Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004693.1 Hibiscus syriacus cultivar Beakdansim tig00010533_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2620943
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 4 of 12
Found at i:701917 original size:14 final size:14
Alignment explanation
Indices: 701898--701954 Score: 69
Period size: 14 Copynumber: 3.7 Consensus size: 14
701888 ATTATACTTG
701898 ATATTTTTAAAATT
1 ATATTTTTAAAATT
701912 ATATTTTTAAGTAAACTT
1 ATATTTTT-A--AAA-TT
701930 GATATTTTTAAAATT
1 -ATATTTTTAAAATT
701945 ATATTTTTAA
1 ATATTTTTAA
701955 TTGAACTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 3 0.08
17 3 0.08
18 3 0.08
19 8 0.21
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (14 bp):
ATATTTTTAAAATT
Found at i:701924 original size:67 final size:66
Alignment explanation
Indices: 701840--701966 Score: 186
Period size: 67 Copynumber: 1.9 Consensus size: 66
701830 ATGGCATAAC
701840 AAATGATATTTTTAAGTAAACTTGACA-TTTTAAAATGATATTCTTTTAATT-ATACTTGATATT
1 AAATGATATTTTTAAGTAAACTTGACATTTTTAAAATGATA-T-TTTTAATTGA-ACTTGATATT
701903 TTTA
63 TTTA
* * *
701907 AAATTATATTTTTAAGTAAACTTGATATTTTTAAAATTATATTTTTAATTGAACTTGATA
1 AAATGATATTTTTAAGTAAACTTGACATTTTTAAAATGATATTTTTAATTGAACTTGATA
701967 AATTCTTAGT
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
66 16 0.29
67 27 0.49
68 12 0.22
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (66 bp):
AAATGATATTTTTAAGTAAACTTGACATTTTTAAAATGATATTTTTAATTGAACTTGATATTTTT
A
Found at i:701930 original size:33 final size:33
Alignment explanation
Indices: 701840--701966 Score: 166
Period size: 33 Copynumber: 3.8 Consensus size: 33
701830 ATGGCATAAC
*
701840 AAATGATATTTTTAAGTAAACTTGACA-TTTTA
1 AAATGATATTTTTAAGTAAACTTGATATTTTTA
* *
701872 AAATGATATTCTTTTAATTATACTTGATATTTTTA
1 AAATGATA-T-TTTTAAGTAAACTTGATATTTTTA
*
701907 AAATTATATTTTTAAGTAAACTTGATATTTTTA
1 AAATGATATTTTTAAGTAAACTTGATATTTTTA
* * *
701940 AAATTATATTTTTAATTGAACTTGATA
1 AAATGATATTTTTAAGTAAACTTGATA
701967 AATTCTTAGT
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
32 8 0.10
33 48 0.57
34 16 0.19
35 12 0.14
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (33 bp):
AAATGATATTTTTAAGTAAACTTGATATTTTTA
Found at i:704818 original size:19 final size:19
Alignment explanation
Indices: 704791--704835 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
704781 TAAATGTCAT
*
704791 TGATTTTTATAGTAAAATG
1 TGATATTTATAGTAAAATG
*
704810 TGATATTTATAGTAAACTG
1 TGATATTTATAGTAAAATG
704829 TGATATT
1 TGATATT
704836 GACTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (19 bp):
TGATATTTATAGTAAAATG
Found at i:708754 original size:574 final size:574
Alignment explanation
Indices: 707666--708817 Score: 2295
Period size: 574 Copynumber: 2.0 Consensus size: 574
707656 AGATGATTAA
707666 ATAAAACGAACTCAACAGATTTTGACCCGACTGAGTTTTATAAGATTATTTTTATTAAAAGATTT
1 ATAAAACGAACTCAACAGATTTTGACCCGACTGAGTTTTATAAGATTATTTTTATTAAAAGATTT
707731 GAGTTCAGAGTTAATCATGACAAATATTGAGAGAAAATAGTCGGAAACAAATTTATAATAAATTT
66 GAGTTCAGAGTTAATCATGACAAATATTGAGAGAAAATAGTCGGAAACAAATTTATAATAAATTT
707796 ATTTAATCTAATCAAACTCAAAATATTTTAAAAATAATAATTCATTATTTGACATATTTACAAAA
131 ATTTAATCTAATCAAACTCAAAATATTTTAAAAATAATAATTCATTATTTGACATATTTACAAAA
*
707861 ATAATATTATATATATATATATATACATACTACACATAAAAATTTTCCATTCATATTGTATATAT
196 ATAATATTATATATATATATATATACATACTACACATAAAAAATTTCCATTCATATTGTATATAT
707926 TTCCCTAAAATCTAATTTATATTTTGTAATTAGAAGGTTTAATACACTTTTAGTGTTTAAATTAT
261 TTCCCTAAAATCTAATTTATATTTTGTAATTAGAAGGTTTAATACACTTTTAGTGTTTAAATTAT
707991 ATCTCAAATTGATTTTTGGCGCCTATAAAATTTTTCGTTAAAAATAAGTGCTTAATGTTTTTTCC
326 ATCTCAAATTGATTTTTGGCGCCTATAAAATTTTTCGTTAAAAATAAGTGCTTAATGTTTTTTCC
708056 GTTACACTTTAAGTGCCTACCGTTATATTTTTTAATACACTTTTATTTTTTAATAATAAAAATAT
391 GTTACACTTTAAGTGCCTACCGTTATATTTTTTAATACACTTTTATTTTTTAATAATAAAAATAT
708121 TATTTTAAAAAAATTCAAAAAATCAAACCCCTGCATCATCCTTTTCCCTCTCATCCTCCACCTCC
456 TATTTTAAAAAAATTCAAAAAATCAAACCCCTGCATCATCCTTTTCCCTCTCATCCTCCACCTCC
708186 GACAACGACGAAGGGTCACCACCGATTGAGTTTTATGTGCATGACATGTGTCAG
521 GACAACGACGAAGGGTCACCACCGATTGAGTTTTATGTGCATGACATGTGTCAG
708240 ATAAAACGAACTCAACAGATTTTGACCCGACTGAGTTTTATAAGATTATTTTTATTAAAAGATTT
1 ATAAAACGAACTCAACAGATTTTGACCCGACTGAGTTTTATAAGATTATTTTTATTAAAAGATTT
708305 GAGTTCAGAGTTAATCATGACAAATATTGAGAGAAAATAGTCGGAAACAAATTTATAATAAATTT
66 GAGTTCAGAGTTAATCATGACAAATATTGAGAGAAAATAGTCGGAAACAAATTTATAATAAATTT
708370 ATTTAATCTAATCAAACTCAAAATATTTTAAAAATAATAATTCATTATTTGACATATTTACAAAA
131 ATTTAATCTAATCAAACTCAAAATATTTTAAAAATAATAATTCATTATTTGACATATTTACAAAA
708435 ATAATATTATATATATATATATATACATACTACACATAAAAAATTTCCATTCATATTGTATATAT
196 ATAATATTATATATATATATATATACATACTACACATAAAAAATTTCCATTCATATTGTATATAT
708500 TTCCCTAAAATCTAATTTATATTTTGTAATTAGAAGGTTTAATACACTTTTAGTGTTTAAATTAT
261 TTCCCTAAAATCTAATTTATATTTTGTAATTAGAAGGTTTAATACACTTTTAGTGTTTAAATTAT
708565 ATCTCAAATTGATTTTTGGCGCCTATAAAATTTTTCGTTAAAAATAAGTGCTTAATGTTTTTTCC
326 ATCTCAAATTGATTTTTGGCGCCTATAAAATTTTTCGTTAAAAATAAGTGCTTAATGTTTTTTCC
708630 GTTACACTTTAAGTGCCTACCGTTATATTTTTTAATACACTTTTATTTTTTAATAATAAAAATAT
391 GTTACACTTTAAGTGCCTACCGTTATATTTTTTAATACACTTTTATTTTTTAATAATAAAAATAT
708695 TATTTTAAAAAAATTCAAAAAATCAAACCCCTGCATCATCCTTTTCCCTCTCATCCTCCACCTCC
456 TATTTTAAAAAAATTCAAAAAATCAAACCCCTGCATCATCCTTTTCCCTCTCATCCTCCACCTCC
708760 GACAACGACGAAGGGTCACCACCGATTGAGTTTTATGTGCATGACATGTGTCAG
521 GACAACGACGAAGGGTCACCACCGATTGAGTTTTATGTGCATGACATGTGTCAG
708814 ATAA
1 ATAA
708818 CGATCAAATT
Statistics
Matches: 577, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
574 577 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (574 bp):
ATAAAACGAACTCAACAGATTTTGACCCGACTGAGTTTTATAAGATTATTTTTATTAAAAGATTT
GAGTTCAGAGTTAATCATGACAAATATTGAGAGAAAATAGTCGGAAACAAATTTATAATAAATTT
ATTTAATCTAATCAAACTCAAAATATTTTAAAAATAATAATTCATTATTTGACATATTTACAAAA
ATAATATTATATATATATATATATACATACTACACATAAAAAATTTCCATTCATATTGTATATAT
TTCCCTAAAATCTAATTTATATTTTGTAATTAGAAGGTTTAATACACTTTTAGTGTTTAAATTAT
ATCTCAAATTGATTTTTGGCGCCTATAAAATTTTTCGTTAAAAATAAGTGCTTAATGTTTTTTCC
GTTACACTTTAAGTGCCTACCGTTATATTTTTTAATACACTTTTATTTTTTAATAATAAAAATAT
TATTTTAAAAAAATTCAAAAAATCAAACCCCTGCATCATCCTTTTCCCTCTCATCCTCCACCTCC
GACAACGACGAAGGGTCACCACCGATTGAGTTTTATGTGCATGACATGTGTCAG
Found at i:716357 original size:29 final size:29
Alignment explanation
Indices: 716315--716374 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
716305 CGGGTTGCAT
*
716315 TGTTATTAGAGCAATGCCCTAATATTGTA
1 TGTTATGAGAGCAATGCCCTAATATTGTA
*
716344 TGTTATGAGAGCAATGCCCTAATGTTGTA
1 TGTTATGAGAGCAATGCCCTAATATTGTA
716373 TG
1 TG
716375 CTTCCCCCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (29 bp):
TGTTATGAGAGCAATGCCCTAATATTGTA
Found at i:723379 original size:15 final size:16
Alignment explanation
Indices: 723359--723393 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
723349 AATAGACATA
723359 ATTTATC-ATTTTTAC
1 ATTTATCGATTTTTAC
723374 ATTTATCGTATTTTTAC
1 ATTTATCG-ATTTTTAC
723391 ATT
1 ATT
723394 AATTTAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
17 11 0.61
ACGTcount: A:0.26, C:0.11, G:0.03, T:0.60
Consensus pattern (16 bp):
ATTTATCGATTTTTAC
Found at i:723938 original size:26 final size:24
Alignment explanation
Indices: 723875--723924 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
723865 TTATATAAGT
723875 TAATTAAGTAATTATATATATATA
1 TAATTAAGTAATTATATATATATA
723899 TAATTAAGTAATTATATATATATA
1 TAATTAAGTAATTATATATATATA
723923 TA
1 TA
723925 TATATAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
TAATTAAGTAATTATATATATATA
Found at i:724036 original size:20 final size:20
Alignment explanation
Indices: 723983--724024 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
723973 ATATATAAGT
723983 TAATTAAGTAATTATATATA
1 TAATTAAGTAATTATATATA
724003 TAATTAAGTAATTATATATA
1 TAATTAAGTAATTATATATA
724023 TA
1 TA
724025 TATAATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TAATTAAGTAATTATATATA
Found at i:724083 original size:104 final size:104
Alignment explanation
Indices: 723866--724077 Score: 337
Period size: 98 Copynumber: 2.1 Consensus size: 104
723856 GTATTATAAT
723866 TATATAAGTTAATTAAGTAATTATATATATATATAATTAAGTAATTATATATATATATATATATA
1 TATATAAGTTAATTAAGTAA-TATATATATATATAATTAAG--A-TATATATATATATATATATA
*
723931 ATGAATTAAAATTGAAAATTTGCTTTTAATTTGAGCAATTATA
62 ATGAATTAAAATTGAAAATTTGCTTTTAATTTAAGCAATTATA
723974 TATATAAGTTAATTAAGT-A-AT-TATATATATAATTAAG-TA-AT-TATATATATATATAATGA
1 TATATAAGTTAATTAAGTAATATATATATATATAATTAAGATATATATATATATATATATAATGA
724033 ATTAAAATTGAAAATTTGCTTTTAATTTAAGCAATTATA
66 ATTAAAATTGAAAATTTGCTTTTAATTTAAGCAATTATA
724072 TATATA
1 TATATA
724078 TATATATATT
Statistics
Matches: 103, Mismatches: 1, Indels: 10
0.90 0.01 0.09
Matches are distributed among these distances:
98 62 0.60
99 2 0.02
100 2 0.02
104 16 0.16
105 2 0.02
107 1 0.01
108 18 0.17
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (104 bp):
TATATAAGTTAATTAAGTAATATATATATATATAATTAAGATATATATATATATATATATAATGA
ATTAAAATTGAAAATTTGCTTTTAATTTAAGCAATTATA
Found at i:726855 original size:19 final size:18
Alignment explanation
Indices: 726833--726891 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 18
726823 TATTATTTTT
726833 ATATTAATATATTATGTAA
1 ATATTAATATATTAT-TAA
* *
726852 ATATTATTTTATTATTAA
1 ATATTAATATATTATTAA
726870 A-A-TAATAT-TTATATAA
1 ATATTAATATATTAT-TAA
*
726886 TTATTA
1 ATATTA
726892 TTTATTTAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
15 4 0.12
16 7 0.22
17 2 0.06
18 6 0.19
19 13 0.41
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
ATATTAATATATTATTAA
Found at i:726859 original size:30 final size:30
Alignment explanation
Indices: 726823--726896 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
726813 TTTAAATAGT
* *
726823 TATTATTTTTATATTAATATATTATGTAAA
1 TATTATTTTTATATTAAAATAATATGTAAA
* *
726853 TATTA-TTTTATTATTAAAATAATATTTATA
1 TATTATTTTTA-TATTAAAATAATATGTAAA
726883 TAATTATTATTTAT
