Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007711.1 Hibiscus syriacus cultivar Beakdansim tig00109926_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: 1768490
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 4 of 8
Found at i:786717 original size:18 final size:19
Alignment explanation
Indices: 786675--786717 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
786665 CACTGGACTC
*
786675 ATTAAATTATTAATACCTA
1 ATTAAATTATTAATACCAA
786694 ATTAAATT-TTAAT-CCAA
1 ATTAAATTATTAATACCAA
786711 ATATAAA
1 AT-TAAA
786718 AATAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 5 0.23
18 9 0.41
19 8 0.36
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTAAATTATTAATACCAA
Found at i:787382 original size:2 final size:2
Alignment explanation
Indices: 787375--787402 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
787365 TTCTTGTAGC
787375 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
787403 ATTGCATGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:787778 original size:13 final size:13
Alignment explanation
Indices: 787760--787802 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
787750 AATTTAAAAT
787760 AATTATTAAATTA
1 AATTATTAAATTA
*
787773 AATTATTATATATA
1 AATTATTAAAT-TA
* *
787787 AAATATTTAATTA
1 AATTATTAAATTA
787800 AAT
1 AAT
787803 AATTTATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTATTAAATTA
Found at i:787807 original size:13 final size:13
Alignment explanation
Indices: 787768--787822 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
787758 ATAATTATTA
*
787768 AATTAAATTATTAT
1 AATTAAATAATT-T
*
787782 ATATAAAAT-ATTT
1 A-ATTAAATAATTT
787795 AATTAAATAATTT
1 AATTAAATAATTT
*
787808 ATTTAAATAATTT
1 AATTAAATAATTT
787821 AA
1 AA
787823 CAATTATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 6 0.17
13 19 0.54
14 4 0.11
15 6 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTAAATAATTT
Found at i:787819 original size:21 final size:20
Alignment explanation
Indices: 787794--787834 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
787784 ATAAAATATT
*
787794 TAATTAAATAATTTATTTAAA
1 TAATTAAACAA-TTATTTAAA
*
787815 TAATTTAACAATTATTTAAA
1 TAATTAAACAATTATTTAAA
787835 ATTAAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TAATTAAACAATTATTTAAA
Found at i:787820 original size:26 final size:27
Alignment explanation
Indices: 787763--787822 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
787753 TTAAAATAAT
* *
787763 TATTAAATTAAATTATTATATATAAAA
1 TATTTAATTAAATAATTATATATAAAA
*
787790 TATTTAATTAAATAATT-TAT-TTAAA
1 TATTTAATTAAATAATTATATATAAAA
787815 TAATTTAA
1 T-ATTTAA
787823 CAATTATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 5 0.17
26 9 0.31
27 15 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TATTTAATTAAATAATTATATATAAAA
Found at i:794537 original size:63 final size:64
Alignment explanation
Indices: 794430--794575 Score: 170
Period size: 63 Copynumber: 2.3 Consensus size: 64
794420 TACGTGAACA
* * * * * *
794430 TGACGAGTTCTAATAATATGTATATATATATTATGGAATTCATTTATAAAATTCGTTATGTCCGT
1 TGACGAGTTCTAATAA-AAGTATATATATATTATGGAATCCATTTATAAAACTCATTATATCC-A
794495 G
64 G
* * *
794496 TGACGAGTTCTAATAAAAG-AT-TATATTTTATGGAATCCATTTATAGAACTCATTATATTCAG
1 TGACGAGTTCTAATAAAAGTATATATATATTATGGAATCCATTTATAAAACTCATTATATCCAG
*
794558 TGATGAGTTCTAATAAAA
1 TGACGAGTTCTAATAAAA
794576 AAAATATTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
62 18 0.26
63 32 0.46
64 2 0.03
65 2 0.03
66 16 0.23
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (64 bp):
TGACGAGTTCTAATAAAAGTATATATATATTATGGAATCCATTTATAAAACTCATTATATCCAG
Found at i:795451 original size:70 final size:70
Alignment explanation
Indices: 795326--795472 Score: 208
Period size: 70 Copynumber: 2.1 Consensus size: 70
795316 TATTTCGAAA
*
795326 AATACTCCTACATTTAAGTGATTAAAATTAAAGGTGTTTAATCGGTCGGTTTAGTTAACCA-ACC
1 AATACTCCTACATTTAAGTGATTAAAATTAAAGGTGTTTAATCGGTCGGTCTAGTTAA-CAGACC
795390 AAACTG
65 AAACTG
* * *
795396 AATACTCCTATATTTAAGTGATTAAAATTAGAGGTGTTTAATTGG-CAGGTCTAGTTAACAGACC
1 AATACTCCTACATTTAAGTGATTAAAATTAAAGGTGTTTAATCGGTC-GGTCTAGTTAACAGACC
*
795460 GAACTG
65 AAACTG
795466 AACTACT
1 AA-TACT
795473 TAAAATTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
69 3 0.04
70 62 0.90
71 4 0.06
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (70 bp):
AATACTCCTACATTTAAGTGATTAAAATTAAAGGTGTTTAATCGGTCGGTCTAGTTAACAGACCA
AACTG
Found at i:796615 original size:33 final size:33
Alignment explanation
Indices: 796578--796644 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
796568 ACAAAGTAAA
796578 GTACCATTTATAAAGAAAGTGAACAATTTCAGG
1 GTACCATTTATAAAGAAAGTGAACAATTTCAGG
*** *
796611 GTACCATTTATTGGGAAAGTGAACAATTTGAGG
1 GTACCATTTATAAAGAAAGTGAACAATTTCAGG
796644 G
1 G
796645 ACTAAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.28
Consensus pattern (33 bp):
GTACCATTTATAAAGAAAGTGAACAATTTCAGG
Found at i:798001 original size:895 final size:896
Alignment explanation
Indices: 796883--798677 Score: 3470
Period size: 895 Copynumber: 2.0 Consensus size: 896
796873 GTTACACATG
*
796883 TACAGTATTGAAGTTTGTAAAATTAAAGATAAATTATAGATTTGGTAACTAAACTTACTCTCTCC
1 TACAGTATTGAAGTTTGTAAAATTAAAGATAAATTATAGATTTGATAACTAAACTTACTCTCTCC
796948 CCTATTTCACTCACCGTACTTTATTTTTTTTTTTTAAATTTTCTAATTAAACTTAATACATCGAA
66 CCTATTTCACTCACCGTACTTTA--TTTTTTTTTTAAATTTTCTAATTAAACTTAATACATCGAA
*
797013 TTTTTTTTATCACTTAGTCGTTTTCTCGCTAATGACGTTATGAATGAGTTTTTATATAGATGTAA
129 TTTTTTTTATCACTTAGTCGTTTTCTCGCTAATGACGTCATGAATGAGTTTTTATATAGATGTAA
*
797078 AACGATGTCATTTTGACGAAGATTTTTCTTTTTCTAAAAAACGGCATCGTTTTAACGCGTTAGCT
194 AACGATGTCATTTTGACAAAGATTTTTCTTTTTCTAAAAAACGGCATCGTTTTAACGCGTTAGCT
797143 AACAAAAAGGCCTAATGTATTAAATTCGGTGTGGAAATTGAAAACTTTTGAAGTTCAGTGAGCAG
259 AACAAAAAGGCCTAATGTATTAAATTCGGTGTGGAAATTGAAAACTTTTGAAGTTCAGTGAGCAG
797208 AAGAGGAGAGAGAGAGTAAAGTTTAGTGATGAAATTTGTAATTTTCCCTAAAATTAATTCCAATG
324 AAGAGGAGAGAGAGAGTAAAGTTTAGTGATGAAATTTGTAATTTTCCCTAAAATTAATTCCAATG
797273 CCATATTCTTCTCACAATAACAAAGTAAAAATGAAGTACTGGCAAGGGTAGTAGACCACACTAAT
389 CCATATTCTTCTCACAATAACAAAGTAAAAATGAAGTACTGGCAAGGGTAGTAGACCACACTAAT
797338 GTCCATGAGGGAGGTTCAGGTTTTTTTCGACCACGAGGGGTTCTTCAGAGCCATGGCTGCATTTA
454 GTCCATGAGGGAGGTTCAGGTTTTTTTCGACCACGAGGGGTTCTTCAGAGCCATGGCTGCATTTA
*
797403 CCAAACATACATATAGTGTCACATAGTTTGAAAGGGAACCAGGCAGAGTTATCATAAAGATTAGG
519 CCAAACATACATATAGTGTCACATAGTTTGAAAGGGAACCAGACAGAGTTATCATAAAGATTAGG
797468 GCAGATTATCACCTGAGGTAGCTTAGAGCCGACATTCGGTATAGGCAAGTAAAGACCAGGATATG
584 GCAGATTATCACCTGAGGTAGCTTAGAGCCGACATTCGGTATAGGCAAGTAAAGACCAGGATATG
797533 TAAACCGATCGTGTAGAAAAATGCAAATGTTCGAGCATACCTGAAATTGTAAAGGCGTCATTTCA
649 TAAACCGATCGTGTAGAAAAATGCAAATGTTCGAGCATACCTGAAATTGTAAAGGCGTCATTTCA
797598 TTAGCAAATCAACGAACAATCTGAGTAAATAAGTACGAATACAATGATACGTGGAGGAGGGAATC
714 TTAGCAAATCAACGAACAATCTGAGTAAATAAGTACGAATACAATGATACGTGGAGGAGGGAATC
797663 GCTTCAGACCCCGTCATACACCAGTGACTGCAGTAATATAACTGCAGGCCAATAAATCATTGCTA
779 GCTTCAGACCCCGTCATACACCAGTGACTGCAGTAATATAACTGCAGGCCAATAAATCATTGCTA
797728 TCATGTATCTATGAACATAGAAATTCTGCATGTTCACCATATTTTAACCTGAAC
844 TCATGTATCTATGAACATAGAAATTCTGCATGTTCACCATA-TTTAACCTGAAC
797782 TACAGTATTGAAGTTTGT-AAATTAAAGATAAATTATAGATTTGATAACTAAACTTACTCTCTCC
1 TACAGTATTGAAGTTTGTAAAATTAAAGATAAATTATAGATTTGATAACTAAACTTACTCTCTCC
797846 CCTATTTCACTCACCGTACTTTA-TTTTTTTTT-AATTTTCTAATTAAACTTAATACATCGAATT
66 CCTATTTCACTCACCGTACTTTATTTTTTTTTTAAATTTTCTAATTAAACTTAATACATCGAA-T
797909 TTTTTTTATCACTTAGTCGTTTTCTCGCTAATGACGTCATGAATGAGTTTTTATATAGATGTAAA
130 TTTTTTTATCACTTAGTCGTTTTCTCGCTAATGACGTCATGAATGAGTTTTTATATAGATGTAAA
797974 ACGATGTCATTTTGACAAAGATTTTTCTTTTTCTAAAAAACGGCATCGTTTTAACGCGTTAGCTA
195 ACGATGTCATTTTGACAAAGATTTTTCTTTTTCTAAAAAACGGCATCGTTTTAACGCGTTAGCTA
798039 ACAAAAAGGCCTAATGTATTAAATTCGGTGTGGAAATTGAAAACTTTTGAAGTTCAGTGAGCAGA
260 ACAAAAAGGCCTAATGTATTAAATTCGGTGTGGAAATTGAAAACTTTTGAAGTTCAGTGAGCAGA
*
798104 AGAGGGGAGAGAGAGTAAAGTTTAGTGATGAAATTTGTAATTTTCCCTAAAATTAATTCCAATGC
325 AGAGGAGAGAGAGAGTAAAGTTTAGTGATGAAATTTGTAATTTTCCCTAAAATTAATTCCAATGC
798169 CATATTCTTCTCACAATAACAAAGTAAAAATGAAGTACTGGCAAGGGTAGTAGACCACACTAATG
390 CATATTCTTCTCACAATAACAAAGTAAAAATGAAGTACTGGCAAGGGTAGTAGACCACACTAATG
798234 TCCATGAGGGAGGTTCAGGTTTTTTTCGACCACGAGGGGTTCTTCAGAGCCATGGCTGCATTTAC
455 TCCATGAGGGAGGTTCAGGTTTTTTTCGACCACGAGGGGTTCTTCAGAGCCATGGCTGCATTTAC
*
798299 CAAACATACATATAGTGTCACATAGTTTGAAAGGGAACCAGACAGAGTTATCATATAGATTAGGG
520 CAAACATACATATAGTGTCACATAGTTTGAAAGGGAACCAGACAGAGTTATCATAAAGATTAGGG
*
798364 CAGATTATTACCTGAGGTAGCTTAGAGCCGACATTCGGTATAGGCAAGTAAAGACCAGGATATGT
585 CAGATTATCACCTGAGGTAGCTTAGAGCCGACATTCGGTATAGGCAAGTAAAGACCAGGATATGT
798429 AAACCGATCGTGTAGAAAAATGCAAATGTTCGAGCATACCTGAAATTGTAAAGGCGTCATTTCAT
650 AAACCGATCGTGTAGAAAAATGCAAATGTTCGAGCATACCTGAAATTGTAAAGGCGTCATTTCAT
798494 TAGCAAATCAACGAACAATCTGAGTAAATAAGTACGAATACAATGATACGTGGAGGAGGGAATCG
715 TAGCAAATCAACGAACAATCTGAGTAAATAAGTACGAATACAATGATACGTGGAGGAGGGAATCG
798559 CTTCAGACCCCGTCATACACCAGTGACTGCAGTAATATAACTGCAGGCCAATAAATCATTGCTAT
780 CTTCAGACCCCGTCATACACCAGTGACTGCAGTAATATAACTGCAGGCCAATAAATCATTGCTAT
798624 CATGTATCTATGAACATAGAAATTCTGCATGTTCACCATATTTAACCTGAAC
845 CATGTATCTATGAACATAGAAATTCTGCATGTTCACCATATTTAACCTGAAC
798676 TA
1 TA
798678 AGCTTCAAAT
Statistics
Matches: 888, Mismatches: 7, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
894 43 0.05
895 759 0.85
898 68 0.08
899 18 0.02
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (896 bp):
TACAGTATTGAAGTTTGTAAAATTAAAGATAAATTATAGATTTGATAACTAAACTTACTCTCTCC
CCTATTTCACTCACCGTACTTTATTTTTTTTTTAAATTTTCTAATTAAACTTAATACATCGAATT
TTTTTTATCACTTAGTCGTTTTCTCGCTAATGACGTCATGAATGAGTTTTTATATAGATGTAAAA
CGATGTCATTTTGACAAAGATTTTTCTTTTTCTAAAAAACGGCATCGTTTTAACGCGTTAGCTAA
CAAAAAGGCCTAATGTATTAAATTCGGTGTGGAAATTGAAAACTTTTGAAGTTCAGTGAGCAGAA
GAGGAGAGAGAGAGTAAAGTTTAGTGATGAAATTTGTAATTTTCCCTAAAATTAATTCCAATGCC
ATATTCTTCTCACAATAACAAAGTAAAAATGAAGTACTGGCAAGGGTAGTAGACCACACTAATGT
CCATGAGGGAGGTTCAGGTTTTTTTCGACCACGAGGGGTTCTTCAGAGCCATGGCTGCATTTACC
AAACATACATATAGTGTCACATAGTTTGAAAGGGAACCAGACAGAGTTATCATAAAGATTAGGGC
AGATTATCACCTGAGGTAGCTTAGAGCCGACATTCGGTATAGGCAAGTAAAGACCAGGATATGTA
AACCGATCGTGTAGAAAAATGCAAATGTTCGAGCATACCTGAAATTGTAAAGGCGTCATTTCATT
AGCAAATCAACGAACAATCTGAGTAAATAAGTACGAATACAATGATACGTGGAGGAGGGAATCGC
TTCAGACCCCGTCATACACCAGTGACTGCAGTAATATAACTGCAGGCCAATAAATCATTGCTATC
