT
1 TGAAAAACCATTGTT-TAAGTTGTGGTTGAGCCTT
* ** * **
17911813 TGAAAAACCA--CTTTGGGTTTTGGTTGAGCCCG
1 TGAAAAACCATTGTTTAAGTTGTGGTTGAGCCTT
**
17911845 TGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTT
1 TGAAAAACCATTGTTTAA-GTTGTGGTTGAGCCTT
* ** * * **
17911880 TG-AAAACCA--CTTTGGGTTTTGGTTAAGCCCA
1 TGAAAAACCATTGTTTAAGTTGTGGTTGAGCCTT
** * *
17911911 TGAAAAACCATTGTGAAAGGTTGTGGATGAACCTT
1 TGAAAAACCATTGTTTAA-GTTGTGGTTGAGCCTT
*
17911946 CGAAAAACCA
1 TGAAAAACCA
17911956 CTTTGGGTTT
Statistics
Matches: 100, Mismatches: 36, Indels: 14
0.67 0.24 0.09
Matches are distributed among these distances:
31 14 0.14
32 32 0.32
33 2 0.02
34 9 0.09
35 43 0.43
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (34 bp):
TGAAAAACCATTGTTTAAGTTGTGGTTGAGCCTT
Found at i:17911898 original size:66 final size:67
Alignment explanation
Indices: 17911758--17911999 Score: 346
Period size: 67 Copynumber: 3.6 Consensus size: 67
17911748 AAGTTAGTTG
* * * **
17911758 TTGGGTTTTTGTTGATCCCGTGAAAAGCCATTGTTCTAA-GTTGTGGTTGAGCCTTTGAAAAACC
1 TTGGGTTTTGGTTGAGCCCGTGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
17911822 ACT
65 ACT
17911825 TTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTG-AAAACCA
1 TTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
17911889 CT
66 CT
* * * * *
17911891 TTGGGTTTTGGTTAAGCCCATGAAAAACCATTGTGAAAGGTTGTGGATGAACCTTCGAAAAACCA
1 TTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
17911956 CT
66 CT
*
17911958 TTGGGTTTTGGTTGATCCCAGT-AAAAACCATTGTGAAAGGTT
1 TTGGGTTTTGGTTGAGCCC-GTGAAAAACCATTGTGAAAGGTT
17912000 TTGGCTAAGC
Statistics
Matches: 159, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
66 64 0.40
67 94 0.59
68 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (67 bp):
TTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCA
CT
Found at i:17911915 original size:31 final size:31
Alignment explanation
Indices: 17911801--17911987 Score: 110
Period size: 32 Copynumber: 5.7 Consensus size: 31
17911791 TTCTAAGTTG
**
17911801 TGGTTGAGCCTTTGAAAAACCACTTTGGGTTT
1 TGGTTGAGCCCATG-AAAACCACTTTGGGTTT
* *
17911833 TGGTTGAGCCCGTGAAAAACCA-TTGTGAAAGGTTG
1 TGGTTGAGCCCATG-AAAACCACTT-TG---GGTTT
**
17911868 TGGTTGAGCCTTTGAAAACCACTTTGGGTTT
1 TGGTTGAGCCCATGAAAACCACTTTGGGTTT
* *
17911899 TGGTTAAGCCCATGAAAAACCA-TTGTGAAAGGTTG
1 TGGTTGAGCCCATG-AAAACCACTT-TG---GGTTT
* * *
17911934 TGGATGA-ACCTTCGAAAAACCACTTTGGGTTT
1 TGGTTGAGCCCAT-G-AAAACCACTTTGGGTTT
* *
17911966 TGGTTGATCCCAGTAAAAACCA
1 TGGTTGAGCCCA-TGAAAACCA
17911988 TTGTGAAAGG
Statistics
Matches: 122, Mismatches: 19, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
31 19 0.16
32 48 0.39
33 2 0.02
34 13 0.11
35 38 0.31
36 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (31 bp):
TGGTTGAGCCCATGAAAACCACTTTGGGTTT
Found at i:17912003 original size:35 final size:35
Alignment explanation
Indices: 17911828--17912030 Score: 137
Period size: 35 Copynumber: 6.0 Consensus size: 35
17911818 AACCACTTTG
17911828 GGTTTTGGTTGAGCCC-GTGAAAAACCATTGTGAAA
1 GGTTTTGGTTGAGCCCAGT-AAAAACCATTGTGAAA
* ** *
17911863 GGTTGTGGTTGAG-CCTTTGAAAACCACTT-TG---
1 GGTTTTGGTTGAGCCCAGTAAAAACCA-TTGTGAAA
*
17911894 GGTTTTGGTTAAGCCCA-TGAAAAACCATTGTGAAA
1 GGTTTTGGTTGAGCCCAGT-AAAAACCATTGTGAAA
* * *
17911929 GGTTGTGGATGAACCTTC-G-AAAAACCACTT-TG---
1 GGTTTTGGTTGAGCC--CAGTAAAAACCA-TTGTGAAA
*
17911961 GGTTTTGGTTGATCCCAGTAAAAACCATTGTGAAA
1 GGTTTTGGTTGAGCCCAGTAAAAACCATTGTGAAA
* * * *
17911996 GGTTTTGGCTAAGCCTAGTAAAAGCCATTGT-AAA
1 GGTTTTGGTTGAGCCCAGTAAAAACCATTGTGAAA
17912030 G
1 G
17912031 CTTGGTGAAA
Statistics
Matches: 131, Mismatches: 19, Indels: 37
0.70 0.10 0.20
Matches are distributed among these distances:
