Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 65 of 172
Found at i:17966197 original size:154 final size:153
Alignment explanation
Indices: 17965940--17966219 Score: 454
Period size: 154 Copynumber: 1.8 Consensus size: 153
17965930 TTTAAAAACT
* * *
17965940 GAAAGTTTAGATTTTTAAAGTAAAAATATGTTTTTTTAGTCATATTAAAGGAAAATTTTAAATTC
1 GAAAGATTAGATTTTTAAAATAAAAATATGTTTTTTTAGTCATATTAAAGGAAAAGTTTAAATTC
* *
17966005 TTAAAACAAAGTTTTCATCTTTTTCAACTATTTCGAAATAAAGTTTTTATTTTTAAGAAAAATAA
66 TTAAAACAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATAA
17966070 CGATTTTTTAAATAAAAAATAGA
131 CGATTTTTTAAATAAAAAATAGA
* *
17966093 GAAAGATTAGATTTTTAAAATAAAAATATG-TTTTTTAGTCATTTTAAAGGAAAAGTTTAATTTT
1 GAAAGATTAGATTTTTAAAATAAAAATATGTTTTTTTAGTCATATTAAAGGAAAAGTTTAA-ATT
* *
17966157 TTTTAAACTAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAA
65 CTTAAAAC-AAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAA
17966220 GTGGTAATTT
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
152 28 0.24
153 36 0.31
154 52 0.45
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (153 bp):
GAAAGATTAGATTTTTAAAATAAAAATATGTTTTTTTAGTCATATTAAAGGAAAAGTTTAAATTC
TTAAAACAAAGTTTTAATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTTTTAAGAAAAATAA
CGATTTTTTAAATAAAAAATAGA
Found at i:17967155 original size:27 final size:27
Alignment explanation
Indices: 17967125--17967186 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
17967115 TAAGTAGGTG
*
17967125 TTACATTTTAATGAAACCATAAGGTTT
1 TTACATTTTAATAAAACCATAAGGTTT
*
17967152 TTACATTTTAATAAAACCTTAAGGTTT
1 TTACATTTTAATAAAACCATAAGGTTT
17967179 TTACATTT
1 TTACATTT
17967187 GAATTTAGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.45
Consensus pattern (27 bp):
TTACATTTTAATAAAACCATAAGGTTT
Found at i:17976687 original size:14 final size:14
Alignment explanation
Indices: 17976668--17976694 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17976658 TGATTGGTGT
17976668 AAAATATTTTTCGG
1 AAAATATTTTTCGG
17976682 AAAATATTTTTCG
1 AAAATATTTTTCG
17976695 AACTTTCCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.11, T:0.44
Consensus pattern (14 bp):
AAAATATTTTTCGG
Found at i:17978612 original size:13 final size:13
Alignment explanation
Indices: 17978594--17978621 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17978584 CTTGTACAAG
17978594 TAAACTTCATAAA
1 TAAACTTCATAAA
17978607 TAAACTTCATAAA
1 TAAACTTCATAAA
17978620 TA
1 TA
17978622 GAGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTTCATAAA
Found at i:17983928 original size:22 final size:22
Alignment explanation
Indices: 17983903--17983945 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
17983893 AAAATGACCT
17983903 CTTC-AGGCTTTAATGTCGCGAC
1 CTTCTAGGC-TTAATGTCGCGAC
* *
17983925 CTTCTATGCTTGATGTCGCGA
1 CTTCTAGGCTTAATGTCGCGA
17983946 TTTCCTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (22 bp):
CTTCTAGGCTTAATGTCGCGAC
Found at i:17986036 original size:68 final size:68
Alignment explanation
Indices: 17985740--17986025 Score: 295
Period size: 68 Copynumber: 4.2 Consensus size: 68
17985730 GAGTTATAAG
* * ** * * *
17985740 GTGTAAGACCATAGCTCGATTATGGTAACCAATAGAGTCCGCTAGGACATTAAACATGGGGTTAA
1 GTGTAAGATCATAGCTCGACTATGACAACCAATAGAGTCCACAAGGACATTAAACATGGGGTTAC
17985805 AAA
66 AAA
* * * * * * * *
17985808 GTGAAAGGTCATAGCTAGACTATGACAACCAATAAAGTCCATAAGGACCTTAAATATTGGGTTAC
1 GTGTAAGATCATAGCTCGACTATGACAACCAATAGAGTCCACAAGGACATTAAACATGGGGTTAC
17985873 AAA
66 AAA
* * ** ** * *
17985876 GTGTAAGATTAAAGCTCGACTACAACAACCAATAGAGTTTACCAGGACATTAAACATGAGGTTAC
1 GTGTAAGATCATAGCTCGACTATGACAACCAATAGAGTCCACAAGGACATTAAACATGGGGTTAC
*
17985941 AAT
66 AAA
* **
17985944 GTGTAAGATCATAGCTC-AGCTATGACAACCAACAGAGTCTGCAAGGACATTAAACATGGGGTTA
1 GTGTAAGATCATAGCTCGA-CTATGACAACCAATAGAGTCCACAAGGACATTAAACATGGGGTTA
*
17986008 CAAG
65 CAAA
*
17986012 GTGTAAGATTATAG
1 GTGTAAGATCATAG
17986026 GTTGGTTATG
Statistics
Matches: 174, Mismatches: 43, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
67 1 0.01
68 173 0.99
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (68 bp):
GTGTAAGATCATAGCTCGACTATGACAACCAATAGAGTCCACAAGGACATTAAACATGGGGTTAC
AAA
Found at i:17987743 original size:35 final size:35
Alignment explanation
Indices: 17987702--17987772 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
17987692 TCTAGGATCA
*
17987702 CATATCTCTAAAGATCACCTTCCATATCTGCCAAG
1 CATATCTCTAAAGATCACCTTCCATATCTACCAAG
* * * *
17987737 CATATCTTTGAAGATCACTTTCCATATTTACCAAG
1 CATATCTCTAAAGATCACCTTCCATATCTACCAAG
17987772 C
1 C
17987773 TCCGGGATGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.32
Consensus pattern (35 bp):
CATATCTCTAAAGATCACCTTCCATATCTACCAAG
Found at i:17987832 original size:22 final size:22
Alignment explanation
Indices: 17987800--17987843 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
17987790 ATCTCTCCAA
17987800 GCAATGAACCAGTCCGATTGGG
1 GCAATGAACCAGTCCGATTGGG
* *
17987822 GCAATGGACCAGTCTGATTGGG
1 GCAATGAACCAGTCCGATTGGG
17987844 CCAAATGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.20
Consensus pattern (22 bp):
GCAATGAACCAGTCCGATTGGG
Found at i:17987853 original size:22 final size:21
Alignment explanation
Indices: 17987801--17987853 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
17987791 TCTCTCCAAG
*
17987801 CAATGAACCAGTCCGATTGGGG
1 CAATG-ACCAGTCCGATTGGGC
*
17987823 CAATGGACCAGTCTGATTGGGC
1 CAAT-GACCAGTCCGATTGGGC
17987845 CAAATGACC
1 C-AATGACC
17987854 TCCCTCGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.19
Consensus pattern (21 bp):
CAATGACCAGTCCGATTGGGC
Found at i:17992850 original size:35 final size:35
Alignment explanation
Indices: 17992780--17992850 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
17992770 TATAGGATCA
* **
17992780 CATATCTCTGAAGATCACCTTCCATATTTGTCAAG
1 CATATCTCTGAAGACCACCTTCCATATTTACCAAG
* *
17992815 CATATCTTTGAAGACCACTTTCCATATTTACCAAG
1 CATATCTCTGAAGACCACCTTCCATATTTACCAAG
17992850 C
1 C
17992851 CCCGAAGACG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.34
Consensus pattern (35 bp):
CATATCTCTGAAGACCACCTTCCATATTTACCAAG
Found at i:17997554 original size:68 final size:66
Alignment explanation
Indices: 17997376--17997725 Score: 252
Period size: 67 Copynumber: 5.3 Consensus size: 66
17997366 TCAAAAGTGG
* ** * * * *
17997376 TACAATGTGTAAAACCATAGCTCGACTATGACAACCAATAGAGTCCACCA-GATCATTAAACATG
1 TACAAGGTGTAAGGCCATAGCTC-ACTAAG-CAACCAATAGAGTCCGCTAGGA-CATTAAACATA
17997440 GGGT
63 GGGT
* * * * * *
17997444 TAAAAGGT-TTA-CCCATAGCTTTACT-AGACAACCAATAGAGTCCGCTAGGACATTCAATATAG
1 TACAAGGTGTAAGGCCATAGC-TCACTAAG-CAACCAATAGAGTCCGCTAGGACATTAAACATAG
*
17997506 GTT
64 GGT
* *
17997509 TACAAGGTGTAAGGCCATAGCTCAACTATAGCAACCAATAAAGTCCG-TCATGACATTAAACATA
1 TACAAGGTGTAAGGCCATAGCTC-ACTA-AGCAACCAATAGAGTCCGCT-AGGACATTAAACATA
17997573 GGGT
63 GGGT
* ** * * ** * * *
17997577 TACAAGATGTAAAACCATAGCTCAGTACAACAAGAAATAGAGTTCGTTAGGACATTAAATATAGG
1 TACAAGGTGTAAGGCCATAGCTCACTA-AGCAACCAATAGAGTCCGCTAGGACATTAAACATAGG
17997642 GT
65 GT
* * * * * *
17997644 TACAAGGTGTAA-GAC-T---TGACTACGACAACCAATAGAGTCCGCTAGGATATTCAACATGGG
1 TACAAGGTGTAAGGCCATAGCTCACTAAG-CAACCAATAGAGTCCGCTAGGACATTAAACATAGG
17997704 GT
65 GT
17997706 TACAAGGTGTAAGGCCATAG
1 TACAAGGTGTAAGGCCATAG
17997726 GTCGATTATG
Statistics
Matches: 219, Mismatches: 49, Indels: 30
0.73 0.16 0.10
Matches are distributed among these distances:
62 45 0.21
63 2 0.01
64 1 0.00
65 38 0.17
66 16 0.07
67 58 0.26
68 57 0.26
69 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (66 bp):
TACAAGGTGTAAGGCCATAGCTCACTAAGCAACCAATAGAGTCCGCTAGGACATTAAACATAGGG
T
Found at i:18000581 original size:21 final size:21
Alignment explanation
Indices: 18000541--18000603 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
18000531 TCAAAGCTAC
* *
18000541 ATGTTTAGAGACATTGGCCTGT
1 ATGTTCAGAGACA-TAGCCTGT
*
18000563 ATG-TCAGAGACATAAGCCTAT
1 ATGTTCAGAGACAT-AGCCTGT
18000584 ATGTTTC-GAGACATAGCCTG
1 ATG-TTCAGAGACATAGCCTG
18000604 CCAACAACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 1 0.03
21 21 0.62
22 10 0.29
23 2 0.06
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (21 bp):
ATGTTCAGAGACATAGCCTGT
Found at i:18006291 original size:20 final size:20
Alignment explanation
Indices: 18006266--18006305 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18006256 AATATTTTCC
*
18006266 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
18006286 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
18006306 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:18006311 original size:34 final size:35
Alignment explanation
Indices: 18006254--18006320 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
18006244 CAAACACCAA
*
18006254 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
18006289 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
18006321 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:18009035 original size:18 final size:18
Alignment explanation
Indices: 18009000--18009032 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
18008990 GAATGATGGT
18009000 TTTAACTATTATTTATAA
1 TTTAACTATTATTTATAA
18009018 TTTAA-TATT-TTTATA
1 TTTAACTATTATTTATA
18009033 TAACATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTAACTATTATTTATAA
Found at i:18009081 original size:23 final size:21
Alignment explanation
Indices: 18009029--18009091 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 21
18009019 TTAATATTTT
18009029 TATATAACATTATTA-TT-AAA
1 TATAT-ACATTATTATTTCAAA
18009049 TATATA-ATTACTTATTTCAAA
1 TATATACATTA-TTATTTCAAA
18009070 TATATATCATTATATATTTCAA
1 TATATA-CATTAT-TATTTCAA
18009092 CTTGTAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
18 4 0.11
19 4 0.11
20 7 0.19
21 9 0.24
22 1 0.03
23 12 0.32
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (21 bp):
TATATACATTATTATTTCAAA
Found at i:18009700 original size:21 final size:21
Alignment explanation
Indices: 18009661--18009701 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18009651 GTTTAGGGGC
*
18009661 AGAGGTGATGGAGGGAGAGGG
1 AGAGGTGATGGAGGAAGAGGG