ATGTATCTATGAACATAGAAATTCTGCATGTTCACCATATTTAACCTGAAC
Found at i:801405 original size:17 final size:17
Alignment explanation
Indices: 801383--801416 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
801373 AACTCCAAAA
*
801383 TTTTCAGCGAGTATGAT
1 TTTTCAGCAAGTATGAT
801400 TTTTCAGCAAGTATGAT
1 TTTTCAGCAAGTATGAT
801417 AACCGCAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (17 bp):
TTTTCAGCAAGTATGAT
Found at i:814867 original size:16 final size:18
Alignment explanation
Indices: 814841--814877 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
814831 TATTTCCTTT
814841 AATTGATTTGAG-TTTAA
1 AATTGATTTGAGTTTTAA
814858 AATT-ATTTGAGTTTTAA
1 AATTGATTTGAGTTTTAA
814875 AAT
1 AAT
814878 ATTAATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.49
Consensus pattern (18 bp):
AATTGATTTGAGTTTTAA
Found at i:814976 original size:34 final size:34
Alignment explanation
Indices: 814929--815015 Score: 111
Period size: 34 Copynumber: 2.6 Consensus size: 34
814919 TGGACTGAAT
* * *
814929 ATAAACGAGCGGACATAAAAGAACATGCACGAAC
1 ATAAATGAACGGACATAAAAGAACATACACGAAC
* * *
814963 ATAAATGAACGGACATAAACGAATATACACGGAC
1 ATAAATGAACGGACATAAAAGAACATACACGAAC
*
814997 ATAAATGAACGAACATAAA
1 ATAAATGAACGGACATAAA
815016 CGGACATAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.53, C:0.17, G:0.17, T:0.13
Consensus pattern (34 bp):
ATAAATGAACGGACATAAAAGAACATACACGAAC
Found at i:815007 original size:24 final size:24
Alignment explanation
Indices: 814980--815039 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
814970 AACGGACATA
* *
814980 AACGAATATACACGGACATAAATG
1 AACGAACATAAACGGACATAAATG
815004 AACGAACATAAACGGACATAAATG
1 AACGAACATAAACGGACATAAATG
* *
815028 TACTAACATAAA
1 AACGAACATAAA
815040 TAAACGAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.53, C:0.17, G:0.13, T:0.17
Consensus pattern (24 bp):
AACGAACATAAACGGACATAAATG
Found at i:815014 original size:14 final size:14
Alignment explanation
Indices: 815011--815063 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
815001 ATGAACGAAC
*
815011 ATAAACGGACATAA
1 ATAAACGAACATAA
** *
815025 ATGTACTAACATAA
1 ATAAACGAACATAA
815039 ATAAACGAACATAA
1 ATAAACGAACATAA
815053 ATAAACGAACA
1 ATAAACGAACA
815064 GATTACCGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.58, C:0.15, G:0.09, T:0.17
Consensus pattern (14 bp):
ATAAACGAACATAA
Found at i:815016 original size:34 final size:34
Alignment explanation
Indices: 814941--815023 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
814931 AAACGAGCGG
* * *
814941 ACATAAAAGAACATGCACGAACATAAATGAACGG
1 ACATAAACGAACATACACGAACATAAATGAACGA
* *
814975 ACATAAACGAATATACACGGACATAAATGAACGA
1 ACATAAACGAACATACACGAACATAAATGAACGA
*
815009 ACATAAACGGACATA
1 ACATAAACGAACATA
815024 AATGTACTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.53, C:0.18, G:0.16, T:0.13
Consensus pattern (34 bp):
ACATAAACGAACATACACGAACATAAATGAACGA
Found at i:821795 original size:23 final size:24
Alignment explanation
Indices: 821769--821822 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
821759 GAAAAAAATC
*
821769 TAAATAACGATTATTTTATTAA-T
1 TAAATAACAATTATTTTATTAATT
* * *
821792 TAAATTATAATTTTTTTATTAATT
1 TAAATAACAATTATTTTATTAATT
821816 TAAATAA
1 TAAATAA
821823 AAATAAAACC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TAAATAACAATTATTTTATTAATT
Found at i:822522 original size:21 final size:23
Alignment explanation
Indices: 822468--822522 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
822458 TTAACAAATG
*
822468 TTGAATG-ATCATGTCTTAGTCT
1 TTGAATGTATAATGTCTTAGTCT
*
822490 TTGGATGGTATAATGT-TTAGT-T
1 TTGAAT-GTATAATGTCTTAGTCT
822512 TTGAATGTATA
1 TTGAATGTATA
822523 TATATTGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 5 0.18
22 11 0.39
23 6 0.21
24 6 0.21
ACGTcount: A:0.25, C:0.05, G:0.22, T:0.47
Consensus pattern (23 bp):
TTGAATGTATAATGTCTTAGTCT
Found at i:822526 original size:2 final size:2
Alignment explanation
Indices: 822519--822564 Score: 51
Period size: 2 Copynumber: 23.5 Consensus size: 2
822509 GTTTTGAATG
* *
822519 TA TA TA TA T- TGA TA TA TA CA TA TA TA TA TA -A TA TA TA TA TG
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
822560 TA TA T
1 TA TA T
822565 GTGTGTGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
1 2 0.05
2 34 0.92
3 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:824764 original size:42 final size:42
Alignment explanation
Indices: 824703--824839 Score: 220
Period size: 42 Copynumber: 3.3 Consensus size: 42
824693 GATGAGGATA
824703 AAAGATCTCGAGAGCCTCCTTGCCGATTCAAGAAACAAGGTG
1 AAAGATCTCGAGAGCCTCCTTGCCGATTCAAGAAACAAGGTG
* * * * * *
824745 AAAGATATTGAGAGTCTCCTTTCTGATTCAAGGAACAAGGTG
1 AAAGATCTCGAGAGCCTCCTTGCCGATTCAAGAAACAAGGTG
824787 AAAGATCTCGAGAGCCTCCTTGCCGATTCAAGAAACAAGGTG
1 AAAGATCTCGAGAGCCTCCTTGCCGATTCAAGAAACAAGGTG
824829 AAAGATCTCGA
1 AAAGATCTCGA
824840 AGCAAGTTTC
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.22
Consensus pattern (42 bp):
AAAGATCTCGAGAGCCTCCTTGCCGATTCAAGAAACAAGGTG
Found at i:824966 original size:16 final size:16
Alignment explanation
Indices: 824945--824978 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
824935 TATTGGTTTC
824945 TTTCATTTGAAATTTG
1 TTTCATTTGAAATTTG
824961 TTTCATTTGAAATTTG
1 TTTCATTTGAAATTTG
824977 TT
1 TT
824979 CTTCAACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.59
Consensus pattern (16 bp):
TTTCATTTGAAATTTG
Found at i:829769 original size:2 final size:2
Alignment explanation
Indices: 829764--829818 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
829754 TTTTTTTTAA
829764 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
829806 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
829819 AATAATTGTT
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:848310 original size:40 final size:39
Alignment explanation
Indices: 848245--848327 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 39
848235 TTTATAGTGG
**
848245 CGTTTTTATAACAAACGCTGCAATAAAGAATACTTTTGCGT
1 CGTTTTTATAACAAACGCCACAATAAAGAATA-TTTTGC-T
* *
848286 CGTTTTTA-GACAAACGCCACAATAAAGGATATTTTGCT
1 CGTTTTTATAACAAACGCCACAATAAAGAATATTTTGCT
848324 CGTT
1 CGTT
848328 GAAGCTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 5 0.13
39 6 0.16
40 19 0.50
41 8 0.21
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (39 bp):
CGTTTTTATAACAAACGCCACAATAAAGAATATTTTGCT
Found at i:855997 original size:38 final size:37
Alignment explanation
Indices: 855910--855997 Score: 115
Period size: 38 Copynumber: 2.4 Consensus size: 37
855900 TCGGGCCGGG
855910 TATATATAT-ATTTAAATTAAATATATAAATATTATA
1 TATATATATAATTTAAATTAAATATATAAATATTATA
* * * *
855946 TATATTTTTTAATTTAAATTAAATTTATTAATATTATA
1 TATA-TATATAATTTAAATTAAATATATAAATATTATA
855984 TATATATAATAATT
1 TATATAT-ATAATT
855998 ATTATTTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
36 4 0.09
37 5 0.12
38 34 0.79
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (37 bp):
TATATATATAATTTAAATTAAATATATAAATATTATA
Found at i:857814 original size:21 final size:21
Alignment explanation
Indices: 857759--857815 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
857749 TATGGACGTA
* *
857759 GCAGTTCACGGTGTTGACATG
1 GCAGTCCATGGTGTTGACATG
* *
857780 GC-GCTCTATAGTGTTGACATG
1 GCAG-TCCATGGTGTTGACATG
857801 GCAGTCCATGGTGTT
1 GCAGTCCATGGTGTT
857816 TGATAACGCG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.32
Consensus pattern (21 bp):
GCAGTCCATGGTGTTGACATG
Found at i:859915 original size:21 final size:21
Alignment explanation
Indices: 859854--859916 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
859844 TCTTGGTATG
* *
859854 GACGTAGCAGTTCACGGTGTT
1 GACGTAGCAGTCCATGGTGTT
* * * * *
859875 GACATGGCGGTCTATAGTGTT
1 GACGTAGCAGTCCATGGTGTT
*
859896 GACGTTGCAGTCCATGGTGTT
1 GACGTAGCAGTCCATGGTGTT
859917 TGATAACGCG
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.32
Consensus pattern (21 bp):
GACGTAGCAGTCCATGGTGTT
Found at i:860994 original size:316 final size:315
Alignment explanation
Indices: 860418--861038 Score: 1064
Period size: 316 Copynumber: 2.0 Consensus size: 315
860408 AAAGCAAACA
* *
860418 AATGGGATATCAAGCACGTTTATTTAGTTGACCATTATCGTTGTTTGGTGATAGGTATATTCGTT
1 AATGGGATATCAAGCACGTTTATTTAGTTGACCATTATCGTTGTTTGGTGATAGGTAAATTCATT
* *
860483 TAAAATATAGGATTGTCAGTATAATGTTTTTTATATTTCTTTTATTGTTATGCCTTAATTTATAT
66 CAAAATATAGGATTGTAAGTATAATGTTTTTTATATTTCTTTTATTGTTATGCCTTAATTTATAT
* *
860548 TTTTTATTCAAATTAATTTAGGTTAAATTTTTTTTATAGATTTGTTGAAGTATGACAGCACAAAA
131 TTTTTATTCAAATTAATTTAGGTTAAATTTTTTCTATAGATTTGTTGAAGTATGACAACACAAAA
* * *
860613 TAATCTTCTGAGACTAGATAATCGACATATTTCTTCTCATTTGGGATCGTTGGTATTAATATTTA
196 TAATCTTCTGAGACTAGATAATCAACATATTTATTCTCATTTGGAATCGTTGGTATTAATATTTA
*
860678 ATAATATTTTTTAGAATGAGTTATTAAAAACGAGAATTATTTTTATGATTAATTC
261 ATAATATTTTTTAGAATGAGTTATTAAAAAAGAGAATTATTTTTATGATTAATTC
* *
860733 AATGGGATATCAAGCACGTTTATTTAGTTGGCCATTATCGTTGTTTGGTGATCGGTAAATTCATT
1 AATGGGATATCAAGCACGTTTATTTAGTTGACCATTATCGTTGTTTGGTGATAGGTAAATTCATT
* * *
860798 CAAAATATAGGATTGTAAGTATAATTTTTTTTTATATTTCTTCTT-TTGTTTTGTCTTAATTTAT
66 CAAAATATAGGATTGTAAGTATAA-TGTTTTTTATATTTCTT-TTATTGTTATGCCTTAATTTAT
860862 ATTTTTTATTCAAATTAATTTAGGTTAAATTTTTTCTATAGATTTGTTGAAGTATGACAACACAA
129 ATTTTTTATTCAAATTAATTTAGGTTAAATTTTTTCTATAGATTTGTTGAAGTATGACAACACAA
* *
860927 AATAATCTTCTGAGACTAGATAATCAACATATTTATTCTCATTTTGAATCGTTGGTATTAGTATT
194 AATAATCTTCTGAGACTAGATAATCAACATATTTATTCTCATTTGGAATCGTTGGTATTAATATT
860992 TAATAATATTTTTTAGAATGAGTTATTAAAAAAGAGAATTATTTTTA
259 TAATAATATTTTTTAGAATGAGTTATTAAAAAAGAGAATTATTTTTA
861039 GGGTAAAGTA
Statistics
Matches: 287, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
315 83 0.29
316 202 0.70
317 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (315 bp):
AATGGGATATCAAGCACGTTTATTTAGTTGACCATTATCGTTGTTTGGTGATAGGTAAATTCATT
CAAAATATAGGATTGTAAGTATAATGTTTTTTATATTTCTTTTATTGTTATGCCTTAATTTATAT
TTTTTATTCAAATTAATTTAGGTTAAATTTTTTCTATAGATTTGTTGAAGTATGACAACACAAAA
TAATCTTCTGAGACTAGATAATCAACATATTTATTCTCATTTGGAATCGTTGGTATTAATATTTA
ATAATATTTTTTAGAATGAGTTATTAAAAAAGAGAATTATTTTTATGATTAATTC
Found at i:865490 original size:20 final size:20
Alignment explanation
Indices: 865465--865514 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
865455 GATTGAAGTA
865465 GTATCGATACTGATGTAGAG
1 GTATCGATACTGATGTAGAG