30 1 0.01
31 17 0.13
32 33 0.25
34 15 0.11
35 62 0.47
36 2 0.02
37 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (35 bp):
GGTTTTGGTTGAGCCCAGTAAAAACCATTGTGAAA
Found at i:17913223 original size:36 final size:40
Alignment explanation
Indices: 17913146--17913241 Score: 137
Period size: 36 Copynumber: 2.5 Consensus size: 40
17913136 GGGAACATGG
17913146 TGTGCAGTGTGGGAGTGCACACGATGATGATGATATATGCCA
1 TGTGCAGTGTGGGAGTG--CACGATGATGATGATATATGCCA
17913188 TGTGCAGTGTGGGAGTGCAC-ATGATGAT-AT-T-TGCCA
1 TGTGCAGTGTGGGAGTGCACGATGATGATGATATATGCCA
*
17913224 TGTGCGGTGTGGGAGTGC
1 TGTGCAGTGTGGGAGTGC
17913242 TATCACAGCC
Statistics
Matches: 53, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
36 22 0.42
37 1 0.02
38 2 0.04
39 8 0.15
40 3 0.06
42 17 0.32
ACGTcount: A:0.21, C:0.14, G:0.38, T:0.28
Consensus pattern (40 bp):
TGTGCAGTGTGGGAGTGCACGATGATGATGATATATGCCA
Found at i:17915958 original size:2 final size:2
Alignment explanation
Indices: 17915946--17915997 Score: 54
Period size: 2 Copynumber: 26.5 Consensus size: 2
17915936 TATGTTTGAA
* * *
17915946 AT AT CT AT AT AT AT AT AT AT AT ACT -T AT AT TT AT GT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
17915987 AT AT AT AT AT A
1 AT AT AT AT AT A
17915998 CATGAATTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
1 2 0.05
2 38 0.93
3 1 0.02
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17917015 original size:55 final size:55
Alignment explanation
Indices: 17916928--17917050 Score: 185
Period size: 55 Copynumber: 2.2 Consensus size: 55
17916918 CAACCACCGA
* * *
17916928 TCATCAGCTCTTGTGCACTCTCACATCACACATAGCTAGAATCATCATCC-TCCGG
1 TCATCAGCTCATGGGCACTCTCACATCACACATAGCTAGAATCATCACCCAT-CGG
* *
17916983 TCATCAGCTCATGGGCACTCTCACATCGCACATAGCTGGAATCATCACCCATCGG
1 TCATCAGCTCATGGGCACTCTCACATCACACATAGCTAGAATCATCACCCATCGG
17917038 TCATCAGCTCATG
1 TCATCAGCTCATG
17917051 TCCATTCCCA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 61 0.98
56 1 0.02
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.25
Consensus pattern (55 bp):
TCATCAGCTCATGGGCACTCTCACATCACACATAGCTAGAATCATCACCCATCGG
Found at i:17917069 original size:55 final size:55
Alignment explanation
Indices: 17916928--17917079 Score: 161
Period size: 55 Copynumber: 2.8 Consensus size: 55
17916918 CAACCACCGA
* * * * *
17916928 TCATCAGCTCTTGTG-CACTCTCACATCACACATAGCTAGAATCATCATCCTCCGG
1 TCATCAGCTCATG-GCCACTCCCACATCGCACATAGCTGGAATCATCACCCTCCGG
* *
17916983 TCATCAGCTCATGGGCACTCTCACATCGCACATAGCTGGAATCATCACCCAT-CGG
1 TCATCAGCTCATGGCCACTCCCACATCGCACATAGCTGGAATCATCACCC-TCCGG
* *
17917038 TCATCAGCTCATGTCCATTCCCACA-CTGCACATA--TGGAATCA
1 TCATCAGCTCATGGCCACTCCCACATC-GCACATAGCTGGAATCA
17917080 CCTGTCATCA
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
53 8 0.09
54 2 0.02
55 75 0.87
56 1 0.01
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.25
Consensus pattern (55 bp):
TCATCAGCTCATGGCCACTCCCACATCGCACATAGCTGGAATCATCACCCTCCGG
Found at i:17917786 original size:8 final size:8
Alignment explanation
Indices: 17917775--17917799 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17917765 AAATATAACC
17917775 CATAAATT
1 CATAAATT
17917783 CATAAATT
1 CATAAATT
17917791 CATAAATT
1 CATAAATT
17917799 C
1 C
17917800 TAAGAGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (8 bp):
CATAAATT
Found at i:17927327 original size:21 final size:21
Alignment explanation
Indices: 17927285--17927327 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
17927275 CTTGTACCAG
*
17927285 TGGTGGAACTAAAGGAGTAAC
1 TGGTGGAACTAAAGGAGGAAC
* * *
17927306 TGGTGGTACTATAGGTGGAAC
1 TGGTGGAACTAAAGGAGGAAC
17927327 T
1 T