1 T-ATTATT-TTTAT
726897 TTAGAATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 5 0.14
30 21 0.58
31 4 0.11
32 2 0.06
33 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (30 bp):
TATTATTTTTATATTAAAATAATATGTAAA
Found at i:726859 original size:33 final size:33
Alignment explanation
Indices: 726792--726859 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
726782 GGTAAGAAAT
* * * *
726792 TTATTTTTATGTTAGTATTTTTTTAAATAGTTA
1 TTATTTTTATATTAATATTTATGTAAATAGTTA
726825 TTATTTTTATATTAATATATTATGTAAATA-TTA
1 TTATTTTTATATTAATAT-TTATGTAAATAGTTA
726858 TT
1 TT
726860 TTATTATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 21 0.70
34 9 0.30
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (33 bp):
TTATTTTTATATTAATATTTATGTAAATAGTTA
Found at i:728650 original size:21 final size:21
Alignment explanation
Indices: 728620--728667 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
728610 GCAGGGGTAC
* *
728620 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
728641 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
728662 ATGCCA
1 ATGCCA
728668 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:728697 original size:21 final size:21
Alignment explanation
Indices: 728671--728764 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
728661 TATGCCATCT
* *
728671 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
728692 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
728713 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
728734 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
728755 CCGCAGGGTT
1 CCGCAGGGTT
728765 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:729335 original size:34 final size:34
Alignment explanation
Indices: 729285--729381 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
729275 AAATGTTTTT
*
729285 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
729319 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
729352 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
729382 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:729388 original size:34 final size:33
Alignment explanation
Indices: 729283--729388 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
729273 ATAAATGTTT
*
729283 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
729317 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
729349 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
729384 TTAAA
1 TTAAA
729389 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:730085 original size:126 final size:126
Alignment explanation
Indices: 729770--730245 Score: 891
Period size: 126 Copynumber: 3.8 Consensus size: 126
729760 TTAAGTTATT
*
729770 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGC
1 CCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGC
* *
729835 GTCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG-A
66 GCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTC
729895 CCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGC
1 CCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGC
*
729960 GCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAGTAGGTACTGATATATCTAGTGTC
66 GCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTC
*
730021 CCCGAGGGACATGAATGACATAATAGGGCAATTATAATATTCTCTGACGAAATAATGGAAGGCGC
1 CCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGC
*
730086 GCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTATTGATATATCTAGTGTC
66 GCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTC
730147 CCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGC
1 CCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGC
730212 GCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
66 GCCCCCGGGAACGCGCCTTCACGTGAATAGTGAA
730246 CCGATTATAG
Statistics
Matches: 342, Mismatches: 8, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
125 121 0.35
126 221 0.65
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (126 bp):
CCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGC
GCCCCCGGGAACGCGCCTTCACGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTC
Found at i:730326 original size:8 final size:8
Alignment explanation
Indices: 730313--730353 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
730303 TCACAATCTT
730313 TCAAATTC
1 TCAAATTC
730321 TCAAATTC
1 TCAAATTC
* *
730329 CCAAACTC
1 TCAAATTC
730337 T-AAATTC
1 TCAAATTC
730344 TCAAATTC
1 TCAAATTC
730352 TC
1 TC
730354 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:733379 original size:12 final size:13
Alignment explanation
Indices: 733346--733383 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
733336 AAATACATAA
733346 ATATATTTAATAT
1 ATATATTTAATAT
*
733359 ATTTATTTAATAT
1 ATATATTTAATAT
733372 A-ATATTTAATAT
1 ATATATTTAATAT
733384 TATTAGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATATTTAATAT
Found at i:733435 original size:23 final size:23
Alignment explanation
Indices: 733397--733454 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
733387 TAGTTATAAT
733397 TTTTACAT--TATAATCGAAACA
1 TTTTACATAATATAATCGAAACA
733418 TTTTACATAATATAATCGAAACA
1 TTTTACATAATATAATCGAAACA
733441 TTTTACATAATATA
1 TTTTACATAATATA
733455 TTATTAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.23
23 27 0.77
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (23 bp):
TTTTACATAATATAATCGAAACA
Found at i:743079 original size:9 final size:11
Alignment explanation
Indices: 743057--743082 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
743047 AGCCAAAATT
743057 TATAAGTAATA
1 TATAAGTAATA
743068 TATAAGTAATA
1 TATAAGTAATA
743079 TATA
1 TATA
743083 TTATATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
TATAAGTAATA
Found at i:747632 original size:79 final size:79
Alignment explanation
Indices: 747385--747640 Score: 377
Period size: 79 Copynumber: 3.2 Consensus size: 79
747375 ACGTTTTCAT
* * *
747385 ATTCTGATACCGAACAAAGTATCTATAGAAGCAATAGAATAAACATACTACAATGTGCAATCACT
1 ATTCTGATAACGAACAAAGCATCTATAGAAGCAATAGAATAAACATACTACAACGTGCAATCACT
747450 GGTAATGAGATGTC
66 GGTAATGAGATGTC
*
747464 ATTCTGATAACGGACAAAGCATCTATAGAAGCAATAGAATAAGAATAAACATACTACAACGTGCA
1 ATTCTGATAACGAACAAAGCATCTATAGAAGC-----AAT-AGAATAAACATACTACAACGTGCA
*
747529 ATCACTGGTAATGAGATGTA
60 ATCACTGGTAATGAGATGTC
* * *
747549 ATTCTGATAACGAACAAAGCATCTATAAAAGCAATAGAATAAACATATTGCAACGTGCAATCACT
1 ATTCTGATAACGAACAAAGCATCTATAGAAGCAATAGAATAAACATACTACAACGTGCAATCACT
*
747614 GATAATGAGATGTC
66 GGTAATGAGATGTC
747628 ATTCTGATAACGA
1 ATTCTGATAACGA
747641 GTGACCCTCG
Statistics
Matches: 160, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
79 82 0.51
80 3 0.02
84 3 0.02
85 72 0.45
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (79 bp):
ATTCTGATAACGAACAAAGCATCTATAGAAGCAATAGAATAAACATACTACAACGTGCAATCACT
GGTAATGAGATGTC
Found at i:761006 original size:126 final size:126
Alignment explanation
Indices: 760781--761365 Score: 404
Period size: 126 Copynumber: 4.6 Consensus size: 126
760771 CTGATTTCAA
* *
760781 ACCTATTAAATGTCGATTCTTGAAAATAACGGTAAGAATCAAAATCAACTGATTTAAGTTCTGGG
1 ACCTATTAAATGTCGACTCTTGAAAATAACGGTAAGAATCAAAATCAACTGATCTAAGTTCTGGG
* * *
760846 ATCGAAGAAACGTGTTACGTACTTATTTAGTCTCCTATGTTTTAACATCCCTACTCACATG
66 ATCGAAGAAACGTGTTACATACTTATTCAGTCTCCTATGTTTCAACATCCCTACTCACATG
* **
760907 ACCTATTAAGTGTCGACTCTAT-AAGGTAACGGTAAGAATCAAAATCAACTGATCTAAGTT-TCG
1 ACCTATTAAATGTCGACTCT-TGAAAATAACGGTAAGAATCAAAATCAACTGATCTAAGTTCT-G
* * * **
760970 GGATCGAA-AACACGTGTTGCATACTTATTCATTCTCCTATGTTTCGACATCCCTAGAAGACACA
64 GGATCGAAGAA-ACGTGTTACATACTTATTCAGTCTCCTATGTTTCAACATCCCT---ACTCACA
761034 TG
125 TG
** * * * * * * * *
761036 TTATGTACTAATTTTGTCTCCTAAGTCCTACTGCAAATAAC----ACAATCAAAACCAAACTTAT
1 --ACCTATTAA--ATG--T-C-GACT-CT--TGAAAATAACGGTAAGAATCAAAATC-AACTGAT
* * * *** ** * * *
761097 CCAAGTTCAGGGATCGAAGACACACCTTATGTACTTATTCAGTCTCCTGTGTTCCAGCATCCCTA
54 CTAAGTTCTGGGATCGAAGAAACGTGTTACATACTTATTCAGTCTCCTATGTTTCAACATCCCTA
*
761162 CTCACATA
119 CTCACATG
* * * ** * *
761170 ACC-ACTAAATGTCGGCTCTT-AAAAGTATCAATAAGAATCAAAATCAACTGACCTAAGTTCCGG
1 ACCTATTAAATGTCGACTCTTGAAAA-TAACGGTAAGAATCAAAATCAACTGATCTAAGTTCTGG
* * ** * *
761233 GATCGAAGACACAT-TGTATGTACTTATTCAGTCTCCTATGTTTCAACATCCCTAGTCACATA
65 GATCGAAGAAACGTGT-TACATACTTATTCAGTCTCCTATGTTTCAACATCCCTACTCACATG
* * *
761295 ATCC-ATTAAATGTC-ATCCCTT-AAAAGTAACGGTAAGAATCAAAATCAACTTATCTAAGTTCC
1 A-CCTATTAAATGTCGA-CTCTTGAAAA-TAACGGTAAGAATCAAAATCAACTGATCTAAGTTCT
*
761357 CGGATCGAA
63 GGGATCGAA
761366 TACATATGCT
Statistics
Matches: 360, Mismatches: 71, Indels: 56
0.74 0.15 0.11
Matches are distributed among these distances:
121 3 0.01
122 4 0.01
124 3 0.01
125 74 0.21
126 169 0.47
127 2 0.01
129 9 0.03
131 11 0.03
132 1 0.00
133 2 0.01
134 6 0.02
135 1 0.00
136 11 0.03
137 55 0.15
138 3 0.01
139 1 0.00
140 5 0.01
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (126 bp):
ACCTATTAAATGTCGACTCTTGAAAATAACGGTAAGAATCAAAATCAACTGATCTAAGTTCTGGG
ATCGAAGAAACGTGTTACATACTTATTCAGTCTCCTATGTTTCAACATCCCTACTCACATG
Found at i:765632 original size:26 final size:26
Alignment explanation
Indices: 765585--765638 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
765575 AATATTTGAA
* * *
765585 TTTAGTTTTAGAAAACATTTTTTATT
1 TTTAGTTTTAAAAAACAGTTTTCATT
* *
765611 TTTATTTTTAAAAAATAGTTTTCATT
1 TTTAGTTTTAAAAAACAGTTTTCATT
765637 TT
1 TT
765639 CAATTTTTGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (26 bp):
TTTAGTTTTAAAAAACAGTTTTCATT
Found at i:766197 original size:21 final size:21
Alignment explanation
Indices: 766173--766221 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
766163 CAAACTTACA
766173 TGACAG-TCTACAATACTGATT
1 TGACAGTTC-ACAATACTGATT
* *
766194 TGACAGTTCACGATACTGTTT
1 TGACAGTTCACAATACTGATT
766215 TGACAGT
1 TGACAGT
766222 ACTCAATGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (21 bp):
TGACAGTTCACAATACTGATT
Found at i:769560 original size:46 final size:46