865485 GTATCGATACTGATGTAGAG
1 GTATCGATACTGATGTAGAG
865505 GTATCGATAC
1 GTATCGATAC
865515 CAAGGGTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (20 bp):
GTATCGATACTGATGTAGAG
Found at i:866098 original size:46 final size:46
Alignment explanation
Indices: 866002--866101 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 46
865992 ATTTTATTGG
* *
866002 TATGTGAAAATGTTTATATGTGAATATGTTCTATATGAAAATATTC
1 TATGTGAAAATGTTTATATGTGAAAATGTTCTATATGAAAATACTC
*
866048 TATGTGAAAATGTGTTA-A-GTGAAAAATGTTCT-TCGTGAAAATAC-C
1 TATGTGAAAATGT-TTATATGTG-AAAATGTTCTAT-ATGAAAATACTC
866093 TTATGTGAA
1 -TATGTGAA
866102 TGTACTCTAC
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
45 5 0.11
46 39 0.83
47 3 0.06
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (46 bp):
TATGTGAAAATGTTTATATGTGAAAATGTTCTATATGAAAATACTC
Found at i:874004 original size:25 final size:25
Alignment explanation
Indices: 873954--874004 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
873944 TAAAATTTAT
**
873954 AAAATTTTAGAGAAAATAAACTTAA
1 AAAATTTTAGAGAAAATAAAAATAA
*
873979 AAAATTTTATAGAAAA-AGAAAATAA
1 AAAATTTTAGAGAAAATA-AAAATAA
874004 A
1 A
874005 TTACTTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (25 bp):
AAAATTTTAGAGAAAATAAAAATAA
Found at i:874604 original size:20 final size:20
Alignment explanation
Indices: 874558--874611 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
874548 CGATTCTTGA
874558 AAATCGCAATGCGATAGTAC
1 AAATCGCAATGCGATAGTAC
* * ** *
874578 AATTCGCATTGCGATTTTCC
1 AAATCGCAATGCGATAGTAC
*
874598 AAATCGCAACGCGA
1 AAATCGCAATGCGA
874612 ATATGAAAAT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (20 bp):
AAATCGCAATGCGATAGTAC
Found at i:874621 original size:20 final size:20
Alignment explanation
Indices: 874598--874907 Score: 352
Period size: 20 Copynumber: 15.5 Consensus size: 20
874588 GCGATTTTCC
* ** *
874598 AAATCGCAACGCGAATATGA
1 AAATCGCAACGAGAATCCGT
* *
874618 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGAGAATC-CGT
* *
874638 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* *
874658 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
874678 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
874698 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
874718 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
*
874738 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
874758 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
874778 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
874798 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
874818 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
874838 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
874858 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
874878 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
874898 AAATCACAAC
1 AAATCGCAAC
874908 ACTGAAATTT
Statistics
Matches: 256, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
20 255 1.00
21 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGAGAATCCGT
Found at i:875618 original size:24 final size:24
Alignment explanation
Indices: 875579--875625 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
875569 AAATTTGGTC
875579 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
875603 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
875626 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:877118 original size:64 final size:63
Alignment explanation
Indices: 877012--877140 Score: 233
Period size: 64 Copynumber: 2.0 Consensus size: 63
877002 GTTTTGCCTC
877012 AGTGTGCTCAACACTAGAAGATGTCGGGTTTGAAAGATGGTCAAGAGTACATCAACTTGGAGCA
1 AGTGTGCTCAACACTAGAAGATGTCGGGTTTGAAAGATGGTCAAGAGTACATCAACTTGG-GCA
877076 AGTGTGCTCAAACACTAGAAGATGTCGGGTTTG-AAGATGGTCAAGAGTACATCAACTTGGGCA
1 AGTGTGCTC-AACACTAGAAGATGTCGGGTTTGAAAGATGGTCAAGAGTACATCAACTTGGGCA
877139 AG
1 AG
877141 ATATGGTTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
63 5 0.08
64 36 0.56
65 23 0.36
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.23
Consensus pattern (63 bp):
AGTGTGCTCAACACTAGAAGATGTCGGGTTTGAAAGATGGTCAAGAGTACATCAACTTGGGCA
Found at i:878141 original size:32 final size:33
Alignment explanation
Indices: 878089--878299 Score: 211
Period size: 32 Copynumber: 6.2 Consensus size: 33
878079 CGGAAATTAC
*
878089 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGA-AATCGCAATGCGAAATGAA
*
878122 AATCCCAAC-ATGAAATCGCAATGCGGAAATGAA
1 AATCGCAACAATGAAATCGCAATGC-GAAATGAA
878155 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-A
1 AATCGCAA--C--AATG-AAATCGCAATGCGAAATGAA
*
878192 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGA-AATCGCAATGCGAAATGAA
878225 AATCGCAATGCGAAATGAAATCGCAATGCG-AATGAA
1 AATCGCAA--C--AATGAAATCGCAATGCGAAATGAA
* *
878261 AATCG-AACGA-GAGAATCGCAATGCGAAATTAA
1 AATCGCAACAATGA-AATCGCAATGCGAAATGAA
878293 AATCGCA
1 AATCGCA
878300 TTGCGATTCC
Statistics
Matches: 154, Mismatches: 6, Indels: 36
0.79 0.03 0.18
Matches are distributed among these distances:
30 2 0.01
31 14 0.09
32 40 0.26
33 37 0.24
35 5 0.03
36 11 0.07
37 22 0.14
38 11 0.07
39 12 0.08
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (33 bp):
AATCGCAACAATGAAATCGCAATGCGAAATGAA
Found at i:878153 original size:19 final size:18
Alignment explanation
Indices: 878103--878305 Score: 193
Period size: 19 Copynumber: 11.7 Consensus size: 18
878093 GCAACGAGAG
878103 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-A
*
878122 AATCCCAA--C---ATGA
1 AATCGCAATGCGAAATGA
878135 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATG-A
878155 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-A
878174 AATCGCAATGCGAAATGA
1 AATCGCAATGCGAAATGA
*
878192 AATCGCAA--CGAGA-G-
1 AATCGCAATGCGAAATGA
878206 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-A
878225 AATCGCAATGCGAAATGA
1 AATCGCAATGCGAAATGA
878243 AATCGCAATGCG-AATGAA
1 AATCGCAATGCGAAATG-A
*
878261 AATCG-AA--CGAGA-G-
1 AATCGCAATGCGAAATGA
*
878274 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAA-TGA
*
878293 AATCGCATTGCGA
1 AATCGCAATGCGA
878306 TTCCCGTTGC
Statistics
Matches: 156, Mismatches: 8, Indels: 40
0.76 0.04 0.20
Matches are distributed among these distances:
13 13 0.08
14 13 0.08
15 5 0.03
16 13 0.08
17 8 0.05
18 28 0.18
19 64 0.41
20 12 0.08
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.16
Consensus pattern (18 bp):
AATCGCAATGCGAAATGA
Found at i:878229 original size:51 final size:51
Alignment explanation
Indices: 878089--878250 Score: 220
Period size: 51 Copynumber: 3.2 Consensus size: 51
878079 CGGAAATTAC
* *** *
878089 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAATCGC
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAAT-GA
* *
878141 AATGCGGAA--ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGA
1 AAT-CGCAACGA-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGA
878192 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGA
878243 AATCGCAA
1 AATCGCAA
878251 TGCGAATGAA
Statistics
Matches: 97, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
50 4 0.04
51 52 0.54
52 37 0.38
53 4 0.04
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (51 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGA
Found at i:878336 original size:19 final size:19
Alignment explanation
Indices: 878312--878408 Score: 141
Period size: 19 Copynumber: 5.4 Consensus size: 19
878302 GCGATTCCCG
*
878312 TTGCGATTTTCATTCCGCA
1 TTGCGATTTTCATTTCGCA
878331 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
878350 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
878364 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
878383 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
878402 TTGCGAT
1 TTGCGAT
878409 AGTCAAACAC
Statistics
Matches: 70, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 7 0.10
19 50 0.71
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:878383 original size:52 final size:50
Alignment explanation
Indices: 878295--878408 Score: 201
Period size: 52 Copynumber: 2.2 Consensus size: 50
878285 GAAATTAAAA
878295 TCGCATTGCGATTCCCGTTGCGATTTTCATTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCCCGTTGCGATTTTCATTCCGCATTGCGATTTTCATT
*
878345 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTC-C-CGTTGCGATTTTCATTCCGCATTGCGATTTTCATT
878397 TCGCATTGCGAT
1 TCGCATTGCGAT
878409 AGTCAAACAC
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
50 14 0.23
51 1 0.02
52 46 0.75
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.43
Consensus pattern (50 bp):
TCGCATTGCGATTCCCGTTGCGATTTTCATTCCGCATTGCGATTTTCATT
Found at i:878513 original size:14 final size:14
Alignment explanation
Indices: 878494--878530 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
878484 CATCAATTAC
878494 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
878508 ACAAATCATCTTTT
1 ACAAATCAACTTTT
878522 ACAAATCAA
1 ACAAATCAA
878531 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:880502 original size:14 final size:14
Alignment explanation
Indices: 880483--880539 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
880473 GCGAAATGAA
*
880483 AATCGCAACGACAG
1 AATCGCAACGAAAG
880497 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
880514 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
880530 AATCGCAACG
1 AATCGCAACG
880540 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:880510 original size:33 final size:33
Alignment explanation
Indices: 880464--880556 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
880454 GCGAAACCAA
*
880464 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
880497 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
880530 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
880557 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:880521 original size:19 final size:19
Alignment explanation
Indices: 880427--880561 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
880417 TAGTTTACTT
* *
880427 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
880447 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
880466 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
880485 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
880499 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