17927328 TGACCAGTCG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (21 bp):
TGGTGGAACTAAAGGAGGAAC
Found at i:17927742 original size:22 final size:22
Alignment explanation
Indices: 17927717--17927779 Score: 117
Period size: 22 Copynumber: 2.9 Consensus size: 22
17927707 TTTAAAACCA
*
17927717 CTTTAAAACCAAAAACTCTTAT
1 CTTTAAAACCAAAAGCTCTTAT
17927739 CTTTAAAACCAAAAGCTCTTAT
1 CTTTAAAACCAAAAGCTCTTAT
17927761 CTTTAAAACCAAAAGCTCT
1 CTTTAAAACCAAAAGCTCT
17927780 GATACCAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.43, C:0.24, G:0.03, T:0.30
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTTAT
Found at i:17948674 original size:39 final size:39
Alignment explanation
Indices: 17948505--17948656 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
17948495 TAATATCCTT
* *
17948505 ATGTGCACTCCCACACTGTACATGGCATATATCATCATC
1 ATGTGCTCTCCCACACTGCACATGGCATATATCATCATC
*
17948544 ATGTGCTCTTCCACA-TCGCACATGGCATATATCATCATC
1 ATGTGCTCTCCCACACT-GCACATGGCATATATCATCATC
* *
17948583 ATGTGCTCTCCCACACCGCACATCGCATATATCATCATC
1 ATGTGCTCTCCCACACTGCACATGGCATATATCATCATC
17948622 ATGTGCTCTCCCACACTGCACATGGCATATATCAT
1 ATGTGCTCTCCCACACTGCACATGGCATATATCAT
17948657 TGACGTGTGC
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 102 0.99
ACGTcount: A:0.26, C:0.33, G:0.12, T:0.28
Consensus pattern (39 bp):
ATGTGCTCTCCCACACTGCACATGGCATATATCATCATC
Found at i:17948682 original size:39 final size:39
Alignment explanation
Indices: 17948505--17948682 Score: 241
Period size: 39 Copynumber: 4.6 Consensus size: 39
17948495 TAATATCCTT
* * *
17948505 ATGTGCACTCCCACACTGTACATGGCATATATCATCATC
1 ATGTGCTCTCCCACACCGCACATGGCATATATCATCATC
* *
17948544 ATGTGCTCTTCCACATCGCACATGGCATATATCATCATC
1 ATGTGCTCTCCCACACCGCACATGGCATATATCATCATC
*
17948583 ATGTGCTCTCCCACACCGCACATCGCATATATCATCATC
1 ATGTGCTCTCCCACACCGCACATGGCATATATCATCATC
* *
17948622 ATGTGCTCTCCCACACTGCACATGGCATATATCATTGA-C
1 ATGTGCTCTCCCACACCGCACATGGCATATATCA-TCATC
* * *
17948661 GTGTGCTTTCCCACGCCGCACA
1 ATGTGCTCTCCCACACCGCACA
17948683 CTACTGGCAT
Statistics
Matches: 123, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 121 0.98
40 2 0.02
ACGTcount: A:0.25, C:0.34, G:0.14, T:0.28
Consensus pattern (39 bp):
ATGTGCTCTCCCACACCGCACATGGCATATATCATCATC
Found at i:17949857 original size:15 final size:15
Alignment explanation
Indices: 17949839--17949871 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
17949829 CTTTTTCCTT
17949839 TCTTTCTTTCCTT-TC
1 TCTTTC-TTCCTTCTC
17949854 TCTTTCTTCCTTCTC
1 TCTTTCTTCCTTCTC
17949869 TCT
1 TCT
17949872 CCTAGGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (15 bp):
TCTTTCTTCCTTCTC
Found at i:17951836 original size:2 final size:2
Alignment explanation
Indices: 17951831--17951855 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17951821 CATATCTATG
17951831 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
17951856 CCATCATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17951968 original size:42 final size:42
Alignment explanation
Indices: 17951920--17952050 Score: 190
Period size: 42 Copynumber: 3.1 Consensus size: 42
17951910 CACATGGCTG
* * * *
17951920 GGTCATCATCGACTTATGTGCACTCTTACTTGCACATAGCCT
1 GGTCATCATCGGCTTATGCGCACTCCTACTCGCACATAGCCT
* *
17951962 GGTCATCATCGGCTTATGCGCACTCCCACTCGCACATAGCCA
1 GGTCATCATCGGCTTATGCGCACTCCTACTCGCACATAGCCT
* *
17952004 GGTCATCATTGGCTTATGCGCACTCCTACTCACACATAGCCT
1 GGTCATCATCGGCTTATGCGCACTCCTACTCGCACATAGCCT
17952046 GGTCA
1 GGTCA
17952051 ATATAATTAC
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.21, C:0.33, G:0.18, T:0.27
Consensus pattern (42 bp):
GGTCATCATCGGCTTATGCGCACTCCTACTCGCACATAGCCT
Found at i:17952020 original size:84 final size:85