Alignment explanation
Indices: 769502--769589 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 46
769492 TAATCAATGA
* * *
769502 TGAACTGAGAGTATGTACGAGGCAAATGTTCAGTGATACTGACACG
1 TGAACTGAGAGTATGTACGAAGCAAATGCTAAGTGATACTGACACG
* * *
769548 TGAACTCG-GAGTATTTATGAAGCGAATGCTAAGTGATACTGA
1 TGAACT-GAGAGTATGTACGAAGCAAATGCTAAGTGATACTGA
769590 TACCGACACA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
46 34 0.97
47 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (46 bp):
TGAACTGAGAGTATGTACGAAGCAAATGCTAAGTGATACTGACACG
Found at i:769958 original size:32 final size:31
Alignment explanation
Indices: 769908--769967 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
769898 ATAAAATTGA
*
769908 CATCAATTGGATCATAAAACATTCATACATTT
1 CATCAATTAGATCATAAAAC-TTCATACATTT
* *
769940 CATCGATTAGATCATAAAACTTCGTACA
1 CATCAATTAGATCATAAAACTTCATACA
769968 ATTTAGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (31 bp):
CATCAATTAGATCATAAAACTTCATACATTT
Found at i:775324 original size:57 final size:58
Alignment explanation
Indices: 775244--775462 Score: 185
Period size: 58 Copynumber: 3.8 Consensus size: 58
775234 TAAGAATATC
* * * * * *
775244 ACTTTCGGTTCACTAACCTAAAATCAAGTC-A-GGCTATGCTCGAAATCCAAACGGTGA
1 ACTTTCGGTTGACTACCCTAAAATCGAGTCTATGGCGA-GCTCGAAAACCAAACAGTGA
* ** *
775301 ACTTTGGGTTGACTACCCTAAAATCGAGTCTATTTCGAGCTCGAAAACCGAACAGTGA
1 ACTTTCGGTTGACTACCCTAAAATCGAGTCTATGGCGAGCTCGAAAACCAAACAGTGA
* * * * * * * * * *
775359 CCTTTTGTTTGACTACCCTAAAATCGAGTCTATGTCAAGCTC-CAAGCTCGAACGGTAA
1 ACTTTCGGTTGACTACCCTAAAATCGAGTCTATGGCGAGCTCGAAAAC-CAAACAGTGA
* *
775417 AC-TTCTGGTTGACTACCCTAAAATTGAGTCTATGTCGAGCTCGAAA
1 ACTTTC-GGTTGACTACCCTAAAATCGAGTCTATGGCGAGCTCGAAA
775463 CTCAAAAGGA
Statistics
Matches: 132, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
57 31 0.23
58 97 0.73
59 4 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (58 bp):
ACTTTCGGTTGACTACCCTAAAATCGAGTCTATGGCGAGCTCGAAAACCAAACAGTGA
Found at i:775371 original size:58 final size:58
Alignment explanation
Indices: 775281--775462 Score: 231
Period size: 58 Copynumber: 3.1 Consensus size: 58
775271 GTCAGGCTAT
* * * *
775281 GCTCGAAATCCAAACGGTGAACTTTGGGTTGACTACCCTAAAATCGAGTCTATTTCGA
1 GCTCGAAAACCGAACGGTGAACTTTTGGTTGACTACCCTAAAATCGAGTCTATGTCGA
* * * *
775339 GCTCGAAAACCGAACAGTGACCTTTTGTTTGACTACCCTAAAATCGAGTCTATGTCAA
1 GCTCGAAAACCGAACGGTGAACTTTTGGTTGACTACCCTAAAATCGAGTCTATGTCGA
* * * * *
775397 GCTC-CAAGCTCGAACGGTAAACTTCTGGTTGACTACCCTAAAATTGAGTCTATGTCGA
1 GCTCGAAAAC-CGAACGGTGAACTTTTGGTTGACTACCCTAAAATCGAGTCTATGTCGA
775455 GCTCGAAA
1 GCTCGAAA
775463 CTCAAAAGGA
Statistics
Matches: 104, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
57 3 0.03
58 99 0.95
59 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (58 bp):
GCTCGAAAACCGAACGGTGAACTTTTGGTTGACTACCCTAAAATCGAGTCTATGTCGA
Found at i:779479 original size:24 final size:24
Alignment explanation
Indices: 779447--779499 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
779437 TAAGGACCAC
*
779447 CGCCGGTAGGGTTCCGGTGAGAGT
1 CGCCGGTAGGGTTCCGGTAAGAGT
*
779471 CGCCGGTAGGGTTCCGTTAAGAGT
1 CGCCGGTAGGGTTCCGGTAAGAGT
779495 CGCCG
1 CGCCG
779500 CCGGAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.13, C:0.25, G:0.42, T:0.21
Consensus pattern (24 bp):
CGCCGGTAGGGTTCCGGTAAGAGT
Found at i:780468 original size:31 final size:31
Alignment explanation
Indices: 780433--780496 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
780423 ACCGAGACAT
* *
780433 CTAAAGTGATAACATTCGTAATTTTAGGCAC
1 CTAAAGTGATAACATTCATAATGTTAGGCAC
*
780464 CTAAAGTGATAACATTTATAATGTTAGGCAC
1 CTAAAGTGATAACATTCATAATGTTAGGCAC
780495 CT
1 CT
780497 GGATGAGTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (31 bp):
CTAAAGTGATAACATTCATAATGTTAGGCAC
Found at i:780662 original size:2 final size:2
Alignment explanation
Indices: 780655--780698 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
780645 ATAAGATCAA
780655 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
780697 AT
1 AT
780699 TAAAATAGCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:781105 original size:2 final size:2
Alignment explanation
Indices: 781098--781139 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
781088 AACTAGAATC
781098 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
781140 CTGATTTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:782945 original size:43 final size:43
Alignment explanation
Indices: 782872--783037 Score: 181
Period size: 43 Copynumber: 3.9 Consensus size: 43
782862 ACACCACACA
* *
782872 CCACAAAAGGTCAAGCTCTATAGCGACATTTTTCTTACAAACG
1 CCACGAAAGATCAAGCTCTATAGCGACATTTTTCTTACAAACG
* * *
782915 CCACGCAATATCAAGCTCTATAGCGGCATTTTTCTTACAAACG
1 CCACGAAAGATCAAGCTCTATAGCGACATTTTTCTTACAAACG
* * *
782958 CCACGAAAGATCAAGCTCTATCA-CAACGTTTTTCTTACAAATG
1 CCACGAAAGATCAAGCTCTAT-AGCGACATTTTTCTTACAAACG
* * * * * **
783001 TCATGAAAGGTCAGGCTCTATAGTGGTATTTTTCTTA
1 CCACGAAAGATCAAGCTCTATAGCGACATTTTTCTTA
783038 TAAAAGCCGC
Statistics
Matches: 101, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 1 0.01
43 99 0.98
44 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (43 bp):
CCACGAAAGATCAAGCTCTATAGCGACATTTTTCTTACAAACG
Found at i:785483 original size:42 final size:42
Alignment explanation
Indices: 785391--785483 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 42
785381 GCGGCGTTTG
* * * *
785391 TTTTAAAAACGCCACTAAATAACTTATAAATTGCGCCATTTA
1 TTTTAAAAACACCACTAAATAACTGACAAATTACGCCATTTA
** * *
785433 TTGAAAAAATACCACTAAATTACTGACAAATTACTG-CATTTA
1 TTTTAAAAACACCACTAAATAACTGACAAATTAC-GCCATTTA
785475 TTTTAAAAA
1 TTTTAAAAA
785484 GGCTGCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
42 39 0.98
43 1 0.03
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.33
Consensus pattern (42 bp):
TTTTAAAAACACCACTAAATAACTGACAAATTACGCCATTTA
Found at i:787852 original size:2 final size:2
Alignment explanation
Indices: 787845--787873 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
787835 TAAAGATTGA
787845 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
787874 AACATGTTGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:788693 original size:30 final size:31
Alignment explanation
Indices: 788659--788721 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
788649 TGTTAAAAAC
* *
788659 TTAACGCA-TTTAGTACTTAAACTATCAGTT
1 TTAACGCATTTTAGTACCTAAACTATCAATT
* *
788689 TTAACTCATTTTAGTACCTAAACTTTCAATT
1 TTAACGCATTTTAGTACCTAAACTATCAATT
788720 TT
1 TT
788722 TTGAAAACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.44
Consensus pattern (31 bp):
TTAACGCATTTTAGTACCTAAACTATCAATT
Found at i:788780 original size:38 final size:39
Alignment explanation
Indices: 788738--788816 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
788728 ACTTAACGTT
788738 AAATTTTGAACGGATGT-ACTAAAATGAAATAAAAACTA
1 AAATTTTGAACGGATGTAACTAAAATGAAATAAAAACTA
* *
788776 AAATTTTTAACGGTTGTAACTAAAATGAAATAAAAACTA
1 AAATTTTGAACGGATGTAACTAAAATGAAATAAAAACTA
788815 AA
1 AA
788817 CTTTAGGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 15 0.39
39 23 0.61
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (39 bp):
AAATTTTGAACGGATGTAACTAAAATGAAATAAAAACTA
Found at i:798767 original size:16 final size:16
Alignment explanation
Indices: 798746--798776 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
798736 AAAATTTCAC
798746 GTGTGTGTATATATAT
1 GTGTGTGTATATATAT
798762 GTGTGTGTATATATA
1 GTGTGTGTATATATA
798777 CTGTTTAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (16 bp):
GTGTGTGTATATATAT
Found at i:800636 original size:29 final size:28
Alignment explanation
Indices: 800597--800665 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
800587 TGGAAATTTA
800597 AATTTTGTTAAATTAAATATTGATATCCTT
1 AATTTT-TTAAATTAAATATTGA-ATCCTT
* * * **
800627 AATTTTTTAATTTAAGTATTTAATTTTT
1 AATTTTTTAAATTAAATATTGAATCCTT
800655 AATTTTTTAAA
1 AATTTTTTAAA
800666 ATAATTTAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 14 0.42
29 13 0.39
30 6 0.18
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (28 bp):
AATTTTTTAAATTAAATATTGAATCCTT
Found at i:801270 original size:2 final size:2
Alignment explanation
Indices: 801263--801317 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
801253 CACATTCATG
801263 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
801305 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
801318 AAGTTATACG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:801760 original size:8 final size:8
Alignment explanation
Indices: 801750--801858 Score: 191
Period size: 8 Copynumber: 13.6 Consensus size: 8
801740 TTATTGTGTT
*
801750 ATGTATGT
1 ATGTATGC
*
801758 ATGTATGT
1 ATGTATGC
801766 ATGTATGC
1 ATGTATGC
801774 ATGTATGC
1 ATGTATGC
801782 ATGTATGC
1 ATGTATGC
801790 ATGTATGC
1 ATGTATGC
801798 ATGTATGC
1 ATGTATGC
801806 ATGTATGC
1 ATGTATGC
801814 ATGTATGC
1 ATGTATGC
801822 ATGTATGC
1 ATGTATGC
801830 ATGTATGC
1 ATGTATGC
801838 ATGTATGC
1 ATGTATGC
*
801846 ATGTATAC
1 ATGTATGC
801854 ATGTA
1 ATGTA
801859 CATGCATACA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
8 99 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (8 bp):
ATGTATGC
Found at i:801868 original size:8 final size:8
Alignment explanation
Indices: 801845--801896 Score: 81
Period size: 8 Copynumber: 6.8 Consensus size: 8
801835 TGCATGTATG
*
801845 CATGTATA
1 CATGCATA
801853 CATG--TA
1 CATGCATA
801859 CATGCATA
1 CATGCATA
801867 CATGCATA
1 CATGCATA
801875 CATGCATA
1 CATGCATA
801883 CATGCATA
1 CATGCATA
801891 CATGCA
1 CATGCA
801897 AAATCTTAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.14
8 36 0.86
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (8 bp):
CATGCATA
Found at i:802557 original size:24 final size:24
Alignment explanation
Indices: 802529--802576 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
802519 TGTATGTATA