* *
18009682 AGAGGTGGTGGTGGAAGAGG
1 AGAGGTGATGGAGGAAGAGG
18009702 TGGCGATAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.61, T:0.12
Consensus pattern (21 bp):
AGAGGTGATGGAGGAAGAGGG
Found at i:18009777 original size:15 final size:15
Alignment explanation
Indices: 18009757--18009785 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18009747 TGGTGGCCGC
18009757 GGTGGAGGAAGAGGG
1 GGTGGAGGAAGAGGG
18009772 GGTGGAGGAAGAGG
1 GGTGGAGGAAGAGG
18009786 TGGAATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.66, T:0.07
Consensus pattern (15 bp):
GGTGGAGGAAGAGGG
Found at i:18018954 original size:22 final size:24
Alignment explanation
Indices: 18018924--18018967 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
18018914 AGTTCAAAAT
18018924 TTTTCTTTT-CATTTATTAAAAGA
1 TTTTCTTTTGCATTTATTAAAAGA
18018947 TTTT-TTTTGCATTTATTAAAA
1 TTTTCTTTTGCATTTATTAAAA
18018968 CTATATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.59
Consensus pattern (24 bp):
TTTTCTTTTGCATTTATTAAAAGA
Found at i:18019602 original size:45 final size:45
Alignment explanation
Indices: 18019547--18019656 Score: 177
Period size: 45 Copynumber: 2.5 Consensus size: 45
18019537 GAAAAATACC
*
18019547 AAAAAGGAAGCAACGTGGAAAAACAACCACATCCATGTCTAGACA
1 AAAAAGGAAGCAACGTGGAAAAACAACCACATCCATGTCTAAACA
* * *
18019592 AAAAAGGAAGCAATGTGGAAAAGCAACCACATTCATGTCTAAACA
1 AAAAAGGAAGCAACGTGGAAAAACAACCACATCCATGTCTAAACA
18019637 AAAAAGGAAGC-ACGTGGAAA
1 AAAAAGGAAGCAACGTGGAAA
18019657 CAATCACATC
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
44 8 0.13
45 52 0.87
ACGTcount: A:0.50, C:0.18, G:0.20, T:0.12
Consensus pattern (45 bp):
AAAAAGGAAGCAACGTGGAAAAACAACCACATCCATGTCTAAACA
Found at i:18022504 original size:18 final size:19
Alignment explanation
Indices: 18022457--18022507 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
18022447 TCTCTCACAA
*
18022457 CAAAAATTATAAAAAAAATT
1 CAAAAATT-TATAAAAAATT
*
18022477 CAAAATATTTATAAAAATTT
1 CAAAA-ATTTATAAAAAATT
18022497 C-AAAATTTATA
1 CAAAAATTTATA
18022508 TTATTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.25
19 3 0.11
20 15 0.54
21 3 0.11
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
CAAAAATTTATAAAAAATT
Found at i:18022942 original size:26 final size:26
Alignment explanation
Indices: 18022913--18022971 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
18022903 ATACGTATTT
* *
18022913 AATTATTTATATTTAGTC-ATATAATA
1 AATTATTTA-ATATAATCAATATAATA
*
18022939 AATTA-TTAATATAATCAATATAATT
1 AATTATTTAATATAATCAATATAATA
18022964 AATTATTT
1 AATTATTT
18022972 TTAATAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 6 0.21
25 15 0.54
26 7 0.25
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (26 bp):
AATTATTTAATATAATCAATATAATA
Found at i:18027126 original size:19 final size:19
Alignment explanation
Indices: 18027102--18027141 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
18027092 TTAAAACCAC
*
18027102 TGCCCACCATAATCAAATT
1 TGCCCACCACAATCAAATT
*
18027121 TGCCCACCGCAATCAAATT
1 TGCCCACCACAATCAAATT
18027140 TG
1 TG
18027142 TTATTAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.33, G:0.10, T:0.25
Consensus pattern (19 bp):
TGCCCACCACAATCAAATT
Found at i:18029549 original size:25 final size:25
Alignment explanation
Indices: 18029497--18029609 Score: 97
Period size: 25 Copynumber: 4.6 Consensus size: 25
18029487 TTATCAATTC
* *
18029497 CAGCTCTTATGAGCTTACCGA-TACT
1 CAGCTCGTATGAGCTTACC-ATTATT
18029522 CAGCTCGTATGAGCTTACCATTATT
1 CAGCTCGTATGAGCTTACCATTATT
* * * *
18029547 CAGCTCGGAGGAGTTTACCGTTATT
1 CAGCTCGTATGAGCTTACCATTATT
* * * *
18029572 TAGCTCGGAGGAGCTTACCGTT-TAT
1 CAGCTCGTATGAGCTTACCATTAT-T
18029597 CA-CTCGTATGAGC
1 CAGCTCGTATGAGC
18029610 ATACATGTAC
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
24 11 0.15
25 64 0.85
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCATTATT
Found at i:18029998 original size:25 final size:25
Alignment explanation
Indices: 18029964--18030016 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
18029954 TTCTGTGTTA
18029964 TACGAACTTACTAAGCTTAATTGCT
1 TACGAACTTACTAAGCTTAATTGCT
18029989 TACGAACTTACTAAGCTTAATTGCT
1 TACGAACTTACTAAGCTTAATTGCT
18030014 TAC
1 TAC
18030017 TCTGTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (25 bp):
TACGAACTTACTAAGCTTAATTGCT
Found at i:18039699 original size:16 final size:17
Alignment explanation
Indices: 18039663--18039701 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
18039653 CAATTAGTCG
* *
18039663 AAAAAGTTTTTTCTATT
1 AAAAAGTATTTTCTATA
18039680 AAAAAGTATTTT-TATA
1 AAAAAGTATTTTCTATA
18039696 AAAAAG
1 AAAAAG
18039702 CCAATTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (17 bp):
AAAAAGTATTTTCTATA
Found at i:18039808 original size:16 final size:17
Alignment explanation
Indices: 18039787--18039828 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
18039777 TAATTTTTTT
*
18039787 AAAAATAATTT-TACAA
1 AAAAATAATTTGAACAA
*
18039803 AAAAATTATTTGAACAA
1 AAAAATAATTTGAACAA
18039820 AAAAA-AATT
1 AAAAATAATT
18039829 CATTTTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAAATAATTTGAACAA
Found at i:18039853 original size:25 final size:23
Alignment explanation
Indices: 18039811--18039858 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
18039801 AAAAAAATTA
*
18039811 TTTGAACAAAAAAAAATTCATTT
1 TTTGAAAAAAAAAAAATTCATTT
*
18039834 TTTGAAAAATAAATAAAATTTATTT
1 TTTGAAAAA-AAA-AAAATTCATTT
18039859 CCAGTTGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
24 3 0.14
25 10 0.48
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (23 bp):
TTTGAAAAAAAAAAAATTCATTT
Found at i:18041514 original size:21 final size:21
Alignment explanation
Indices: 18041470--18041540 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
18041460 ATAACAGATT
* * *
18041470 CAGATCATGCTTAACA-AATA
1 CAGATCATACTTATCATATTA
18041490 CAGATCATACTTATCATATTA
1 CAGATCATACTTATCATATTA
** * *
18041511 CAGATTGTACTTATCTTATCA
1 CAGATCATACTTATCATATTA
18041532 CAGATCATA
1 CAGATCATA
18041541 TTGGGCATAT
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
20 14 0.34
21 27 0.66
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (21 bp):
CAGATCATACTTATCATATTA
Found at i:18042307 original size:41 final size:41
Alignment explanation
Indices: 18042253--18042335 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
18042243 AGTCTAGCAT
* *
18042253 ATGGCTTGGCACACG-TTCATATGTCACACACGACTTACCAC
1 ATGGCATGGCACACGCCT-ATATGTCACACACGACTTACCAC
* *
18042294 ATGGCATGTCACACGCCTATGTGTCACACACGACTTACCAC
1 ATGGCATGGCACACGCCTATATGTCACACACGACTTACCAC
18042335 A
1 A
18042336 CAGCCATGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 36 0.97
42 1 0.03
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.23
Consensus pattern (41 bp):
ATGGCATGGCACACGCCTATATGTCACACACGACTTACCAC
Found at i:18053532 original size:43 final size:43
Alignment explanation
Indices: 18053388--18053542 Score: 197
Period size: 43 Copynumber: 3.6 Consensus size: 43
18053378 CTTGTACAAC
*
18053388 GCCAACGTCCCAGACGTGGTCTTACATGTAAACAC-AGATCGAT
1 GCCAACGTCCCAGACGTGGTCTTACATGAAAACACAAG-TCGAT
** * * *
18053431 GCC-ACGGTCCCAGACAAGGTCTCACACGAAAATACAAGTCGAT
1 GCCAAC-GTCCCAGACGTGGTCTTACATGAAAACACAAGTCGAT
* *
18053474 GCCAACATTCCAGACGTGGTCTTACATGAAAACACAAGTCGAT
1 GCCAACGTCCCAGACGTGGTCTTACATGAAAACACAAGTCGAT
*
18053517 GCCAACGTCCCAGACGTTGTCTTACA
1 GCCAACGTCCCAGACGTGGTCTTACA
18053543 CAAAAAAATT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 2 0.02
43 87 0.94
44 4 0.04
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACATGAAAACACAAGTCGAT
Found at i:18061776 original size:8 final size:7
Alignment explanation
Indices: 18061774--18061817 Score: 52
Period size: 7 Copynumber: 5.9 Consensus size: 7
18061764 CAAAAGAACA
18061774 AAAAAAG
1 AAAAAAG
18061781 AAGAAAAG
1 AA-AAAAG
*
18061789 AAAAGAG
1 AAAAAAG
18061796 AAAAATAG
1 AAAAA-AG
18061804 CAAAAAAG
1 -AAAAAAG
18061812 AAAAAA
1 AAAAAA
18061818 AGAACAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 16 0.50
8 11 0.34
9 5 0.16
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:18061818 original size:8 final size:8
Alignment explanation
Indices: 18061773--18061821 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 8
18061763 ACAAAAGAAC
18061773 AAAAAAAG
1 AAAAAAAG
*
18061781 AAGAAAAG
1 AAAAAAAG
*
18061789 -AAAAGAG
1 AAAAAAAG
*
18061796 AAAAATAG
1 AAAAAAAG
*
18061804 CAAAAAAG
1 AAAAAAAG
18061812 AAAAAAAG
1 AAAAAAAG
18061820 AA
1 AA
18061822 CAGAAAATAG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
7 5 0.15
8 28 0.85
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:18067322 original size:20 final size:19
Alignment explanation
Indices: 18067306--18067350 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
18067296 AAAAAAAGAG
*
18067306 AAGGAAAAAATAAAAAAGC
1 AAGGAAAAAAGAAAAAAGC
*
18067325 AATGAAAAAAGAAAAAA--
1 AAGGAAAAAAGAAAAAAGC
18067342 AAGGAAAAA
1 AAGGAAAAA
18067351 GTCAAAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 8 0.35
19 15 0.65
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (19 bp):
AAGGAAAAAAGAAAAAAGC
Found at i:18067361 original size:6 final size:6
Alignment explanation
Indices: 18067347--18067376 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
18067337 AAAAAAAGGA
18067347 AAAAGTC AAAATC AAAATC AAAATC AAAAT
1 AAAA-TC AAAATC AAAATC AAAATC AAAAT
18067377 TCAATAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.67, C:0.13, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:18067458 original size:14 final size:15
Alignment explanation
Indices: 18067436--18067472 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
18067426 AAAGTCATCC
*
18067436 AAATCAAAAAT-AAA
1 AAATGAAAAATGAAA
18067450 AAATGAAAAATGAAA
1 AAATGAAAAATGAAA
18067465 AAA-GAAAA
1 AAATGAAAA
18067473 GAAAGAGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.11
Consensus pattern (15 bp):
AAATGAAAAATGAAA
Found at i:18069821 original size:44 final size:44
Alignment explanation
Indices: 18069757--18069981 Score: 130