Alignment explanation
Indices: 17951896--17952050 Score: 213
Period size: 84 Copynumber: 1.8 Consensus size: 85
17951886 CAACTCATAT
* ** * * **
17951896 GCACTCCCCACTAGCACATGGCTGGGTCATCATCGACTTATGTGCACTCTTACTTGCACATAGCC
1 GCACTCCCCACTAGCACATAGCCAGGTCATCATCGACTTATGCGCACTCCTACTCACACATAGCC
17951961 TGGTCATCATCGGCTTATGC
66 TGGTCATCATCGGCTTATGC
* * *
17951981 GCACT-CCCACTCGCACATAGCCAGGTCATCATTGGCTTATGCGCACTCCTACTCACACATAGCC
1 GCACTCCCCACTAGCACATAGCCAGGTCATCATCGACTTATGCGCACTCCTACTCACACATAGCC
17952045 TGGTCA
66 TGGTCA
17952051 ATATAATTAC
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 55 0.92
85 5 0.08
ACGTcount: A:0.21, C:0.34, G:0.19, T:0.26
Consensus pattern (85 bp):
GCACTCCCCACTAGCACATAGCCAGGTCATCATCGACTTATGCGCACTCCTACTCACACATAGCC
TGGTCATCATCGGCTTATGC
Found at i:17956001 original size:57 final size:57
Alignment explanation
Indices: 17955932--17956047 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
17955922 ATATATTCGA
*
17955932 TAACATTTAGCTCATTAACCCCATTAAATATTATTTTAAGATCTTTCAAGATGTCCT
1 TAACATTTAGCTCATTAACCCCATTAAACATTATTTTAAGATCTTTCAAGATGTCCT
*
17955989 TAACATTTAGCTCATTAACCCTATTAAACATTATTTTAAGATCTTTCAAGATGTCCT
1 TAACATTTAGCTCATTAACCCCATTAAACATTATTTTAAGATCTTTCAAGATGTCCT
17956046 TA
1 TA
17956048 CTCTTATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.41
Consensus pattern (57 bp):
TAACATTTAGCTCATTAACCCCATTAAACATTATTTTAAGATCTTTCAAGATGTCCT
Found at i:17958954 original size:2 final size:2
Alignment explanation
Indices: 17958949--17958992 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
17958939 TCTATGTGTG
*
17958949 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17958991 TA
1 TA
17958993 CATCATCATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17959104 original size:42 final size:42
Alignment explanation
Indices: 17959045--17959186 Score: 185
Period size: 42 Copynumber: 3.4 Consensus size: 42
17959035 CTCCCCACTA
* * ** * *
17959045 GCACATGGCTGGGTCATCATCGGCTTATAAGCACTCTTACTT
1 GCACATAGCCGGGTCATCATCGGCTTATGCGCACTCCTACTC
* *
17959087 GCACATAGCCGGGTCATCATTGGCTTATGCGCACTCCCACTC
1 GCACATAGCCGGGTCATCATCGGCTTATGCGCACTCCTACTC
*
17959129 GCACATAGCCAGGTCATCATCGGCTTATGCGCACTCCTACTC
1 GCACATAGCCGGGTCATCATCGGCTTATGCGCACTCCTACTC
* *
17959171 ACACATAGCCTGGTCA
1 GCACATAGCCGGGTCA
17959187 ATATAATTAC
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.25
Consensus pattern (42 bp):
GCACATAGCCGGGTCATCATCGGCTTATGCGCACTCCTACTC
Found at i:17959148 original size:84 final size:85
Alignment explanation
Indices: 17959032--17959186 Score: 213
Period size: 84 Copynumber: 1.8 Consensus size: 85
17959022 CAGCACATAT
* ** * **
17959032 GCACTCCCCACTAGCACATGGCTGGGTCATCATCGGCTTATAAGCACTCTTACTTGCACATAGCC
1 GCACTCCCCACTAGCACATAGCCAGGTCATCATCGGCTTATAAGCACTCCTACTCACACATAGCC
17959097 GGGTCATCATTGGCTTATGC
66 GGGTCATCATTGGCTTATGC
* **
17959117 GCACT-CCCACTCGCACATAGCCAGGTCATCATCGGCTTATGCGCACTCCTACTCACACATAGCC
1 GCACTCCCCACTAGCACATAGCCAGGTCATCATCGGCTTATAAGCACTCCTACTCACACATAGCC
*
17959181 TGGTCA
66 GGGTCA
17959187 ATATAATTAC
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 55 0.92
85 5 0.08
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (85 bp):
GCACTCCCCACTAGCACATAGCCAGGTCATCATCGGCTTATAAGCACTCCTACTCACACATAGCC
GGGTCATCATTGGCTTATGC
Found at i:17961543 original size:15 final size:16
Alignment explanation
Indices: 17961523--17961554 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
17961513 GTGAGTGAAG
17961523 TATTTGCCATT-GTTT
1 TATTTGCCATTGGTTT
17961538 TATTTGCCATTGGTTT
1 TATTTGCCATTGGTTT
17961554 T
1 T
17961555 GTAAATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.12, C:0.12, G:0.16, T:0.59