880518 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
880532 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
880551 TCGCAATGCGA
1 TCGCAACGCGA
880562 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:880579 original size:19 final size:19
Alignment explanation
Indices: 880557--880669 Score: 120
Period size: 19 Copynumber: 6.5 Consensus size: 19
880547 AAAATCGCAA
880557 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
880576 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
880590 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
880609 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
880623 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
880642 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
880661 TGCGATTTT
1 TGCGATTTT
880670 AAGTTTCGTG
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
14 22 0.29
15 1 0.01
16 2 0.03
17 2 0.03
18 2 0.03
19 48 0.62
ACGTcount: A:0.07, C:0.18, G:0.28, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:880599 original size:33 final size:33
Alignment explanation
Indices: 880557--880648 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
880547 AAAATCGCAA
880557 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
880590 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
880623 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
880649 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:881073 original size:93 final size:93
Alignment explanation
Indices: 880731--881382 Score: 1267
Period size: 93 Copynumber: 7.1 Consensus size: 93
880721 ATGGATTGCA
880731 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
880795 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
880823 TTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
880887 TAGCAGAATTGGCAGCAACCGAACAAA-
66 TAGCAGAATTGGCAGCAACCGAACAAAT
880914 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
880979 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
881007 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
881072 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
881100 TTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
881164 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
881192 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
881257 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
881285 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
881350 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
881378 TTACT
1 TTACT
881383 AAGCAATCTA
Statistics
Matches: 555, Mismatches: 1, Indels: 7
0.99 0.00 0.01
Matches are distributed among these distances:
91 19 0.03
92 240 0.43
93 296 0.53
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:881154 original size:185 final size:186
Alignment explanation
Indices: 880731--881382 Score: 1267
Period size: 185 Copynumber: 3.5 Consensus size: 186
880721 ATGGATTGCA
880731 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
880795 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
880859 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAA-
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
880914 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
880979 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
881044 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
881100 TTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
881164 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
881229 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
131 ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
881285 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
881350 TAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 TAGCAGAATTGGCAGCAACCGAACAAATTTACT
881383 AAGCAATCTA
Statistics
Matches: 464, Mismatches: 1, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
183 4 0.01
184 107 0.23
185 257 0.55
186 96 0.21
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACT
ATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:883106 original size:14 final size:14
Alignment explanation
Indices: 883087--883176 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
883077 TTGAAATGAA
883087 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
883101 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
883120 AATCGCAACTAGAG
1 AATCGCAACGAGAG
*
883134 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
883153 AATCGCAACGAGAG
1 AATCGCAACGAGAG
883167 AATCGCAACG
1 AATCGCAACG
883177 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 30 0.50
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 20 0.33
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:883119 original size:33 final size:33
Alignment explanation
Indices: 883079--883193 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
883069 TCTTTTGGTT
883079 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
883112 GAAATGAAAATCGCAACTAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
883145 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
883178 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
883194 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:883125 original size:19 final size:19
Alignment explanation
Indices: 883101--883198 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
883091 GCAACGAGAG
883101 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
883120 AATCGCAA--C--TA-GAG
1 AATCGCAACGCGAAATGAA
883134 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
883153 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
883167 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
883186 AATCGCAATGCGA
1 AATCGCAACGCGA
883199 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 32 0.52
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:883229 original size:14 final size:14
Alignment explanation
Indices: 883210--883265 Score: 67
Period size: 14 Copynumber: 3.7 Consensus size: 14
883200 TTTGGTTTCG
883210 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
883224 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTC---TCT
883242 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
883256 CGTTGCGATT
1 CGTTGCGATT
883266 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 20 0.56
15 3 0.08
17 3 0.08
18 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:883244 original size:32 final size:33
Alignment explanation
Indices: 883194--883273 Score: 135
Period size: 32 Copynumber: 2.5 Consensus size: 33
883184 AAAATCGCAA
**
883194 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
883227 TGCGA-TTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
883259 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
883274 TCTCGTTGCG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 30 0.68
33 14 0.32
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:883247 original size:18 final size:17
Alignment explanation
Indices: 883205--883251 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
883195 GCGATTTTGG
883205 TTTCGCGTTGCGA-TTC
1 TTTCGCGTTGCGATTTC
*
883221 --TCTCGTTGCGATTTC
1 TTTCGCGTTGCGATTTC
883236 ATTTCGCGTTGCGATT
1 -TTTCGCGTTGCGATT
883252 CTCTCGTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
18 12 0.48
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.45
Consensus pattern (17 bp):
TTTCGCGTTGCGATTTC
Found at i:883294 original size:41 final size:41
Alignment explanation
Indices: 883249--883326 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
883239 TCGCGTTGCG
*
883249 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
883290 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
883327 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:883311 original size:20 final size:21
Alignment explanation
Indices: 883250--883325 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
883240 CGCGTTGCGA
883250 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
883271 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
883291 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
883312 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
883326 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:883447 original size:33 final size:33
Alignment explanation
Indices: 883405--883475 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
883395 AATACTAACT
*
883405 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
883438 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
883471 TGAAA
1 TGAAA
883476 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:883709 original size:22 final size:22
Alignment explanation
Indices: 883657--883711 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
883647 TGGTTGTGAG
**
883657 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
883679 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
883701 GGATTTCTTCG
1 GGATTTCTTCG
883712 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:883884 original size:20 final size:20
Alignment explanation
Indices: 883859--884011 Score: 166
Period size: 20 Copynumber: 7.6 Consensus size: 20
883849 TTTAAATATT
883859 GCGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
* *
883879 GCGTTGCGATTTTATGTATTA-
1 GCGTTGCGA-TTTACGGA-TAC
*
883900 TCGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
*
883920 GCGTTGCGATATACGGATAC
1 GCGTTGCGATTTACGGATAC
*
883940 ACGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
* *
883960 GCGTTGCGATTTATGTG-TTC
1 GCGTTGCGATTTACG-GATAC
* ** *
883980 GCGTTGCGATTTTCATATTC
1 GCGTTGCGATTTACGGATAC
884000 GCGTTGCGATTT
1 GCGTTGCGATTT
884012 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 93 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
GCGTTGCGATTTACGGATAC
Found at i:884028 original size:21 final size:21
Alignment explanation
Indices: 883998--884080 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
883988 ATTTTCATAT
*
883998 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
884019 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
884040 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
884061 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
884081 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:884071 original size:42 final size:43
Alignment explanation