Period size: 44 Copynumber: 4.9 Consensus size: 44
18069747 GCATCAGATT
* *
18069757 GAAGCCAGAAATCTTATCTCCCTGGGATTACAGCGGAGCAGGTG
1 GAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGGTG
* * * *
18069801 GAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGAT-
1 GAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGGTG
* *** * * * * *
18069844 TAAAATA-AAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAGATT
1 GAAGCCAGAA--ATCCTATCTCCCTGAGATTACAGC---G--GA--G---CAGGTG
* * * *
18069899 GAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATT
1 GAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGGTG
* * *
18069943 GAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGC
1 GAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGC
18069982 GGATTAAAAT
Statistics
Matches: 141, Mismatches: 26, Indels: 28
0.72 0.13 0.14
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 97 0.69
47 2 0.01
49 4 0.03
51 1 0.01
54 27 0.19
55 3 0.02
56 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (44 bp):
GAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGGTG
Found at i:18069929 original size:142 final size:142
Alignment explanation
Indices: 18069673--18070179 Score: 834
Period size: 142 Copynumber: 3.6 Consensus size: 142
18069663 CCACAGGTCT
* *
18069673 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTTTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* * *
18069738 GAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGGGATTACAGCGGAGCAGGTGGA
66 GAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA
18069803 AGCTAGTAATCC
131 AGCTAGTAATCC
* * *
18069815 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
*
18069880 GAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGA
66 GAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA
18069945 AGCTAGTAATCC
131 AGCTAGTAATCC
18069957 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* * *
18070022 GAGTAGATCGTATCAGATTGAAACCAGAAATCTTATCTCCCTGAGATTACGGCGGAGCAGATTGA
66 GAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA
18070087 AGCTAGTAATCC
131 AGCTAGTAATCC
* * * * * *
18070099 TATTTCCCTGATATTACAGTGGAGTGGATTAAAATAGAGGATCTTATATTTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* *
18070164 GGGTAGATCACATCAG
66 GAGTAGATCGCATCAG
18070180 GTCTTATCTC
Statistics
Matches: 340, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 340 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (142 bp):
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
GAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA
AGCTAGTAATCC
Found at i:18070005 original size:44 final size:44
Alignment explanation
Indices: 18069908--18070029 Score: 115
Period size: 44 Copynumber: 2.8 Consensus size: 44
18069898 TGAAGCCAGA
* **
18069908 AATCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAAATAGT
* * *
18069952 AATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAAG-
1 AATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAAAT--AGT
* * *
18069996 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 AATCTTATCTCCCTGAGA-TTACAGTAGAGCAGAT
18070030 CGTATCAGAT
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
43 4 0.06
44 57 0.90
45 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAAATAGT
Found at i:18070396 original size:100 final size:99
Alignment explanation
Indices: 18070223--18070515 Score: 318
Period size: 100 Copynumber: 2.9 Consensus size: 99
18070213 CAAAGAATTA
* ** * * *
18070223 CAAATCTTATCTCCCAAACGATGTAGTGGAACAAATTAAAGCCACATCGGTGAATCTTGCTTCCC
1 CAAATCTTACCTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGGTGAATC-TGCTTCCC
* *
18070288 CGACATTGCGGTTAAAAAGATTAAAGGTACAACAG
65 TGACATTGCGGTTAAAAAGATTAAAGCTACAACAG
* * *
18070323 CAAATCTTACCTCCCAGGCGGTGCAGTGGAACAGATTAAAACCACAACGGTGAATCTGGCCTCCC
1 CAAATCTTACCTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGGTGAATCT-GCTTCCC
* *
18070388 TGACATTGCGGTTAAAAAGGTTAAAGCTACAGCAG
65 TGACATTGCGGTTAAAAAGATTAAAGCTACAACAG
* * * ** **
18070423 CGAATCTTACATTCCTAGGAAGTGTAGT-GAAGCAGATTAAAGCCACAACAATGAATCATGCTTC
1 CAAATCTTAC-CTCCCAGGCGGTGTAGTGGAA-CAGATTAAAGCCACAACGGTGAATC-TGCTTC
* * * *
18070487 CCTGGCCTTGCAGTTGAAAAGATTAAAGC
63 CCTGACATTGCGGTTAAAAAGATTAAAGC
18070516 CACGATGGAA
Statistics
Matches: 161, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
99 1 0.01
100 97 0.60
101 62 0.39
102 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (99 bp):
CAAATCTTACCTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGGTGAATCTGCTTCCCT
GACATTGCGGTTAAAAAGATTAAAGCTACAACAG
Found at i:18071129 original size:18 final size:19
Alignment explanation
Indices: 18071106--18071145 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
18071096 GGAAGAAAAG
* *
18071106 AAAAGAGAAAAATAAC-GA
1 AAAAGAAAAAAAGAACAGA
18071124 AAAAGAAAAAAAGAACAGA
1 AAAAGAAAAAAAGAACAGA
18071143 AAA
1 AAA
18071146 TAAGACGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.03
Consensus pattern (19 bp):
AAAAGAAAAAAAGAACAGA
Found at i:18071508 original size:10 final size:11
Alignment explanation
Indices: 18071488--18071512 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18071478 GCTAGGGTTC
18071488 TTTTTCTTTTT
1 TTTTTCTTTTT
18071499 TTTTTCTTTTT
1 TTTTTCTTTTT
18071510 TTT
1 TTT
18071513 CTGTTTAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:18076067 original size:40 final size:40
Alignment explanation
Indices: 18076023--18076123 Score: 148
Period size: 40 Copynumber: 2.5 Consensus size: 40
18076013 ACATTGTCGG
*
18076023 TTTATCCGACTAGTGCTGGGCACACATTTGACATTATCAA
1 TTTATCCGACTAGTGCTGGGCACACATTTGACATCATCAA
* **
18076063 TTTATCCGACTAGTGTTGGGCACACATTTGACATCATCGG
1 TTTATCCGACTAGTGCTGGGCACACATTTGACATCATCAA
* *
18076103 TTTATTCGACTACTGCTGGGC
1 TTTATCCGACTAGTGCTGGGC
18076124 GCAAGATGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (40 bp):
TTTATCCGACTAGTGCTGGGCACACATTTGACATCATCAA
Found at i:18076312 original size:40 final size:40
Alignment explanation
Indices: 18076241--18076326 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 40
18076231 TGCCAATAAC
** *
18076241 AGGTTGAAAAGGATGATATCCAAAAAGGATATCAAATG-AA
1 AGGTTGAAAAGGACAATATACAAAAAGGATATC-AATGAAA
18076281 AGGTTGAAAAGGACAATATACAAAGAA-GATATCAATGAAA
1 AGGTTGAAAAGGACAATATACAAA-AAGGATATCAATGAAA
18076321 AGGTTG
1 AGGTTG
18076327 GTATTTCATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
39 4 0.10
40 35 0.85
41 2 0.05
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (40 bp):
AGGTTGAAAAGGACAATATACAAAAAGGATATCAATGAAA
Found at i:18080153 original size:33 final size:33
Alignment explanation
Indices: 18080115--18080180 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
18080105 TTATTTATCG
18080115 GTGGGTTTATTAGAGTCTTTAATTGAATTTATT
1 GTGGGTTTATTAGAGTCTTTAATTGAATTTATT
*
18080148 GTGGGTTTATTAGAGTCTTTACTTGAATTTATT
1 GTGGGTTTATTAGAGTCTTTAATTGAATTTATT
18080181 AGGATTTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.05, G:0.21, T:0.52
Consensus pattern (33 bp):
GTGGGTTTATTAGAGTCTTTAATTGAATTTATT
Found at i:18083714 original size:21 final size:21
Alignment explanation
Indices: 18083688--18083742 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
18083678 GAATCCGAGC
*
18083688 TAGCTTTATAACACTCGGACG
1 TAGCTTTATAACACTCAGACG
18083709 TAGCTTTATAACACTCAGACG
1 TAGCTTTATAACACTCAGACG
18083730 TAGCTTTATAACA
1 TAGCTTTATAACA
18083743 TCTTCGGGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (21 bp):
TAGCTTTATAACACTCAGACG
Found at i:18093647 original size:19 final size:20
Alignment explanation
Indices: 18093623--18093665 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
18093613 TAGATTTATT
18093623 CTTAATTAATC-TGAATTAA
1 CTTAATTAATCATGAATTAA
*
18093642 CTTAATTAATCATTAATTAA
1 CTTAATTAATCATGAATTAA
18093662 -TTAA
1 CTTAA
18093666 ACTATAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (20 bp):
CTTAATTAATCATGAATTAA
Found at i:18093954 original size:120 final size:120
Alignment explanation
Indices: 18093736--18093975 Score: 408
Period size: 120 Copynumber: 2.0 Consensus size: 120
18093726 ACTAAGATGG
* * * *
18093736 TTTAGTTACTATTTTGAACCCTTGGCAATATAAAAATCTATAGCTATTAGACTTTTATGATGTAG
1 TTTAATTACTATTTTGAACCCTTAGCAATATAAAAATCTATAGCTATTAGACTTTTATAATGTAC
18093801 TCTTTATACCTTAATTAACTATCACATCGACAAAATTACTGGACCAAACTTTCAT
66 TCTTTATACCTTAATTAACTATCACATCGACAAAATTACTGGACCAAACTTTCAT
* *
18093856 TTTAATTACTATTTTGAACCCTTAGCAATGTAAAAATCTATAGCTATTAGACTTTTATAATTTAC
1 TTTAATTACTATTTTGAACCCTTAGCAATATAAAAATCTATAGCTATTAGACTTTTATAATGTAC
* *
18093921 TCTTTTTACCTTAATTAACTATCATATCGACAAAATTACTGGACCAAACTTTCAT
66 TCTTTATACCTTAATTAACTATCACATCGACAAAATTACTGGACCAAACTTTCAT
18093976 AAACTTTCAT
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 112 1.00
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (120 bp):
TTTAATTACTATTTTGAACCCTTAGCAATATAAAAATCTATAGCTATTAGACTTTTATAATGTAC
TCTTTATACCTTAATTAACTATCACATCGACAAAATTACTGGACCAAACTTTCAT
Found at i:18101277 original size:27 final size:27
Alignment explanation
Indices: 18101238--18101306 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
18101228 GTCGGGTGGC
*
18101238 GCCTCATAGGGAGGCACCATTAAATGT
1 GCCTCATAGGGAGGCACCATTAAAAGT
*
18101265 GCCTCATAAGGAGGCACCATTAAAAGT
1 GCCTCATAGGGAGGCACCATTAAAAGT
18101292 GCCTCATAGGGAGGC
1 GCCTCATAGGGAGGC
18101307 GTCAATGAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (27 bp):
GCCTCATAGGGAGGCACCATTAAAAGT
Found at i:18101364 original size:19 final size:19
Alignment explanation
Indices: 18101315--18101820 Score: 162
Period size: 19 Copynumber: 26.3 Consensus size: 19
18101305 GCGTCAATGA
*
18101315 GTAATTTTGTATGTATATT
1 GTAATTTTGTATGAATATT
18101334 GTAACTTTTTGTATGAATATT
1 GTAA--TTTTGTATGAATATT
*
18101355 ATAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
18101374 GTAATTATTTTAT-AATTAATTTT
1 GTAATT-TTGTATGAA-T-A--TT
* * *
18101397 GT-ATTTATAGTTTTGGAT-TA
1 GTAATTT-T-G-TATGAATATT
*
18101417 GT-ATTTTGTATGAATAGT
1 GTAATTTTGTATGAATATT
18101435 GTAATTTTTTGTATGAATATT
1 GTAA--TTTTGTATGAATATT
18101456 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