802529 TATGTATGAACAAATGAATATATG
1 TATGTATGAACAAATGAATATATG
* **
802553 TATGTATGTATGAATGAATATATG
1 TATGTATGAACAAATGAATATATG
802577 CATTGGTCGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.38
Consensus pattern (24 bp):
TATGTATGAACAAATGAATATATG
Found at i:802565 original size:20 final size:20
Alignment explanation
Indices: 802519--802567 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
802509 TAGGTACCTT
*
802519 TGTATGTATATATGTATGAA
1 TGTATGAATATATGTATGAA
*** *
802539 CAAATGAATATATGTATGTA
1 TGTATGAATATATGTATGAA
802559 TGTATGAAT
1 TGTATGAAT
802568 GAATATATGC
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (20 bp):
TGTATGAATATATGTATGAA
Found at i:804703 original size:13 final size:13
Alignment explanation
Indices: 804685--804709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
804675 TTTTTTAATT
804685 TTATATTATTATA
1 TTATATTATTATA
804698 TTATATTATTAT
1 TTATATTATTAT
804710 TTACTTTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATATTATTATA
Found at i:807613 original size:37 final size:37
Alignment explanation
Indices: 807523--807627 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
807513 CATTTTCGTC
*
807523 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
807560 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
807597 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
807628 CCACAAGCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:808051 original size:27 final size:24
Alignment explanation
Indices: 808021--808077 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
808011 AATTTAACCC
808021 TTATTATTTATATGTATATATATTTAA
1 TTATTATTT-TAT-T-TATATATTTAA
* *
808048 TTA-TATTTTATTTATTTATTTAT
1 TTATTATTTTATTTATATATTTAA
808071 TTATTAT
1 TTATTAT
808078 AATTTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 12 0.44
24 4 0.15
25 3 0.11
26 5 0.19
27 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTATTATTTTATTTATATATTTAA
Found at i:808061 original size:15 final size:14
Alignment explanation
Indices: 808041--808083 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 14
808031 TATGTATATA
808041 TATTTAATTATATTT
1 TATTT-ATTATATTT
808056 TATTTATT-TA-TT
1 TATTTATTATATTT
808068 TATTTATTATAATTT
1 TATTTATTAT-ATTT
808083 T
1 T
808084 TTTCATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 4 0.16
15 8 0.32
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTATTATATTT
Found at i:808131 original size:21 final size:21
Alignment explanation
Indices: 808104--808149 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
808094 CTTTGCGTTA
*
808104 TATTATAT-TAT-TATCCTAT
1 TATTATATATATATATCATAT
*
808123 TATTATATATATATATTATAT
1 TATTATATATATATATCATAT
808144 TATTAT
1 TATTAT
808150 TTTTTATCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 8 0.35
20 3 0.13
21 12 0.52
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTATATATATATATCATAT
Found at i:808150 original size:11 final size:11
Alignment explanation
Indices: 808104--808150 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
808094 CTTTGCGTTA
808104 TATTATATTAT
1 TATTATATTAT
**
808115 TATCCTATTAT
1 TATTATATTAT
808126 TA-TATA-TAT
1 TATTATATTAT
808135 ATATTATATTAT
1 -TATTATATTAT
808147 TATT
1 TATT
808151 TTTTATCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
9 3 0.10
10 4 0.14
11 19 0.66
12 3 0.10
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTATATTAT
Found at i:808172 original size:21 final size:20
Alignment explanation
Indices: 808146--808194 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
808136 TATTATATTA
808146 TTATTTTTTATCTATGTTTAC
1 TTATTTTTTATCT-TGTTTAC
* * *
808167 TTATTTATTATGTTTTTTAC
1 TTATTTTTTATCTTGTTTAC
808187 TATATTTT
1 T-TATTTT
808195 CCTAACGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.69
Consensus pattern (20 bp):
TTATTTTTTATCTTGTTTAC
Found at i:809990 original size:42 final size:42
Alignment explanation
Indices: 809943--810027 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
809933 TACCTTATGA
809943 AGGCTATGAATTTAAATGGGCTTTCATATTAAGAGTTTTCGG
1 AGGCTATGAATTTAAATGGGCTTTCATATTAAGAGTTTTCGG
809985 AGGCTATGAATTTAAATGGGCTTTCATATTAAGAGTTTTCGG
1 AGGCTATGAATTTAAATGGGCTTTCATATTAAGAGTTTTCGG
810027 A
1 A
810028 AGGTATATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (42 bp):
AGGCTATGAATTTAAATGGGCTTTCATATTAAGAGTTTTCGG
Found at i:822007 original size:150 final size:147
Alignment explanation
Indices: 821739--822012 Score: 363
Period size: 150 Copynumber: 1.8 Consensus size: 147
821729 ACAAGGTGTC
* *
821739 GGATGTTGGTTGGGATGCTTCTGCATGGAACAAAAATGATGAGAATGGTGACAAATTTGCAGGAG
1 GGATGTTGGTTGGGATGCTTCTGCATGGAACAAAAATGATGAGAATAGTGACAAATTTGCAGCAG
* * **
821804 CTGCGACTAGTCCAAAGAAGCAAAATGAATGGTCTGGTTGGGGTGCGAGCAAATCTAAATCACAA
66 CTGCGACCAGTCCAAAGAAGCAAAATGAATGGTCTGATTGGGGAACGAGCAAATCTAAATCACAA
821869 GATGTCTCTCCAAAAGT
131 GATGTCTCTCCAAAAGT
* * * *
821886 GGATGTTGGTTGGGATGCTTCGTCTGCATGGAATAAAAATGCA-GAGGATAGTGACAATTTTGCT
1 GGATGTTGGTTGGGATGC-T--TCTGCATGGAACAAAAATG-ATGAGAATAGTGACAAATTTGCA
* * * *
821950 GCTGCTGC-ATCCAGTTCGAAGAAGCAAAATGAATGGTCTGATTGGGGAACGGGCAAATCTAAA
62 GCAGCTGCGA-CCAGTCCAAAGAAGCAAAATGAATGGTCTGATTGGGGAACGAGCAAATCTAAA
822013 GAGCAAACTG
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
147 18 0.17
148 1 0.01
149 1 0.01
150 87 0.81
151 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (147 bp):
GGATGTTGGTTGGGATGCTTCTGCATGGAACAAAAATGATGAGAATAGTGACAAATTTGCAGCAG
CTGCGACCAGTCCAAAGAAGCAAAATGAATGGTCTGATTGGGGAACGAGCAAATCTAAATCACAA
GATGTCTCTCCAAAAGT
Found at i:822581 original size:36 final size:36
Alignment explanation
Indices: 822528--822844 Score: 314
Period size: 36 Copynumber: 8.8 Consensus size: 36
822518 GCTGGAGTAA
** * *
822528 GAATAGTTCTTCAGACCAAGAAAAGTCACATACAAT
1 GAATAGTTCTTGGGACCAACAAAAGTCACCTACAAT
* * *
822564 GAATAGTTCCTGGGACCATCAAAAGTCACCTGCAACT
1 GAATAGTTCTTGGGACCAACAAAAGTCACCTACAA-T
* * * * *
822601 -AATAGTTCTTGGGACCAACAGAAGTCATCTGCGAC
1 GAATAGTTCTTGGGACCAACAAAAGTCACCTACAAT
*
822636 GAATAGTTCTTGGGACCAACAAAAATCACCTACAGAT
1 GAATAGTTCTTGGGACCAACAAAAGTCACCTACA-AT
* * *** *
822673 -ATTAGTTCTTGGGACCAACAGAAGTCACCTGTGAC
1 GAATAGTTCTTGGGACCAACAAAAGTCACCTACAAT
* * * * *
822708 AAATAGTTCTTGGAACCAGCAAAAGTCACCTGCAGT
1 GAATAGTTCTTGGGACCAACAAAAGTCACCTACAAT
* *
822744 GAATAGTTCATGGGACCAACAAAAGTCACCTACAGT
1 GAATAGTTCTTGGGACCAACAAAAGTCACCTACAAT
* * *
822780 GAAGAGTTCATGGGACCAACAAAAGTCACCTACAGT
1 GAATAGTTCTTGGGACCAACAAAAGTCACCTACAAT
* * *
822816 GAAGAGTTCATGGGATCAACAAAAGTCAC
1 GAATAGTTCTTGGGACCAACAAAAGTCAC
822845 AAGAAAGTTC
Statistics
Matches: 236, Mismatches: 41, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
35 1 0.00
36 233 0.99
37 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (36 bp):
GAATAGTTCTTGGGACCAACAAAAGTCACCTACAAT
Found at i:822686 original size:108 final size:109
Alignment explanation
Indices: 822528--822810 Score: 349
Period size: 108 Copynumber: 2.6 Consensus size: 109
822518 GCTGGAGTAA
** * * * *
822528 GAATAGTTCTTCAGACCAAGAAAAGTCACATACA-ATGAATAGTTCCTGGGACCATCAAAAGTCA
1 GAATAGTTCTTGGGACCAACAAAAGTCACCTACAGATGAATAGTTCATGGGACCAACAAAAGTCA
* * * *
822592 CCTGCAACTAATAGTTCTTGGGACCAACAGAAGTCATCTGC-GAC
66 CCTGCAACAAATAGTTCTTGGAACCAACAAAAGTCACCTGCAG-C
* * * *
822636 GAATAGTTCTTGGGACCAACAAAAATCACCTACAGAT-ATTAGTTCTTGGGACCAACAGAAGTCA
1 GAATAGTTCTTGGGACCAACAAAAGTCACCTACAGATGAATAGTTCATGGGACCAACAAAAGTCA
** * *
822700 CCTGTGACAAATAGTTCTTGGAACCAGCAAAAGTCACCTGCAGT
66 CCTGCAACAAATAGTTCTTGGAACCAACAAAAGTCACCTGCAGC
* *
822744 GAATAGTTCATGGGACCAACAAAAGTCACCTACAG-TGAAGAGTTCATGGGACCAACAAAAGTCA
1 GAATAGTTCTTGGGACCAACAAAAGTCACCTACAGATGAATAGTTCATGGGACCAACAAAAGTCA
822808 CCT
66 CCT
822811 ACAGTGAAGA
Statistics
Matches: 149, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
107 1 0.01
108 145 0.97
109 3 0.02
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (109 bp):
GAATAGTTCTTGGGACCAACAAAAGTCACCTACAGATGAATAGTTCATGGGACCAACAAAAGTCA
CCTGCAACAAATAGTTCTTGGAACCAACAAAAGTCACCTGCAGC
Found at i:824611 original size:57 final size:56
Alignment explanation
Indices: 824520--824686 Score: 226
Period size: 57 Copynumber: 2.9 Consensus size: 56
824510 CGTTTTGGAG
* *
824520 GGAACCGTGAGCGAAGCGTTGCTCCTGAGAATTCTCAAGGGAATCGTGAGCAACACT
1 GGAACCGTGAGC-AAGCGTTGCTCCGGAGAATTCTCAAGGGAACCGTGAGCAACACT
* * *
824577 GGAACCGTGAGCAAGGTGTTGGTCCGGATAATTCTCAAGGGAACCGTGAGCAACACT
1 GGAACCGTGAGCAA-GCGTTGCTCCGGAGAATTCTCAAGGGAACCGTGAGCAACACT
* * * *
824634 TGAACGGTGAGCAAAGCGTTGCTACGGAGGATTCTCAAGGGAACCGTGAGCAA
1 GGAACCGTGAGC-AAGCGTTGCTCCGGAGAATTCTCAAGGGAACCGTGAGCAA
824687 AGCGCCGCTC
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
56 2 0.02
57 92 0.96
58 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.32, T:0.19
Consensus pattern (56 bp):
GGAACCGTGAGCAAGCGTTGCTCCGGAGAATTCTCAAGGGAACCGTGAGCAACACT
Found at i:825812 original size:31 final size:31
Alignment explanation
Indices: 825736--825804 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
825726 CTTTTAAAAC
* *
825736 TTGCAATACAATCCCCCAACATTTAGTCCGT
1 TTGCAATTCAGTCCCCCAACATTTAGTCCGT
*
825767 TTTCAATTCAGTCCCCCAACATTTAGTCCGT
1 TTGCAATTCAGTCCCCCAACATTTAGTCCGT
825798 TTGCAAT
1 TTGCAAT
825805 ATGGTCCCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.33
Consensus pattern (31 bp):
TTGCAATTCAGTCCCCCAACATTTAGTCCGT
Found at i:829156 original size:59 final size:60
Alignment explanation
Indices: 829026--829169 Score: 166
Period size: 59 Copynumber: 2.4 Consensus size: 60
829016 CACAATGAGT
* * * * *
829026 AGTCGAGTGACAATTTTGGAACTTTTAATAATCGAGGGGCTCAATAAAGCAACACTCTAT
1 AGTCGAGAGACCATTTTGTAACTTTTAATAATCGAGGGACTCAATAAAGCAACACTCTAG
* * * * **
829086 AGTCGAAAGACCATTTTGTAACTTTTAATAGT-TAGGGACTTAATAAAGCAGTACTCTAG
1 AGTCGAGAGACCATTTTGTAACTTTTAATAATCGAGGGACTCAATAAAGCAACACTCTAG
829145 AGTCGAGAGACCATTTGTGT-ACTTT
1 AGTCGAGAGACCATTT-TGTAACTTT
829170 ACCCTTTAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