Consensus pattern (16 bp):
TATTTGCCATTGGTTT
Found at i:17967214 original size:19 final size:19
Alignment explanation
Indices: 17967186--17967232 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
17967176 ATGGGAGGAA
* *
17967186 GAAAAAGAAGAAACTGTTG
1 GAAAATGAAGAAACTGCTG
*
17967205 GAAAATGAAGAAGCTGCTG
1 GAAAATGAAGAAACTGCTG
17967224 GAGAAATGA
1 GA-AAATGA
17967233 GATACTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.49, C:0.06, G:0.30, T:0.15
Consensus pattern (19 bp):
GAAAATGAAGAAACTGCTG
Found at i:17969769 original size:2 final size:2
Alignment explanation
Indices: 17969762--17969790 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17969752 TACATGCTTG
17969762 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17969791 GCTATAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17976437 original size:35 final size:35
Alignment explanation
Indices: 17976397--17976464 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
17976387 GTGTGGATAG
*
17976397 TGATGTTGATGTGTGTGAGTAAAGAGTGCACACGA
1 TGATGTTGATGTGTGCGAGTAAAGAGTGCACACGA
*
17976432 TGATGTTGATGTGTGCGAGTAAGGAGTGCACAC
1 TGATGTTGATGTGTGCGAGTAAAGAGTGCACAC
17976465 AATAATGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.26, C:0.10, G:0.35, T:0.28
Consensus pattern (35 bp):
TGATGTTGATGTGTGCGAGTAAAGAGTGCACACGA
Found at i:17976600 original size:21 final size:21
Alignment explanation
Indices: 17976571--17976616 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
17976561 TATGCCTGTA
*
17976571 TATATATATATATATATATGC
1 TATAGATATATATATATATGC
* * *
17976592 TATAGATATGTTTTTATATGC
1 TATAGATATATATATATATGC
17976613 TATA
1 TATA
17976617 CAAAAGGGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (21 bp):
TATAGATATATATATATATGC
Found at i:17983465 original size:52 final size:52
Alignment explanation
Indices: 17983403--17983556 Score: 229
Period size: 52 Copynumber: 3.0 Consensus size: 52
17983393 GCACATGACG
* * *
17983403 GTGATAGTGGTGTGCTGTGTGAGTGCACACATTGATGATATATACCATGTGT
1 GTGATAGTGGTGTGCTGTGTGAGTGCACACAATGATGATATATGCCATGTGC
* *
17983455 GTGATGGTGGTGTGCTGTGTGAGTGCACACAATGATGATGTATGCCATGTGC
1 GTGATAGTGGTGTGCTGTGTGAGTGCACACAATGATGATATATGCCATGTGC
* *
17983507 ATGATAGTGGTGTGTTGTGTGAGTGCACA-AACTGATGATATATGCCATGT
1 GTGATAGTGGTGTGCTGTGTGAGTGCACACAA-TGATGATATATGCCATGT
17983557 CCGATGTGGG
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 2 0.02
52 90 0.98
ACGTcount: A:0.23, C:0.12, G:0.32, T:0.33
Consensus pattern (52 bp):
GTGATAGTGGTGTGCTGTGTGAGTGCACACAATGATGATATATGCCATGTGC
Found at i:17983583 original size:36 final size:34
Alignment explanation
Indices: 17983539--17983648 Score: 105
Period size: 36 Copynumber: 3.1 Consensus size: 34
17983529 GTGCACAAAC
*
17983539 TGATGATATATGCCATGTCCGATGTGGGAGTGCACA
1 TGATGATAT-TGCTATGTCCG-TGTGGGAGTGCACA
* *
17983575 TGATGATATTGCTTTGTGCTGTGTGGGAGTGCACA
1 TGATGATATTGCTATGT-CCGTGTGGGAGTGCACA
* * *
17983610 GGATGAT-TCTAGCTATGTGCGGTGTGGAAGTGCACA
1 TGATGATAT-T-GCTATGT-CCGTGTGGGAGTGCACA
17983646 TGA
1 TGA
17983649 GCTGGTAAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
34 1 0.02
35 27 0.43
36 35 0.56
ACGTcount: A:0.22, C:0.14, G:0.34, T:0.31
Consensus pattern (34 bp):
TGATGATATTGCTATGTCCGTGTGGGAGTGCACA
Found at i:17983604 original size:35 final size:36
Alignment explanation
Indices: 17983561--17983648 Score: 117
Period size: 36 Copynumber: 2.5 Consensus size: 36
17983551 CCATGTCCGA
* *
17983561 TGTGGGAGTGCACATGATGATAT-T-GCTTTGTGCTG
1 TGTGGGAGTGCACATGATGAT-TCTAGCTATGTGCGG
*
17983596 TGTGGGAGTGCACAGGATGATTCTAGCTATGTGCGG
1 TGTGGGAGTGCACATGATGATTCTAGCTATGTGCGG
*
17983632 TGTGGAAGTGCACATGA
1 TGTGGGAGTGCACATGA