18101475 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
* *
18101491 -TAATTTTGTAT--TTATA
1 GTAATTTTGTATGAATATT
* *
18101507 GT--TTTTG-ATTAGTATT
1 GTAATTTTGTATGAATATT
* *
18101523 -T--TGTATGAATATTGTAATTTT
1 GTAAT-TTTG--TA-TG-AATATT
18101544 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
18101563 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
* *
18101579 -TAATTTTGTAT--TTATA
1 GTAATTTTGTATGAATATT
* *
18101595 GT--TTTTG-ATTAGTATT
1 GTAATTTTGTATGAATATT
* *
18101611 -T--TGTATGAATATTGTAATTTT
1 GTAAT-TTTG--TA-TG-AATATT
18101632 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
* *
18101651 ATAATGTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
18101670 GTAATTATTTTAT-AATTAATTTT
1 GTAATT-TTGTATGAA-T-A--TT
* * *
18101693 GT-ATTTATAGTTTTGGAT-TA
1 GTAATTT-T-G-TATGAATATT
18101713 GT-ATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
18101731 GTAATTTTGTATGGATATT
1 GTAATTTTGTATGAATATT
18101750 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
18101773 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
18101796 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
18101815 GTAATT
1 GTAATT
18101821 ATTTTATAAT
Statistics
Matches: 376, Mismatches: 51, Indels: 120
0.69 0.09 0.22
Matches are distributed among these distances:
14 8 0.02
15 26 0.07
16 26 0.07
17 12 0.03
18 9 0.02
19 130 0.35
20 38 0.10
21 53 0.14
22 12 0.03
23 52 0.14
24 8 0.02
25 2 0.01
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (19 bp):
GTAATTTTGTATGAATATT
Found at i:18101493 original size:101 final size:101
Alignment explanation
Indices: 18101318--18101543 Score: 407
Period size: 101 Copynumber: 2.2 Consensus size: 101
18101308 TCAATGAGTA
* *
18101318 ATTTTGTATGTATATTGTAACTTTTTGTATGAATATTATAATTTTGTATGAATATTGTAATTATT
1 ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTATAATTTTGTATGAATATTGTAATTATT
18101383 TTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
66 TTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
* *
18101419 ATTTTGTATGAATAGTGTAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATT
1 ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTATAATTTTGTATGAATATTGTAATTATT
*
18101484 TTATAATTAATTTTGTATTTATAGTTTTTGATTAGT
66 TTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
18101520 ATTTTGTATGAATATTGTAATTTT
1 ATTTTGTATGAATATTGTAATTTT
18101544 GTAATTTTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 119 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (101 bp):
ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTATAATTTTGTATGAATATTGTAATTATT
TTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
Found at i:18101550 original size:27 final size:27
Alignment explanation
Indices: 18101520--18101661 Score: 119
Period size: 27 Copynumber: 5.0 Consensus size: 27
18101510 TTTGATTAGT
18101520 ATTTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
*
18101547 ATTTTGTATGAATATTGTAATTATTTTATA
1 ATTTTGTATGAATATTGT-A--ATTTTGTA
* * *
18101577 ATTAATT-T-TGTAT-TTATAGTTTTTGATTA
1 ATT--TTGTATGAATATTGTA-ATTTTG--TA
18101606 GTATTTTGTATGAATATTGTAATTTTGTA
1 --ATTTTGTATGAATATTGTAATTTTGTA
* *
18101635 ATTTTGTATGAATATTATAATGTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
18101662 TGAATATTGT
Statistics
Matches: 92, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
27 47 0.51
28 2 0.02
29 9 0.10
30 15 0.16
31 13 0.14
32 6 0.07
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.56
Consensus pattern (27 bp):
ATTTTGTATGAATATTGTAATTTTGTA
Found at i:18101552 original size:88 final size:88
Alignment explanation
Indices: 18101454--18101655 Score: 395
Period size: 88 Copynumber: 2.3 Consensus size: 88
18101444 TGTATGAATA
18101454 TTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTAG
1 TTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTAG
18101519 TATTTTGTATGAATATTGTAATT
66 TATTTTGTATGAATATTGTAATT
18101542 TTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTAG
1 TTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTAG
18101607 TATTTTGTATGAATATTGTAATT
66 TATTTTGTATGAATATTGTAATT
*
18101630 TTGTAATTTTGTATGAATATTATAAT
1 TTGTAATTTTGTATGAATATTGTAAT
18101656 GTTGTATGAA
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 113 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (88 bp):
TTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTAG
TATTTTGTATGAATATTGTAATT
Found at i:18101631 original size:107 final size:107
Alignment explanation
Indices: 18101520--18101777 Score: 386
Period size: 107 Copynumber: 2.4 Consensus size: 107
18101510 TTTGATTAGT
*
18101520 ATTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTT
1 ATTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTT
*
18101585 TGTATTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTA
66 TGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTA
* * *
18101627 ATTTTG--T-AATTTTGTATGAATATTATAATGTTGTATGAATATTGTAATTATTTTATAATTAA
1 ATTTTGTATGAATATTG--T-AATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAA
18101689 TTTTGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTA
63 TTTTGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTA
*
18101734 ATTTTGTATGGATATTGTAATATTG----TTTGTATGAATATTGTAAT
1 ATTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAAT
18101778 ATTGTTTGTA
Statistics
Matches: 136, Mismatches: 9, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
103 18 0.13
104 6 0.04
105 1 0.01
106 1 0.01
107 103 0.76
108 1 0.01
109 1 0.01
110 5 0.04
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.55
Consensus pattern (107 bp):
ATTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTT
TGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTA
Found at i:18101727 original size:195 final size:189
Alignment explanation
Indices: 18101356--18101741 Score: 673
Period size: 195 Copynumber: 2.0 Consensus size: 189
18101346 ATGAATATTA
18101356 TAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTAT
1 TAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTAT
* *
18101421 TTTGTATGAATAGTGTAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTT
66 TTTGTATGAATAGTGTAATTTTTTGTATGAATATTATAATGTTGTATGAATATTGTAATTATTTT
*
18101486 ATAATTAATTTTGTATTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAATTTTG
131 ATAATTAATTTTGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAATTTTG
*
18101545 TAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTTGATTAGTAT
1 TAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTAT
*
18101610 TTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATAATGTTGTATGAATATTGTAAT
66 TTTGTATGAATAGTGTAA---T-T--TTTTGTATGAATATTATAATGTTGTATGAATATTGTAAT
18101675 TATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAATTTTG
125 TATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAATTTTG
18101740 TA
1 TA
18101742 TGGATATTGT
Statistics
Matches: 186, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
189 81 0.44
192 1 0.01
193 1 0.01
195 103 0.55
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.56
Consensus pattern (189 bp):
TAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGTAT
TTTGTATGAATAGTGTAATTTTTTGTATGAATATTATAATGTTGTATGAATATTGTAATTATTTT
ATAATTAATTTTGTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAATTTTG
Found at i:18101769 original size:42 final size:38
Alignment explanation
Indices: 18101630--18101820 Score: 147
Period size: 42 Copynumber: 4.7 Consensus size: 38
18101620 TATTGTAATT
* *
18101630 TTGTAATTTTGTATGAATATTATAATGTTGTATGAATA
1 TTGTAATTTTGTATGAATATTGTAATTTTGTATGAATA
* * *
18101668 TTGTAATTATTTTAT-AATTAATTTTGT-ATTTATAGTTTTGGAT-
1 TTGTAATT-TTGTATGAA-T-A--TTGTAATTT-T-G-TATGAATA
* *
18101711 TAGT-ATTTTGTATGAATATTGTAATTTTGTATGGATA
1 TTGTAATTTTGTATGAATATTGTAATTTTGTATGAATA
18101748 TTGTAATATTGTTTGTATGAATATTGTAATATTGTTTGTATGAATA
1 TTGT-A-A-T-TTTGTATGAATATTGT-A-A-T-TTTGTATGAATA
18101794 TTGTAATTTTGTATGAATATTGTAATT
1 TTGTAATTTTGTATGAATATTGTAATT
18101821 ATTTTATAAT
Statistics
Matches: 123, Mismatches: 10, Indels: 40
0.71 0.06 0.23
Matches are distributed among these distances:
36 6 0.05
37 4 0.03
38 16 0.13
39 11 0.09
40 4 0.03
41 11 0.09
42 41 0.33
43 6 0.05
44 7 0.06
45 2 0.02
46 15 0.12
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (38 bp):
TTGTAATTTTGTATGAATATTGTAATTTTGTATGAATA
Found at i:18101894 original size:60 final size:60
Alignment explanation
Indices: 18101813--18101934 Score: 174
Period size: 60 Copynumber: 2.0 Consensus size: 60
18101803 TGTATGAATA
* * * * * *
18101813 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATGTAGGATTAAGCTATAAATTGTTGTGT
18101873 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATGTAGGATTAAGCTATAAATTGTTGTGT
1 TTGTAATTATTTTAAAA-TTAATTTATTAGTAATGTAGGATTAAGCTATAAATTGTTGTGT
18101933 TT
1 TT
18101935 AGTTTAGTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 6 0.11
60 49 0.89
ACGTcount: A:0.32, C:0.01, G:0.14, T:0.53
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTAATTTATTAGTAATGTAGGATTAAGCTATAAATTGTTGTGT
Found at i:18102088 original size:15 final size:16
Alignment explanation
Indices: 18102052--18102088 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
18102042 CTCATTTAAT
18102052 TTTTATATAATGTAAC
1 TTTTATATAATGTAAC
*
18102068 TTTTATATTATGTAA-
1 TTTTATATAATGTAAC
18102083 TTTTAT
1 TTTTAT
18102089 TTGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (16 bp):
TTTTATATAATGTAAC
Found at i:18107269 original size:18 final size:17
Alignment explanation
Indices: 18107237--18107270 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
18107227 TACCCATATG
18107237 ATTTTTATCGATACCAT
1 ATTTTTATCGATACCAT
*
18107254 ATTTTCTATTGATACCA
1 ATTTT-TATCGATACCA
18107271 AAATTGCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (17 bp):
ATTTTTATCGATACCAT
Found at i:18108897 original size:16 final size:17
Alignment explanation
Indices: 18108876--18108911 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
18108866 AGGGGTTGAA
18108876 AAACCAAAATTAGAA-T
1 AAACCAAAATTAGAAGT
18108892 AAACCAAAATTAGAAGT