59 41 0.58
60 30 0.42
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (60 bp):
AGTCGAGAGACCATTTTGTAACTTTTAATAATCGAGGGACTCAATAAAGCAACACTCTAG
Found at i:844005 original size:6 final size:6
Alignment explanation
Indices: 843994--844020 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
843984 AACATTATTA
843994 ATGCAC ATGCAC ATGCAC ATGCAC ATG
1 ATGCAC ATGCAC ATGCAC ATGCAC ATG
844021 ATCAAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.19
Consensus pattern (6 bp):
ATGCAC
Found at i:852877 original size:42 final size:42
Alignment explanation
Indices: 852818--852903 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
852808 TCTTTCATAG
852818 GGCCACTGCTGCGAAAGTTAAGGAAGCTCAAATCCAGGCTCA
1 GGCCACTGCTGCGAAAGTTAAGGAAGCTCAAATCCAGGCTCA
*
852860 GGCCACTGCTGCGAAAGTTAAGGAAGCTCAAATGCAGGCTCA
1 GGCCACTGCTGCGAAAGTTAAGGAAGCTCAAATCCAGGCTCA
852902 GG
1 GG
852904 TGGCAAATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.30, C:0.24, G:0.29, T:0.16
Consensus pattern (42 bp):
GGCCACTGCTGCGAAAGTTAAGGAAGCTCAAATCCAGGCTCA
Found at i:853541 original size:18 final size:18
Alignment explanation
Indices: 853518--853553 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
853508 ACTGTGACAT
853518 ATTCTAATATTATTTAGG
1 ATTCTAATATTATTTAGG
853536 ATTCTAATATTATTTAGG
1 ATTCTAATATTATTTAGG
853554 GTAAATTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (18 bp):
ATTCTAATATTATTTAGG
Found at i:855931 original size:20 final size:19
Alignment explanation
Indices: 855895--855943 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
855885 TAATATGCTG
*
855895 GAATTTAATGTTAGAATGTT
1 GAATTTGATGTTAGAATG-T
855915 GAATTTGATG-TATGAATGT
1 GAATTTGATGTTA-GAATGT
855934 GAAATTTGAT
1 G-AATTTGAT
855944 TATTTTGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (19 bp):
GAATTTGATGTTAGAATGT
Found at i:857615 original size:19 final size:19
Alignment explanation
Indices: 857587--857694 Score: 119
Period size: 19 Copynumber: 5.7 Consensus size: 19
857577 TTTGCATTGG
857587 GCTATGAATATGAAATTAA
1 GCTATGAATATGAAATTAA
*
857606 GCTATAAATATGAAATTAA
1 GCTATGAATATGAAATTAA
857625 GCTATGAATATGAAATTAA
1 GCTATGAATATGAAATTAA
* * *
857644 GTTATGAATTTGAAAATAA
1 GCTATGAATATGAAATTAA
* * * *
857663 GTTTTGAATCTGGAAA-TAG
1 GCTATGAATAT-GAAATTAA
*
857682 GTTATGAATATGA
1 GCTATGAATATGA
857695 GAATGAATTC
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
18 2 0.03
19 72 0.92
20 4 0.05
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.34
Consensus pattern (19 bp):
GCTATGAATATGAAATTAA
Found at i:857671 original size:38 final size:38
Alignment explanation
Indices: 857589--857737 Score: 131
Period size: 38 Copynumber: 3.8 Consensus size: 38
857579 TGCATTGGGC
* * * *
857589 TATGAATATGAAATTAAGCTATAAATATGAAATTAAGC
1 TATGAATATGAAATTAAGTTATGAATATGAAAATAAGT
*
857627 TATGAATATGAAATTAAGTTATGAATTTGAAAATAAGT
1 TATGAATATGAAATTAAGTTATGAATATGAAAATAAGT
* * * *
857665 TTTGAATCTGGAAA-TAGGTTATGAATATGAGAATGAA-T
1 TATGAATAT-GAAATTAAGTTATGAATATGAAAAT-AAGT
* * *
857703 TCTGAAATATGAAAGTAATGGTTATGAAAATGAAA
1 TATG-AATATGAAATTAA--GTTATGAATATGAAA
857738 TGTGAAAATG
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
38 65 0.72
39 12 0.13
41 13 0.14
ACGTcount: A:0.46, C:0.03, G:0.18, T:0.33
Consensus pattern (38 bp):
TATGAATATGAAATTAAGTTATGAATATGAAAATAAGT
Found at i:857754 original size:19 final size:20
Alignment explanation
Indices: 857726--857783 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
857716 AGTAATGGTT
857726 ATGAAAATGAAATGTGAAA-
1 ATGAAAATGAAATGTGAAAG
*
857745 ATGAATATGAAA-GT-AAGAG
1 ATGAAAATGAAATGTGAA-AG
* *
857764 ATGAACATGAAATATGAAAG
1 ATGAAAATGAAATGTGAAAG
857784 TTCTTAAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.06
18 3 0.09
19 22 0.69
20 3 0.09
21 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.22, T:0.21
Consensus pattern (20 bp):
ATGAAAATGAAATGTGAAAG
Found at i:857780 original size:13 final size:13
Alignment explanation
Indices: 857725--857782 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
857715 AAGTAATGGT
857725 TATGAAAATGAAA
1 TATGAAAATGAAA
*
857738 TGTGAAAATG-AA
1 TATGAAAATGAAA
*
857750 TATGAAAGT-AAGA
1 TATGAAAATGAA-A
* *
857763 GATGAACATGAAA
1 TATGAAAATGAAA
857776 TATGAAA
1 TATGAAA
857783 GTTCTTAAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
12 10 0.29
13 22 0.65
14 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.21, T:0.22
Consensus pattern (13 bp):
TATGAAAATGAAA
Found at i:857834 original size:18 final size:19
Alignment explanation
Indices: 857813--857849 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
857803 GAAAAAGGAA
857813 TATGATA-TGATTATTATG
1 TATGATATTGATTATTATG
*
857831 TATGATATTGTTTATTATG
1 TATGATATTGATTATTATG
857850 GTTTTGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (19 bp):
TATGATATTGATTATTATG
Found at i:858818 original size:22 final size:23
Alignment explanation
Indices: 858786--858829 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
858776 ATGGATGCAT
858786 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
858809 TGCA-GGTGCATGGATGCACTA
1 TGCATGGTGCATCGATGCACTA
858830 CAGGGGTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:864504 original size:15 final size:15
Alignment explanation
Indices: 864486--864520 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
864476 GTCTTCATCT
*
864486 TCTTCGTCCTCGTCA
1 TCTTCCTCCTCGTCA
*
864501 TCTTCCTCGTCGTCA
1 TCTTCCTCCTCGTCA
864516 TCTTC
1 TCTTC
864521 AACAACAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.40, G:0.11, T:0.43
Consensus pattern (15 bp):
TCTTCCTCCTCGTCA
Found at i:866690 original size:28 final size:28
Alignment explanation
Indices: 866650--866724 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 28
866640 TGTTTACTTA
*
866650 GGGTAACTTACGGTTTTTTTCTGTCTTT
1 GGGTAGCTTACGGTTTTTTTCTGTCTTT
* *
866678 GGGTAGTTTACGGTTTTTCTCTGTCTTT
1 GGGTAGCTTACGGTTTTTTTCTGTCTTT
866706 GGGTAGCTTACGGTTTTTT
1 GGGTAGCTTACGGTTTTTT
866725 ACCATTGTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.09, C:0.13, G:0.25, T:0.52
Consensus pattern (28 bp):
GGGTAGCTTACGGTTTTTTTCTGTCTTT
Found at i:869496 original size:26 final size:27
Alignment explanation
Indices: 869460--869514 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
869450 TATTAATTAA
869460 ATATATATTTTCAATCTTATAATATTT
1 ATATATATTTTCAATCTTATAATATTT
*
869487 ATATAT-TTTTCAATTTTATAATATTT
1 ATATATATTTTCAATCTTATAATATTT
869513 AT
1 AT
869515 TCTATTGTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.58
Consensus pattern (27 bp):
ATATATATTTTCAATCTTATAATATTT
Found at i:871285 original size:43 final size:43
Alignment explanation
Indices: 871197--871290 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
871187 AATTAATTAA
* * **
871197 TAAAATATAATAAATTATTATTTATTATATTACTTTAACAATT
1 TAAAATATAATAAATGATTATTAAAAATATTACTTTAACAATT
* * *
871240 TAAAATATAATAAATGATTA-TAAAAATATTATTTTAATTATTT
1 TAAAATATAATAAATGATTATTAAAAATATTACTTTAA-CAATT
871283 TAAAATAT
1 TAAAATAT
871291 CAATTTACTC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 13 0.30
43 30 0.70
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (43 bp):
TAAAATATAATAAATGATTATTAAAAATATTACTTTAACAATT
Found at i:871811 original size:3 final size:3
Alignment explanation
Indices: 871805--871852 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
871795 GGTCGTAGAT
871805 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
871853 GGGTAATCTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:874225 original size:34 final size:30
Alignment explanation
Indices: 874187--874255 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
874177 TTGATATAAC
874187 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
874221 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
874250 AATTTA
1 AATTTA
874256 TTTAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:874268 original size:30 final size:30
Alignment explanation
Indices: 874196--874255 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
874186 CAATTTAAGG
874196 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
874227 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
874256 TTTAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:874387 original size:20 final size:21
Alignment explanation
Indices: 874346--874394 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
874336 TTCAAGACTG
874346 CCCAGGGGGTACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
874367 CCCAGGGGGTACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
874388 CCCAGGG
1 CCCAGGG
874395 TTTTTGGCTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.39, G:0.31, T:0.12
Consensus pattern (21 bp):
CCCAGGGGGTACAGATTCCCC
Found at i:874460 original size:19 final size:20
Alignment explanation
Indices: 874421--874461 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
874411 AACAGAATGT
874421 CCAGGGGGTACCGATTCCCC
1 CCAGGGGGTACCGATTCCCC
874441 CCAGGGGGTACCGATTCCCC
1 CCAGGGGGTACCGATTCCCC
874461 C
1 C
874462 TGTTCAACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.41, G:0.29, T:0.15
Consensus pattern (20 bp):
CCAGGGGGTACCGATTCCCC
Found at i:874523 original size:21 final size:21
Alignment explanation
Indices: 874497--874539 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
874487 ATTTGAATAT
*
874497 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
874518 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
874539 T
1 T
874540 CTATTCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:874600 original size:21 final size:21
Alignment explanation
Indices: 874567--874606 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
874557 TTTGAGTAGA
*
874567 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
874589 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