Indices: 883978--884076 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
883968 ATTTATGTGT
* *
883978 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
884019 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
884061 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
884077 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:885515 original size:17 final size:18
Alignment explanation
Indices: 885476--885522 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
885466 TGTTTTTGAG
885476 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
* *
885494 GGAATTGAAATCTGT-CA
1 GGAATTGGAATCTGTGAA
885511 GGAATTGGAATC
1 GGAATTGGAATC
885523 CAATTCCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:886210 original size:166 final size:170
Alignment explanation
Indices: 885934--886279 Score: 574
Period size: 166 Copynumber: 2.0 Consensus size: 170
885924 TGAATTAGAA
885934 ACCCGACCCAAAATAATAAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAA
1 ACCCGACCCAAAATAAT-AAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAA
* * *
885999 TTATATATATAAGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATAT-TTTT-
65 TTATATATAGAAGAGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTG
*
886062 T-AGGTCGGGTCGGGTATTTTTCACCCTAAACCCGAACCCG
130 TCAGGTCAGGTCGGGTATTTTTCACCCTAAACCCGAACCCG
886102 ACCCGACCCAAAATAAT-AAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAAT
1 ACCCGACCCAAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAAT
*
886166 TATATATAGATGAGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCG
66 TATATATAGAAGAGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATATTTT--
*
886231 GGTCTGGTCAGGTCGGGTATTTTTCACCCTAAACCCGAACCCG
129 -GTCAGGTCAGGTCGGGTATTTTTCACCCTAAACCCGAACCCG
886274 ACCCGA
1 ACCCGA
886280 ATATCACACT
Statistics
Matches: 166, Mismatches: 6, Indels: 8
0.92 0.03 0.04
Matches are distributed among these distances:
166 101 0.61
167 4 0.02
168 17 0.10
171 1 0.01
172 43 0.26
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (170 bp):
ACCCGACCCAAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAAT
TATATATAGAAGAGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTGT
CAGGTCAGGTCGGGTATTTTTCACCCTAAACCCGAACCCG
Found at i:895861 original size:15 final size:16
Alignment explanation
Indices: 895834--895864 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
895824 AGAAAAATCC
895834 AACCCGATCGGGTCGG
1 AACCCGATCGGGTCGG
895850 AACCCG-TCGGGTCGG
1 AACCCGATCGGGTCGG
895865 GTTTAAATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.16, C:0.32, G:0.39, T:0.13
Consensus pattern (16 bp):
AACCCGATCGGGTCGG
Found at i:899530 original size:30 final size:30
Alignment explanation
Indices: 899494--899557 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
899484 CACATAGTGA
899494 AAATGGGATCCGATTGAACATGTTGGAATC
1 AAATGGGATCCGATTGAACATGTTGGAATC
899524 AAATGGGATCCGATTGAACATGTTGGAATC
1 AAATGGGATCCGATTGAACATGTTGGAATC
899554 AAAT
1 AAAT
899558 CTCCGACATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (30 bp):
AAATGGGATCCGATTGAACATGTTGGAATC
Found at i:907221 original size:31 final size:31
Alignment explanation
Indices: 907183--907244 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
907173 TACCTAAATG
* *
907183 GTCCCTCGATTATAGAACATTATTTTGTTGA
1 GTCCCTCGACTATAGAACATTACTTTGTTGA
**
907214 GTCCCTCGACTATAGAGTATTACTTTGTTGA
1 GTCCCTCGACTATAGAACATTACTTTGTTGA
907245 TCGTCTCTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (31 bp):
GTCCCTCGACTATAGAACATTACTTTGTTGA
Found at i:912746 original size:17 final size:18
Alignment explanation
Indices: 912724--912759 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
912714 CTACCTACCA
*
912724 TATAAATTTTGG-ATAAT
1 TATAAATTTAGGTATAAT
912741 TATAAATTTAGGTATAAT
1 TATAAATTTAGGTATAAT
912759 T
1 T
912760 TAACTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (18 bp):
TATAAATTTAGGTATAAT
Found at i:915030 original size:31 final size:31
Alignment explanation
Indices: 914992--915207 Score: 398
Period size: 31 Copynumber: 7.0 Consensus size: 31
914982 CCCGAAGGAC
* *
914992 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
915023 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
915054 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
915085 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
915116 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
915147 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
915178 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
915208 CCCTCGACCC
Statistics
Matches: 182, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
31 181 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:919446 original size:31 final size:31
Alignment explanation
Indices: 919408--919623 Score: 398
Period size: 31 Copynumber: 7.0 Consensus size: 31
919398 CCCGAAGGAC
* *
919408 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
919439 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
919470 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
919501 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
919532 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
919563 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
919594 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
919624 CCCTCGACCC
Statistics
Matches: 182, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
31 181 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:923085 original size:42 final size:39
Alignment explanation
Indices: 922987--923089 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 39
922977 TTTTTAATAT
* * *
922987 TATTAAAAATATATT-CTTTAATTATTCAAAATATAAAA
1 TATTATAAATATATTATTTTAATCATTCAAAATATAAAA
* *
923025 TATTATAAAATATTTTATTTTAATCATTTAAAATATAATAAA
1 TATTAT-AAATATATTATTTTAATCATTCAAAATAT-A-AAA
923067 TAATTATAAATATATTATTTTAA
1 T-ATTATAAATATATTATTTTAA
923090 AATATTAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
38 5 0.09
39 8 0.15
40 16 0.30
41 1 0.02
42 19 0.35
43 5 0.09
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (39 bp):
TATTATAAATATATTATTTTAATCATTCAAAATATAAAA
Found at i:923390 original size:17 final size:17
Alignment explanation
Indices: 923362--923395 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
923352 TGTGCTTGTC
923362 AAATACTATTTTAATTTT
1 AAATACTATTTT-ATTTT
923380 AAATA-TATTTTATTTT
1 AAATACTATTTTATTTT
923396 GCTACAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
AAATACTATTTTATTTT
Found at i:924610 original size:68 final size:67
Alignment explanation
Indices: 924526--924676 Score: 196
Period size: 68 Copynumber: 2.2 Consensus size: 67
924516 ACTGTTCGAA
* * * *
924526 TCGACTCGTTATTCGTTAAACTCGTTAAAATTTTGCTCGAGTCATACTCGTTAAAAAATTTTTGT
1 TCGACTCGTTACTCGTTAAACTCGTTAAAATTTTACTCGACTCATACTCGTTAAAAAA-ATTTGT
924591 TAC
65 TAC
* * **
924594 TCGACTCGTTACTCGTTAAACTTGTTAAAATTTTACTCGACTCGTGTTCGTTAAAAAAATTTGTT
1 TCGACTCGTTACTCGTTAAACTCGTTAAAATTTTACTCGACTCATACTCGTTAAAAAAATTTGTT
924659 AC
66 AC
*
924661 -CTGACTCGTTGCTCGT
1 TC-GACTCGTTACTCGT
924677 CACTCATTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
66 1 0.01
67 21 0.29
68 51 0.70
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (67 bp):
TCGACTCGTTACTCGTTAAACTCGTTAAAATTTTACTCGACTCATACTCGTTAAAAAAATTTGTT
AC
Found at i:932929 original size:2 final size:2
Alignment explanation
Indices: 932922--933005 Score: 150
Period size: 2 Copynumber: 42.0 Consensus size: 2
932912 ATGGATTTTC
932922 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
* *
932964 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT 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
933006 GAGGGCTGGT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:944602 original size:18 final size:19
Alignment explanation
Indices: 944567--944603 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
944557 CACAGAATGT
944567 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
944587 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
944604 GATTACTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:944824 original size:36 final size:37
Alignment explanation
Indices: 944749--944825 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 37
944739 AACAAGTTGA
* *
944749 AAAATTTTATATATTTTCTTTAAAAATTTAAATTCAT
1 AAAATTTTATATATTTTCTTTAAAAATTGAAAATCAT
*
944786 AAAA-TTTATATATTTTTTTTACAAAATTGAAAAT-AT
1 AAAATTTTATATATTTTCTTTA-AAAATTGAAAATCAT
944822 AAAA
1 AAAA
944826 AGGTTTAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 22 0.61
37 14 0.39
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
AAAATTTTATATATTTTCTTTAAAAATTGAAAATCAT
Found at i:947088 original size:38 final size:38
Alignment explanation
Indices: 947027--947100 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 38
947017 AGGGAATGTC
947027 ATATCTAATTAAACCTTAGTGAAAAGGGTAATAAAAAG
1 ATATCTAATTAAACCTTAGTGAAAAGGGTAATAAAAAG
**
947065 ATATCTAATTACCCCTTCA-TGAAAAGGGTAATAAAA
1 ATATCTAATTAAACCTT-AGTGAAAAGGGTAATAAAA
947101 TAAACTCAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 32 0.97
39 1 0.03
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (38 bp):
ATATCTAATTAAACCTTAGTGAAAAGGGTAATAAAAAG
Found at i:953391 original size:28 final size:28
Alignment explanation
Indices: 953351--953405 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
953341 AAATCATCCA
953351 CAAAGACTAGAAACTGCTAGTAATTCAC
1 CAAAGACTAGAAACTGCTAGTAATTCAC
953379 CAAAGACTAGAAACTGCTAGTAATTCA
1 CAAAGACTAGAAACTGCTAGTAATTCA
953406 TTCTTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.22
Consensus pattern (28 bp):
CAAAGACTAGAAACTGCTAGTAATTCAC
Found at i:955825 original size:14 final size:14
Alignment explanation
Indices: 955806--955835 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
955796 GAACTCAACT
955806 TTTCCAGATTACCA
1 TTTCCAGATTACCA
*
955820 TTTCCATATTACCA
1 TTTCCAGATTACCA
955834 TT
1 TT
955836 CGTCGGATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.03, T:0.43
Consensus pattern (14 bp):
TTTCCAGATTACCA
Found at i:956998 original size:34 final size:34
Alignment explanation
Indices: 956955--957033 Score: 140
Period size: 34 Copynumber: 2.3 Consensus size: 34
956945 TTTCGCAAAA
*
956955 ATTAATATTTTGTATTCTCAATTTGTTCTCATCG
1 ATTAATATTTCGTATTCTCAATTTGTTCTCATCG
*
956989 ATTAATATTTCGTATTGTCAATTTGTTCTCATCG