1 AAACCAAAATTAGAAGT
18108909 AAA
1 AAA
18108912 AGGTTGTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.64, C:0.11, G:0.08, T:0.17
Consensus pattern (17 bp):
AAACCAAAATTAGAAGT
Found at i:18110372 original size:21 final size:22
Alignment explanation
Indices: 18110348--18110395 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
18110338 GGATCAACTT
* * *
18110348 GAAACAAAATA-GATAATTTTG
1 GAAACAAAACATGAAAATTTGG
18110369 GAAA-AAAACATGAAAATTTGG
1 GAAACAAAACATGAAAATTTGG
18110390 GAAACA
1 GAAACA
18110396 GGGGTCACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.23
21 16 0.73
22 1 0.05
ACGTcount: A:0.56, C:0.06, G:0.17, T:0.21
Consensus pattern (22 bp):
GAAACAAAACATGAAAATTTGG
Found at i:18118811 original size:13 final size:14
Alignment explanation
Indices: 18118785--18118813 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
18118775 GATCTAAACG
18118785 AAATAAATTAATTC
1 AAATAAATTAATTC
18118799 AAATAAA-TAATTC
1 AAATAAATTAATTC
18118812 AA
1 AA
18118814 CACCACTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATAAATTAATTC
Found at i:18121508 original size:22 final size:22
Alignment explanation
Indices: 18121483--18121524 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18121473 AACGACAAAG
*
18121483 AAAACAAAAAATAGCAAAGAAC
1 AAAACAAAAAATAGAAAAGAAC
* *
18121505 AAAATAGAAAATAGAAAAGA
1 AAAACAAAAAATAGAAAAGA
18121525 TAGAAAAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.74, C:0.07, G:0.12, T:0.07
Consensus pattern (22 bp):
AAAACAAAAAATAGAAAAGAAC
Found at i:18127668 original size:15 final size:16
Alignment explanation
Indices: 18127630--18127669 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
18127620 GGCTTATGTG
18127630 ATATATGTGATGATTT
1 ATATATGTGATGATTT
* *
18127646 AAACATGTGA-GATTT
1 ATATATGTGATGATTT
18127661 ATATATGTG
1 ATATATGTG
18127670 GTTTTTAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (16 bp):
ATATATGTGATGATTT
Found at i:18127910 original size:49 final size:51
Alignment explanation
Indices: 18127857--18127999 Score: 164
Period size: 51 Copynumber: 2.8 Consensus size: 51
18127847 AAAGTGGAAG
* * * * *
18127857 CAGTGGCAATATATCTATAGATCAGTGGTGGCTTGTCCATAAAA-T-TTAT
1 CAGTGGCAGTATATCTGTAAATCAGTGGTGGCTTGTCCACAAAAGTGCTAT
* * * * *
18127906 CAGTGACAGTATATCTGCATACCAGTGGTGGCTTGTCTACAAAAGTGCTAT
1 CAGTGGCAGTATATCTGTAAATCAGTGGTGGCTTGTCCACAAAAGTGCTAT
* *
18127957 CAGTGGCAGTTTATCTGTAAATCAGTGGTGGTTTGTCCACAAA
1 CAGTGGCAGTATATCTGTAAATCAGTGGTGGCTTGTCCACAAA
18128000 TGGTGTTTCA
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
49 36 0.47
50 1 0.01
51 39 0.51
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (51 bp):
CAGTGGCAGTATATCTGTAAATCAGTGGTGGCTTGTCCACAAAAGTGCTAT
Found at i:18128380 original size:268 final size:268
Alignment explanation
Indices: 18127903--18128441 Score: 1042
Period size: 268 Copynumber: 2.0 Consensus size: 268
18127893 CCATAAAATT
18127903 TATCAGTGACAGTATATCTGCATACCAGTGGTGGCTTGTCTACAAAAGTGCTATCAGTGGCAGTT
1 TATCAGTGACAGTATATCTGCATACCAGTGGTGGCTTGTCTACAAAAGTGCTATCAGTGGCAGTT
18127968 TATCTGTAAATCAGTGGTGGTTTGTCCACAAATGGTGTTTCAGATAGATGAGTTTTGGGAACTTG
66 TATCTGTAAATCAGTGGTGGTTTGTCCACAAATGGTGTTTCAGATAGATGAGTTTTGGGAACTTG
*
18128033 ATATTGGTGTGTAGTAGAGAAGGGTAGGACTGTTTTCAGAAAATCTGTATTGTTTTGCAAAATGT
131 ATATTGGTGTGTAGCAGAGAAGGGTAGGACTGTTTTCAGAAAATCTGTATTGTTTTGCAAAATGT
*
18128098 GCATTGACATGATCATACATATTATAAGTGTGAAATATTGAGTTATATGAAACTGGTATGATTAT
196 GCATTGACATGATCATACATATTATAAGTGTGAAATATTGAGTTATATGAAACTGATATGATTAT
18128163 TGTGATTG
261 TGTGATTG
18128171 TATCAGTGACAGTATATCTGCATACCAGTGGTGGCTTGTCTACAAAAGTGCTATCAGTGGCAGTT
1 TATCAGTGACAGTATATCTGCATACCAGTGGTGGCTTGTCTACAAAAGTGCTATCAGTGGCAGTT
*
18128236 TATTTGTAAATCAGTGGTGGTTTGTCCACAAATGGTGTTTCAGATAGATGAGTTTTGGGAACTTG
66 TATCTGTAAATCAGTGGTGGTTTGTCCACAAATGGTGTTTCAGATAGATGAGTTTTGGGAACTTG
18128301 ATATTGGTGTGTAGCAGAGAAGGGTAGGACTGTTTTCAGAAAATCTGTATTGTTTTGCAAAATGT
131 ATATTGGTGTGTAGCAGAGAAGGGTAGGACTGTTTTCAGAAAATCTGTATTGTTTTGCAAAATGT
*
18128366 GCATTGACATGATCATACGTATTATAAGTGTGAAATATTGAGTTATATGAAACTGATATGATTAT
196 GCATTGACATGATCATACATATTATAAGTGTGAAATATTGAGTTATATGAAACTGATATGATTAT
18128431 TGTGATTG
261 TGTGATTG
18128439 TAT
1 TAT
18128442 AATGTATATG
Statistics
Matches: 267, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
268 267 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (268 bp):
TATCAGTGACAGTATATCTGCATACCAGTGGTGGCTTGTCTACAAAAGTGCTATCAGTGGCAGTT
TATCTGTAAATCAGTGGTGGTTTGTCCACAAATGGTGTTTCAGATAGATGAGTTTTGGGAACTTG
ATATTGGTGTGTAGCAGAGAAGGGTAGGACTGTTTTCAGAAAATCTGTATTGTTTTGCAAAATGT
GCATTGACATGATCATACATATTATAAGTGTGAAATATTGAGTTATATGAAACTGATATGATTAT
TGTGATTG
Found at i:18133352 original size:12 final size:12
Alignment explanation
Indices: 18133335--18133359 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18133325 ATGTAGGGTT
18133335 TGCACATGTAAG
1 TGCACATGTAAG
18133347 TGCACATGTAAG
1 TGCACATGTAAG
18133359 T
1 T
18133360 CATATGCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (12 bp):
TGCACATGTAAG
Found at i:18134733 original size:18 final size:17
Alignment explanation
Indices: 18134707--18134753 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
18134697 CATAAAACTT
18134707 AAAAAAATAAAAACTAA
1 AAAAAAATAAAAACTAA
*
18134724 AAATAAAAT-AAAACTGA
1 AAA-AAAATAAAAACTAA
*
18134741 AAAAAAAGAAAAA
1 AAAAAAATAAAAA
18134754 AAATAGAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 4 0.15
17 17 0.65
18 5 0.19
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.11
Consensus pattern (17 bp):
AAAAAAATAAAAACTAA
Found at i:18134753 original size:17 final size:15
Alignment explanation
Indices: 18134700--18134753 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 15
18134690 ACATTTTCAT
*
18134700 AAAACTTAAAAAAATA
1 AAAAC-TAAAAAAAAA
18134716 AAAACTAAAAATAAAA
1 AAAACTAAAAA-AAAA
18134732 TAAAACTGAAAAAAAAGA
1 -AAAACT-AAAAAAAA-A
18134750 AAAA
1 AAAA
18134754 AAATAGAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 6 0.18
16 8 0.24
17 13 0.39
18 6 0.18
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.13
Consensus pattern (15 bp):
AAAACTAAAAAAAAA
Found at i:18137667 original size:26 final size:24
Alignment explanation
Indices: 18137638--18137704 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 24
18137628 AAGTACAGGT
18137638 ATATATATTATAAAGA-ATGTATAAAC
1 ATATATATTATAAA-ATATG-A-AAAC
*
18137664 ATATATAGATTATAAAATATGAAAAT
1 ATATAT--ATTATAAAATATGAAAAC
*
18137690 ATAAATATTATAAAA
1 ATATATATTATAAAA
18137705 ATATAAATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
24 9 0.25
26 14 0.39
27 2 0.06
28 11 0.31
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.34
Consensus pattern (24 bp):
ATATATATTATAAAATATGAAAAC
Found at i:18137707 original size:17 final size:17
Alignment explanation
Indices: 18137680--18137728 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
18137670 AGATTATAAA
*
18137680 ATATGAAAATATAAATAT
1 ATAT-AAAATATAAATGT
18137698 -TATAAAAATATAAATGT
1 ATAT-AAAATATAAATGT
18137715 ATATAAAATATAAA
1 ATATAAAATATAAA
18137729 AACTATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 25 0.89
18 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (17 bp):
ATATAAAATATAAATGT
Found at i:18137730 original size:8 final size:8
Alignment explanation
Indices: 18137677--18137730 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
18137667 TATAGATTAT
*
18137677 AAAATATG
1 AAAATATA
18137685 AAAATATA
1 AAAATATA
*
18137693 AATATTATA
1 AA-AATATA
18137702 AAAATATA
1 AAAATATA
**
18137710 AATGTATA
1 AAAATATA
18137718 TAAAATATA
1 -AAAATATA
18137727 AAAA
1 AAAA
18137731 CTATGAAAAG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
8 24 0.65
9 13 0.35
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (8 bp):
AAAATATA
Found at i:18137739 original size:17 final size:16
Alignment explanation
Indices: 18137677--18137739 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
18137667 TATAGATTAT
18137677 AAAATATGAAAATATA
1 AAAATATGAAAATATA
* *
18137693 AATATTATAAAAATATA
1 AA-AATATGAAAATATA
*
18137710 AATGTATAT-AAAATATA
1 AA--AATATGAAAATATA
18137727 AAAACTATGAAAA
1 AAAA-TATGAAAA
18137740 GAAAAGAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 28 0.76
18 3 0.08
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (16 bp):
AAAATATGAAAATATA
Found at i:18137883 original size:13 final size:13
Alignment explanation
Indices: 18137843--18137897 Score: 51
Period size: 13 Copynumber: 4.1 Consensus size: 13
18137833 TATATATAAG
*
18137843 AATAAGAATAATA
1 AATAATAATAATA
18137856 ATATACGAT-ATAATA
1 A-ATA--ATAATAATA
18137871 AATAATAATAATA
1 AATAATAATAATA
18137884 AA-AACTAATAATA
1 AATAA-TAATAATA
18137897 A
1 A
18137898 TATAGTGATA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
12 4 0.11
13 18 0.50
14 6 0.17
15 7 0.19
16 1 0.03
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:18139349 original size:15 final size:16
Alignment explanation
Indices: 18139329--18139358 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18139319 AAAATTTAAA
18139329 ATAGATAATA-ATAAT
1 ATAGATAATATATAAT
18139344 ATAGATAATATATAA
1 ATAGATAATATATAA
18139359 ATATTTAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (16 bp):
ATAGATAATATATAAT
Found at i:18140738 original size:17 final size:18
Alignment explanation
Indices: 18140716--18140750 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18140706 AAATTATTTT
18140716 AAATAATT-AAATTTAAA
1 AAATAATTAAAATTTAAA
18140733 AAATAATTAAAATTTAAA
1 AAATAATTAAAATTTAAA
18140751 TTCAACCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATAATTAAAATTTAAA
Found at i:18143166 original size:13 final size:13
Alignment explanation
Indices: 18143148--18143202 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
18143138 GCCTCTCCAT
18143148 TTTTCATTTTCTA
1 TTTTCATTTTCTA
18143161 TTTTCATATTTC-A
1 TTTTCAT-TTTCTA
18143174 TTTTTCATTTT-T-
1 -TTTTCATTTTCTA
* *
18143186 TTTTAATTTTTTA
1 TTTTCATTTTCTA
18143199 TTTT
1 TTTT
18143203 TTTGACTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
11 9 0.25
12 1 0.03
13 15 0.42
14 11 0.31