874607 ATATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:877061 original size:34 final size:30
Alignment explanation
Indices: 877023--877091 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
877013 TTGATATAAC
877023 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
877057 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
877086 AATTTA
1 AATTTA
877092 TTCAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:877104 original size:30 final size:30
Alignment explanation
Indices: 877032--877091 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
877022 CAATTTAAGG
877032 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
877063 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
877092 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:877207 original size:21 final size:21
Alignment explanation
Indices: 877182--877260 Score: 107
Period size: 21 Copynumber: 4.0 Consensus size: 21
877172 TTCAAGATTG
877182 CCCAGGGGGTACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
877203 CCCAGGGGGTACAGATT---C
1 CCCAGGGGGTACAGATTCCCC
*
877221 CCC---GGGAACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
877239 CCCAGGGGGTACAGATTCCCC
1 CCCAGGGGGTACAGATTCCCC
877260 C
1 C
877261 TGCAGGTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
15 10 0.20
18 8 0.16
21 32 0.64
ACGTcount: A:0.20, C:0.38, G:0.28, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGTACAGATTCCCC
Found at i:877323 original size:20 final size:20
Alignment explanation
Indices: 877295--877333 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
877285 CAGAATGTCC
* *
877295 AGGGGGTACCGATTCCCCCA
1 AGGGAGTACCGAGTCCCCCA
877315 AGGGAGTACCGAGTCCCCC
1 AGGGAGTACCGAGTCCCCC
877334 CTGTTCAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.31, T:0.13
Consensus pattern (20 bp):
AGGGAGTACCGAGTCCCCCA
Found at i:877408 original size:21 final size:21
Alignment explanation
Indices: 877369--877410 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
877359 TATTTGAATA
* **
877369 TTATGAAGGGGTATTGATTCC
1 TTATGAAGGAGTACCGATTCC
877390 TTATGAAGGAGTACCGATTCC
1 TTATGAAGGAGTACCGATTCC
877411 CTCTATTCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (21 bp):
TTATGAAGGAGTACCGATTCC
Found at i:877473 original size:21 final size:21
Alignment explanation
Indices: 877440--877479 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
877430 TTTGAGTAGA
*
877440 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
877462 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
877480 ATATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:877733 original size:34 final size:32
Alignment explanation
Indices: 877694--877763 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
877684 TTTTGTAAAG
* *
877694 GGGAAATGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
877728 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
877760 GGGA
1 GGGA
877764 GTTTGAAACG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:878773 original size:24 final size:24
Alignment explanation
Indices: 878746--878831 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 24
878736 TATATCAAAA
878746 ATCAAAACATAAAT-CAGGTCAAGT
1 ATCAAAACA-AAATCCAGGTCAAGT
* *
878770 ATCATATCAAAATCCAGGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* * * *
878794 ATCAGATCAGAATCCAAGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* *
878818 ATCAGATCAAAATC
1 ATCAAAACAAAATC
878832 TATGTCAGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
23 4 0.07
24 51 0.93
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.22
Consensus pattern (24 bp):
ATCAAAACAAAATCCAGGTCAAGT
Found at i:878838 original size:24 final size:24
Alignment explanation
Indices: 878763--878873 Score: 145
Period size: 24 Copynumber: 4.7 Consensus size: 24
878753 CATAAATCAG
* *
878763 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCAGATCAAAATCCAT
* *
878787 GTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAAAATCCAT
*
878811 GTCAAGTATCAGATCAAAATCTAT
1 GTCAAGTATCAGATCAAAATCCAT
*
878835 GTC-AGATATCAGAT-AGAATCCAT
1 GTCAAG-TATCAGATCAAAATCCAT
878858 GTCAAGTATCAGATCA
1 GTCAAGTATCAGATCA
878874 GAATTCAAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
23 20 0.26
24 56 0.74
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAAAATCCAT
Found at i:878869 original size:47 final size:48
Alignment explanation
Indices: 878763--878873 Score: 163
Period size: 48 Copynumber: 2.3 Consensus size: 48
878753 CATAAATCAG
*
878763 GTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAA
* * *
878811 GTCAAGTATCAGATCAAAATCTATGTC-AGATATCAGAT-AGAATCCAT
1 GTCAAGTATCAGATCAAAATCCAGGTCAAG-TATCAGATCAGAATCCAA
878858 GTCAAGTATCAGATCA
1 GTCAAGTATCAGATCA
878874 GAATTCAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
47 26 0.45
48 32 0.55
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (48 bp):
GTCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAA
Found at i:878893 original size:47 final size:47
Alignment explanation
Indices: 878763--878896 Score: 121
Period size: 47 Copynumber: 2.8 Consensus size: 47
878753 CATAAATCAG
* * ** *
878763 GTCAAGTATCATATCAAAATCCAGGTCA-AGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAAAATCTAAATCAGA-AATCAGAT-AGAATCCAA
** * *
878811 GTCAAGTATCAGATCAAAATCTATGTCAGATATCAGATAGAATCCAT
1 GTCAAGTATCAGATCAAAATCTAAATCAGAAATCAGATAGAATCCAA
*
878858 GTCAAGTATCAGATCAGAAT-TCAAATC-GAAAATCAGATA
1 GTCAAGTATCAGATCAAAATCT-AAATCAG-AAATCAGATA
878897 AAATATTCAT
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
46 2 0.03
47 39 0.52
48 33 0.44
49 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.25
Consensus pattern (47 bp):
GTCAAGTATCAGATCAAAATCTAAATCAGAAATCAGATAGAATCCAA
Found at i:881355 original size:13 final size:13
Alignment explanation
Indices: 881337--881374 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
881327 GTCAACGATC
881337 AACGGGTCGGGTA
1 AACGGGTCGGGTA
881350 AACGGGTCGGGTA
1 AACGGGTCGGGTA
*
881363 AACGGATCGGGT
1 AACGGGTCGGGT
881375 TATGACCGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.45, T:0.16
Consensus pattern (13 bp):
AACGGGTCGGGTA
Found at i:882767 original size:18 final size:18
Alignment explanation
Indices: 882744--882792 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
882734 ATGACTGAAG
882744 TAAATGATAAGATTAAAT
1 TAAATGATAAGATTAAAT
*
882762 TAAATGATAAGATTGAAT
1 TAAATGATAAGATTAAAT
*
882780 TAAATAATAAGAT
1 TAAATGATAAGAT
882793 CGGATGGAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (18 bp):
TAAATGATAAGATTAAAT
Found at i:883954 original size:12 final size:12
Alignment explanation
Indices: 883939--884008 Score: 79
Period size: 12 Copynumber: 5.8 Consensus size: 12
883929 GATACATGAC
883939 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
883951 CTGATTTCTGAT
1 CTGAATTCTGTT
*
883963 CTGGATTCTGTT
1 CTGAATTCTGTT
883975 CTG-ATATCTGTT
1 CTGAAT-TCTGTT
883987 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
883999 TTGATTTCTG
1 CTGAATTCTG
884009 ATATCTCCGT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
11 2 0.04
12 45 0.92
13 2 0.04
ACGTcount: A:0.14, C:0.16, G:0.19, T:0.51
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:883970 original size:24 final size:24
Alignment explanation
Indices: 883902--884010 Score: 114
Period size: 24 Copynumber: 4.5 Consensus size: 24
883892 AATTATTTTA
* *
883902 TCTGATTTCCGA-CTTGAATTCTAT
1 TCTGATTTCTGATC-TGAATTCTGT
* *
883926 TCTGA-TACATGACCTGAATTCTGT
1 TCTGATTTC-TGATCTGAATTCTGT
*
883950 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
* *
883974 TCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTCTGT
*
883998 TTTGATTTCTGAT
1 TCTGATTTCTGAT
884011 ATCTCCGTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
23 2 0.03
24 65 0.93
25 3 0.04
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTCTGT
Found at i:883977 original size:48 final size:49
Alignment explanation
Indices: 883902--884010 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 49
883892 AATTATTTTA
*
883902 TCTGATTTCCGA-CTTGAATTCTATTCTGATA-CATGACCTGAATTCTGT
1 TCTGATTTCTGATCTTGAATTCTATTCTGATATC-TGACCTGAATTCTGT
* * **
883950 TCTGATTTCTGATC-TGGATTCTGTTCTGATATCTGTTCTGAATTCTGT
1 TCTGATTTCTGATCTTGAATTCTATTCTGATATCTGACCTGAATTCTGT
*
883998 TTTGATTTCTGAT
1 TCTGATTTCTGAT
884011 ATCTCCGTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
48 51 0.96
49 2 0.04
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (49 bp):
TCTGATTTCTGATCTTGAATTCTATTCTGATATCTGACCTGAATTCTGT
Found at i:888098 original size:3 final size:3
Alignment explanation
Indices: 888090--888140 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
888080 TAGATTACCC
888090 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
888137 TTA T
1 TTA T
888141 ATCTCGTTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:888389 original size:32 final size:32
Alignment explanation
Indices: 888353--888465 Score: 115
Period size: 32 Copynumber: 3.6 Consensus size: 32
888343 AACCGAAAGT
*
888353 AACTCGAATCAAAAGCAAC-CTGAACTGAAAAC
1 AACTCGAATCAAAAGCAACAC-AAACTGAAAAC
** *
888385 AACTCGAATTGAAAGTAACACAAACTGAAAAC
1 AACTCGAATCAAAAGCAACACAAACTGAAAAC
** *
888417 AACTCGAATTGAAAGTAACACAAACTGAAAA-
1 AACTCGAATCAAAAGCAACACAAACTGAAAAC
* *
888448 AACCCGAATC-GAAGCAAC
1 AACTCGAATCAAAAGCAAC
888466 CCGAATTTAG
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
30 6 0.08
31 8 0.11
32 57 0.79
33 1 0.01
ACGTcount: A:0.51, C:0.22, G:0.13, T:0.13
Consensus pattern (32 bp):
AACTCGAATCAAAAGCAACACAAACTGAAAAC
Found at i:888397 original size:16 final size:16
Alignment explanation
Indices: 888378--888430 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
888368 CAACCTGAAC
888378 TGAAAACAACTCGAAT
1 TGAAAACAACTCGAAT
** * * *
888394 TGAAAGTAACACAAAC
1 TGAAAACAACTCGAAT
888410 TGAAAACAACTCGAAT
1 TGAAAACAACTCGAAT
888426 TGAAA
1 TGAAA
888431 GTAACACAAA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (16 bp):