1 ATTAATATTTCGTATTCTCAATTTGTTCTCATCG
957023 ATTAATATTTC
1 ATTAATATTTC
957034 TGTTATATGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.25, C:0.14, G:0.09, T:0.52
Consensus pattern (34 bp):
ATTAATATTTCGTATTCTCAATTTGTTCTCATCG
Found at i:957886 original size:36 final size:36
Alignment explanation
Indices: 957833--957964 Score: 239
Period size: 36 Copynumber: 3.7 Consensus size: 36
957823 AATTACATCC
957833 ACTTTAGC-TTAGGTAAAAGCTTAAACGTAATATGA
1 ACTTTAGCTTTAGGTAAAAGCTTAAACGTAATATGA
957868 ACTTTAGCTTTAGGTAAAAGCTTAAACGTAATATGA
1 ACTTTAGCTTTAGGTAAAAGCTTAAACGTAATATGA
* *
957904 ACTTTAGCTTTAGGTAAAAGCTCATACGTAATATGA
1 ACTTTAGCTTTAGGTAAAAGCTTAAACGTAATATGA
957940 ACTTTAGCTTTAGGTAAAAGCTTAA
1 ACTTTAGCTTTAGGTAAAAGCTTAA
957965 TACTTATGAA
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
35 8 0.09
36 84 0.91
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (36 bp):
ACTTTAGCTTTAGGTAAAAGCTTAAACGTAATATGA
Found at i:957990 original size:13 final size:13
Alignment explanation
Indices: 957972--958009 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
957962 TAATACTTAT
957972 GAAATAAAATTGA
1 GAAATAAAATTGA
957985 GAAATAAAATTGA
1 GAAATAAAATTGA
*
957998 AAAATAAAATTG
1 GAAATAAAATTG
958010 TTTAGAATTG
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:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (13 bp):
GAAATAAAATTGA
Found at i:968718 original size:3 final size:3
Alignment explanation
Indices: 968710--968747 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
968700 TTTTGATCCC
* *
968710 TCT TCT TCT TCT TCT TCT TCA TCT TCT TCA TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
968748 AAGCTCTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.05, C:0.34, G:0.00, T:0.61
Consensus pattern (3 bp):
TCT
Found at i:975254 original size:22 final size:22
Alignment explanation
Indices: 975229--975276 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
975219 CGAATGGTGA
975229 CAAACAATGCATCTAATTATGT
1 CAAACAATGCATCTAATTATGT
975251 CAAACAATGCATCTAATTATGT
1 CAAACAATGCATCTAATTATGT
975273 CAAA
1 CAAA
975277 GCCAATAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (22 bp):
CAAACAATGCATCTAATTATGT
Found at i:979510 original size:19 final size:18
Alignment explanation
Indices: 979486--979535 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 18
979476 AATGACCAAT
979486 AAAATCGCAACGCGATATC
1 AAAATCGCAACGCGAT-TC
*
979505 AAAATCGCAACGCGATTT
1 AAAATCGCAACGCGATTC
979523 AGAAATCGCAACG
1 A-AAATCGCAACG
979536 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 2 0.07
19 27 0.93
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (18 bp):
AAAATCGCAACGCGATTC
Found at i:979550 original size:20 final size:20
Alignment explanation
Indices: 979525--979575 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
979515 CGCGATTTAG
*
979525 AAATCGCAACGTTAAAAAGA
1 AAATCGCAACGGTAAAAAGA
*
979545 AAATCGCAACGGTCAAAAGA
1 AAATCGCAACGGTAAAAAGA
979565 AAATCGCAACG
1 AAATCGCAACG
979576 CGAGCTTCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.51, C:0.20, G:0.18, T:0.12
Consensus pattern (20 bp):
AAATCGCAACGGTAAAAAGA
Found at i:979635 original size:20 final size:20
Alignment explanation
Indices: 979610--979816 Score: 242
Period size: 20 Copynumber: 10.4 Consensus size: 20
979600 TTTAGAAGAA
*
979610 AATCGCAATGCGATTGATAG
1 AATCGCAATGCGATTGAGAG
* *
979630 AATCGCAATGCGATTTATAG
1 AATCGCAATGCGATTGAGAG
979650 AATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAG
* * *
979670 AGTCGCAACGCGATTTAGAAGAA
1 AATCGCAATGCGA-TT-G-AGAG
*
979693 AATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAG
*
979713 AATCGCAATGCGACTGAG-G
1 AATCGCAATGCGATTGAGAG
*
979732 AATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAG
* * *
979752 AATCGCATTGCGATTTATAG
1 AATCGCAATGCGATTGAGAG
979772 AATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAG
*
979792 -ATCGCAACGCGATT-AGA-
1 AATCGCAATGCGATTGAGAG
979809 AATCGCAA
1 AATCGCAA
979817 CGTTAAAAGA
Statistics
Matches: 164, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
18 10 0.06
19 32 0.20
20 103 0.63
21 3 0.02
22 2 0.01
23 14 0.09
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (20 bp):
AATCGCAATGCGATTGAGAG
Found at i:979691 original size:83 final size:82
Alignment explanation
Indices: 979589--979805 Score: 298
Period size: 83 Copynumber: 2.7 Consensus size: 82
979579 GCTTCCAAGT
* *
979589 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTGA-AGAATC
* *
979654 GCAATGCGATTGAGAGAG
65 GCAATGCGACTGAGAGAA
* * *
979672 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGGAATCG
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAAGAATCG
979737 CAATGCGACTGAGAGAA
66 CAATGCGACTGAGAGAA
** * *
979754 TCGCATTGCGATTTA-TAG--AATCGCAATGCGATTGAGAG-ATCGCAACGCGATT
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGATT
979806 AGAAATCGCA
Statistics
Matches: 121, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
78 12 0.10
79 19 0.16
81 2 0.02
82 34 0.28
83 54 0.45
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (82 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAAGAATCG
CAATGCGACTGAGAGAA
Found at i:979844 original size:19 final size:19
Alignment explanation
Indices: 979808--979846 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
979798 ACGCGATTAG
*
979808 AAATCGCAACGTTAAAAGA
1 AAATCGCAACGGTAAAAGA
*
979827 AAATCGCAACGGTCAAAGA
1 AAATCGCAACGGTAAAAGA
979846 A
1 A
979847 TAGGTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.13
Consensus pattern (19 bp):
AAATCGCAACGGTAAAAGA
Found at i:979933 original size:6 final size:6
Alignment explanation
Indices: 979922--979975 Score: 87
Period size: 6 Copynumber: 9.5 Consensus size: 6
979912 GACACGTATT
979922 ACCACG ACCACG ACCACG ACC-CG ACCACG A-CACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
979968 ACC-CG ACC
1 ACCACG ACC
979976 CGAGACAGAC
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
5 15 0.33
6 31 0.67
ACGTcount: A:0.31, C:0.52, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:979948 original size:17 final size:17
Alignment explanation
Indices: 979922--979975 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
979912 GACACGTATT
979922 ACCACGACCACGACCACG
1 ACCACGACCACGACC-CG
*
979940 ACC-CGACCACGACACG
1 ACCACGACCACGACCCG
979956 ACCACGACCACGACCCG
1 ACCACGACCACGACCCG
979973 ACC
1 ACC
979976 CGAGACAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
16 5 0.15
17 25 0.76
18 3 0.09
ACGTcount: A:0.31, C:0.52, G:0.17, T:0.00
Consensus pattern (17 bp):
ACCACGACCACGACCCG
Found at i:980662 original size:6 final size:6
Alignment explanation
Indices: 980651--980725 Score: 150
Period size: 6 Copynumber: 12.5 Consensus size: 6
980641 GTCTCGTCTC
980651 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
980699 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
980726 AATACGTGTC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:980858 original size:20 final size:20
Alignment explanation
Indices: 980835--980985 Score: 176
Period size: 20 Copynumber: 7.4 Consensus size: 20
980825 ATTTTCAACG
* *
980835 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTCAATCGCA
*
980855 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCA
*
980875 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCA
* *
980895 TTGCGATTTTCTTCTAAATCGCG
1 TTGCGA--TTC-TCTCAATCGCA
*
980918 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTCTCAATCGCA
* * *
980938 TTGCGATTATATAAATCGCA
1 TTGCGATTCTCTCAATCGCA
*
980958 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTCTCAATCGCA
980978 TTGCGATT
1 TTGCGATT
980986 TTCTTCTAAA
Statistics
Matches: 113, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
20 94 0.83
21 2 0.02
22 3 0.03
23 14 0.12
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (20 bp):
TTGCGATTCTCTCAATCGCA
Found at i:980937 original size:83 final size:83
Alignment explanation
Indices: 980833--981006 Score: 267
Period size: 83 Copynumber: 2.1 Consensus size: 83
980823 TTATTTTCAA
* * * * * * *
980833 CGTTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCATTG
1 CGTTGCGACTCTATAAATCGCATTGCGATTATATAAATCGCATTGCGATTCTATCAATCGCATTG
980898 CGATTTTCTTCTAAATCG
66 CGATTTTCTTCTAAATCG
* *
980916 CGTTGCGACTCTCTCAATCGCATTGCGATTATATAAATCGCATTGCGATTCTATCAATCGCATTG
1 CGTTGCGACTCTATAAATCGCATTGCGATTATATAAATCGCATTGCGATTCTATCAATCGCATTG
980981 CGATTTTCTTCTAAATCG
66 CGATTTTCTTCTAAATCG
980999 CGTTGCGA
1 CGTTGCGA
981007 ACTTGGAAGC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (83 bp):
CGTTGCGACTCTATAAATCGCATTGCGATTATATAAATCGCATTGCGATTCTATCAATCGCATTG
CGATTTTCTTCTAAATCG
Found at i:981006 original size:63 final size:60
Alignment explanation
Indices: 980835--980985 Score: 187
Period size: 63 Copynumber: 2.5 Consensus size: 60
980825 ATTTTCAACG
* * * * * *
980835 TTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTATCAATCGCATTGCGATTCTCTCAATCGCATTGCGATTATATAAATCGCA
* *
980895 TTGCGATTTTCT-TCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTATATAAATCGCA
1 TTGCGA--TTCTATC--AATCGCATTGCGATTCTCTCAATCGCATTGCGATTATATAAATCGCA
980958 TTGCGATTCTATCAATCGCATTGCGATT
1 TTGCGATTCTATCAATCGCATTGCGATT
980986 TTCTTCTAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
60 19 0.25
61 5 0.07
62 6 0.08
63 46 0.61
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (60 bp):
TTGCGATTCTATCAATCGCATTGCGATTCTCTCAATCGCATTGCGATTATATAAATCGCA
Found at i:981083 original size:20 final size:20
Alignment explanation
Indices: 980833--981129 Score: 143
Period size: 20 Copynumber: 14.6 Consensus size: 20
980823 TTATTTTCAA
* *
980833 CGTTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
980853 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * * *
980873 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
*
980893 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
* * *
980916 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
980936 CATTGCGATTATATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
980956 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
980976 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
980999 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
981020 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