17983649 GCTGGTAAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.02
35 21 0.46
36 24 0.52
ACGTcount: A:0.20, C:0.12, G:0.36, T:0.31
Consensus pattern (36 bp):
TGTGGGAGTGCACATGATGATTCTAGCTATGTGCGG
Found at i:17984611 original size:14 final size:14
Alignment explanation
Indices: 17984588--17984623 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
17984578 GAACACTTAT
17984588 AATTGAGAATTAAG
1 AATTGAGAATTAAG
*
17984602 AATTGGGAATTAAG
1 AATTGAGAATTAAG
17984616 AATTGAGA
1 AATTGAGA
17984624 TTGATAGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (14 bp):
AATTGAGAATTAAG
Found at i:17987854 original size:42 final size:41
Alignment explanation
Indices: 17987807--17987925 Score: 157
Period size: 42 Copynumber: 2.9 Consensus size: 41
17987797 CAACTCATAT
* *
17987807 GCATCGGCTTATGCGCACTCCCACTCGCACATAGCAGGGTCA
1 GCATCGGCTTATGCACACTCCCACTCACACATAGCA-GGTCA
* *
17987849 GCATCGGCTTATGCACAGTCCCACTCTCACATAGCCAGGTCA
1 GCATCGGCTTATGCACACTCCCACTCACACATAG-CAGGTCA
* * *
17987891 GCATAGACTTATGCACACTCCTACTCACACATAGC
1 GCATCGGCTTATGCACACTCCCACTCACACATAGC
17987926 CGGGCCAATA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.01
42 65 0.96
43 2 0.03
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.21
Consensus pattern (41 bp):
GCATCGGCTTATGCACACTCCCACTCACACATAGCAGGTCA
Found at i:17989882 original size:15 final size:17
Alignment explanation
Indices: 17989854--17989894 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
17989844 ATTTTTTGAA
**
17989854 TTTATAAACAAAATG-T
1 TTTATAAATGAAATGAT
17989870 TTT-TAAATGAAATGAT
1 TTTATAAATGAAATGAT
17989886 TTTATAAAT
1 TTTATAAAT
17989895 TGTCTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 9 0.43
16 7 0.33
17 5 0.24
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (17 bp):
TTTATAAATGAAATGAT
Found at i:18007748 original size:40 final size:38
Alignment explanation
Indices: 18007682--18007787 Score: 106
Period size: 38 Copynumber: 2.7 Consensus size: 38
18007672 CACACCCGGC
* * *
18007682 TCATGTGCATTCCTCCACATCATGCACATAGT-AGGTGCCA
1 TCATGTGCATACCACCACATCGTGCACA-A-TCA-GTGCCA
* * * *
18007722 TCGTGTGCATCCCCCCACATTGTGCACAATCAGTGCCA
1 TCATGTGCATACCACCACATCGTGCACAATCAGTGCCA
*
18007760 TCATGTACATACCACCACATCGTGCACA
1 TCATGTGCATACCACCACATCGTGCACA
18007788 CGGGCACTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
38 30 0.55
39 2 0.04
40 23 0.42
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (38 bp):
TCATGTGCATACCACCACATCGTGCACAATCAGTGCCA
Found at i:18007998 original size:116 final size:114
Alignment explanation
Indices: 18007809--18008034 Score: 407
Period size: 116 Copynumber: 2.0 Consensus size: 114
18007799 ATCATCCATC
*
18007809 TCCCACACCACCATCATCACCGGCATGTGCATCCCCCCACATCGTGCACACACACGGTTATAATC
1 TCCCACACCACCATCATCACCGGCAAGTGCATCCCCCCACATCGTGCACACACACGGTTATAATC
*
18007874 ATCATACACAATATCAACTATCATGCACAACATATATATATATATATAT
66 ATCATACACAATATCAACTATCATACACAACATATATATATATATATAT
*
18007923 NTCCCACACCACCATCATCATCGGCAAGTGCATCCCCCCCACATCGTGCACACACACGGTTATAA
1 -TCCCACACCACCATCATCACCGGCAAGTGCAT-CCCCCCACATCGTGCACACACACGGTTATAA
18007988 TCATCATACACAATATCAACTATCATACACAACATATATATATATAT
64 TCATCATACACAATATCAACTATCATACACAACATATATATATATAT
18008035 CATCATAATG
Statistics
Matches: 107, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
115 30 0.28
116 77 0.72
ACGTcount: A:0.35, C:0.33, G:0.08, T:0.24
Consensus pattern (114 bp):
TCCCACACCACCATCATCACCGGCAAGTGCATCCCCCCACATCGTGCACACACACGGTTATAATC
ATCATACACAATATCAACTATCATACACAACATATATATATATATATAT
Found at i:18010888 original size:144 final size:143
Alignment explanation
Indices: 18010707--18010992 Score: 545
Period size: 144 Copynumber: 2.0 Consensus size: 143