TGAAAACAACTCGAAT
Found at i:888445 original size:16 final size:16
Alignment explanation
Indices: 888394--888446 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
888384 CAACTCGAAT
888394 TGAAAGTAACACAAAC
1 TGAAAGTAACACAAAC
** * * *
888410 TGAAAACAACTCGAAT
1 TGAAAGTAACACAAAC
888426 TGAAAGTAACACAAAC
1 TGAAAGTAACACAAAC
888442 TGAAA
1 TGAAA
888447 AAACCCGAAT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.55, C:0.17, G:0.13, T:0.15
Consensus pattern (16 bp):
TGAAAGTAACACAAAC
Found at i:888703 original size:2 final size:2
Alignment explanation
Indices: 888696--888743 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
888686 TCTTTCCTCA
888696 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
888738 AT AT AT
1 AT AT AT
888744 GATGAAATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:894138 original size:18 final size:17
Alignment explanation
Indices: 894101--894147 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
894091 TATAGAATTG
*
894101 GATTCCAATTCCTGACA
1 GATTCCAATTCCTCACA
*
894118 GATTCAAATTCCTTCACA
1 GATTCCAATTCC-TCACA
894136 GATTCCAATTCC
1 GATTCCAATTCC
894148 CTCATAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (17 bp):
GATTCCAATTCCTCACA
Found at i:895516 original size:22 final size:22
Alignment explanation
Indices: 895490--895533 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
895480 TTACGGATTT
895490 TGATCTGATTCGATTTAATTGA
1 TGATCTGATTCGATTTAATTGA
*
895512 TGATCTGATTTGATTTAATTGA
1 TGATCTGATTCGATTTAATTGA
895534 GTTGGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (22 bp):
TGATCTGATTCGATTTAATTGA
Found at i:897262 original size:8 final size:8
Alignment explanation
Indices: 897249--897274 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
897239 CAGTTTTGAT
897249 ATATTTTA
1 ATATTTTA
897257 ATATTTTA
1 ATATTTTA
897265 ATATTTTA
1 ATATTTTA
897273 AT
1 AT
897275 TTTAAGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATATTTTA
Found at i:897334 original size:8 final size:8
Alignment explanation
Indices: 897321--897346 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
897311 TCATTTTGAT
897321 ATATTTTA
1 ATATTTTA
897329 ATATTTTA
1 ATATTTTA
897337 ATATTTTA
1 ATATTTTA
897345 AT
1 AT
897347 TTTAAGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATATTTTA
Found at i:897359 original size:72 final size:72
Alignment explanation
Indices: 897242--897389 Score: 296
Period size: 72 Copynumber: 2.1 Consensus size: 72
897232 AAACCATCAG
897242 TTTTGATATATTTTAATATTTTAATATTTTAATTTTAAGTTTTTAGAAATCATGCTTAAAGTTTA
1 TTTTGATATATTTTAATATTTTAATATTTTAATTTTAAGTTTTTAGAAATCATGCTTAAAGTTTA
897307 ATTTTCA
66 ATTTTCA
897314 TTTTGATATATTTTAATATTTTAATATTTTAATTTTAAGTTTTTAGAAATCATGCTTAAAGTTTA
1 TTTTGATATATTTTAATATTTTAATATTTTAATTTTAAGTTTTTAGAAATCATGCTTAAAGTTTA
897379 ATTTTCA
66 ATTTTCA
897386 TTTT
1 TTTT
897390 AGTTTCCGCT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.57
Consensus pattern (72 bp):
TTTTGATATATTTTAATATTTTAATATTTTAATTTTAAGTTTTTAGAAATCATGCTTAAAGTTTA
ATTTTCA
Found at i:899017 original size:54 final size:52
Alignment explanation
Indices: 898953--899828 Score: 537
Period size: 54 Copynumber: 16.8 Consensus size: 52
898943 TCGGCCATTT
* * *
898953 CCACTCCCACTTTCAGTACCAGAAGCACCCCATCCACCATTGCCGCCTCCCTTG
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCA-T-CCGCCACCCTTG
* * *
899007 CCACTTCCACTATCAGTTCCAGAAGCACCCCAT---CC-TCCACCACCCTTA
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCATCCGCCACCCTTG
* *
899055 CCACTTCCACTTTCAGTTCCAGATGCACCCCATCCACCATTGCCGCCTCCCTTG
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCA-T-CCGCCACCCTTG
* * *
899109 CCACTTCCACTATCAGTTCCAGAAGCACCCCAT---CC-TCCACCACCCTTA
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCATCCGCCACCCTTG
* * *
899157 CCACTTCCACTTTCAGTTCCAGATGCACCCCATCCACCACCACCGCCCCCCTTG
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCA--TCCGCCACCCTTG
** ***
899211 CCACTTCCA----C--TTCCAGAAGCACCCCATCCACCGCCGCCGCCGCCACCCCAA
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCA----C-CATCCGCCACCCTTG
* *
899262 CCACTATTGCCGCTCTTTCCATTTCCACTTTCAGTTCCAGAAGCACCCCAT---CCA-CCGCCAC
1 CCAC--TT--C-CACTTT-CAGTTCCA------------GAAGCACCCCATCCACCATCCGCCAC
899323 CCTTG
48 CCTTG
* * * *
899328 CCACTTTCAATTTCAGTTCCAGAAGCACCCCATTCACCA-CTGCCA------
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCATCCGCCACCCTTG
*
899373 CCACTTCCACCTTT-AGTTCCAGAAGCACCCCATCCACCA-CTGCCA------
1 CCACTTCCA-CTTTCAGTTCCAGAAGCACCCCATCCACCATCCGCCACCCTTG
*
899418 CCACTTCCACCTTT-AGTTCCAGAAGCACCCCATCCACCA-CTGCCA------
1 CCACTTCCA-CTTTCAGTTCCAGAAGCACCCCATCCACCATCCGCCACCCTTG
* * **
899463 CCACTTCCACCTTCAGTTCCAGAAGCACCCCATCCGCCGCCGCCGCCACCCTTG
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCC-AC-CATCCGCCACCCTTG
* * *
899517 CCACTTCCACTTTGAGTTCCAGAAGCACCCCATCCACCGCTGCCGCCACCCCAACCACTGCCG
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACC-AT-CCG-----CC-ACC-CT--TG
* * * * *
899580 CCACTTCCACCTTCAATTCCAGAAGCACCCCATACACCGCTGCTGCCACCCTTG
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACC-AT-CCGCCACCCTTG
* *
899634 CCACTTCCACTTTGAGTTCCAGAAGCACCCCATCCACCA-CCACCACCCTTG
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCATCCGCCACCCTTG
* * *
899685 CCACTTCCACTTTCGGCTCCAGAAGCACCCCATCCACCA-CCGCCACTGCC--A
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCATCCGCCAC--CCTTG
* * *
899736 CCACTTCCACTTTCAGTTCCAGAAGTACCCCATACACCGCTGCCGCCACCCTTG
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACC-AT-CCGCCACCCTTG
* * *
899790 CCACTTCCATTTTTAGTTCCAGAGGCACCCCATCCACCA
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCA
899829 CCACCTCCGC
Statistics
Matches: 668, Mismatches: 81, Indels: 147
0.75 0.09 0.16
Matches are distributed among these distances:
44 3 0.00
45 113 0.17
46 4 0.01
47 1 0.00
48 116 0.17
49 2 0.00
50 1 0.00
51 114 0.17
52 4 0.01
53 8 0.01
54 199 0.30
55 1 0.00
56 3 0.00
57 3 0.00
58 2 0.00
59 2 0.00
60 10 0.01
61 7 0.01
63 46 0.07
64 2 0.00
66 13 0.02
67 1 0.00
68 1 0.00
75 12 0.02
ACGTcount: A:0.21, C:0.48, G:0.11, T:0.20
Consensus pattern (52 bp):
CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCATCCGCCACCCTTG
Found at i:899059 original size:48 final size:48
Alignment explanation
Indices: 899001--899239 Score: 268
Period size: 48 Copynumber: 4.9 Consensus size: 48
898991 ATTGCCGCCT
*
899001 CCCTTGCCACTTCCACTATCAGTTCCAGAAGCACCCCATCCTCCACCA
1 CCCTTACCACTTCCACTATCAGTTCCAGAAGCACCCCATCCTCCACCA
* * * *
899049 CCCTTACCACTTCCACTTTCAGTTCCAGATGCACCCCATCCACCATTGCCGCCT
1 CCCTTACCACTTCCACTATCAGTTCCAGAAGCACCCCAT---CC--T-CCACCA
*
899103 CCCTTGCCACTTCCACTATCAGTTCCAGAAGCACCCCATCCTCCACCA
1 CCCTTACCACTTCCACTATCAGTTCCAGAAGCACCCCATCCTCCACCA
* * *
899151 CCCTTACCACTTCCACTTTCAGTTCCAGATGCACCCCATCCACCACCA
1 CCCTTACCACTTCCACTATCAGTTCCAGAAGCACCCCATCCTCCACCA
* * *
899199 CCGC--CCCCCTTGCCACT-TCCACTTCCAGAAGCACCCCATCC
1 CC-CTTACCACTT-CCACTAT-CAGTTCCAGAAGCACCCCATCC
899240 ACCGCCGCCG
Statistics
Matches: 164, Mismatches: 18, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
47 6 0.04
48 111 0.68
49 2 0.01
51 4 0.02
53 1 0.01
54 40 0.24
ACGTcount: A:0.21, C:0.49, G:0.08, T:0.22
Consensus pattern (48 bp):
CCCTTACCACTTCCACTATCAGTTCCAGAAGCACCCCATCCTCCACCA
Found at i:899077 original size:102 final size:102
Alignment explanation
Indices: 898953--899830 Score: 567
Period size: 102 Copynumber: 8.4 Consensus size: 102
898943 TCGGCCATTT
* * ** *
898953 CCACTCCCACTTTCAGTACCAGAAGCACCCCATCCACCATTGCCGCCTCCCTTGCCACTTCCACT
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCACCGCCGCCACCCTTGCCACTTCCACT
*
899018 ATCAGTTCCAGAAGCACCCCATCCTCCACCACCCTTA
66 TTCAGTTCCAGAAGCACCCCATCCTCCACCACCCTTA
* ** *
899055 CCACTTCCACTTTCAGTTCCAGATGCACCCCATCCACCATTGCCGCCTCCCTTGCCACTTCCACT
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCACCGCCGCCACCCTTGCCACTTCCACT
*
899120 ATCAGTTCCAGAAGCACCCCATCCTCCACCACCCTTA
66 TTCAGTTCCAGAAGCACCCCATCCTCCACCACCCTTA
* * *
899157 CCACTTCCACTTTCAGTTCCAGATGCACCCCATCCACCACCACCGCCCCCCTTGCCACTTCCACT
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCACCGCCGCCACCCTTGCCACTTCCACT
* ** ** ** * * * **
899222 TCCAGAAGCACCCCATCCACCGCC-GCCGCCGCCACCCCAA
66 TTC---AGTTCCAGAAGCACC-CCATCCTCCACCACCCTTA
* ** ** ** ** * * *
899262 CCACTATTGCCGCTCTTTCCATTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCGCCACCCTT
1 CCAC--TT--C-CACTTTCAG-TTCCA---GAAGCACC-CCATC-CACCA-CCGCCGCCACCCTT
* *
899327 GCCACTTTCAATTTCAGTTCCAGAAGCACCCCAT--T-CACCACTGCC--A
54 GCCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCTCCACCAC--CCTTA
* *
899373 CCACTTCCACCTTT-AGTTCCAGAAGCACCCCATCCACCACTGCCACCA--CTT-CCA----C-C
1 CCACTTCCA-CTTTCAGTTCCAGAAGCACCCCATCCACCACCGCCGCCACCCTTGCCACTTCCAC
* **
899429 TTT-AGTTCCAGAAGCACCCCATCCACCA-CTGCC--A
65 TTTCAGTTCCAGAAGCACCCCATCCTCCACCACCCTTA
* * *
899463 CCACTTCCACCTTCAGTTCCAGAAGCACCCCATCCGCCGCCGCCGCCACCCTTGCCACTTCCACT
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCACCGCCGCCACCCTTGCCACTTCCACT
* **
899528 TTGAGTTCCAGAAGCACCCCATCCACCGCTGCCGCCACCCCAACCACTGCCG
66 TTCAGTTCCAGAAGCACCCCAT----C-CT----CCA--CC-ACC-CT--TA
* * * * * *
899580 CCACTTCCACCTTCAATTCCAGAAGCACCCCATACACCGCTGCTGCCACCCTTGCCACTTCCACT
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCACCGCCGCCACCCTTGCCACTTCCACT
* * *
899645 TTGAGTTCCAGAAGCACCCCATCCACCACCACCACCCTTG
66 TTCAGTTCCAGAAGCACCCCAT---CCTCCACCACCCTTA
* * * ** *
899685 CCACTTCCACTTTCGGCTCCAGAAGCACCCCATCCACCACCGCC-ACTGCC--ACCACTTCCACT
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCACCGCCGCCACCCTTGCCACTTCCACT
* * *
899747 TTCAGTTCCAGAAGTACCCCATACACCGCTGCCGCCACCCTTG
66 TTCAGTTCCAGAAGCACCCCAT----C-CT-CCACCACCCTTA
* * *
899790 CCACTTCCATTTTTAGTTCCAGAGGCACCCCATCCACCACC
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCACC
899831 ACCTCCGCCA
Statistics
Matches: 618, Mismatches: 104, Indels: 105
0.75 0.13 0.13