981038 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
981060 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
981080 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
* *
981099 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
981118 CGTTGCGATTTT
1 CGTTGCGATTTT
981130 ATTGGTCATT
Statistics
Matches: 224, Mismatches: 42, Indels: 23
0.78 0.15 0.08
Matches are distributed among these distances:
18 2 0.01
19 36 0.16
20 138 0.62
21 14 0.06
22 6 0.03
23 28 0.12
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:981100 original size:19 final size:19
Alignment explanation
Indices: 981060--981129 Score: 113
Period size: 19 Copynumber: 3.6 Consensus size: 19
981050 TTCTTTTTAA
* *
981060 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTT-GATATCG
981080 CGTTGCGATTTTGATATCG
1 CGTTGCGATTTTGATATCG
981099 CGTTGCGATTTTGATATCG
1 CGTTGCGATTTTGATATCG
981118 CGTTGCGATTTT
1 CGTTGCGATTTT
981130 ATTGGTCATT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 36 0.75
20 12 0.25
ACGTcount: A:0.16, C:0.17, G:0.24, T:0.43
Consensus pattern (19 bp):
CGTTGCGATTTTGATATCG
Found at i:982813 original size:19 final size:19
Alignment explanation
Indices: 982777--982819 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
982767 TTAAGTTTGG
* *
982777 AGATATACATCGAGTTTTA
1 AGATATACATCAAATTTTA
*
982796 AGATATATATCAAATTTTA
1 AGATATACATCAAATTTTA
*
982815 GGATA
1 AGATA
982820 CATCACAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (19 bp):
AGATATACATCAAATTTTA
Found at i:983204 original size:40 final size:40
Alignment explanation
Indices: 983155--983261 Score: 196
Period size: 40 Copynumber: 2.7 Consensus size: 40
983145 ATACTTAAAG
*
983155 TTTAGTTTTTGTTTCATTTTAATACTCTGCATTTAAAAAC
1 TTTAGTTTTTGTTTCATTTTAGTACTCTGCATTTAAAAAC
*
983195 TTTAGTTTTTGTTTCATTTTAGTACTCTGCCTTTAAAAAC
1 TTTAGTTTTTGTTTCATTTTAGTACTCTGCATTTAAAAAC
983235 TTTAGTTTTTGTTTCATTTTAGTACTC
1 TTTAGTTTTTGTTTCATTTTAGTACTC
983262 ATTCAAAATT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.22, C:0.13, G:0.09, T:0.55
Consensus pattern (40 bp):
TTTAGTTTTTGTTTCATTTTAGTACTCTGCATTTAAAAAC
Found at i:984324 original size:21 final size:20
Alignment explanation
Indices: 984242--984344 Score: 55
Period size: 21 Copynumber: 5.0 Consensus size: 20
984232 CGCAAATCAG
984242 TTTCCAAAATCGCAACGCGAT
1 TTTCC-AAATCGCAACGCGAT
* *
984263 TCTT-GACAATCGCAATGCGAT
1 T-TTCCA-AATCGCAACGCGAT
** * **
984284 AGTACAAATTCGCATTGCGAT
1 TTTCCAAA-TCGCAACGCGAT
*
984305 TTTCCAGAATCGCAACGCGAA
1 TTTCCA-AATCGCAACGCGAT
* **
984326 TATGAAAATCGCAACGCGA
1 TTTCCAAATCGCAACGCGA
984345 ACACATAAAT
Statistics
Matches: 62, Mismatches: 15, Indels: 11
0.70 0.17 0.12
Matches are distributed among these distances:
20 17 0.27
21 41 0.66
22 4 0.06
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
TTTCCAAATCGCAACGCGAT
Found at i:984337 original size:20 final size:20
Alignment explanation
Indices: 984312--984524 Score: 286
Period size: 20 Copynumber: 10.6 Consensus size: 20
984302 GATTTTCCAG
* ** *
984312 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
984332 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
984352 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
984372 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
984392 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
984412 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
984432 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
984452 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
984472 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
984493 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
984513 AATCGCAACGCG
1 AATCGCAACGCG
984525 ATTTTTAAAG
Statistics
Matches: 171, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
19 1 0.01
20 151 0.88
21 19 0.11
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:984936 original size:31 final size:32
Alignment explanation
Indices: 984901--984969 Score: 113
Period size: 33 Copynumber: 2.2 Consensus size: 32
984891 TTCACTTAGA
984901 TTTCATTTCGCGTT-AATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTCAATTCTCTCGTTGCGAT
*
984932 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTT-CAATTCTCTCGTTGCGAT
984965 TTTCA
1 TTTCA
984970 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 14 0.40
33 21 0.60
ACGTcount: A:0.12, C:0.23, G:0.16, T:0.49
Consensus pattern (32 bp):
TTTCATTTCGCGTTCAATTCTCTCGTTGCGAT
Found at i:985110 original size:41 final size:40
Alignment explanation
Indices: 985049--985140 Score: 123
Period size: 41 Copynumber: 2.3 Consensus size: 40
985039 TGCAGAAGAG
* **
985049 TCGCAACGAGATAAATGAAAACCGCAACGTGAAAATGACTA
1 TCGCAACGAGATAAATGAAAACCGCAACGCG-AAATGAAAA
*
985090 TCTGCAACGAGA-AAATGAAAATCGCAACGCGAAATGAAAA
1 TC-GCAACGAGATAAATGAAAACCGCAACGCGAAATGAAAA
985130 TCGCAACGAGA
1 TCGCAACGAGA
985141 GAATCGCAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
39 9 0.20
40 9 0.20
41 19 0.41
42 9 0.20
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.13
Consensus pattern (40 bp):
TCGCAACGAGATAAATGAAAACCGCAACGCGAAATGAAAA
Found at i:985126 original size:19 final size:20
Alignment explanation
Indices: 985049--985140 Score: 114
Period size: 21 Copynumber: 4.5 Consensus size: 20
985039 TGCAGAAGAG
985049 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* * **
985070 CCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
985090 TCTGCAACGAGAAAATGAAAA
1 TC-GCAACGAGAAAATGAAAA
*
985111 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
985130 TCGCAACGAGA
1 TCGCAACGAGA
985141 GAATCGCAAC
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
19 18 0.31
20 15 0.25
21 26 0.44
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:985185 original size:19 final size:19
Alignment explanation
Indices: 985163--985257 Score: 101
Period size: 19 Copynumber: 5.1 Consensus size: 19
985153 GAAACCAAAA
*
985163 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
985182 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
985196 TCTCGTTGCGATTTTGCGATT
1 TCGCGTTGCGATTTT-C-ATT
*
985217 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
985237 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
985256 TC
1 TC
985258 TCTCGTTGCG
Statistics
Matches: 65, Mismatches: 3, Indels: 16
0.77 0.04 0.19
Matches are distributed among these distances:
14 10 0.15
16 2 0.03
17 4 0.06
19 30 0.46
20 3 0.05
21 1 0.02
22 15 0.23
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:985204 original size:14 final size:14
Alignment explanation
Indices: 985185--985230 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
985175 TTTCATTTCG
985185 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
985199 CGTTGCGA---T-T
1 CGTTGCGATTCTCT
985209 --TTGCGATTCTCT
1 CGTTGCGATTCTCT
985221 CGTTGCGATT
1 CGTTGCGATT
985231 TTCATTTCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
8 6 0.23
10 1 0.04
11 2 0.08
12 1 0.04
14 16 0.62
ACGTcount: A:0.09, C:0.24, G:0.24, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:985215 original size:22 final size:20
Alignment explanation
Indices: 985192--985296 Score: 122
Period size: 20 Copynumber: 5.2 Consensus size: 20
985182 TCGCGTTGCG
985192 ATTCTCTCGTTGCGATTTTGC
1 ATTCTCTCGTTGCGATTTT-C
985213 GATTCTCTCGTTGCGATTTTC
1 -ATTCTCTCGTTGCGATTTTC
*
985234 ATT-TCGCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
***
985253 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTTTC
* *
985274 CTTCTCTCGTTGCGATTTCC
1 ATTCTCTCGTTGCGATTTTC
985294 ATT
1 ATT
985297 TCAACCAAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.23
20 22 0.31
21 13 0.19
22 19 0.27
ACGTcount: A:0.10, C:0.26, G:0.18, T:0.46
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:985285 original size:41 final size:41
Alignment explanation
Indices: 985192--985298 Score: 128
Period size: 41 Copynumber: 2.6 Consensus size: 41
985182 TCGCGTTGCG
***
985192 ATTCTCTCGTTGCGATTTTGCGA-TTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTT-C-ATTTCTCTCGTTGCGACAGTC
*
985234 ATT-TCGCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
* *
985274 CTTCTCTCGTTGCGATTTCCATTTC
1 ATTCTCTCGTTGCGATTTTCATTTC
985299 AACCAAAAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
39 1 0.02
40 19 0.34
41 33 0.59
42 3 0.05
ACGTcount: A:0.10, C:0.26, G:0.18, T:0.46
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
Found at i:987240 original size:93 final size:93
Alignment explanation
Indices: 986957--987269 Score: 580
Period size: 93 Copynumber: 3.4 Consensus size: 93
986947 TAGATTGCTT
*
986957 AGTAAATTTATTCGGTTGCTGCCAATTCT-CTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
987021 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
987048 AGTAAATTTGTTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT-ACACTG-GAAATAGT
1 AGTAAATTTG-TTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGT
987111 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
65 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
987140 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
987205 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
987233 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
987270 AATACCCTGA
Statistics
Matches: 216, Mismatches: 1, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
91 56 0.26
92 68 0.31
93 92 0.43
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:987450 original size:32 final size:33
Alignment explanation
Indices: 987367--987454 Score: 115
Period size: 33 Copynumber: 2.7 Consensus size: 33
987357 AGTTTACTTT
* * *
987367 GCAACACGAAACTTAAAATCGCAACGAGAGAATC
1 GCAACGCGAAAC-CAAAATCGCAACGACAGAATC
**
987401 GCAACGCGAAATGAAAATCGCAACGACAGAATC
1 GCAACGCGAAACCAAAATCGCAACGACAGAATC
987434 GC-ACGCGAAACCAAAATCGCA
1 GCAACGCGAAACCAAAATCGCA
987455 TTGCGATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
32 17 0.35
33 21 0.44
34 10 0.21
ACGTcount: A:0.45, C:0.26, G:0.19, T:0.09
Consensus pattern (33 bp):
GCAACGCGAAACCAAAATCGCAACGACAGAATC
Found at i:987512 original size:33 final size:33
Alignment explanation
Indices: 987455--987586 Score: 156
Period size: 33 Copynumber: 3.8 Consensus size: 33
987445 CAAAATCGCA
987455 TTGCGATTTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTT-ATTTCGCGTTGCGATTCTCTCG
* *