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTCATTTTCTA
Found at i:18143178 original size:14 final size:13
Alignment explanation
Indices: 18143145--18143184 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
18143135 TTAGCCTCTC
18143145 CATTTTTCATTTT
1 CATTTTTCATTTT
18143158 C-TATTTTCATATTT
1 CAT-TTTTCAT-TTT
18143172 CATTTTTCATTTT
1 CATTTTTCATTTT
18143185 TTTTTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 1 0.04
13 11 0.46
14 11 0.46
15 1 0.04
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:18143186 original size:8 final size:7
Alignment explanation
Indices: 18143145--18143185 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
18143135 TTAGCCTCTC
18143145 CATTTTT
1 CATTTTT
18143152 CA-TTTT
1 CATTTTT
18143158 C-TATTTT
1 CAT-TTTT
*
18143165 CATATTT
1 CATTTTT
18143172 CATTTTT
1 CATTTTT
18143179 CATTTTT
1 CATTTTT
18143186 TTTTAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 5 0.17
7 23 0.79
8 1 0.03
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:18157851 original size:25 final size:25
Alignment explanation
Indices: 18157814--18157868 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
18157804 ATTACTATCT
*
18157814 TCTTCATCATCTTTATCACCGTTTG
1 TCTTCATCATCTTCATCACCGTTTG
*
18157839 TCTTCATCGTCTTCATCACCGTTTG
1 TCTTCATCATCTTCATCACCGTTTG
18157864 TCTTC
1 TCTTC
18157869 CTTGTTAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.13, C:0.31, G:0.09, T:0.47
Consensus pattern (25 bp):
TCTTCATCATCTTCATCACCGTTTG
Found at i:18161814 original size:24 final size:25
Alignment explanation
Indices: 18161762--18161822 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
18161752 GCTGAAGCTT
*
18161762 TAGTTGCAATTTAAGAGGTATTTTA
1 TAGTTGCAATTCAAGAGGTATTTTA
18161787 TAGTTGCAATTCAAGAGGT-TTTTA
1 TAGTTGCAATTCAAGAGGTATTTTA
18161811 TAGTTGCAATTC
1 TAGTTGCAATTC
18161823 TGGTTTGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 17 0.49
25 18 0.51
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.43
Consensus pattern (25 bp):
TAGTTGCAATTCAAGAGGTATTTTA
Found at i:18162060 original size:22 final size:22
Alignment explanation
Indices: 18162030--18162071 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
18162020 ATGGCTTGCG
*
18162030 TTTGGATGTGTTCTTATTTAAA
1 TTTGAATGTGTTCTTATTTAAA
18162052 TTTGAATGTGTTCTTATTTA
1 TTTGAATGTGTTCTTATTTA
18162072 GTGCAGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.17, T:0.57
Consensus pattern (22 bp):
TTTGAATGTGTTCTTATTTAAA
Found at i:18164758 original size:110 final size:116
Alignment explanation
Indices: 18164638--18164903 Score: 350
Period size: 122 Copynumber: 2.3 Consensus size: 116
18164628 AATAAAGTAG
*
18164638 ATTA-TAAATTATAATTTAATAATAATTA-GTTAAATTATATTTTATATTATTATATATTATGAT
1 ATTATTAAATTAT-ATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGAT
*
18164701 TTTA-A-TAAATTCATA-TAAGAATA-A-GA-ATTTTATTAAATTATATATT
65 TTTATAGTAAATTCATATTAAGAATATATAACATTTTATTAAATTATATATT
* *
18164747 ATTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTGTTATATATTATGATT
1 ATTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATT
18164812 TTATTAGTAAATTCATATTTAAGAATATTTATTAATCATTTTATTAAATTATATATT
66 TTA-TAGTAAATTCATA-TTAAGAATA--TA-TAA-CATTTTATTAAATTATATATT
* * *
18164869 TTTATTAAATTATATTTTATAACAATTATGTTAAA
1 ATTATTAAATTATATTTAATAATAATTATGTTAAA
18164904 ATATGATTAA
Statistics
Matches: 135, Mismatches: 8, Indels: 15
0.85 0.05 0.09
Matches are distributed among these distances:
109 19 0.14
110 44 0.33
112 1 0.01
113 10 0.07
115 8 0.06
118 1 0.01
120 1 0.01
122 51 0.38
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (116 bp):
ATTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGATT
TTATAGTAAATTCATATTAAGAATATATAACATTTTATTAAATTATATATT
Found at i:18164780 original size:26 final size:28
Alignment explanation
Indices: 18164726--18164789 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
18164716 TAAGAATAAG
* * *
18164726 AATTTTATTAAATTATATATTATTATTA
1 AATTATATTTAATAATATATTATTATTA
18164754 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
18164780 AATTATATTT
1 AATTATATTT
18164790 TATAGTGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 14 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
AATTATATTTAATAATATATTATTATTA
Found at i:18165112 original size:44 final size:46
Alignment explanation
Indices: 18165049--18165137 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
18165039 CCTCTATTCC
* *
18165049 ATTCAACCAAACACAAGAA-TA-CTATTACGTCTCTATTCCATTAT
1 ATTCAACCAAACAAAAGAATTATCTATTACGCCTCTATTCCATTAT
* *
18165093 ATTCAACCAAACAAAAGAATTATCTATTATGCCTCTATTTCATTA
1 ATTCAACCAAACAAAAGAATTATCTATTACGCCTCTATTCCATTA
18165138 CAGCGAACCA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 18 0.46
45 2 0.05
46 19 0.49
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.34
Consensus pattern (46 bp):
ATTCAACCAAACAAAAGAATTATCTATTACGCCTCTATTCCATTAT
Found at i:18165147 original size:46 final size:44
Alignment explanation
Indices: 18165028--18165150 Score: 114
Period size: 46 Copynumber: 2.9 Consensus size: 44
18165018 TTTTTTCCTT
* *
18165028 ATACTATTACACCTCTATTCCA-T---T-CAACCAAACACAAGA
1 ATACTATTACGCCTCTATTCCATTACATGCAACCAAACAAAAGA
* * *
18165067 ATACTATTACGTCTCTATTCCATTATATTCAACCAAACAAAAGA
1 ATACTATTACGCCTCTATTCCATTACATGCAACCAAACAAAAGA
* *
18165111 ATTATCTATTATGCCTCTATTTCATTACA-GCGAACCAAAC
1 A-TA-CTATTACGCCTCTATTCCATTACATGC-AACCAAAC
18165151 GTGGGGTTCC
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
39 20 0.29
40 1 0.01
43 1 0.01
44 15 0.22
45 3 0.04
46 28 0.41
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (44 bp):
ATACTATTACGCCTCTATTCCATTACATGCAACCAAACAAAAGA
Found at i:18168023 original size:28 final size:28
Alignment explanation
Indices: 18167990--18168045 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
18167980 GGTAAAAGAT
18167990 AATAGAGTTCCATGTACTAAGAGATAGA
1 AATAGAGTTCCATGTACTAAGAGATAGA
18168018 AATAGAGTTCCATGTACTAAGAGATAGA
1 AATAGAGTTCCATGTACTAAGAGATAGA
18168046 TTGTTCTCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (28 bp):
AATAGAGTTCCATGTACTAAGAGATAGA
Found at i:18174030 original size:19 final size:20
Alignment explanation
Indices: 18173993--18174032 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
18173983 CGAGACTAAA
18173993 TCAGAAACATATAGAATTTT
1 TCAGAAACATATAGAATTTT
18174013 TCAGAAA-ATA-ATGAATTTT
1 TCAGAAACATATA-GAATTTT
18174032 T
1 T
18174033 AAAACTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.05
19 11 0.58
20 7 0.37
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (20 bp):
TCAGAAACATATAGAATTTT
Found at i:18180993 original size:39 final size:39
Alignment explanation
Indices: 18180931--18181021 Score: 148
Period size: 39 Copynumber: 2.4 Consensus size: 39
18180921 AAATTAAGAC
* *
18180931 ACATAATTAAA-AAACATATTAATGATGTTTAAACTAAG
1 ACATAATTAAAGACACATATTAATGATGTTCAAACTAAG
*
18180969 ACATAATTAAAGACACATATTAATGATGTTCAAACTGAG
1 ACATAATTAAAGACACATATTAATGATGTTCAAACTAAG
18181008 ACATAATTAAAGAC
1 ACATAATTAAAGAC
18181022 TCAAACTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 11 0.22
39 38 0.78
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.29
Consensus pattern (39 bp):
ACATAATTAAAGACACATATTAATGATGTTCAAACTAAG
Found at i:18182467 original size:24 final size:26
Alignment explanation
Indices: 18182421--18182480 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 26
18182411 GCATGAAATT
* **
18182421 ATATTAGGTTTATGAATTTTTG-A-G
1 ATATTAGGTTTATCAATGATTGAATG
*
18182445 ATATTAGGTTTATCCATGATTGAATG
1 ATATTAGGTTTATCAATGATTGAATG
18182471 ATATTAGGTT
1 ATATTAGGTT
18182481 GCTATTTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 18 0.60
25 1 0.03
26 11 0.37
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (26 bp):
ATATTAGGTTTATCAATGATTGAATG
Found at i:18196631 original size:51 final size:51
Alignment explanation
Indices: 18196554--18196656 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
18196544 TTCTTGGTGC
*
18196554 AATCTGAAAATACTCATGTAGCGACATTGGTACCAAAACATGACAAAATTA
1 AATCTAAAAATACTCATGTAGCGACATTGGTACCAAAACATGACAAAATTA
*
18196605 AATCTAAAAATACTCATGTAGTGACATTGGTACCAAAACATGACAAAATTA
1 AATCTAAAAATACTCATGTAGCGACATTGGTACCAAAACATGACAAAATTA
18196656 A
1 A
18196657 GGATAAATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.47, C:0.17, G:0.13, T:0.24
Consensus pattern (51 bp):
AATCTAAAAATACTCATGTAGCGACATTGGTACCAAAACATGACAAAATTA
Found at i:18212714 original size:50 final size:50
Alignment explanation
Indices: 18212604--18212852 Score: 200
Period size: 50 Copynumber: 4.9 Consensus size: 50
18212594 GACATTAGGG
* * *
18212604 GATGAGA--TCCCATGTAAGACCATGTCTGAGACATGGTATTGGCATTATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACTGA
*
18212655 GGTTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGA
1 -G--ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* *
18212708 GATGAGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* * ** * * * * * *
18212758 TATTAGAACTCCCATGTAAGACCATATCTGGGATATGGAATTTGTAGT-A
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* * * ** * *
18212807 CAGGAAACATCCCATGTAAGACCATGTATGGGACATGGCTTTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
18212853 TGTTATTATC
Statistics
Matches: 159, Mismatches: 32, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
49 35 0.22
50 78 0.49
51 1 0.01
52 2 0.01
53 4 0.03
54 6 0.04
56 33 0.21
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
Found at i:18213089 original size:16 final size:16
Alignment explanation
Indices: 18213067--18213105 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
18213057 GTAAGCAAGT
*
18213067 AAGTAAATAAATAAGA
1 AAGTAAATAAAGAAGA
*
18213083 GAGTAAATAAAGAAGA
1 AAGTAAATAAAGAAGA
18213099 AAGTAAA
1 AAGTAAA
18213106 GATCATGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (16 bp):
AAGTAAATAAAGAAGA
Found at i:18219342 original size:75 final size:75
Alignment explanation
Indices: 18219253--18219443 Score: 233
Period size: 75 Copynumber: 2.5 Consensus size: 75
18219243 TGAATTATAT