Matches are distributed among these distances:
89 3 0.00
90 61 0.10
91 3 0.00
92 5 0.01
93 5 0.01
96 3 0.00
97 4 0.01
98 4 0.01
99 25 0.04
100 4 0.01
101 2 0.00
102 196 0.32
103 3 0.00
104 5 0.01
105 113 0.18
106 3 0.00
107 9 0.01
108 6 0.01
109 5 0.01
110 6 0.01
111 19 0.03
112 1 0.00
113 5 0.01
114 12 0.02
115 3 0.00
116 6 0.01
117 107 0.17
ACGTcount: A:0.21, C:0.48, G:0.11, T:0.20
Consensus pattern (102 bp):
CCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCACCGCCGCCACCCTTGCCACTTCCACT
TTCAGTTCCAGAAGCACCCCATCCTCCACCACCCTTA
Found at i:899240 original size:48 final size:48
Alignment explanation
Indices: 898971--899251 Score: 192
Period size: 48 Copynumber: 5.6 Consensus size: 48
898961 ACTTTCAGTA
*** *
898971 CCAGAAGCACCCCATCCACCATTGCCGCCTCCCTTGCCACTTCCACTATCAGTT
1 CCAGAAGCACCCCATCCACCACCACCGCCCCCCTTGCCACTT-C-C-A-C--TT
* * * * *
899025 CCAGAAGCACCCCATCCTCCACCACC-CTTACCACTT-CCACTTTCAGTT
1 CCAGAAGCACCCCATCCACCACCACCGC--CCCCCTTGCCACTTCCACTT
* *** *
899073 CCAGATGCACCCCATCCACCATTGCCGCCTCCCTTGCCACTTCCACTATCAGTT
1 CCAGAAGCACCCCATCCACCACCACCGCCCCCCTTGCCACTT-C-C-A-C--TT
* * * * *
899127 CCAGAAGCACCCCATCCTCCACCACC-CTTACCACTT-CCACTTTCAGTT
1 CCAGAAGCACCCCATCCACCACCACCGC--CCCCCTTGCCACTTCCACTT
*
899175 CCAGATGCACCCCATCCACCACCACCGCCCCCCTTGCCACTTCCACTT
1 CCAGAAGCACCCCATCCACCACCACCGCCCCCCTTGCCACTTCCACTT
* *
899223 CCAGAAGCACCCCATCCACCGCCGCCGCC
1 CCAGAAGCACCCCATCCACCACCACCGCC
899252 GCCACCCCAA
Statistics
Matches: 175, Mismatches: 38, Indels: 34
0.71 0.15 0.14
Matches are distributed among these distances:
47 9 0.05
48 91 0.52
49 2 0.01
50 1 0.01
51 3 0.02
52 2 0.01
53 2 0.01
54 57 0.33
55 8 0.05
ACGTcount: A:0.21, C:0.50, G:0.10, T:0.20
Consensus pattern (48 bp):
CCAGAAGCACCCCATCCACCACCACCGCCCCCCTTGCCACTTCCACTT
Found at i:899392 original size:45 final size:45
Alignment explanation
Indices: 899284--899565 Score: 304
Period size: 45 Copynumber: 6.0 Consensus size: 45
899274 CTCTTTCCAT
899284 TTCCA-CTTTCAGTTCCAGAAGCACCCCATCCA-C-C-GCCACC-C
1 TTCCACCTTT-AGTTCCAGAAGCACCCCATCCACCACTGCCACCAC
*
899325 TTGCCACTTTCAATTTCAGTTCCAGAAGCACCCCATTCACCACTGCCACCAC
1 TT-CCAC---C--TTT-AGTTCCAGAAGCACCCCATCCACCACTGCCACCAC
899377 TTCCACCTTTAGTTCCAGAAGCACCCCATCCACCACTGCCACCAC
1 TTCCACCTTTAGTTCCAGAAGCACCCCATCCACCACTGCCACCAC
899422 TTCCACCTTTAGTTCCAGAAGCACCCCATCCACCACTGCCACCAC
1 TTCCACCTTTAGTTCCAGAAGCACCCCATCCACCACTGCCACCAC
* * * * *
899467 TTCCACCTTCAGTTCCAGAAGCACCCCATCCGCCGCCGCCGCCACCC
1 TTCCACCTTTAGTTCCAGAAGCACCCCATCCACCACTGCCACCA--C
* *
899514 TTGCCACTTCCACTTTGAGTTCCAGAAGCACCCCATCCACCGCTGCCGCCAC
1 TT-CCA----C-CTTT-AGTTCCAGAAGCACCCCATCCACCACTGCCACCAC
899566 CCCAACCACT
Statistics
Matches: 211, Mismatches: 10, Indels: 29
0.84 0.04 0.12
Matches are distributed among these distances:
41 2 0.01
42 3 0.01
45 118 0.56
46 4 0.02
47 3 0.01
48 29 0.14
49 1 0.00
50 1 0.00
51 10 0.05
52 5 0.02
53 3 0.01
54 32 0.15
ACGTcount: A:0.22, C:0.46, G:0.11, T:0.20
Consensus pattern (45 bp):
TTCCACCTTTAGTTCCAGAAGCACCCCATCCACCACTGCCACCAC
Found at i:899600 original size:117 final size:117
Alignment explanation
Indices: 899453--899671 Score: 384
Period size: 117 Copynumber: 1.9 Consensus size: 117
899443 CACCCCATCC
* * *
899453 ACCACTGCCACCACTTCCACCTTCAGTTCCAGAAGCACCCCATCCGCCGCCGCCGCCACCCTTGC
1 ACCACTGCCACCACTTCCACCTTCAATTCCAGAAGCACCCCATACACCGCCGCCGCCACCCTTGC
899518 CACTTCCACTTTGAGTTCCAGAAGCACCCCATCCACCGCTGCCGCCACCCCA
66 CACTTCCACTTTGAGTTCCAGAAGCACCCCATCCACCGCTGCCGCCACCCCA
* * *
899570 ACCACTGCCGCCACTTCCACCTTCAATTCCAGAAGCACCCCATACACCGCTGCTGCCACCCTTGC
1 ACCACTGCCACCACTTCCACCTTCAATTCCAGAAGCACCCCATACACCGCCGCCGCCACCCTTGC
899635 CACTTCCACTTTGAGTTCCAGAAGCACCCCATCCACC
66 CACTTCCACTTTGAGTTCCAGAAGCACCCCATCCACC
899672 ACCACCACCC
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 96 1.00
ACGTcount: A:0.21, C:0.48, G:0.13, T:0.18
Consensus pattern (117 bp):
ACCACTGCCACCACTTCCACCTTCAATTCCAGAAGCACCCCATACACCGCCGCCGCCACCCTTGC
CACTTCCACTTTGAGTTCCAGAAGCACCCCATCCACCGCTGCCGCCACCCCA
Found at i:899706 original size:51 final size:51
Alignment explanation
Indices: 899579--899830 Score: 283
Period size: 51 Copynumber: 4.8 Consensus size: 51
899569 AACCACTGCC
* * * *
899579 GCCACTTCCACCTTCAATTCCAGAAGCACCCCATACACCGCTGCTGCCACCCTT
1 GCCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCAC--C-GCCACCCTT
* *
899633 GCCACTTCCACTTTGAGTTCCAGAAGCACCCCATCCACCACCACCACCCTT
1 GCCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCACCGCCACCCTT
* *
899684 GCCACTTCCACTTTCGGCTCCAGAAGCACCCCATCCACCACCGCCACTGCC--
1 GCCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCACCGCCAC--CCTT
* * * *
899735 ACCACTTCCACTTTCAGTTCCAGAAGTACCCCATACACCGCTGCCGCCACCCTT
1 GCCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCA-C-C-ACCGCCACCCTT
* * *
899789 GCCACTTCCATTTTTAGTTCCAGAGGCACCCCATCCACCACC
1 GCCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCACC
899831 ACCTCCGCCA
Statistics
Matches: 168, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
51 85 0.51
52 5 0.03
53 4 0.02
54 74 0.44
ACGTcount: A:0.22, C:0.46, G:0.12, T:0.20
Consensus pattern (51 bp):
GCCACTTCCACTTTCAGTTCCAGAAGCACCCCATCCACCACCGCCACCCTT
Found at i:899785 original size:105 final size:102
Alignment explanation
Indices: 899634--899830 Score: 277
Period size: 105 Copynumber: 1.9 Consensus size: 102
899624 GCCACCCTTG
* *
899634 CCACTTCCACTTTGAGTTCCAGAAGCACCCCATCCACCACCACCACCCTTGCCACTTCCACTTTC
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATACACCACCACCACCCTTGCCACTTCCACTTTC
*
899699 GGCTCCAGAAGCACCCCATCCACCACCGCCACTGCCA
66 AGCTCCAGAAGCACCCCATCCACCACCGCCACTGCCA
* * * *
899736 CCACTTCCACTTTCAGTTCCAGAAGTACCCCATACACCGCTGCCGCCACCCTTGCCACTTCCATT
1 CCACTTCCACTTTCAGTTCCAGAAGCACCCCATACA-C-C-ACCACCACCCTTGCCACTTCCACT
* * *
899801 TTTAGTTCCAGAGGCACCCCATCCACCACC
63 TTCAGCTCCAGAAGCACCCCATCCACCACC
899831 ACCTCCGCCA
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
102 33 0.40
103 1 0.01
104 1 0.01
105 47 0.57
ACGTcount: A:0.22, C:0.47, G:0.11, T:0.20
Consensus pattern (102 bp):
CCACTTCCACTTTCAGTTCCAGAAGCACCCCATACACCACCACCACCCTTGCCACTTCCACTTTC
AGCTCCAGAAGCACCCCATCCACCACCGCCACTGCCA
Found at i:899851 original size:156 final size:156
Alignment explanation
Indices: 899571--899851 Score: 420
Period size: 156 Copynumber: 1.8 Consensus size: 156
899561 GCCACCCCAA
* *
899571 CCACTGCCGCCACTTCCACCTTCAATTCCAGAAGCACCCCATACACCGCTGCTGCCACCCTTGCC
1 CCACTGCCACCACTTCCACCTTCAATTCCAGAAGCACCCCATACACCGCTGCCGCCACCCTTGCC
** **
899636 ACTTCCACTTTGAGTTCCAGAAGCACCCCATCCACCACCACCACCCTTGCCACTTCCACTTTCGG
66 ACTTCCACTTTGAGTTCCAGAAGCACCCCATCCACCACCACCACCCTCACCACAACCACTTTCGG
899701 CTCCAGAAGCACCCCATCCACCACCG
131 CTCCAGAAGCACCCCATCCACCACCG
* * *
899727 CCACTGCCACCACTTCCACTTTCAGTTCCAGAAGTACCCCATACACCGCTGCCGCCACCCTTGCC
1 CCACTGCCACCACTTCCACCTTCAATTCCAGAAGCACCCCATACACCGCTGCCGCCACCCTTGCC
* * * * *
899792 ACTTCCATTTTTAGTTCCAGAGGCACCCCATCCACCACCACCTCCGC-CACCCCAACCACT
66 ACTTCCACTTTGAGTTCCAGAAGCACCCCATCCACCACCACCACC-CTCACCACAACCACT
899852 GCTGCCGCCA
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
156 109 0.99
157 1 0.01
ACGTcount: A:0.22, C:0.48, G:0.11, T:0.19
Consensus pattern (156 bp):
CCACTGCCACCACTTCCACCTTCAATTCCAGAAGCACCCCATACACCGCTGCCGCCACCCTTGCC
ACTTCCACTTTGAGTTCCAGAAGCACCCCATCCACCACCACCACCCTCACCACAACCACTTTCGG
CTCCAGAAGCACCCCATCCACCACCG
Found at i:910321 original size:31 final size:34
Alignment explanation
Indices: 910286--910349 Score: 98
Period size: 31 Copynumber: 2.0 Consensus size: 34
910276 TTGGATCGAA
*
910286 AAGTTAAGTTCAAGTAT-TAATTT-A-AACAAAT
1 AAGTTAAATTCAAGTATCTAATTTGACAACAAAT
910317 AAGTTAAATTCAAGTATCTAATTTGACAACAAA
1 AAGTTAAATTCAAGTATCTAATTTGACAACAAA
910350 ATGTTTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 16 0.55
32 6 0.21
33 1 0.03
34 6 0.21
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (34 bp):
AAGTTAAATTCAAGTATCTAATTTGACAACAAAT
Found at i:915334 original size:71 final size:70
Alignment explanation
Indices: 915209--915343 Score: 216
Period size: 71 Copynumber: 1.9 Consensus size: 70
915199 CAGACTCGGC
* * *
915209 CCGGTTGAAGAAGGGCTGGGATTAGAGATGGGTATGGGTTAAATTAGGTCGGGTCAGATTTGGTA
1 CCGGTTGAAGAAGGGCTGGGATTAGAGACGGGCATGGGTGAAATTAGGTCGGGTCAGATTTGGTA
915274 CCCGT
66 CCCGT
* *
915279 CCGGTTTGATGAAGGGCTGGTATTAGAGACGGGCATGGGTGAAATTAGGTCGGGTCAGATTTGGT
1 CCGG-TTGAAGAAGGGCTGGGATTAGAGACGGGCATGGGTGAAATTAGGTCGGGTCAGATTTGGT
915344 TTGATGAAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
70 4 0.07
71 55 0.93
ACGTcount: A:0.22, C:0.11, G:0.39, T:0.27
Consensus pattern (70 bp):
CCGGTTGAAGAAGGGCTGGGATTAGAGACGGGCATGGGTGAAATTAGGTCGGGTCAGATTTGGTA
CCCGT
Found at i:915389 original size:53 final size:53
Alignment explanation
Indices: 915317--915499 Score: 260
Period size: 53 Copynumber: 3.5 Consensus size: 53
915307 ACGGGCATGG
* *
915317 GTGAAATTAGGTCGGGTCAGATTTGGTTTGATGAAGAGCTGAGATGGGCACAA
1 GTGAGATTAGGTCGGGTCAGATTTGGTTTGATGAAGAGCTGGGATGGGCACAA
* * * *
915370 GTGAGATTAGGTTGGGTCAGTTTTGGTTTGATGGAGGGCTGGGATGGGCACAA
1 GTGAGATTAGGTCGGGTCAGATTTGGTTTGATGAAGAGCTGGGATGGGCACAA
* * * *
915423 GTGAGATTAGGTCGAGTCGGATTTGGTTTGATGAA-AGGTTGGGATGGGCACAG
1 GTGAGATTAGGTCGGGTCAGATTTGGTTTGATGAAGA-GCTGGGATGGGCACAA
915476 GTGAGATTAGGTCGGGTCAGATTT
1 GTGAGATTAGGTCGGGTCAGATTT
915500 AAAGCATAGA
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 113 1.00
ACGTcount: A:0.23, C:0.08, G:0.40, T:0.29
Consensus pattern (53 bp):
GTGAGATTAGGTCGGGTCAGATTTGGTTTGATGAAGAGCTGGGATGGGCACAA
Found at i:923011 original size:22 final size:22
Alignment explanation
Indices: 922947--923002 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
922937 GTTTGAGCCT
922947 TCATAGGGGTATTTATACCCAG
1 TCATAGGGGTATTTATACCCAG
922969 TCATAGGGGTATTTATACCCAG
1 TCATAGGGGTATTTATACCCAG
922991 TCATAGGGGTAT
1 TCATAGGGGTAT
923003 CGGTACCCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (22 bp):
TCATAGGGGTATTTATACCCAG
Done.