18010697 AAAAGAATTA
*
18010707 AAGCTTGACACGTGTCAACGTGTGAATGGTTTATGGTTAAAACTTAACTATTAAACATTTTCTTA
1 AAGCTTGACACGTGTCAACGTGTGAATGGTTCATGGTTAAAACTTAACTATTAAACATTTTCTTA
18010772 CCACCACATATAATACCATAATTATCCAAAGTATAAAAATGATAATAGGTGAAATTCATGGGCTT
66 CCACCACATATAATACCATAATTATCCAAAGTATAAAAATGATAATAGGTGAAATTCATGGGCTT
18010837 GACAAGTGTCACNC
131 GACAAGTGTCAC-C
18010851 AAGCTTGACACGTGTCAACGTGTGAATGGTTCATGGTTAAAACTTAACTATTAAACATTTTCTTA
1 AAGCTTGACACGTGTCAACGTGTGAATGGTTCATGGTTAAAACTTAACTATTAAACATTTTCTTA
*
18010916 CCACCACATATAATACCTTAATTATCCAAAGTATAAAAATGATAATAGGTGAAATTCATGGGCTT
66 CCACCACATATAATACCATAATTATCCAAAGTATAAAAATGATAATAGGTGAAATTCATGGGCTT
18010981 GACAAGTGTCAC
131 GACAAGTGTCAC
18010993 AGTGGTGCAA
Statistics
Matches: 140, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
144 140 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (143 bp):
AAGCTTGACACGTGTCAACGTGTGAATGGTTCATGGTTAAAACTTAACTATTAAACATTTTCTTA
CCACCACATATAATACCATAATTATCCAAAGTATAAAAATGATAATAGGTGAAATTCATGGGCTT
GACAAGTGTCACC
Found at i:18013670 original size:40 final size:40
Alignment explanation
Indices: 18013615--18013693 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
18013605 TTGGCTAGTT
*
18013615 TTCACCTTAGTGGGGTTTTCAACCTTACCAAGATTGGTGA
1 TTCACCTTAGTGGGGTTTTCAACCTCACCAAGATTGGTGA
* *
18013655 TTCACCTTAGTGGGGTTTTCAACCTCGCCACGATTGGTG
1 TTCACCTTAGTGGGGTTTTCAACCTCACCAAGATTGGTG
18013694 TCTTTCACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (40 bp):
TTCACCTTAGTGGGGTTTTCAACCTCACCAAGATTGGTGA
Found at i:18018622 original size:62 final size:62
Alignment explanation
Indices: 18018542--18018742 Score: 228
Period size: 62 Copynumber: 3.3 Consensus size: 62
18018532 ACCAGAAATG
* * *
18018542 CCTATTCGTGGG-ACTCCCCATGCCATTAAATATCAAGTCGAGGCTTCATGTTCCCCTTATA
1 CCTACTCGTGGGAACTCCCCATGCCATAAAATATCAAGTCGAGGCTTCACGTTCCCCTTATA
* * *
18018603 CCTACTTGTGGGAACTCCCCATGCCATAAAATATCAAGT-TAGGGCTTCACGTTCCCCTTATT
1 CCTACTCGTGGGAACTCCCCATGCCATAAAATATCAAGTCGA-GGCTTCACGTTCCCCTTATA
* * ** ** ** *
18018665 CCTACCCATAAGAACTCCCCACACCACCAAATATCAAGTCGAGGTTTCACG-TCCCCTTTATA
1 CCTACTCGTGGGAACTCCCCATGCCATAAAATATCAAGTCGAGGCTTCACGTTCCCC-TTATA
18018727 CCTACTCGTGGGAACT
1 CCTACTCGTGGGAACT
18018743 TTCCAGACAA
Statistics
Matches: 114, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
61 16 0.14
62 97 0.85
63 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (62 bp):
CCTACTCGTGGGAACTCCCCATGCCATAAAATATCAAGTCGAGGCTTCACGTTCCCCTTATA
Found at i:18018756 original size:62 final size:62
Alignment explanation
Indices: 18018569--18018766 Score: 206
Period size: 62 Copynumber: 3.2 Consensus size: 62
18018559 CCATGCCATT
* * *
18018569 AAATATCAAGTCGAGGCTTCATGTTCCCCTTATACCTACTTGTGGGAACTCCCCATGCCATA--
1 AAATATCAAGTCGAGGCTTCACGTTCCCCTTATACCTACTCGTGGGAACTCCCCA-GACA-ACC
* * * * ** * *
18018631 AAATATCAAGT-TAGGGCTTCACGTTCCCCTTATTCCTACCCATAAGAACTCCCCACACCACC
1 AAATATCAAGTCGA-GGCTTCACGTTCCCCTTATACCTACTCGTGGGAACTCCCCAGACAACC
* **
18018693 AAATATCAAGTCGAGGTTTCACG-TCCCCTTTATACCTACTCGTGGGAACTTTCCAGACAACC
1 AAATATCAAGTCGAGGCTTCACGTTCCCC-TTATACCTACTCGTGGGAACTCCCCAGACAACC
18018755 AAATATCAAGTC
1 AAATATCAAGTC
18018767 AACATGTGAA
Statistics
Matches: 109, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
60 1 0.01
61 7 0.06
62 100 0.92
63 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.27
Consensus pattern (62 bp):
AAATATCAAGTCGAGGCTTCACGTTCCCCTTATACCTACTCGTGGGAACTCCCCAGACAACC
Found at i:18021071 original size:8 final size:8
Alignment explanation
Indices: 18021058--18021084 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
18021048 AAACATAGAT
18021058 ATACATAA
1 ATACATAA