** * ***
18219253 TGTTATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGTTA-TTCGTGCTTTGTGTTTAGCAG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGTTATTTAG-GC-TTGTGCCAAGCAG
18219317 GCTTTATGCCGG
64 GCTTTATGCCGG
*
18219329 T-TTATTCAAGCTTTGTGCCTAGCAGGCTTTGTGTCGGTGTTATTTAGGCTTGTGCCAAGCAGGC
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGTTATTTAGGCTTGTGCCAAGCAGGC
* *
18219393 TTTGTGCTGG
66 TTTATGCCGG
* * * *
18219403 TGTTATTCAAGTTTTGTGCCTAGCAGTCTTAGTTCCGGTGT
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGT
18219444 ATTAAAAGTT
Statistics
Matches: 99, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
74 21 0.21
75 74 0.75
76 4 0.04
ACGTcount: A:0.12, C:0.18, G:0.29, T:0.41
Consensus pattern (75 bp):
TGTTATTCAAGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGTTATTTAGGCTTGTGCCAAGCAGGC
TTTATGCCGG
Found at i:18219343 original size:37 final size:38
Alignment explanation
Indices: 18219253--18219443 Score: 224
Period size: 38 Copynumber: 5.1 Consensus size: 38
18219243 TGAATTATAT
**
18219253 TGTTATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTTGTGCCGG
** ** *
18219291 TGTTATTCGTGCTTTGTGTTTAGCAGGCTTTATGCCGG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTTGTGCCGG
*
18219329 T-TTATTCAAGCTTTGTGCCTAGCAGGCTTTGTGTCGG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTTGTGCCGG
* * * *
18219366 TGTTATTTAGGC-TTGTGCCAAGCAGGCTTTGTGCTGG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTTGTGCCGG
* * * *
18219403 TGTTATTCAAGTTTTGTGCCTAGCAGTCTTAGTTCCGG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTTGTGCCGG
18219441 TGT
1 TGT
18219444 ATTAAAAGTT
Statistics
Matches: 128, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
37 62 0.48
38 66 0.52
ACGTcount: A:0.12, C:0.18, G:0.29, T:0.41
Consensus pattern (38 bp):
TGTTATTCAAGCTTTGTGCCTAGCAGGCTTTGTGCCGG
Found at i:18223215 original size:30 final size:29
Alignment explanation
Indices: 18223181--18223259 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
18223171 CGGCTAAATA
*
18223181 AGGCCTATAGGCCGATTTTAATTTTTAATT
1 AGGCCTATAGGCCGATTTTAA-CTTTAATT
* *
18223211 AGGCCTTTAGGCCAATTTTAACTTTAATT
1 AGGCCTATAGGCCGATTTTAACTTTAATT
***
18223240 AGGGAAATAGGCCGATTTTA
1 AGGCCTATAGGCCGATTTTA
18223260 GGAGAGAAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 22 0.54
30 19 0.46
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (29 bp):
AGGCCTATAGGCCGATTTTAACTTTAATT
Found at i:18230667 original size:43 final size:43
Alignment explanation
Indices: 18230600--18230766 Score: 167
Period size: 43 Copynumber: 3.9 Consensus size: 43
18230590 TTTTAAAAAT
** * * *
18230600 AAATGCCACTAAAGGTCATGACCTTTAGCAGCGCTTTTCCCAC
1 AAATGCCACTAAAGACCATAACCTTTAGCGGCGCTTTTCACAC
* * *
18230643 AAATGCCACTATAGACCATAACCTTTAGCGGTGCTTTTCAAAC
1 AAATGCCACTAAAGACCATAACCTTTAGCGGCGCTTTTCACAC
** * *
18230686 AAATGCTGCTATAGACCATGACCTTTAGCGGCGCTTTT-ATCAC
1 AAATGCCACTAAAGACCATAACCTTTAGCGGCGCTTTTCA-CAC
* ** *
18230729 AAACGCTGCTAAAGAGCA-AACCTTTAGCGGCGCTTTTC
1 AAATGCCACTAAAGACCATAACCTTTAGCGGCGCTTTTC
18230767 GTAAAAACGC
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
42 19 0.18
43 86 0.82
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (43 bp):
AAATGCCACTAAAGACCATAACCTTTAGCGGCGCTTTTCACAC
Found at i:18230765 original size:42 final size:42
Alignment explanation
Indices: 18230620--18230765 Score: 168
Period size: 43 Copynumber: 3.4 Consensus size: 42
18230610 AAAGGTCATG
* * **
18230620 ACCTTTAGCAGCGCTTTTCCCACAAATGCCACTATAGACCATA
1 ACCTTTAGCGGCGCTTTT-ACACAAATGCTGCTATAGACCATA
* * *
18230663 ACCTTTAGCGGTGCTTTTCAAACAAATGCTGCTATAGACCATG
1 ACCTTTAGCGGCGCTTTT-ACACAAATGCTGCTATAGACCATA
* * *
18230706 ACCTTTAGCGGCGCTTTTATCACAAACGCTGCTAAAGAGCA-A
1 ACCTTTAGCGGCGCTTTTA-CACAAATGCTGCTATAGACCATA
18230748 ACCTTTAGCGGCGCTTTT
1 ACCTTTAGCGGCGCTTTT
18230766 CGTAAAAACG
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 19 0.21
43 70 0.79
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (42 bp):
ACCTTTAGCGGCGCTTTTACACAAATGCTGCTATAGACCATA
Found at i:18230775 original size:42 final size:42
Alignment explanation
Indices: 18230655--18230783 Score: 143
Period size: 43 Copynumber: 3.0 Consensus size: 42
18230645 ATGCCACTAT
* * * *
18230655 AGACCATAACCTTTAGCGGTGCTTTTCAAACAAATGCTGCTAT
1 AGACCATAACCTTTAGCGGCGCTTTTCTAA-AAACGCTGCTAA
* * *
18230698 AGACCATGACCTTTAGCGGCGCTTTTATCACAAACGCTGCTAA
1 AGACCATAACCTTTAGCGGCGCTTTTCT-AAAAACGCTGCTAA
* *
18230741 AGAGCA-AACCTTTAGCGGCGCTTTTCGTAAAAACGCCGCTAA
1 AGACCATAACCTTTAGCGGCGCTTTTC-TAAAAACGCTGCTAA
18230783 A
1 A
18230784 AACATATTCT
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 31 0.43
43 40 0.56
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (42 bp):
AGACCATAACCTTTAGCGGCGCTTTTCTAAAAACGCTGCTAA
Found at i:18231731 original size:14 final size:14
Alignment explanation
Indices: 18231714--18231744 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18231704 GAAGCTTTTG
18231714 ATATAAAGCATTTA
1 ATATAAAGCATTTA
*
18231728 ATATCAAGCATTTA
1 ATATAAAGCATTTA
18231742 ATA
1 ATA
18231745 AAAACCGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (14 bp):
ATATAAAGCATTTA
Found at i:18236391 original size:14 final size:15
Alignment explanation
Indices: 18236365--18236393 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18236355 TTTAACCCCT
18236365 AACCCCTAACCCTTA
1 AACCCCTAACCCTTA
18236380 AACCCC-AACCCTTA
1 AACCCCTAACCCTTA
18236394 TAACTGTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.48, G:0.00, T:0.17
Consensus pattern (15 bp):
AACCCCTAACCCTTA
Found at i:18237206 original size:28 final size:28
Alignment explanation
Indices: 18237164--18237217 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
18237154 AAATAGTAAC
**
18237164 CCCTAAACCTTAAACTCTAAACTATATA
1 CCCTAAACCAAAAACTCTAAACTATATA
*
18237192 CCCTAAACCAAAAACTTTAAACTATA
1 CCCTAAACCAAAAACTCTAAACTATA
18237218 GTGATAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (28 bp):
CCCTAAACCAAAAACTCTAAACTATATA
Found at i:18237379 original size:41 final size:41
Alignment explanation
Indices: 18237334--18237454 Score: 143
Period size: 41 Copynumber: 3.0 Consensus size: 41
18237324 TATGATAAAT
* * * *
18237334 CTGAGTATTAGCGGTGCTTTTTAAAAAACACCGCTAAAACC
1 CTGAGCATTAGCGGTGCTTTTTCAAAAACGCCACTAAAACC
* * * *
18237375 CTGAGCATTAGCGGTGCTGTTTCATAAACGCCTCTAAAGCC
1 CTGAGCATTAGCGGTGCTTTTTCAAAAACGCCACTAAAACC
* * *
18237416 CTGGGCATTAGCGGCGCTTCTTCAAAAACGCCACTAAAA
1 CTGAGCATTAGCGGTGCTTTTTCAAAAACGCCACTAAAA
18237455 ACGCCGCTAA
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (41 bp):
CTGAGCATTAGCGGTGCTTTTTCAAAAACGCCACTAAAACC
Found at i:18252397 original size:100 final size:100
Alignment explanation
Indices: 18252221--18252420 Score: 382
Period size: 100 Copynumber: 2.0 Consensus size: 100
18252211 TTTGTAGAAA
18252221 GTAAAGGTGAAAGTATATGCAATAAGATATATTATTGTTATAATACGGAATATGATCCTATTACA
1 GTAAAGGTGAAAGTATATGCAATAAGATATATTATTGTTATAATACGGAATATGATCCTATTACA
* *
18252286 TTTGAAGAGGCAATGGAATCTCAAGACTCTTCTTT
66 TTTGAAAAGGCAATGGAATCTCAAGACTATTCTTT
18252321 GTAAAGGTGAAAGTATATGCAATAAGATATATTATTGTTATAATACGGAATATGATCCTATTACA
1 GTAAAGGTGAAAGTATATGCAATAAGATATATTATTGTTATAATACGGAATATGATCCTATTACA
18252386 TTTGAAAAGGCAATGGAATCTCAAGACTATTCTTT
66 TTTGAAAAGGCAATGGAATCTCAAGACTATTCTTT
18252421 TTGGAAAGAA
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.34
Consensus pattern (100 bp):
GTAAAGGTGAAAGTATATGCAATAAGATATATTATTGTTATAATACGGAATATGATCCTATTACA
TTTGAAAAGGCAATGGAATCTCAAGACTATTCTTT
Found at i:18253089 original size:153 final size:153
Alignment explanation
Indices: 18252844--18253123 Score: 515
Period size: 153 Copynumber: 1.8 Consensus size: 153
18252834 TTATATAAAC
* *
18252844 ACCAAAGCATTGACTCCAAAAGTTTGACAAGGTTGTTCTAGCTAATGGCTATAAAATAAATGAAT
1 ACCAAAGCATTGACACCAAAAGTTTGACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAAT
* *
18252909 CTGATAAGTGCATATATAAAAAATTTGAAAATGGAAAAGGTGTCATAATTTTCTTATATGTAAGC
66 CTGATAAGTGCATAAATAAAAAATTTGAAAATGGAAAAGGTGTCATAATTTGCTTATATGTAAGC
18252974 TTGTTAAATCTTTATATGGGCTT
131 TTGTTAAATCTTTATATGGGCTT
18252997 ACCAAAGCATTGACACCAAAAGTTTGACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAAT
1 ACCAAAGCATTGACACCAAAAGTTTGACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAAT
*
18253062 CTGATAAGTGCATAAATAACAAATTTGAAAATGGAAAAGGTGTCATAATTTGCTTATATGTA
66 CTGATAAGTGCATAAATAAAAAATTTGAAAATGGAAAAGGTGTCATAATTTGCTTATATGTA
18253124 GATGACATGC
Statistics
Matches: 122, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
153 122 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (153 bp):
ACCAAAGCATTGACACCAAAAGTTTGACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAAT
CTGATAAGTGCATAAATAAAAAATTTGAAAATGGAAAAGGTGTCATAATTTGCTTATATGTAAGC
TTGTTAAATCTTTATATGGGCTT
Found at i:18258230 original size:23 final size:22
Alignment explanation
Indices: 18258154--18258230 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 22
18258144 CCAAACAATT
*
18258154 TTAAAATATAA-ATTTGATATTTA
1 TTAAAATTTAATATTT-A-ATTTA
18258177 -TAAAATTTAATATTTAATTTA
1 TTAAAATTTAATATTTAATTTA
*
18258198 TTCAACATTTAATATTTCAATTTA
1 TT-AAAATTTAATATTT-AATTTA
18258222 TTAAAATTT
1 TTAAAATTT
18258231 GACATCTCTC
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 5 0.11
22 11 0.23
23 23 0.49
24 8 0.17
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (22 bp):
TTAAAATTTAATATTTAATTTA
Found at i:18265615 original size:45 final size:45
Alignment explanation
Indices: 18265524--18265743 Score: 255
Period size: 45 Copynumber: 4.9 Consensus size: 45
18265514 TCGTTACACA
* * * * ***
18265524 GTGG-ATCAGCATATAAC-ACCACCCTTATAATCAATTATATTTG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCG
* * * ** ***
18265567 GTGGAATTAGCATATAGCAACCGCCTTTATTTTCAATGATTTTCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCG
* *
18265612 GTGGAGTCAGCACATAGCAACCACCTTTATAATCAATGGTACCCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCG
*
18265657 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGGTACCCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCG
*