987489 TTGCGATTTTTATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
* *
987522 TTGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCTCG
1 TTGCGATTTTTATTTCGCGTTGCGA---T--TCTCTCG
* *
987560 TTGCGATTCTCATTTCGCGTTGCGATT
1 TTGCGATTTTTATTTCGCGTTGCGATT
987587 TTAAGTTTCG
Statistics
Matches: 86, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
33 44 0.51
34 11 0.13
35 1 0.01
36 1 0.01
38 29 0.34
ACGTcount: A:0.10, C:0.20, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
Found at i:987513 original size:19 final size:19
Alignment explanation
Indices: 987450--987604 Score: 96
Period size: 19 Copynumber: 8.6 Consensus size: 19
987440 GAAACCAAAA
*
987450 TCGCATTGCGATTTTTCATT
1 TCGCGTTGCGATTTTT-ATT
*
987470 TCGCGTTGCGA----T-TC
1 TCGCGTTGCGATTTTTATT
*
987484 TCTCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTTATT
* * *
987503 TCGCATTGCGA---TTCTG
1 TCGCGTTGCGATTTTTATT
*
987519 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTTATT
**
987536 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTTATT
* * *
987555 TCTCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTTATT
*
987574 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTTA-TT
*
987594 TCGTGTTGCGA
1 TCGCGTTGCGA
987605 AAGTAAAACA
Statistics
Matches: 102, Mismatches: 22, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
14 18 0.18
16 5 0.05
17 3 0.03
18 1 0.01
19 53 0.52
20 22 0.22
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTTATT
Found at i:989506 original size:14 final size:14
Alignment explanation
Indices: 989487--989522 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
989477 ATTGTTTAAT
989487 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
989501 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
989515 TGATTTGT
1 TGATTTGT
989523 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:989704 original size:20 final size:19
Alignment explanation
Indices: 989628--989722 Score: 119
Period size: 19 Copynumber: 5.2 Consensus size: 19
989618 AAAAATGACT
989628 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
989647 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
*
989666 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
989680 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
989700 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
989720 ATC
1 ATC
989723 ACAACGAGAG
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
14 9 0.14
15 1 0.02
16 1 0.02
17 3 0.05
19 26 0.39
20 26 0.39
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:989732 original size:54 final size:53
Alignment explanation
Indices: 989628--989744 Score: 200
Period size: 54 Copynumber: 2.2 Consensus size: 53
989618 AAAAATGACT
*
989628 ATCGCAATGC-GAAATGAAAATCGCAATGCGAAATAAAAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATAAAAATCACAACGAGAGA
*
989680 ATCGCAATGCGGAAATGAAAATCGCAATGCGGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAATGC-GAAATAAAAATCACAACGAGAGA
989734 ATCGCAATGCG
1 ATCGCAATGCG
989745 ATTTTCATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 10 0.16
53 19 0.31
54 32 0.52
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATAAAAATCACAACGAGAGA
Found at i:989763 original size:19 final size:19
Alignment explanation
Indices: 989735--990011 Score: 328
Period size: 19 Copynumber: 15.6 Consensus size: 19
989725 AACGAGAGAA
*
989735 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
989754 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
989773 TCCGCATTGTGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
989790 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
989807 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
989826 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
989842 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
989859 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
989878 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
989895 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
989912 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
989931 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
989950 TCGCATTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
989968 TCGCATTGCGA-TTTCA--
1 TCGCATTGCGATTTTCATT
*
989984 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
990000 TCGCATTGCGAT
1 TCGCATTGCGAT
990012 CTCTCGTTGC
Statistics
Matches: 224, Mismatches: 11, Indels: 46
0.80 0.04 0.16
Matches are distributed among these distances:
13 5 0.02
14 22 0.10
15 1 0.00
16 19 0.08
17 20 0.09
18 29 0.13
19 109 0.49
20 19 0.08
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:989804 original size:53 final size:52
Alignment explanation
Indices: 989741--989981 Score: 394
Period size: 53 Copynumber: 4.5 Consensus size: 52
989731 AGAATCGCAA
*
989741 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGTGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
989794 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
989846 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTCTCTCGT
*
989899 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
989956 TGCGA-TTTCATTTCGCATTGCGATTT
1 TGCGATTTTCATTTCGCATTGCGATTT
989982 CATGTTGGGA
Statistics
Matches: 180, Mismatches: 2, Indels: 9
0.94 0.01 0.05
Matches are distributed among these distances:
52 61 0.34
53 85 0.47
54 3 0.02
55 4 0.02
56 21 0.12
57 6 0.03
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:989923 original size:105 final size:108
Alignment explanation
Indices: 989741--989981 Score: 418
Period size: 105 Copynumber: 2.2 Consensus size: 108
989731 AGAATCGCAA
*
989741 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGTGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
989806 TTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TCTCG-T
66 TTCGCATTGCGATTTTCATTTCGCATTGCGATTTCATCTCGAT
989846 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
*
989911 TTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
66 TTCGCATTGCGATTTTCATTTCGCATTGCGA-TTTCATCTCG-AT
989956 TGCGA-TTTCATTTCGCATTGCGATTT
1 TGCGATTTTCATTTCGCATTGCGATTT
989982 CATGTTGGGA
Statistics
Matches: 129, Mismatches: 2, Indels: 6
0.94 0.01 0.04
Matches are distributed among these distances:
105 95 0.74
107 3 0.02
108 4 0.03
109 21 0.16
110 6 0.05
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (108 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
TTCGCATTGCGATTTTCATTTCGCATTGCGATTTCATCTCGAT
Found at i:990033 original size:32 final size:31
Alignment explanation
Indices: 989812--990025 Score: 119
Period size: 32 Copynumber: 6.3 Consensus size: 31
989802 TCATTTCGCA
989812 TTGCGATTTTCATTTCGCATTGCGATTCTC-TCG
1 TTGCGA-TTTCATTTCGCATTGCGA-TCTCAT-G
*
989845 TTGCGATTTTCATTTCGCATTGCGATTTTCAT-
1 TTGCGA-TTTCATTTCGCATTGCGA-TCTCATG
* * * * *
989877 TTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 TTGCG-ATTTC-ATT-TCGCATTGCGA-TCTCA--T-G
*
989915 CATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 --TTGCGA-TTTCATTTCGCATTGCGA-TCTCA--T-G
*
989953 CATTGCGATTTCATTTCGCATTGCGATTTCATG
1 --TTGCGATTTCATTTCGCATTGCGATCTCATG
*
989986 TTGGGATTTTCATTTCGCATTGCGATCTC-TCG
1 TTGCGA-TTTCATTTCGCATTGCGATCTCAT-G
990018 TTGCGATT
1 TTGCGATT
990026 GTAATTTCCG
Statistics
Matches: 156, Mismatches: 12, Indels: 28
0.80 0.06 0.14
Matches are distributed among these distances:
31 8 0.05
32 34 0.22
33 34 0.22
34 17 0.11
36 6 0.04
37 18 0.12
38 28 0.18
39 4 0.03
40 7 0.04
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (31 bp):
TTGCGATTTCATTTCGCATTGCGATCTCATG
Found at i:993248 original size:20 final size:20
Alignment explanation
Indices: 993223--993445 Score: 209
Period size: 20 Copynumber: 11.2 Consensus size: 20
993213 TTCAGTTTGT
* *
993223 GATTTACAGATTCTCGTTGC
1 GATTTACGGATTCGCGTTGC
**
993243 GATTTACGGATTATCGTTGC
1 GATTTACGGATTCGCGTTGC
* *
993263 GATTTACAGATTCTCGTTGC
1 GATTTACGGATTCGCGTTGC
** *
993283 GA-TTACGGATTATCGTTGT
1 GATTTACGGATTCGCGTTGC
*
993302 GATTTACGGATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
* * *
993322 GATATACGGATACGCATTGC
1 GATTTACGGATTCGCGTTGC
*
993342 GATTTACGGATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
* * *
993362 TATTTACGGATACACGTTGC
1 GATTTACGGATTCGCGTTGC
* *
993382 GGTTTTACGGATACGCGTTGC
1 -GATTTACGGATTCGCGTTGC
*
993403 GATTTATGTG-TTCGCGTTGC
1 GATTTACG-GATTCGCGTTGC
**
993423 GATTT-CATATTCGCGTTGC
1 GATTTACGGATTCGCGTTGC
993442 GATT
1 GATT
993446 CTTGAAAATC
Statistics
Matches: 173, Mismatches: 26, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
19 30 0.17
20 125 0.72
21 18 0.10
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.37
Consensus pattern (20 bp):
GATTTACGGATTCGCGTTGC
Found at i:993330 original size:79 final size:78
Alignment explanation
Indices: 993219--993445 Score: 228
Period size: 79 Copynumber: 2.9 Consensus size: 78
993209 AAATTTCAGT
* * * *
993219 TTGTGATTTACAGATTCTCGTTGCGATTTACGGATTATCGTTGCGATTTACAGATTCTCGTTGCG
1 TTGTGATTTACGGATACGCGTTGCGATTTACGGATTA-CGTTGCGATTTACAGATTCGCGTTGCG
*
993284 ATTACGGATTA-TCG
65 ATTACGGA-TACACG
* * *
993298 TTGTGATTTACGGATACGCGTTGCGATATACGGA-TACGCATTGCGATTTACGGATACGCGTTGC
1 TTGTGATTTACGGATACGCGTTGCGATTTACGGATTACG--TTGCGATTTACAGATTCGCGTTGC
*
993362 TATTTACGGATACACG
64 GA-TTACGGATACACG
* * * * *
993378 TTGCGGTTTTACGGATACGCGTTGCGATTTATGTG-TTCGCGTTGCGATTT-CATATTCGCGTTG
1 TTG-TGATTTACGGATACGCGTTGCGATTTACG-GATT-ACGTTGCGATTTACAGATTCGCGTTG
993441 CGATT
63 CGATT
993446 CTTGAAAATC
Statistics
Matches: 122, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
77 2 0.02
78 2 0.02
79 56 0.46
80 24 0.20
81 34 0.28
82 2 0.02
83 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (78 bp):
TTGTGATTTACGGATACGCGTTGCGATTTACGGATTACGTTGCGATTTACAGATTCGCGTTGCGA
TTACGGATACACG
Found at i:1001571 original size:27 final size:27
Alignment explanation
Indices: 1001523--1001589 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
1001513 GAATTTTTGG
*
1001523 TCCACCCGACCCGAAAATTATAAACCC
1 TCCACCCGACCCGAAAATTATAAACAC
* *
1001550 TCCACCCGACCCG-AAATATATATACAT
1 TCCACCCGACCCGAAAAT-TATAAACAC
*
1001577 TCCACTCGACCCG
1 TCCACCCGACCCG
1001590 GTCCAACACA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 4 0.11
27 31 0.89
ACGTcount: A:0.33, C:0.40, G:0.09, T:0.18
Consensus pattern (27 bp):
TCCACCCGACCCGAAAATTATAAACAC
Done.