18021066 ATACATAA
1 ATACATAA
18021074 ATACATAA
1 ATACATAA
18021082 ATA
1 ATA
18021085 AACACCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (8 bp):
ATACATAA
Found at i:18023940 original size:38 final size:38
Alignment explanation
Indices: 18023886--18023963 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
18023876 CACAAGGCAA
* *
18023886 CATCATGTGCACTCCCTACTTGCACATTTCAATATCAT
1 CATCATGTACACTCCCTACTCGCACATTTCAATATCAT
*
18023924 CATCATGTACATTCCCTACTCGCACATTTCAATATCAT
1 CATCATGTACACTCCCTACTCGCACATTTCAATATCAT
18023962 CA
1 CA
18023964 CACACACTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.28, C:0.32, G:0.06, T:0.33
Consensus pattern (38 bp):
CATCATGTACACTCCCTACTCGCACATTTCAATATCAT
Found at i:18026137 original size:42 final size:42
Alignment explanation
Indices: 18026024--18026145 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 42
18026014 AACTCTGTCT
* * * *
18026024 CAGCTTATGTGCACTACC-ACACCGCACATAG-TCGGTCAGCA
1 CAGCTCATGTGCACT-CCTACACTGCACATGGCTGGGTCAGCA
*
18026065 CAGCTCATGTGCACTCCTACACTGCGCATGGCTGGGTCAGCA
1 CAGCTCATGTGCACTCCTACACTGCACATGGCTGGGTCAGCA
* *
18026107 CAGCTCATGTGCACTCCTATA-TCGCACATGGTTGGGTCA
1 CAGCTCATGTGCACTCCTACACT-GCACATGGCTGGGTCA
18026146 TAATTATCAG
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
40 2 0.03
41 25 0.36
42 43 0.61
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.23
Consensus pattern (42 bp):
CAGCTCATGTGCACTCCTACACTGCACATGGCTGGGTCAGCA
Found at i:18036960 original size:3 final size:3
Alignment explanation
Indices: 18036952--18036986 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18036942 CAGTAGCTTG
18036952 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
18036987 CATCTCACGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:18047107 original size:22 final size:22
Alignment explanation
Indices: 18047064--18047107 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18047054 TTTAAAACAA
* *
18047064 CTTTAAACCCAAAATCTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
*
18047086 CTTTAAAACCAAAAGCTTTGAT
1 CTTTAAAACCAAAAGCTCTGAT
18047108 ACCACTCTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.32
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTGAT
Found at i:18049144 original size:60 final size:60
Alignment explanation
Indices: 18049052--18049196 Score: 229
Period size: 60 Copynumber: 2.4 Consensus size: 60
18049042 TAGGAGACCA
* * * *
18049052 AAACAGAAAGTTT-TCACTGCAGCGAGATTCAATCTCGTTGTAGCGAAATTGTAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAAATTCAATCTCGTTGCAGCGAAATTGCAACCCAG
*
18049111 AAACAGAATGTTTCTCGCTGCAGCGAAATTCAATCTCGTTGCAGCGAAATTGCAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAAATTCAATCTCGTTGCAGCGAAATTGCAACCCAG
*
18049171 AAATAGAAAGTTTCTCGCTGCAGCGA
1 AAACAGAAAGTTTCTCGCTGCAGCGA
18049197 GAATGTATTT
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 12 0.15
60 66 0.85
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (60 bp):
AAACAGAAAGTTTCTCGCTGCAGCGAAATTCAATCTCGTTGCAGCGAAATTGCAACCCAG
Found at i:18060486 original size:43 final size:43
Alignment explanation
Indices: 18060425--18060543 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 43
18060415 AGGGTCTCAC
** * **
18060425 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGACTT
18060468 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGACTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGACTT
* *
18060511 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
18060544 ATATAATTAC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 67 0.99
ACGTcount: A:0.20, C:0.38, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGACTT
Done.