18265702 GTGGAATCAGCACATAACAACCACCTTTATAATCAATGATAC
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATAC
18265744 TCAGTACACG
Statistics
Matches: 153, Mismatches: 22, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
43 4 0.03
44 11 0.07
45 138 0.90
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCG
Found at i:18266956 original size:20 final size:20
Alignment explanation
Indices: 18266928--18266997 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
18266918 TCAAAATGCT
18266928 AACAAAGGCACCGAAGTGCA
1 AACAAAGGCACCGAAGTGCA
* *
18266948 AACAGAGGCATCGAAGTGCA
1 AACAAAGGCACCGAAGTGCA
*
18266968 ATCAAAGGCACCGAAGTGCA
1 AACAAAGGCACCGAAGTGCA
*
18266988 AACAGAGGCA
1 AACAAAGGCA
18266998 ACAAAGTGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.43, C:0.23, G:0.27, T:0.07
Consensus pattern (20 bp):
AACAAAGGCACCGAAGTGCA
Found at i:18267004 original size:20 final size:20
Alignment explanation
Indices: 18266909--18267028 Score: 89
Period size: 20 Copynumber: 6.0 Consensus size: 20
18266899 CTAAACACAT
* * *
18266909 CAGAGAGCATCAAAATGCTAA
1 CAGAG-GCAACAAAGTGCAAA
* * *
18266930 CAAAGGCACCGAAGTGCAAA
1 CAGAGGCAACAAAGTGCAAA
* * *
18266950 CAGAGGCATCGAAGTGCAAT
1 CAGAGGCAACAAAGTGCAAA
* * *
18266970 CAAAGGCACCGAAGTGCAAA
1 CAGAGGCAACAAAGTGCAAA
*
18266990 CAGAGGCAACAAAGTGAAAA
1 CAGAGGCAACAAAGTGCAAA
*
18267010 TAGAGG-AATCAAAGTGCAA
1 CAGAGGCAA-CAAAGTGCAA
18267029 TCCCATACAA
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
19 2 0.02
20 75 0.93
21 4 0.05
ACGTcount: A:0.46, C:0.19, G:0.25, T:0.10
Consensus pattern (20 bp):
CAGAGGCAACAAAGTGCAAA
Found at i:18267005 original size:40 final size:40
Alignment explanation
Indices: 18266930--18267005 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
18266920 AAAATGCTAA
* *
18266930 CAAAGGCACCGAAGTGCAAACAGAGGCATCGAAGTGCAAT
1 CAAAGGCACCGAAGTGCAAACAGAGGCAACAAAGTGCAAT
18266970 CAAAGGCACCGAAGTGCAAACAGAGGCAACAAAGTG
1 CAAAGGCACCGAAGTGCAAACAGAGGCAACAAAGTG
18267006 AAAATAGAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.28, T:0.08
Consensus pattern (40 bp):
CAAAGGCACCGAAGTGCAAACAGAGGCAACAAAGTGCAAT
Found at i:18267025 original size:40 final size:40
Alignment explanation
Indices: 18266930--18267028 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 40
18266920 AAAATGCTAA
* * * * *
18266930 CAAAGGCACCGAAGTGCAAACAGAGGCATCGAAGTGCAAT
1 CAAAGGAACCAAAGTGCAAACAGAGGCAACAAAGTGAAAT
* *
18266970 CAAAGGCACCGAAGTGCAAACAGAGGCAACAAAGTGAAAAT
1 CAAAGGAACCAAAGTGCAAACAGAGGCAACAAAGTG-AAAT
* *
18267011 -AGAGGAATCAAAGTGCAA
1 CAAAGGAACCAAAGTGCAA
18267029 TCCCATACAA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 48 0.94
41 3 0.06
ACGTcount: A:0.45, C:0.19, G:0.26, T:0.09
Consensus pattern (40 bp):
CAAAGGAACCAAAGTGCAAACAGAGGCAACAAAGTGAAAT
Found at i:18275081 original size:19 final size:19
Alignment explanation
Indices: 18275053--18275098 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
18275043 ACATGAGATT
18275053 ATAAAATATTTATCA-ATC
1 ATAAAATATTTATCACATC
*
18275071 ATAACAATATTTGTCACATC
1 ATAA-AATATTTATCACATC
*
18275091 ATATAATA
1 ATAAAATA
18275099 AAAATCAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.17
19 14 0.58
20 6 0.25
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAAAATATTTATCACATC
Found at i:18275937 original size:33 final size:34
Alignment explanation
Indices: 18275895--18275962 Score: 86
Period size: 33 Copynumber: 2.0 Consensus size: 34
18275885 TTGTATGCTT
*
18275895 TTGATATGGTGCTGGTATGGTGG-TGTATTGGTGG
1 TTGATATGGTGCTGGTATAGTGGTTGTA-TGGTGG
* *
18275929 TTGA-ATGGTGGTGGTGTAGTGGTTGTATGGTGG
1 TTGATATGGTGCTGGTATAGTGGTTGTATGGTGG
18275962 T
1 T
18275963 GATTCGGTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
33 22 0.73
34 8 0.27
ACGTcount: A:0.12, C:0.01, G:0.46, T:0.41
Consensus pattern (34 bp):
TTGATATGGTGCTGGTATAGTGGTTGTATGGTGG
Found at i:18275972 original size:22 final size:21
Alignment explanation
Indices: 18275909--18275973 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
18275899 TATGGTGCTG
18275909 GTATGGTGGTGTATTGGTGGTT
1 GTATGGTGGTG-ATTGGTGGTT
* * *
18275931 GAATGGTGGTGGTGTAGTGGTT
1 GTATGGTGGTGAT-TGGTGGTT
18275953 GTATGGTGGTGATTCGGTGGT
1 GTATGGTGGTGATT-GGTGGT
18275974 GATAGAGTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 33 0.94
ACGTcount: A:0.11, C:0.02, G:0.48, T:0.40
Consensus pattern (21 bp):
GTATGGTGGTGATTGGTGGTT
Found at i:18278065 original size:68 final size:68
Alignment explanation
Indices: 18277957--18278351 Score: 486
Period size: 68 Copynumber: 5.8 Consensus size: 68
18277947 ATTCTGGTGA
* * * *
18277957 ACTTCATATGTTGTCATAGCCTAGCTATGGTCTTACACCATACTATGCCATGTTTACTATCCTGG
1 ACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATGTTTACTATCCTGG
18278022 CGG
66 CGG
* * * * * * * * * *
18278025 GCTTCATATGTTACCATAGCCCAGCTATAGTCCTAAACCATACGATGCCATGTCTATTGTCCTAG
1 ACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATGTTTACTATCCTGG
*
18278090 CAG
66 CGG
* ** * * * *
18278093 ATTTCATATGTTTTCATAACCCAATTATGGTCTTACACCATACGATGCCATGTTTATTATCCTAG
1 ACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATGTTTACTATCCTGG
* *
18278158 AGA
66 CGG
* * *
18278161 ACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATG-TTACTATCTTGG
1 ACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATGTTTACTATCCTGG
18278225 CGG
66 CGG
* * * *
18278228 ACTTCATATGTTACCATAGCCCAACTATGGTTTTACACCATACGATGCCATGTTTACTGTCCAGG
1 ACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATGTTTACTATCCTGG
18278293 CGG
66 CGG
* *
18278296 ACTTCATATGTTGTCATAGCCCAACTATGGTCTTACACCATATGATGCCATGTTTA
1 ACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATGTTTA
18278352 TTGTCCTAAC
Statistics
Matches: 275, Mismatches: 51, Indels: 2
0.84 0.16 0.01
Matches are distributed among these distances:
67 58 0.21
68 217 0.79
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (68 bp):
ACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATGTTTACTATCCTGG
CGG
Found at i:18278305 original size:203 final size:204
Alignment explanation
Indices: 18277955--18278369 Score: 620
Period size: 203 Copynumber: 2.0 Consensus size: 204
18277945 CTATTCTGGT
* * *
18277955 GAACTTCATATGTTGTCATAGCCTAGCTATGGTCTTACACCATACTATGCCATGTTTACTATCCT
1 GAACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATGTTTACTATCCT
* * *
18278020 GGCGGGCTTCATATGTTACCATAGCCCAGCTATAGTCCTAAACCATACGATGCCATGTCTATTGT
66 GGCGGACTTCATATGTTACCATAGCCCAACTATAGTCCTAAACCATACGATGCCATGTCTACTGT
* * *
18278085 CCTAGCAGATTTCATATGTTTTCATAACCCAATTATGGTCTTACACCATACGATGCCATGTTTAT
131 CCTAGCAGACTTCATATGTTGTCATAACCCAACTATGGTCTTACACCATACGATGCCATGTTTAT
18278150 TATCCTAGA-
196 TATCCTA-AC
*
18278159 GAACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATG-TTACTATCTT
1 GAACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATGTTTACTATCCT
* ** * *
18278223 GGCGGACTTCATATGTTACCATAGCCCAACTATGGTTTTACACCATACGATGCCATGTTTACTGT
66 GGCGGACTTCATATGTTACCATAGCCCAACTATAGTCCTAAACCATACGATGCCATGTCTACTGT
* * *
18278288 CC-AGGCGGACTTCATATGTTGTCATAGCCCAACTATGGTCTTACACCATATGATGCCATGTTTA
131 CCTA-GCAGACTTCATATGTTGTCATAACCCAACTATGGTCTTACACCATACGATGCCATGTTTA
*
18278352 TTGTCCTAAC
195 TTATCCTAAC
18278362 GAACTTCA
1 GAACTTCA
18278370 GATTTGAGGA
Statistics
Matches: 190, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
202 2 0.01
203 137 0.72
204 51 0.27
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (204 bp):
GAACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATGTTTACTATCCT
GGCGGACTTCATATGTTACCATAGCCCAACTATAGTCCTAAACCATACGATGCCATGTCTACTGT
CCTAGCAGACTTCATATGTTGTCATAACCCAACTATGGTCTTACACCATACGATGCCATGTTTAT
TATCCTAAC
Found at i:18279490 original size:22 final size:24
Alignment explanation
Indices: 18279465--18279512 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
18279455 CCAACTACTC
18279465 GTTGTAACACCTTCAGC-T-GCTT
1 GTTGTAACACCTTCAGCATGGCTT
**
18279487 GTTGTAGTACCTTCAGCATGGCTT
1 GTTGTAACACCTTCAGCATGGCTT
18279511 GT
1 GT
18279513 GGCGCAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
23 1 0.05
24 6 0.27
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (24 bp):
GTTGTAACACCTTCAGCATGGCTT
Found at i:18285428 original size:17 final size:17
Alignment explanation
Indices: 18285403--18285437 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18285393 CGGTCAAGGT
*
18285403 ATGGCAATAGGGAGAAA
1 ATGGAAATAGGGAGAAA
*
18285420 ATGGAAATAGGGGGAAA
1 ATGGAAATAGGGAGAAA
18285437 A
1 A
18285438 AAGCACAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.37, T:0.11
Consensus pattern (17 bp):
ATGGAAATAGGGAGAAA
Found at i:18287968 original size:68 final size:68
Alignment explanation
Indices: 18287849--18288010 Score: 195
Period size: 68 Copynumber: 2.4 Consensus size: 68
18287839 CGTACAATGT
* * *
18287849 CATGTTTACTGT-TATGGCGGACTTTATATGTTGCTACAACCCAACTTTGGTCTTACACCATACT
1 CATGTTTACTGTCT-TGGCGGACTTCATATGTTGCTACAACCCAACTATGGTCTTACACCATACG
18287913 ATGC
65 ATGC
* * *
18287917 CATGTTTGCTGTCTTGGAGGACTTCATATGTTG-T-CATAGCCCAGCTATGGTCTTACACCATAC
1 CATGTTTACTGTCTTGGCGGACTTCATATGTTGCTACA-A-CCCAACTATGGTCTTACACCATAC
*
18287980 GATGT
64 GATGC
* *
18287985 CATGTTTACTATCTTGGCTGACTTCA
1 CATGTTTACTGTCTTGGCGGACTTCA
18288011 GATTTTGAGA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
66 2 0.03
67 2 0.03
68 75 0.94
69 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.37
Consensus pattern (68 bp):
CATGTTTACTGTCTTGGCGGACTTCATATGTTGCTACAACCCAACTATGGTCTTACACCATACGA
TGC
Found at i:18294612 original size:41 final size:41
Alignment explanation
Indices: 18294550--18294684 Score: 207
Period size: 41 Copynumber: 3.3 Consensus size: 41
18294540 AATTTAACAT
* * * *
18294550 ATTCAGATCACTGGCACTTAGCCTGTTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* * *
18294591 ATTCATATCACCGGCATTTAGCCTACTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
18294632 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
18294673 ATTCAGATCACC
1 ATTCAGATCACC
18294685 AATTCCAAAC
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 84 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Done.